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    Abundance and distribution patterns of cetaceans and their overlap with vessel traffic in the Humboldt Current Ecosystem, Chile

    Thiel, M. et al. The Humboldt Current System of northern and central Chile—Oceanographic processes, ecological interactions and socioeconomic feedback. Oceanogr. Mar. Biol. Annu. Rev. 45, 195–344 (2007).
    Google Scholar 
    FAO. The State of World Fisheries and Aquaculture 2020. Sustainability in action 2020.Castilla, J. C. & Camus, P. A. The Humboldt-El Niño scenario: Coastal benthic resources and anthropogenic influences, with particular reference to the 1982/83 ENSO. S. Afr. J. Mar. Sci. 12, 703–712. https://doi.org/10.2989/02577619209504735 (1992).Article 

    Google Scholar 
    Alheit, J. & Niquen, M. Regime shifts in the Humboldt Current ecosystem. Prog. Oceanogr. 60, 201–222. https://doi.org/10.1016/j.pocean.2004.02.006 (2004).Article 

    Google Scholar 
    González, H. E. et al. Carbon fluxes within the epipelagic zone of the Humboldt Current System off Chile: The significance of euphausiids and diatoms as key functional groups for the biological pump. Prog. Oceanogr. 83, 217–227. https://doi.org/10.1016/j.pocean.2009.07.036 (2009).Article 

    Google Scholar 
    Quiñones, R. A., Levipan, H. A. & Urrutia, H. Spatial and temporal variability of planktonic archaeal abundance in the Humboldt Current System off Chile. Deep Sea Res. Part II 56, 1073–1082. https://doi.org/10.1016/j.dsr2.2008.09.012 (2009).Article 

    Google Scholar 
    Antezana, T. Euphausia mucronata: A keystone herbivore and prey of the Humboldt Current System. Deep Sea Res. Part II 57, 652–662. https://doi.org/10.1016/j.dsr2.2009.10.014 (2010).Article 

    Google Scholar 
    Anguita, C., Gelcich, S., Aldana, M. & Pulgar, J. Exploring the influence of upwelling on the total allowed catch and harvests of a benthic gastropod managed under a territorial user rights for fisheries regime along the Chilean coast. Ocean Coast. Manag. 195, 105256. https://doi.org/10.1016/j.ocecoaman.2020.105256 (2020).Article 

    Google Scholar 
    González, J. E., Yannicelli, B. & Stotz, W. The interplay of natural variability, productivity and management of the benthic ecosystem in the Humboldt Current System: Twenty years of assessment of Concholepas concholepas fishery under a TURF management system. Ocean Coast. Manag. 208, 105628. https://doi.org/10.1016/j.ocecoaman.2021.105628 (2021).Article 

    Google Scholar 
    Canales, T. M. et al. Endogenous, climate, and fishing influences on the population dynamics of Small Pelagic Fish in the Southern Humboldt Current Ecosystem. Front. Mar. Sci. https://doi.org/10.3389/fmars.2020.00082 (2020).Article 

    Google Scholar 
    González, J. E., Ortiz, M. Exploring harvest strategies in a benthic habitat in the Humboldt Current System (Chile): A study case. In Marine Coastal Ecosystems Modelling and Conservation: Latin American Experiences 127–141 (Springer International Publishing, 2021). https://doi.org/10.1007/978-3-030-58211-1_6.Ortiz, M. Pre-image population indices for anchovy and sardine species in the Humboldt Current System off Peru and Chile: Years decaying productivity. Ecol. Ind. 119, 106844. https://doi.org/10.1016/j.ecolind.2020.106844 (2020).Article 

    Google Scholar 
    Tognelli, M. F., Silva-Garcia, C., Labra, F. A. & Marquet, P. A. Priority areas for the conservation of coastal marine vertebrates in Chile. Biol. Conserv. 126, 420–428. https://doi.org/10.1016/j.biocon.2005.06.021 (2005).Article 

    Google Scholar 
    Bustamante, C., Vargas-Caro, C. & Bennett, M. B. Not all fish are equal: Functional biodiversity of cartilaginous fishes (Elasmobranchii and Holocephali) in Chile. J. Fish Biol. 85, 1617–1633. https://doi.org/10.1111/jfb.12517 (2014).CAS 
    Article 
    PubMed 

    Google Scholar 
    Sarmiento-Devia, R. A., Harrod, C. & Pacheco, A. S. Ecology and Conservation of Sea Turtles in Chile. Chelonian Conserv. Biol. 14, 21–33. https://doi.org/10.2744/ccab-14-01-21-33.1 (2015).Article 

    Google Scholar 
    Pérez-Álvarez, M. J., Alvarez, E., Aguayo-Lobo, A. & Olavarría, C. Occurrence and distribution of Chilean dolphin (Cephalorhynchus eutropia) in coastal waters of central Chile. N.Z. J. Mar. Freshw. Res. 41, 405–409. https://doi.org/10.1080/00288330709509931 (2007).Article 

    Google Scholar 
    Pacheco, A. S. et al. Cetacean diversity revealed from whale-watching observations in Northern Peru. Aquat. Mamm. 45, 116–122. https://doi.org/10.1578/AM.45.1.2019.116 (2019).Article 

    Google Scholar 
    Buchan, S. J., Vásquez, P., Olavarría, C. & Castro, L. R. Prey items of baleen whale species off the coast of Chile from fecal plume analysis. Mar. Mamm. Sci. 37, 1116–1127 (2021).Article 

    Google Scholar 
    Hucke-Gaete, R. et al. From Chilean Patagonia to Galapagos, Ecuador: Novel insights on blue whale migratory pathways along the Eastern South Pacific. PeerJ 6, e4695. https://doi.org/10.7717/peerj.4695 (2018).Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Llapapasca, M. A. et al. Modeling the potential habitats of dusky, commons and bottlenose dolphins in the Humboldt Current System off Peru: The influence of non-El Niño vs. El Niño 1997–98 conditions and potential prey availability. Prog. Oceanogr. 168, 169–181. https://doi.org/10.1016/j.pocean.2018.09.003 (2018).Article 

    Google Scholar 
    Sepúlveda, M. et al. From whaling to whale watching: Identifying fin whale critical foraging habitats off the Chilean coast. Aquat. Conserv. Mar. Freshw. Ecosyst. 28, 821–829. https://doi.org/10.1002/aqc.2899 (2018).Article 

    Google Scholar 
    Williams, R. et al. Chilean blue whales as a case study to illustrate methods to estimate abundance and evaluate conservation status of rare species. Conserv. Biol. 25, 526–535. https://doi.org/10.1111/j.1523-1739.2011.01656.x (2011).Article 
    PubMed 

    Google Scholar 
    Moore, J. E. & Barlow, J. Bayesian state-space model of fin whale abundance trends from a 1991–2008 time series of line-transect surveys in the California Current. J. Appl. Ecol. 48, 1195–1205. https://doi.org/10.1111/j.1365-2664.2011.02018.x (2011).Article 

    Google Scholar 
    Campbell, G. S. et al. Inter-annual and seasonal trends in cetacean distribution, density and abundance off southern California. Deep Sea Res. Part II 112, 143–157. https://doi.org/10.1016/j.dsr2.2014.10.008 (2015).Article 

    Google Scholar 
    Nichol, L. M., Wright, B. M., O’Hara, P. & Ford, J. K. B. Risk of lethal vessel strikes to humpback and fin whales off the west coast of Vancouver Island, Canada. Endanger. Species Res. 32, 373–390. https://doi.org/10.3354/esr00813 (2017).Article 

    Google Scholar 
    Pennino, M. G. et al. A spatially explicit risk assessment approach: Cetaceans and marine traffic in the Pelagos Sanctuary (Mediterranean Sea). PLoS One 12, e0179686. https://doi.org/10.1371/journal.pone.0179686 (2017).CAS 
    Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Van Waerebeek, K. & Reyes, J. C. Catch of small cetaceans at Pucusana Port, central Peru, during 1987. Biol. Conserv. 51, 15–22. https://doi.org/10.1016/0006-3207(90)90028-N (1990).Article 

    Google Scholar 
    Mangel, J. C. et al. Small cetacean captures in Peruvian artisanal fisheries: High despite protective legislation. Biol. Conserv. 143, 136–143. https://doi.org/10.1016/j.biocon.2009.09.017 (2010).Article 

    Google Scholar 
    Campbell, E., Pasara-Polack, A., Mangel, J. C. & Alfaro-Shigueto, J. Use of small cetaceans as bait in small-scale fisheries in Peru. Front. Mar. Sci. https://doi.org/10.3389/fmars.2020.534507 (2020).Article 

    Google Scholar 
    Reyes, J. C. & Oporto, J. A. Gillnet fisheries and cetaceans in the southeast Pacific. Report of the International Whaling Commission 467–474 (1994).Aguayo-Lobo, A. Los cetáceos y sus perspectivas de conservación. Estudios Oceanológicos 18, 35–43 (1999).
    Google Scholar 
    Félix, F., Muñoz, M., Falconí, J., Botero, N., Haase, B., et al. Entanglement of humpback whales in artisanal fishing gear in Ecuador. J. Cetacean. Res. Manag. 283–290 (2020).Félix, F. et al. Challenges and opportunities for the conservation of marine mammals in the Southeast Pacific with the entry into force of the U.S. Marine Mammal Protection Act. Reg. Stud. Mar. Sci. 48, 102036. https://doi.org/10.1016/j.rsma.2021.102036 (2021).Article 

    Google Scholar 
    García-Cegarra, A. M. & Pacheco, A. S. Collision risk areas between fin and humpback whales with large cargo vessels in Mejillones Bay (23°S), northern Chile. Mar. Policy 103, 182–186. https://doi.org/10.1016/j.marpol.2018.12.022 (2019).Article 

    Google Scholar 
    Santos-Carvallo, M. et al. Impacts of whale-watching on the short-term behavior of Fin Whales (Balaenoptera physalus) in a marine protected area in the southeastern pacific. Front. Mar. Sci. https://doi.org/10.3389/fmars.2021.623954 (2021).Article 

    Google Scholar 
    Villagra, D., García-Cegarra, A., Gallardo, D. I. & Pacheco, A. S. Energetic effects of whale-watching boats on humpback whales on a breeding ground. Front. Mar. Sci. https://doi.org/10.3389/fmars.2020.600508 (2021).Article 

    Google Scholar 
    Buckland, S., Anderson, D., Burnham, K., Laake, J., Borchers, D., Thomas, L. Introduction to Distance Sampling Estimating Abundance of Biological Populations. (Oxford University Press, 2001).Hedley, S. L. & Buckland, S. T. Spatial models for line transect sampling. JABES 9, 181–199. https://doi.org/10.1198/1085711043578 (2004).Article 

    Google Scholar 
    Williams, R., Hedley, S. L., Hammond, P. S. Modeling distribution and abundance of Antarctic baleen whales using ships of opportunity (2006).DoniolValcroze, T., Berteaux, D., Larouche, P. & Sears, R. Influence of thermal fronts on habitat selection by four rorqual whale species in the Gulf of St. Lawrence. Mar. Ecol. Prog. Ser. 335, 207–216. https://doi.org/10.3354/meps335207 (2007).Article 

    Google Scholar 
    Scales, K. L. et al. Should I stay or should I go? Modelling year-round habitat suitability and drivers of residency for fin whales in the California Current. Divers. Distrib. 23, 1204–1215. https://doi.org/10.1111/ddi.12611 (2017).Article 

    Google Scholar 
    Bedriñana-Romano, L. et al. Integrating multiple data sources for assessing blue whale abundance and distribution in Chilean Northern Patagonia. Divers. Distrib. https://doi.org/10.1111/ddi.12739 (2018).Article 

    Google Scholar 
    Bedriñana-Romano, L. et al. Defining priority areas for blue whale conservation and investigating overlap with vessel traffic in Chilean Patagonia, using a fast-fitting movement model. Sci. Rep. 11, 2709. https://doi.org/10.1038/s41598-021-82220-5 (2021).CAS 
    Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Pirotta, E., Matthiopoulos, J., MacKenzie, M., Scott-Hayward, L. & Rendell, L. Modelling sperm whale habitat preference: A novel approach combining transect and follow data. Mar. Ecol. Prog. Ser. 436, 257–272. https://doi.org/10.3354/meps09236 (2011).Article 

    Google Scholar 
    Mendelssohn, R. rerddapXtracto: Extracts Environmental Data from “ERDDAP” Web Services. (2020).Lau-Medrano, W. grec: Gradient-Based Recognition of Spatial Patterns in Environmental Data. (2020).Belkin, I. M. & O’Reilly, J. E. An algorithm for oceanic front detection in chlorophyll and SST satellite imagery. J. Mar. Syst. 78, 319–326. https://doi.org/10.1016/j.jmarsys.2008.11.018 (2009).Article 

    Google Scholar 
    Hijmans, R. J., van Etten, J., Cheng, J., Sumner, M., Mattiuzzi, M., Greenberg, J. A., et al. raster: Geographic Data Analysis and Modeling. (2018).Royle, J. A. N-mixture models for estimating population size from spatially replicated counts. Biometrics 60, 108–115. https://doi.org/10.1111/j.0006-341X.2004.00142.x (2004).MathSciNet 
    Article 
    PubMed 
    MATH 

    Google Scholar 
    Chelgren, N. D., Samora, B., Adams, M. J. & McCreary, B. Using spatiotemporal models and distance sampling to map the space use and abundance of newly metamorphosed Western Toads (Anaxyrus boreas). Herpetol. Conserv. Biol. 6, 16 (2011).
    Google Scholar 
    Hartig, F., Lohse, L. DHARMa: Residual Diagnostics for Hierarchical (Multi-Level/Mixed) Regression Models. (2022).Gelman, A., Meng, X.-L. & Stern, H. Posterior predictive assessment of model fitness via realized discrepancies. Stat. Sin. 6, 733–760. https://doi.org/10.2307/24306036 (1996).MathSciNet 
    Article 
    MATH 

    Google Scholar 
    Kery, M. & Royle, J. A. Applied Hierarchical Modeling in Ecology: Analysis of Distribution, Abundance and Species Richness in R and BUGS: Volume 1: Prelude and Static Models. (Academic Press, 2015).R DCT. R: A Language and Environment for Statistical Computing. (R Foundation for Statistical Computing, 2015).Plummer, M. JAGS: A program for analysis of Bayesian graphical models using Gibbs sampling. (2003).Fonnesbeck, C. J., Garrison, L. P., Ward-Geiger, L. I. & Baumstark, R. D. Bayesian hierarchichal model for evaluating the risk of vessel strikes on North Atlantic right whales in the SE United States. Endanger. Species Res. 6, 87–94. https://doi.org/10.3354/esr00134 (2008).Article 

    Google Scholar 
    Vanderlaan, A. S. M., Taggart, C. T., Serdynska, A. R., Kenney, R. D. & Brown, M. W. Reducing the risk of lethal encounters: Vessels and right whales in the Bay of Fundy and on the Scotian Shelf. Endanger. Species Res. 4, 283–297. https://doi.org/10.3354/esr00083 (2008).Article 

    Google Scholar 
    Warren, D. L., Glor, R. E. & Turelli, M. Environmental niche equivalency versus conservatism: Quantitative approaches to niche evolution. Evolution 62, 2868–2883. https://doi.org/10.1111/j.1558-5646.2008.00482.x (2008).Article 
    PubMed 

    Google Scholar 
    Hijmans, R. J., Phillips, S., Leathwick, J., Elith, J. & Hijmans, M. R. J. Package ‘dismo’. Circles 9, 1–68 (2017).
    Google Scholar 
    Daneri, G. et al. Primary production and community respiration in the Humboldt Current System off Chile and associated oceanic areas. Mar. Ecol. Prog. Ser. 197, 41–49. https://doi.org/10.3354/meps197041 (2000).Article 

    Google Scholar 
    Montecino, V. & Lange, C. B. The Humboldt Current System: Ecosystem components and processes, fisheries, and sediment studies. Prog. Oceanogr. 83, 65–79. https://doi.org/10.1016/j.pocean.2009.07.041 (2009).Article 

    Google Scholar 
    Escribano, R., Hidalgo, P. & Krautz, C. Zooplankton associated with the oxygen minimum zone system in the northern upwelling region of Chile during March 2000. Deep Sea Res. Part II 56, 1083–1094. https://doi.org/10.1016/j.dsr2.2008.09.009 (2009).Article 

    Google Scholar 
    Perez-Alvarez, M. et al. Fin whales (Balaenoptera physalus) feeding on Euphausia mucronata in nearshore waters off North-Central Chile. Aquat. Mamm. 32, 109–113. https://doi.org/10.1578/AM.32.1.2006.109 (2006).Article 

    Google Scholar 
    Riquelme-Bugueño, R. et al. Fatty acid composition in the endemic Humboldt Current krill, Euphausia mucronata (Crustacea, Euphausiacea) in relation to the phytoplankton community and oceanographic variability off Dichato coast in central Chile. Prog. Oceanogr. 188, 102425. https://doi.org/10.1016/j.pocean.2020.102425 (2020).Article 

    Google Scholar 
    Escribano, R., Marin, V. & Irribarren, C. Distribution of Euphausia mucronata at the upwelling area of Peninsula Mejillones, northern Chile: The influence of the oxygen minimum layer. Sci. Mar. 64, 69–77. https://doi.org/10.3989/scimar.2000.64n169 (2000).Article 

    Google Scholar 
    Riquelme-Bugueno, R., Escribano, R. & Gomez-Gutierrez, J. Somatic and molt production in Euphausia mucronata off central-southern Chile: The influence of coastal upwelling variability. Mar. Ecol. Prog. Ser. 476, 39–57 (2013).Article 

    Google Scholar 
    Savoca, M. S. et al. Baleen whale prey consumption based on high-resolution foraging measurements. Nature 599, 85–90. https://doi.org/10.1038/s41586-021-03991-5 (2021).CAS 
    Article 
    PubMed 

    Google Scholar 
    Roman, J. & McCarthy, J. J. The whale pump: Marine mammals enhance primary productivity in a coastal basin. PLoS One 5, e13255. https://doi.org/10.1371/journal.pone.0013255 (2010).CAS 
    Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Hucke-Gaete, R. Whales might also be an important component in patagonian fjord ecosystems: Comment to Iriarte et al. Ambio 40, 104–105. https://doi.org/10.1007/s13280-010-0110-8 (2011).Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Lavery, T. J. et al. Whales sustain fisheries: Blue whales stimulate primary production in the Southern Ocean. Mar. Mamm. Sci. https://doi.org/10.1111/mms.12108 (2014).Article 

    Google Scholar 
    Roman, J. et al. Whales as marine ecosystem engineers. Front. Ecol. Environ. 12, 377–385. https://doi.org/10.1890/130220 (2014).Article 

    Google Scholar 
    Hucke-Gaete, R., Osman, L. P., Moreno, C. A., Findlay, K. P. & Ljungblad, D. K. Discovery of a blue whale feeding and nursing ground in southern Chile. Proc. R. Soc. Lond. B 271, S170–S173. https://doi.org/10.1098/rsbl.2003.0132 (2004).Article 

    Google Scholar 
    Buchan, S. J. & Quiones, R. A. First insights into the oceanographic characteristics of a blue whale feeding ground in northern Patagonia, Chile. Mar. Ecol. Prog. Ser. 554, 183–199. https://doi.org/10.3354/meps11762 (2016).CAS 
    Article 

    Google Scholar 
    Findlay, K., Pitman, R., Tsurui, T., Sakai, K., Ensor, P., Iwakami, H., et al. IWC-southern whale and ecosystem research (IWC/SOWER) blue whale Cruise, Chile. Documento Técnico, IWC 1998 (1998).Branch, T. A. et al. Past and present distribution, densities and movements of blue whales Balaenoptera musculus in the Southern Hemisphere and northern Indian Ocean. Mamm. Rev. 37, 116–175. https://doi.org/10.1111/j.1365-2907.2007.00106.x (2007).Article 

    Google Scholar 
    Barlow, D. R., Klinck, H., Ponirakis, D., Garvey, C. & Torres, L. G. Temporal and spatial lags between wind, coastal upwelling, and blue whale occurrence. Sci. Rep. 11, 6915. https://doi.org/10.1038/s41598-021-86403-y (2021).CAS 
    Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Galletti-Vernazzani, B., Jackson, J. A., Cabrera, E., Carlson, C. A. Jr. & RLB.,. Estimates of abundance and trend of chilean blue whales off Isla de Chiloé, Chile. PLoS One 12, e0168646. https://doi.org/10.1371/journal.pone.0168646 (2017).CAS 
    Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Friedlaender, A. S., Goldbogen, J. A., Hazen, E. L., Calambokidis, J. & Southall, B. L. Feeding performance by sympatric blue and fin whales exploiting a common prey resource. Mar. Mamm. Sci. 31, 345–354. https://doi.org/10.1111/mms.12134 (2015).Article 

    Google Scholar 
    Abrahms, B. et al. Memory and resource tracking drive blue whale migrations. PNAS 116, 5582–5587 (2019).CAS 
    Article 

    Google Scholar 
    Clarke, R., Aguayo, A. & Basulto, S. Whale observation and whale marking off the coast of Chile in 1964. Sci. Rep. Whales Res. Inst. Tokyo 30, 117–178 (1978).
    Google Scholar 
    Allison, C. IWC individual and summary catch databases Version 5.5 (12 February 2013). Available from the International Whaling Commission 135 (2013).Pastene, L. A., Acevedo, J. & Branch, T. A. Morphometric analysis of Chilean blue whales and implications for their taxonomy. Mar. Mamm. Sci. 36, 116–135. https://doi.org/10.1111/mms.12625 (2020).Article 

    Google Scholar 
    Rendell, L., Whitehead, H. & Escribano, R. Sperm whale habitat use and foraging success off northern Chile: Evidence of ecological links between coastal and pelagic systems. Mar. Ecol. Prog. Ser. 275, 289–295. https://doi.org/10.3354/meps275289 (2004).Article 

    Google Scholar 
    Jaquet, N. & Whitehead, H. Scale-dependent correlation of sperm whale distribution with environmental features and productivity in the South Pacific. Mar. Ecol. Prog. Ser. 135, 1–9. https://doi.org/10.3354/meps135001 (1996).Article 

    Google Scholar 
    O’Hern, J. E., Biggs, D. C. Sperm whale (Physeter macrocephalus) habitat in the Gulf of Mexico: Satellite observed ocean color and altimetry applied to small-scale variability in distribution. Aquat. Mamm. 35 (2009).Koen Alonso, M., Crespo, E. A., García, N. A., Pedraza, S. N. & Coscarella, M. A. Diet of dusky dolphins, Lagenorhynchus obscurus, in waters off Patagonia, Argentina. Fish. Bull. 96, 366–374 (1998).
    Google Scholar 
    García-Godos, I., Waerebeek, K. V., Reyes, J. C., Alfaro-Shigueto, J. & Arias-Schreiber, M. Prey occurrence in the stomach contents of four small cetacean species in Peru. Latin Am. J. Aquat. Mamm. 6, 171–183. https://doi.org/10.5597/lajam00122 (2007).Article 

    Google Scholar 
    Dans, S. L., Crespo, E. A., Koen-Alonso, M., Markowitz, T. M., Berón Vera, B., Dahood, A. D. Chapter 3—Dusky dolphin trophic ecology: Their role in the food web. In The Dusky Dolphin (eds. Würsig, B., Würsig, M.) 49–74 (Academic Press, 2010). https://doi.org/10.1016/B978-0-12-373723-6.00003-5.Romero, M. A. et al. Feeding habits of two sympatric dolphin species off North Patagonia, Argentina. Mar. Mamm. Sci. 28, 364–377 (2012).Article 

    Google Scholar 
    Loizaga de Castro, R. et al. Feeding ecology of dusky dolphins Lagenorhynchus obscurus: Evidence from stable isotopes. J. Mammal. 97, 310–320. https://doi.org/10.1093/jmammal/gyv180 (2016).Article 

    Google Scholar 
    Cipriano, F. W. Behavior and occurrence patterns, feeding ecology, and life history of dusky dolphins (Lagenorhynchus obscurus) off Kaikoura, New Zealand. (1992).Benoit-Bird, K. J., Würsig, B. & Mfadden, C. J. Dusky dolphin (lagenorhynchus obscurus) foraging in two different habitats: Active acoustic detection of dolphins and their prey. Mar. Mamm. Sci. 20, 215–231. https://doi.org/10.1111/j.1748-7692.2004.tb01152.x (2004).Article 

    Google Scholar 
    Van Waerebeek, K. Records of dusky dolphins Lagenorhynchus obscurus (Gray, 1828) in the eastern South Pacific. Beaufortia (1992).Selzer, L. A. & Payne, P. M. The distribution of white-sided (Lagenorhynchus acutus) and common dolphins (Delphinus delphis) vs. Environmental features of the continental shelf of the Northeastern United States. Mar. Mamm. Sci. 4, 141–153. https://doi.org/10.1111/j.1748-7692.1988.tb00194.x (1988).Article 

    Google Scholar 
    Neumann, D. R. Seasonal movements of short-beaked common dolphins (Delphinus delphis) in the north-western Bay of Plenty, New Zealand: Influence of sea surface temperature and El Niño/La Niña. N.Z. J. Mar. Freshw. Res. 35, 371–374. https://doi.org/10.1080/00288330.2001.9517007 (2001).Article 

    Google Scholar 
    Peters, K. J. et al. Foraging ecology of the common dolphin Delphinus delphis revealed by stable isotope analysis. Mar. Ecol. Prog. Ser. 652, 173–186. https://doi.org/10.3354/meps13482 (2020).CAS 
    Article 

    Google Scholar 
    Brand, D. et al. Common dolphins, common in neritic waters off southern Israel, demonstrate uncommon dietary habits. Aquat. Conserv. Mar. Freshw. Ecosyst. 31, 15–21. https://doi.org/10.1002/aqc.3165 (2021).Article 

    Google Scholar 
    Barlow, J. & Taylor, B. L. Estimates of sperm whale abundance in the Northeastern temperate pacific from a combined acoustic and visual survey. Mar. Mamm. Sci. 21, 429–445. https://doi.org/10.1111/j.1748-7692.2005.tb01242.x (2005).Article 

    Google Scholar 
    Cañadas, A., Desportes, G. & Borchers, D. Estimation of g (0) and abundance of common dolphins (Delphinus delphis) from the NASS-95 Faroese survey. J. Cetac. Res. Manag. 6, 191–198 (2004).
    Google Scholar 
    Miller, D. L., Burt, M. L., Rexstad, E. A. & Thomas, L. Spatial models for distance sampling data: Recent developments and future directions. Methods Ecol. Evol. 4, 1001–1010. https://doi.org/10.1111/2041-210X.12105 (2013).Article 

    Google Scholar 
    Sigourney, D. B. et al. Developing and assessing a density surface model in a Bayesian hierarchical framework with a focus on uncertainty: Insights from simulations and an application to fin whales (Balaenoptera physalus). PeerJ 8, e8226. https://doi.org/10.7717/peerj.8226 (2020).Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Panigada, S. et al. Mediterranean fin whales at risk from fatal ship strikes. Mar. Pollut. Bull. 52, 1287–1298. https://doi.org/10.1016/j.marpolbul.2006.03.014 (2006).CAS 
    Article 
    PubMed 

    Google Scholar 
    Ribeiro, S., Viddi, F. A. & Freitas, T. R. Behavioural responses of Chilean dolphins (Cephalorhynchus eutropia) to boats in Yaldad Bay, southern Chile. Aquat. Mamm. 31, 234 (2005).Article 

    Google Scholar 
    Bearzi, G. et al. Overfishing and the disappearance of short-beaked common dolphins from western Greece. Endanger. Species Res. 5, 1–12. https://doi.org/10.3354/esr00103 (2008).Article 

    Google Scholar 
    Reeves, R. R., McClellan, K. & Werner, T. B. Marine mammal bycatch in gillnet and other entangling net fisheries, 1990 to 2011. Endanger. Species Res. 20, 71–97. https://doi.org/10.3354/esr00481 (2013).Article 

    Google Scholar 
    van der Hoop, J. M. et al. Vessel strikes to large whales before and after the 2008 Ship Strike Rule. Conserv. Lett. 8, 24–32. https://doi.org/10.1111/conl.12105 (2015).Article 

    Google Scholar 
    Erbe, C., Reichmuth, C., Cunningham, K., Lucke, K. & Dooling, R. Communication masking in marine mammals: A review and research strategy. Mar. Pollut. Bull. 103, 15–38. https://doi.org/10.1016/j.marpolbul.2015.12.007 (2016).CAS 
    Article 
    PubMed 

    Google Scholar 
    González-But, J. C. & Sepúlveda, M. Captura incidental del delfín común (Delphinus delphis) en la pesquería industrial de cerco, norte de Chile. Rev. Biol. Mar. Oceanogr. 51, 429–433. https://doi.org/10.4067/S0718-19572016000200019 (2016).Article 

    Google Scholar 
    Alvarado-Rybak, M. et al. Pathological findings in cetaceans sporadically stranded along the Chilean Coast. Front. Mar. Sci. 7, 684. https://doi.org/10.3389/fmars.2020.00684 (2020).Article 

    Google Scholar 
    Dans, S. L., Koen, A. M., Pedraza, S. & Crespo, E. A. Incidental catch of dolphins in trawling fisheries off Patagonia, Argentina: Can populations persist?. Ecol. Appl. 13, 754–762. https://doi.org/10.1890/1051-0761(2003)013[0754:ICODIT]2.0.CO;2 (2003).Article 

    Google Scholar 
    Childerhouse S, Baxter A. Human interactions with dusky dolphins: A management perspective, Chapter 12. In The Dusky Dolphin (eds. Würsig, B. & Würsig, M.) 245–275 (Academic Press, 2010). https://doi.org/10.1016/B978-0-12-373723-6.00012-6.Mannocci, L. et al. Assessing the impact of bycatch on dolphin populations: The case of the common dolphin in the Eastern North Atlantic. PLoS One 7, e32615. https://doi.org/10.1371/journal.pone.0032615 (2012).CAS 
    Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Thompson, F. N., Abraham, E. R. & Berkenbusch, K. Common dolphin (Delphinus delphis) Bycatch in New Zealand commercial trawl fisheries. PLoS One 8, e64438. https://doi.org/10.1371/journal.pone.0064438 (2013).Article 
    PubMed 
    PubMed Central 

    Google Scholar  More

  • in

    Global hydro-environmental lake characteristics at high spatial resolution

    Shiklomanov, I. A. & Rodda, J. C. World water resources at the beginning of the twenty-first century. (Cambridge University Press, 2003).Biggs, J., von Fumetti, S. & Kelly-Quinn, M. The importance of small waterbodies for biodiversity and ecosystem services: implications for policy makers. Hydrobiologia 793, 3–39 (2017).Article 

    Google Scholar 
    Heino, J. et al. Lakes in the era of global change: moving beyond single-lake thinking in maintaining biodiversity and ecosystem services. Biol. Rev. 96, 89–106 (2021).PubMed 
    Article 

    Google Scholar 
    Janssen, A. B. G. et al. Shifting states, shifting services: linking regime shifts to changes in ecosystem services of shallow lakes. Freshw. Biol. 66, 1–12 (2021).Article 

    Google Scholar 
    Knoll, L. B. et al. Consequences of lake and river ice loss on cultural ecosystem services. Limnol. Oceanogr. Lett. 4, 119–131 (2019).Article 

    Google Scholar 
    Sterner, R. W. et al. Ecosystem services of Earth’s largest freshwater lakes. Ecosyst. Serv. 41, 101046 (2020).Article 

    Google Scholar 
    Reynaud, A. & Lanzanova, D. A global meta-analysis of the value of ecosystem services provided by lakes. Ecol. Econ. 137, 184–194 (2017).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Cooley, S. W., Ryan, J. C. & Smith, L. C. Human alteration of global surface water storage variability. Nature 591, 78–81 (2021).ADS 
    CAS 
    PubMed 
    Article 

    Google Scholar 
    Downing, J. A. Global limnology: up-scaling aquatic services and processes to planet Earth. SIL Proceedings, 1922–2010 30, 1149–1166 (2009).Article 

    Google Scholar 
    Tranvik, L. J., Cole, J. J. & Prairie, Y. T. The study of carbon in inland waters—from isolated ecosystems to players in the global carbon cycle. Limnol. Oceanogr. Lett. 3, 41–48 (2018).Article 

    Google Scholar 
    Balsamo, G. et al. On the contribution of lakes in predicting near-surface temperature in a global weather forecasting model. Tellus A Dyn. Meteorol. Oceanogr. 64, 15829 (2012).Article 

    Google Scholar 
    DelSontro, T., Beaulieu, J. J. & Downing, J. A. Greenhouse gas emissions from lakes and impoundments: upscaling in the face of global change. Limnol. Oceanogr. Lett. 3, 64–75 (2018).CAS 
    Article 

    Google Scholar 
    Beaulieu, J. J. et al. Methane and carbon dioxide emissions from reservoirs: controls and upscaling. J. Geophys. Res. Biogeosciences 125, e2019JG005474 (2020).ADS 
    CAS 
    Article 

    Google Scholar 
    Slater, J. A. et al. The SRTM data “finishing” process and products. Photogramm. Eng. Remote Sens. 72, 237–247 (2006).Article 

    Google Scholar 
    Pekel, J.-F., Cottam, A., Gorelick, N. & Belward, A. S. High-resolution mapping of global surface water and its long-term changes. Nature 540, 418–422 (2016).ADS 
    CAS 
    PubMed 
    Article 

    Google Scholar 
    Verpoorter, C., Kutser, T., Seekell, D. A. & Tranvik, L. J. A global inventory of lakes based on high-resolution satellite imagery. Geophys. Res. Lett. 41, 6396–6402 (2014).ADS 
    Article 

    Google Scholar 
    Pickens, A. H. et al. Mapping and sampling to characterize global inland water dynamics from 1999 to 2018 with full Landsat time-series. Remote Sens. Environ. 243, 111792 (2020).ADS 
    Article 

    Google Scholar 
    Messager, M. L., Lehner, B., Grill, G., Nedeva, I. & Schmitt, O. Estimating the volume and age of water stored in global lakes using a geo-statistical approach. Nat. Commun. 7, 13603 (2016).ADS 
    CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Tickner, D. et al. Bending the curve of global freshwater biodiversity loss: an emergency recovery plan. Bioscience 70, 330–342 (2020).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Downing, J. A., Polasky, S., Olmstead, S. M. & Newbold, S. C. Protecting local water quality has global benefits. Nat. Commun. 12, 1–6 (2021).Article 
    CAS 

    Google Scholar 
    Hill, R. A., Weber, M. H., Debbout, R. M., Leibowitz, S. G. & Olsen, A. R. The Lake-Catchment (LakeCat) Dataset: characterizing landscape features for lake basins within the conterminous USA. Freshw. Sci. 37, 208–221 (2018).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Soranno, P. A. et al. LAGOS-NE: a multi-scaled geospatial and temporal database of lake ecological context and water quality for thousands of US lakes. Gigascience 6, 1–22 (2017).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Toptunova, O., Choulga, M. & Kurzeneva, E. Status and progress in global lake database developments. Adv. Sci. Res. 16, 57–61 (2019).Article 

    Google Scholar 
    Meyer, M. F., Labou, S. G., Cramer, A. N., Brousil, M. R. & Luff, B. T. The global lake area, climate, and population dataset. Sci. Data 7, 174 (2020).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Kling, G. W., Kipphut, G. W., Miller, M. M. & O’Brien, W. J. Integration of lakes and streams in a landscape perspective: the importance of material processing on spatial patterns and temporal coherence. Freshw. Biol. 43, 477–497 (2000).Article 

    Google Scholar 
    Fergus, C. E. et al. The freshwater landscape: lake, wetland, and stream abundance and connectivity at macroscales. Ecosphere 8, e01911 (2017).Article 

    Google Scholar 
    Lehner, B., Messager, ML., Korver, MC. & Linke, S. LakeATLAS Version 1.0, figshare, https://doi.org/10.6084/m9.figshare.19312001 (2022).Linke, S. et al. Global hydro-environmental sub-basin and river reach characteristics at high spatial resolution. Sci. data 6, 283 (2019).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Fergus, C. E. et al. National framework for ranking lakes by potential for anthropogenic hydro-alteration. Ecol. Indic. 122, 107241 (2021).Article 

    Google Scholar 
    Bracht-Flyr, B., Istanbulluoglu, E. & Fritz, S. A hydro-climatological lake classification model and its evaluation using global data. J. Hydrol. 486, 376–383 (2013).ADS 
    Article 

    Google Scholar 
    Soranno, P. A. et al. Using landscape limnology to classify freshwater ecosystems for multi-ecosystem management and conservation. Bioscience 60, 440–454 (2010).Article 

    Google Scholar 
    McCullough, I. M., Skaff, N. K., Soranno, P. A. & Cheruvelil, K. S. No lake left behind: how well do U.S. protected areas meet lake conservation targets? Limnol. Oceanogr. Lett. 4, 183–192 (2019).Article 

    Google Scholar 
    Stanley, E. H. et al. Biases in lake water quality sampling and implications for macroscale research. Limnol. Oceanogr. 64, 1572–1585 (2019).ADS 
    CAS 
    Article 

    Google Scholar 
    Hanson, P. C., Weathers, K. C. & Kratz, T. K. Networked lake science: how the Global Lake Ecological Observatory Network (GLEON) works to understand, predict, and communicate lake ecosystem response to global change. Inl. Waters 6, 543–554 (2016).Article 

    Google Scholar 
    Lottig, N. R. & Carpenter, S. R. Interpolating and forecasting lake characteristics using long-term monitoring data. Limnol. Oceanogr. 57, 1113–1125 (2012).ADS 
    Article 

    Google Scholar 
    Filazzola, A. et al. A database of chlorophyll and water chemistry in freshwater lakes. Sci. Data 2020 71 7, 1–10 (2020).
    Google Scholar 
    Lehner, B. & Messager, M. L. HydroLAKES – Technical Documentation Version 1.0. https://data.hydrosheds.org/file/technical-documentation/HydroLAKES_TechDoc_v10.pdf (2016).Natural Resources Canada. CanVec Hydrography: Waterbody Features. Version 12.0. https://ftp.maps.canada.ca/pub/nrcan_rncan/vector/canvec (2013).Lehner, B., Verdin, K. & Jarvis, A. New global hydrography derived from spaceborne elevation data. Eos, Trans. AGU 89, 93–94 (2008).ADS 
    Article 

    Google Scholar 
    Farr, T. G. & Kobrick, M. Shuttle radar topography mission produces a wealth of data. Eos, Trans. AGU 81, 583–585 (2000).ADS 
    Article 

    Google Scholar 
    Müller Schmied, H. et al. The global water resources and use model WaterGAP v2.2d: model description and evaluation. Geosci. Model Dev. 14, 1037–1079 (2021).ADS 
    Article 

    Google Scholar 
    Beck, H. E. et al. Global evaluation of runoff from 10 state-of-the-art hydrological models. Hydrol. Earth Syst. Sci. 21, 2881–2903 (2017).ADS 
    Article 

    Google Scholar 
    Alcamo, J. et al. Development and testing of the WaterGAP 2 global model of water use and availability. Hydrol. Sci. J. 48, 317–338 (2003).Article 

    Google Scholar 
    Döll, P., Kaspar, F. & Lehner, B. A global hydrological model for deriving water availability indicators: model tuning and validation. J. Hydrol. 270, 105–134 (2003).ADS 
    Article 

    Google Scholar 
    Lehner, B. & Grill, G. Global river hydrography and network routing: baseline data and new approaches to study the world’s large river systems. Hydrol. Process. 27, 2171–2186 (2013).ADS 
    Article 

    Google Scholar 
    Fick, S. E. & Hijmans, R. J. WorldClim 2: new 1-km spatial resolution climate surfaces for global land areas. Int. J. Climatol. 37, 4302–4315 (2017).Article 

    Google Scholar 
    Hengl, T. et al. SoilGrids250m: Global gridded soil information based on machine learning. PLoS One 12, e0169748 (2017).PubMed 
    PubMed Central 
    Article 
    CAS 

    Google Scholar 
    Zhang, X. et al. GLC_FCS30: Global land-cover product with fine classification system at 30 m using time-series Landsat imagery. Earth Syst. Sci. Data 13, 2753–2776 (2021).ADS 
    Article 

    Google Scholar 
    Buchhorn, M. et al. Copernicus Global Land Service: Land Cover 100m: Collection 3: epoch 2019: Globe, Zenodo, https://doi.org/10.5281/zenodo.3939050 (2020).ESRI. ArcGIS Desktop: Release 10.4.1 (Environmental Systems Research Institute, Redlands, CA, USA, 2016).Soranno, P. A., Cheruvelil, K. S., Wagner, T., Webster, K. E. & Bremigan, M. T. Effects of land use on lake nutrients: the importance of scale, hydrologic connectivity, and region. PLoS One 10, e0135454 (2015).PubMed 
    PubMed Central 
    Article 
    CAS 

    Google Scholar 
    Su, Z. H., Lin, C., Ma, R. H., Luo, J. H. & Liang, Q. O. Effect of land use change on lake water quality in different buffer zones. Appl. Ecol. Environ. Res. 13, 639–653 (2015).
    Google Scholar 
    Brakebill, J. W., Schwarz, G. E. & Wieczorek, M. E. An enhanced hydrologic stream network based on the NHDPlus medium resolution dataset. Scientific Investigations Report https://doi.org/10.3133/sir20195127 (2020).Carroll, M., Townshend, J., DiMiceli, C., Noojipady, P. & Sohlberg, R. Global raster water mask at 250 meter spatial resolution, Collection 5: MOD44W MODIS Water Mask. College Park, Maryland: University of Maryland (2009).Carroll, M. L., Townshend, J. R., DiMiceli, C. M., Noojipady, P. & Sohlberg, R. A. A new global raster water mask at 250 m resolution. Int. J. Digit. Earth 2, 291–308 (2009).ADS 
    Article 

    Google Scholar 
    European Environment Agency (EEA). European Catchments and Rivers Network System (ECRINS), https://www.eea.europa.eu/data-and-maps/data/european-catchments-and-rivers-network (2012).Ouellet Dallaire, C., Lehner, B., Sayre, R. & Thieme, M. A multidisciplinary framework to derive global river reach classifications at high spatial resolution. Environ. Res. Lett. 14, 024003 (2019).ADS 
    Article 

    Google Scholar 
    Global Runoff Data Centre (GRDC). River discharge data. Federal Institute of Hydrology, 56068 Koblenz, Germany, https://www.bafg.de/GRDC (2014).Openshaw, S. The modifiable areal unit problem. In Quantitative Geography: A British View (eds. Wrigley, N. & Bennett, R.) 60–69 (Routledge and Kegan Paul, Andover, 1981).United States Census Bureau. 2010 Census. ftp://ftp2.census.gov/geo/tiger (2010).Center for International Earth Science Information Network (CIESIN) & NASA Socioeconomic Data and Applications Center (SEDAC). Gridded Population of the World, Version 4 (GPWv4): Population Count and Density. https://doi.org/10.7927/H4JW8BX5 (2016).Grill, G. et al. Mapping the world’s free-flowing rivers. Nature 569, 215–221 (2019).ADS 
    CAS 
    PubMed 
    Article 

    Google Scholar 
    Allen, D. J. et al. The Diversity of Life in African Freshwaters: Under Water, Under Threat: an Analysis of the Status and Distribution of Freshwater Species Throughout Mainland Africa. (IUCN, 2011).Markovic, D. et al. Europe’s freshwater biodiversity under climate change: distribution shifts and conservation needs. Divers. Distrib. 20, 1097–1107 (2014).Article 

    Google Scholar 
    Fluet-Chouinard, E., Lehner, B., Rebelo, L.-M., Papa, F. & Hamilton, S. K. Development of a global inundation map at high spatial resolution from topographic downscaling of coarse-scale remote sensing data. Remote Sens. Environ. 158, 348–361 (2015).ADS 
    Article 

    Google Scholar 
    Lehner, B. et al. High‐resolution mapping of the world’s reservoirs and dams for sustainable river‐flow management. Front. Ecol. Environ. 9, 494–502 (2011).Article 

    Google Scholar 
    Fan, Y., Li, H. & Miguez-Macho, G. Global patterns of groundwater table depth. Science 339, 940–943 (2013).ADS 
    CAS 
    PubMed 
    Article 

    Google Scholar 
    Robinson, N., Regetz, J. & Guralnick, R. P. EarthEnv-DEM90: A nearly-global, void-free, multi-scale smoothed, 90m digital elevation model from fused ASTER and SRTM data. ISPRS J. Photogramm. Remote Sens. 87, 57–67 (2014).ADS 
    Article 

    Google Scholar 
    Metzger, M. J. et al. A high-resolution bioclimate map of the world: a unifying framework for global biodiversity research and monitoring. Glob. Ecol. Biogeogr. 22, 630–638 (2013).Article 

    Google Scholar 
    Hijmans, R. J., Cameron, S. E., Parra, J. L., Jones, P. G. & Jarvis, A. Very high resolution interpolated climate surfaces for global land areas. Int. J. Climatol. 25, 1965–1978 (2005).Article 

    Google Scholar 
    Zomer, R. J., Trabucco, A., Bossio, D. A. & Verchot, L. V. Climate change mitigation: a spatial analysis of global land suitability for clean development mechanism afforestation and reforestation. Agric. Ecosyst. Environ. 126, 67–80 (2008).Article 

    Google Scholar 
    Trabucco, A., Zomer, R. J., Bossio, D. A., van Straaten, O. & Verchot, L. V. Climate change mitigation through afforestation/reforestation: a global analysis of hydrologic impacts with four case studies. Agric. Ecosyst. Environ. 126, 81–97 (2008).Article 

    Google Scholar 
    Trabucco, A. & Zomer, R. J. Global soil water balance geospatial database. CGIAR Consortium for Spatial Information, https://cgiarcsi.community/data/global-high-resolution-soil-water-balance (2010).Hall, D. K., Riggs, G. A. & Salomonson, V. MODIS/Terra snow cover daily L3 global 500m grid, version 5, 2002–2015, https://doi.org/10.5067/MODIS/MOD10A1.006 (2016).Bartholomé, E. & Belward, A. S. GLC2000: a new approach to global land cover mapping from Earth observation data. Int. J. Remote Sens. 26, 1959–1977 (2005).Article 

    Google Scholar 
    Ramankutty, N. & Foley, J. A. Estimating historical changes in global land cover: Croplands from 1700 to 1992. Global Biogeochem. Cycles 13, 997–1027 (1999).ADS 
    CAS 
    Article 

    Google Scholar 
    Lehner, B. & Döll, P. Development and validation of a global database of lakes, reservoirs and wetlands. J. Hydrol. 296, 1–22 (2004).ADS 
    Article 

    Google Scholar 
    Ramankutty, N., Evan, A. T., Monfreda, C. & Foley, J. A. Farming the planet: 1. Geographic distribution of global agricultural lands in the year 2000. Global Biogeochem. Cycles 22, (2008).Siebert, S. et al. A global data set of the extent of irrigated land from 1900 to 2005. Hydrol. Earth Syst. Sci. 19, 1521–1545 (2015).ADS 
    Article 

    Google Scholar 
    GLIMS & NSIDC. Global land ice measurements from space (GLIMS) glacier database, v1. National Snow and Ice Data Center (NSIDC), https://doi.org/10.7265/N5V98602 (2012).Gruber, S. Derivation and analysis of a high-resolution estimate of global permafrost zonation. Cryosphere 6, 221–233 (2012).ADS 
    Article 

    Google Scholar 
    UNEP-WCMC & IUCN. The World Database on Protected Areas, http://www.protectedplanet.net (2014).Dinerstein, E. et al. An ecoregion-based approach to protecting half the terrestrial realm. Bioscience 67, 534–545 (2017).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Abell, R. et al. Freshwater ecoregions of the world: a new map of biogeographic units for freshwater biodiversity conservation. Bioscience 58, 403–414 (2008).Article 

    Google Scholar 
    Hengl, T. et al. SoilGrids1km—global soil information based on automated mapping. PLoS One 9, e105992 (2014).ADS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Hartmann, J. & Moosdorf, N. The new global lithological map database GLiM: a representation of rock properties at the Earth surface. Geochem. Geophys. Geosyst. 13, Q12004 (2012).ADS 
    Article 

    Google Scholar 
    Williams, P. W. & Ford, D. C. Global distribution of carbonate rocks. Zeitschrift für Geomorphologie Suppl. 147, 1–2 (2006).
    Google Scholar 
    Borrelli, P. et al. An assessment of the global impact of 21st century land use change on soil erosion. Nat. Commun. 8, 1–13 (2017).ADS 
    CAS 
    Article 

    Google Scholar 
    Pesaresi, M. & Freire, S. GHS Settlement grid following the REGIO model 2014 in application to GHSL Landsat and CIESIN GPW v4-multitemporal (1975-1990-2000-2015). European Commission, Joint Research Centre (JRC), https://data.europa.eu/data/datasets/jrc-ghsl-ghs_smod_pop_globe_r2016a (2016).Doll, C. N. H. CIESIN thematic guide to night-time light remote sensing and its applications. CIESIN http://sedac.ciesin.columbia.edu/binaries/web/sedac/thematic-guides/ciesin_nl_tg.pdf (2008).Meijer, J. R., Huijbregts, M. A. J., Schotten, K. C. G. J. & Schipper, A. M. Global patterns of current and future road infrastructure. Environ. Res. Lett. 13, 64006 (2018).Article 

    Google Scholar 
    Venter, O. et al. Global terrestrial Human Footprint maps for 1993 and 2009. Sci. data 3, 160067 (2016).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    University of Berkeley. Database of global administrative areas (GADM). University of Berkeley, Museum of Vertebrate Zoology and the International Rice Research Institute, http://www.gadm.org (2012).Kummu, M., Taka, M. & Guillaume, J. H. A. Gridded global datasets for gross domestic product and Human Development Index over 1990–2015. Sci. data 5, 180004 (2018).PubMed 
    PubMed Central 
    Article 

    Google Scholar  More

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    Modelling of life cycle cost of conventional and alternative vehicles

    Life cycle cost modelAn analysis of life cycle costs is an economic analysis of the assessment of the total cost of acquisition, ownership and liquidation of a product. It is applicable during the entire life cycle of the product or a life cycle stage or combination of different stages21 and22.There are five period phases of the vehicle life cycle:Generally, the total costs for the above listed phases are acquisition costs, ownership costs and liquidation costs21 and22. For the LCC model, I recommend to divide the life cycle costs into four categories:$$LCC={C}_{P}+{C}_{M}+{C}_{O}+{C}_{D},$$
    (1)
    $${LCC}_{s}=frac{LCC}{t},$$
    (2)

    where LCC—the life cycle cost of vehicles, LCCs—the specific life cycle cost of vehicles, CP—the vehicle purchase cost, CM—the maintenance cost, CO—operating state of vehicle cost, CD—the vehicle disposal cost, t—the time of vehicle operation.The model for evaluating the economic viability of products is based on the general LCC model which is based on acquisition and ownership costs$$LCC={C}_{P}+{C}_{OW},$$
    (3)

    where CP—purchase cost, COW—ownership costs.Acquisition cost (CP) is represented by the purchase price at the time of acquisition of the assessed passenger vehicle.Ownership cost (COW) is significant during the life cycle of a motor vehicle and varies according to the type of the vehicle. This cost includes the costs of maintenance and operation time can be defined as follows10$${C}_{Ow}={C}_{M}+{C}_{O},$$
    (4)

    where CM—cost of maintenance, CO—operation cost.The cost of ownership a vehicle (COW) can be defined as follows$${C}_{OW}={C}_{O}+{C}_{MC}+{C}_{MP},$$
    (5)

    where CO—operation cost, CMC—corrective maintenance cost, CMP—preventive maintenance cost.The cost of ownership (COW) may include the operating and maintenance costs which consist of the corrective maintenance cost (CMC) and the cost of preventive maintenance (CMP) of a motor vehicle.Calculation of operating costsOperating cost CO is determined by the price and amount consumed of conventional or alternative types of fuel. It cover the cost of fuel CF, operating fluids, oils and lubricants COL that are supplied during vehicle operation (not during service inspection), tyres CT, accumulator batteries CAB, vehicle insurance fee and road tax or other mandatory fees CIRT, cost of the motorway tax sticker CMT, mandatory vehicle inspection and emission measurement in special vehicles CETC. The costs are calculated according to$${C}_{O}={C}_{F}+{C}_{OL}+{C}_{T}+{C}_{AB}+{C}_{IRT}+{C}_{MT}+{C}_{ETC}.$$
    (6)
    Fuel costs (CF) are affected by the average consumption of a given type of propulsion vehicle. Then the comparative fuel costs (CF) can be expressed by the equation$${C}_{F}=frac{{bar{c}}_{aF}}{100}{p}_{F}{t}_{l},$$
    (7)

    where CF—total fuel costs (EUR), (bar{c})aF—average fuel consumption (l/100 km), pF—fuel price (EUR/l), tl—service life of a passenger vehicle (km).Costs for operating fluids, oils and lubricants (COL) are any costs for operating fluids, oils and lubricants that are replenished during operation and not during service maintenance; it can be expressed by the equation$${C}_{OL}=frac{{bar{c}}_{aOL}}{100}{p}_{OL}{t}_{l},$$
    (8)

    where (bar{c})aOL—average consumption of oil and lubricant (l/100 km), pOL—price of oil and lubricant (EUR/l).The cost of tyres (CT) can be expressed by the equation$${C}_{T}=frac{{t}_{l}}{{bar{d}}_{aT}}{n}_{T}{p}_{T},$$
    (9)

    where (bar{d})aT—average life of a passenger vehicle tyre (km), nt—number of tyres on the passenger vehicle (pc), pT—price of one piece of tyre (EUR).Accumulator battery costs (CAB) —can be expressed by the equation$${C}_{AB}=frac{{t}_{l}}{{bar{d}}_{aAB}}{n}_{AB}{p}_{AB},$$
    (10)

    where (bar{d}_{aB})—average life of one accumulator battery (km), nAB—number of accumulator batteries in the passenger vehicle (pc), pAB—price of an accumulator battery (EUR).Costs arising from laws (CIRT) are the costs of motor vehicle insurance (compulsory liability, accident insurance, or other). Some of them can be omitted in case of the same costs due to the simplification of the model. Otherwise, they can be expressed by the equation$${C}_{IRT}=left({C}_{SI}+{C}_{AI}+{C}_{RT}+{C}_{R}right){t}_{la},$$
    (11)
    where CS1—price of mandatory annual insurance of a passenger vehicle (EUR), CA1—price of the annual accident insurance of a passenger vehicle (EUR), CRT—price of annual road tax (EUR), CR—price of statutory fee (EUR), tla—operating time of the passenger vehicle until decommissioning (years).The cost of obtaining a motorway sticker (CMT) may be omitted if the same type of passenger vehicle is compared. Otherwise, the cost of a motorway sticker (CMT) can be expressed by the equation$${C}_{MT}={c}_{MT}{t}_{la},$$
    (12)

    where cMT—price of annual motorway sticker for the passenger vehicle (EUR).The costs of the mandatory vehicle inspection and emission measurement (CETC) include the costs incurred for the measurement of emissions of the drive engine unit (CE) and for the technical inspection of the passenger vehicle (CTC). For the proposed model, the costs of the mandatory technical inspections and emission measurements can be expressed by the equation$${C}_{ETC}=left({C}_{E}+{C}_{TC}right)frac{{y}_{n}}{{t}_{la}},$$
    (13)

    where CE—costs related to the measurement of passenger vehicle emissions (EUR), CTC—costs of mandatory technical inspection (EUR), yn—number of years of legal validity of emission measurement and technical condition for the given type of the passenger vehicle (years).Calculation of maintenance costThe total costs for vehicle maintenance CM consist of the cost of preventive maintenance CMP and the cost of corrective maintenance CMC10,11$${C}_{M}={C}_{MC}+{C}_{MP}.$$
    (14)
    Vehicle maintenance costs include the cost of material and the cost of labour$${C}_{M}={(C}_{MCM}+{C}_{MCL}+{C}_{MCF})+left({C}_{MPM}+{C}_{MPL}+{C}_{MPF}right),$$
    (15)

    where CM—cumulative maintenance costs, CMC—corrective maintenance costs, CMP—preventive maintenance costs, CMCM—costs of material used for corrective maintenance, CMCL—costs of labour force for corrective maintenance, CMCF—costs of workshop equipment used for corrective maintenance, CMPM—costs of material used for preventive maintenance, CMPL—costs of labour force for preventive maintenance, CMPF—costs of workshop equipment used for preventive maintenance.

    Preventive maintenance costs (CMP) are costs that include all costs associated with preventive maintenance performed to reduce degradation and mitigate the likelihood of failure. At present, preventive maintenance is performed at predetermined time intervals (according to the manufacturer’s preventive maintenance program) or when a specified number of kilometres are not covered before the next service maintenance, depending on the time. In practice, for passenger cars, it is usually 1 or 2 years, depending on the use of engine oil. This mainly includes the cost of:

    material consumed during preventive maintenance,

    work spent on preventive maintenance,

    workshop equipment, training of preventive maintenance specialists.$${C}_{MP}=frac{{t}_{l}}{MTB{M}_{p}}left({C}_{MPM}+{(bar{c}}_{p}{bar{t}}_{pm})right),$$
    (17)

    where MTBMp—mean operating time between preventive maintenances (km), CMPM—costs of material used for preventive maintenance (EUR), (bar{c})p—average hourly cost of labour and workshop equipment used for maintenance (EUR/hour), ̅tpm—mean time of labour-intensity per one preventive maintenance (hour).

    Design of a model for the analysis of selected life cycle costs of a passenger motor vehicleThe model for performing an analysis of life cycle costs for the purchase of a new motor vehicle is based on the basic Eq. (3), (18). We will not count the costs of improvement (CE) and the costs of the decommissioning phase (CD) for the mentioned model due to the calculations of costs that are unnecessary for the analysis. Then the model can be expressed as follows$$LCC={C}_{P}+{C}_{O}+{C}_{M}.$$
    (18)
    Then, the following Eqs. (6), (7), (8), (9), (10), (11), (12), (13), (16) and (17) are substituted into the given equation, and the selected costs can be calculated for individual vehicles. The resulting model for calculating the LCC costs has the following form$$LCC={C}_{p}+frac{{bar{c}}_{aF}}{100}{p}_{F}{t}_{l}+frac{{bar{c}}_{aOL}}{100}{p}_{OL}{t}_{l}+frac{{t}_{l}}{{bar{d}}_{aT}}{n}_{T}{p}_{T}+frac{{t}_{l}}{{bar{d}}_{aAB}}{n}_{AB}{p}_{AB}+{C}_{SI}{t}_{la}+{c}_{MT}{t}_{la}+left({C}_{E}+{C}_{TC}right)frac{{y}_{n}}{{t}_{la}}+frac{{t}_{l}}{MTBF}left({bar{c}}_{m}+{(bar{c}}_{p}{bar{t}}_{pc})right)+frac{{t}_{l}}{MTB{M}_{p}}left({C}_{OMPM}+{bar{(c}}_{p}{bar{t}}_{pm})right).$$
    (19)
    It is presented in a Fig. 6.Figure 6Structure of model input parameters for LCC model calculation.Full size imageIn this way, the cumulative costs for each passenger motor vehicle are calculated. Since the passenger motor vehicles may have a different service life tl which is expressed in kilometres, it is recommended to convert this equation to specific costs which are related to one kilometre of use. The selected LCCS life cycle specific costs can be expressed by the following equation$${LCC}_{S}=frac{LCC}{{t}_{l}}.$$
    (20)
    LCC model input values and items affecting ownership costs for alternative drivesThe process of the calculation of selected life cycle costs for the propulsion of passenger vehicles and the structure of individual cost items is shown in Fig. 6. These are the input parameters to the LCC model.The total life cycle costs are divided into two main cost groups, which are the ownership and acquisition costs for a given drive type. Fuel costs are determined by the price and the quantity of conventional or alternative fuel consumed. For the calculation of the selected LCCs, the authors of the paper assume that the availability of conventional and alternative fuels is not limited in any way. It is assumed that the availability of fuels is ideal, which is not entirely true in practice. This is dependent on the support for each alternative fuel in each state.In practice, therefore, multiple costs may arise due to the distance to the refuelling station to provide alternative fuels such as E85, CNG, LPG and hydrogen. In addition, there is a distance to the charging station for electric drives.Another item that affects the cost of operation for hybrid passenger vehicles is the percentage of alternative fuel driving, which can have a significant impact on life cycle costs. Values for this item are given as a percentage, which is then converted into the number of kilometres driven on alternative and conventional fuel.One of the important parameters for calculating the life cycle operating costs for the hybrid-electric and electric drive is the setting of a threshold value for the capacity of the electric vehicle battery (EV battery) when the replacement is performed. For the model calculation, a limit value of 70% of the electric vehicle battery capacity at 20 °C was set.Return on investmentReturn on investment (ROI) is a performance measure used to evaluate the efficiency or profitability of an investment or compare the efficiency of a number of different investments. ROI tries to directly measure the amount of return on a particular investment, relative to the investment’s cost. To calculate ROI, the benefit (or return) of an investment is divided by the cost of the investment. The result is expressed as a percentage or a ratio12,23.For our calculation of the return on investment ROI on alternative and conventional passenger car propulsion the following formula is used, which is expressed as a percentage$$ROI=frac{{LCC}_{A}-{LCC}_{C}}{{LCC}_{C}}100,$$
    (21)

    where LCCA—selected live cycle costs of the alternative passenger car propulsion (EUR), LCCC—selected live cycle costs of the conventional passenger car propulsion (EUR).The return on investment of an alternative vehicle ROIAV purchase expresses after how many kilometres the increased cost of purchasing an alternative fuel vehicle compared to a conventional one is recovered. If the value is negative, the payback will not occur for various reasons. The following equation is used to calculate ROIAV$${ROI}_{AV}=frac{{C}_{{P}_{AV}}-{C}_{{P}_{CV}}}{frac{{C}_{O{W}_{CV}}-{C}_{O{W}_{AV}}}{{t}_{l}}}$$
    (22)

    where ({C}_{{P}_{AV}})—purchase cost on alternative vehicle (EUR), ({C}_{{P}_{CV}})—purchase cost on conventional vehicle (EUR), ({C}_{O{W}_{CV}})—ownership cost on conventional vehicle (EUR), ({C}_{O{W}_{AV}})—ownership cost on alternative vehicle (EUR), tl—service life of the passenger vehicle (km).Ownership costs on conventional vehicle are expressed by the following equation$${C}_{{OW}_{CV}}={left(frac{{bar{c}}_{aF}}{100}{p}_{F}{t}_{l}+frac{{bar{c}}_{aOL}}{100}{p}_{OL}{t}_{l}+frac{{t}_{l}}{{bar{d}}_{aT}}{n}_{T}{p}_{T}+frac{{t}_{l}}{{bar{d}}_{aAB}}{n}_{AB}{p}_{AB}+{C}_{SI}{t}_{la}+{c}_{MT}{t}_{la}+left({C}_{E}+{C}_{TC}right)frac{{y}_{n}}{{t}_{la}}+frac{{t}_{l}}{MTBF}left({bar{c}}_{m}+{(bar{c}}_{p}{bar{t}}_{pc})right)+frac{{t}_{l}}{MTB{M}_{p}}left({C}_{OMPM}+({bar{c}}_{p}{bar{t}}_{pm})right)right)}_{CV}.$$
    (23)
    Ownership costs on alternative vehicle are expressed by the following equation$${C}_{{OW}_{AV}}={left(frac{{bar{c}}_{aF}}{100}{p}_{F}{t}_{l}+frac{{bar{c}}_{aOL}}{100}{p}_{OL}{t}_{l}+frac{{t}_{l}}{{bar{d}}_{aT}}{n}_{T}{p}_{T}+frac{{t}_{l}}{{bar{d}}_{aAB}}{n}_{AB}{p}_{AB}+{C}_{SI}{t}_{la}+{c}_{MT}{t}_{la}+left({C}_{E}+{C}_{TC}right)frac{{y}_{n}}{{t}_{la}}+frac{{t}_{l}}{MTBF}left({bar{c}}_{m}+{(bar{c}}_{p}{bar{t}}_{pc})right)+frac{{t}_{l}}{MTB{M}_{p}}left({C}_{OMPM}+({bar{c}}_{p}{bar{t}}_{pm})right)right)}_{AV}.$$
    (24)
    The rate of return on investment for the purchase of an alternative vehicle depending on the kilometres travelled to is expressed by the following equation$${ROI}_{AV({t}_{o})}={(C}_{{P}_{AV}}-{C}_{{P}_{CV}})-({C}_{O{W}_{CV}left({t}_{o}right)}-{C}_{O{W}_{AV}left({t}_{o}right)}) quad text{when} ;to = (0-tl)$$
    (25)

    where to—operation of the passenger vehicle (km). More

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    Assessment of solar radiation resource from the NASA-POWER reanalysis products for tropical climates in Ghana towards clean energy application

    Geography and climatology of study areaThe area of study, Ghana, is on the coastal edge of tropical West African, bounded in latitude 4.5° N and 11.5° N and longitude 3.5° W and 1.5° E, and characterized by a tropical monsoon climate system23,24. Figure 1 shows map of the study area indicating the selected twenty two (22) sunshine measurement stations distributed across the four main climatological zones and Table 1 summarizes the geographical positions of selected stations.Figure 1Adapted from Asilevi27.Map of the study area showing all twenty two (22) synoptic stations distributed in four main climatological zones countrywide.Full size imageTable 1 Geographical position and elevation for study sites.Full size tableAtmospheric clarity over the area is closely connected to cloud amount distribution and rainfall activities, largely determined by the oscillatory migration of the Inter-Tropical Discontinuity (ITD), accounting for the West African Monsoon (WAM)25,26.Owing to the highly variable spatiotemporal distribution of cloud amount vis-à-vis rainfall activities, resulting in contrasting climatic conditions in different parts of the region, the country is partitioned by the Ghana Meteorological Agency (GMet) into four main agro-ecological zones namely, the Savannah, Transition, Forest and Coastal zones as shown in Fig. 123. As a result, the region experiences an estimated Global solar radiation (GSR) intensity peaks in April–May and then in October–November, with the highest monthly average of 22 MJm−2 day−1 over the savannah climatic zone and the lowest monthly average of 13 MJm−2 day−1 over the forest climatic zone27.Research datasetsGround-based measurement dataDaily sunshine duration measurement datasets (n) spanning 1983–2018 where derived for estimating Global solar radiation (GSR). The measurements were taken by the Campbell-Stokes sunshine recorder, mounted at the 22 stations shown in Fig. 1, under unshaded conditions to ensure optimum sunlight exposure. The device concentrates sunlight onto a thin strip of sunshine card, which causes a burnt line representing the total period in hours during which sunshine intensity exceeds 120.0 Wm−2 according to World Meteorological Organization (WMO) recommendations27. The as-received daily records were quality control checked by ensuring 0 ≤ n ≤ N, where N is the astronomical day length representing the possible maximum duration of sunshine in hours determined by Eq. 1 from the latitude (ϕ) of the site of interest and the solar declination (δ) computed by Eq. 227:$$ {text{N}} = frac{2}{15}cos^{ – 1} left[ { – tan phi tan {updelta }} right] $$
    (1)
    $$ {updelta } = 23.45sin left[ {360^{{text{o}}} times frac{{284 + {text{J}}}}{365}} right] $$
    (2)
    where J represents the number for the Julian day of the year (first January is 1 and second January is 2).NASA-POWER Global solar radiation (GSR) reanalysis dataThe satellite-based Global solar radiation (GSR) dataset for specific longitudes and latitudes of all 22 stations, assessed in the study, were retrieved from the National Aeronautics and Space Administration-Prediction of Worldwide Energy Resources (NASA-POWER) reanalysis repository based on the Modern Era Retrospective-Analysis for Research and Applications (MERRA-2) assimilation model products, developed from Surface Radiation Budget, and spanning equal study period (1983–2018). The datasets are accessible on a daily and monthly temporal resolution scales at 0.5° × 0.5° spatial coverage via a user friendly web-based mapping portal: https://power.larc.nasa.gov/data-access-viewer/17. The advantage of the NASA-POWER reanalysis GSR, is the wide spatial coverage, and thus can be used to develop a high spatial resolution of solar radiation across the study area.The POWER Project analyzes, synthesizes and makes available surface radiation related parameters on a global scale, primarily from the World Climate Research Programme (WCRP), Global Energy and Water cycle Experiment (GEWEX), Surface Radiation Budget (SRB) project (Version 2.9), the Clouds and the Earth’s Radiant Energy System (CERES), FLASHFlux (Fast Longwave and Shortwave Radiative Fluxes from CERES and MODIS), and the Global Modeling and Assimilation Office (GMAO)17. Table 2 shows the source satellites and the corresponding temporal coverage used in the development of NASA-POWER GSR products.Table 2 Satellites providing the NASA-POWER GSR datasets20.Full size tableThe monthly average NASA-POWER all-sky shortwave surface radiation reanalysis products are statistically validated, showing reasonable biases of − 6.6–13%, against a global network of surface radiation measurement metadata in an integrated database from the Baseline Surface Radiation Network (BSRN) of the World Radiation Monitoring Center (WRMC)20,22. The datasets are widely used in renewable energy application16,22, agricultural modelling of crop yields28, crop simulation exercises29, and plant disease modelling30.Furthermore, in order to assess the suitability of the NASA-POWER surface solar radiation products for the study area, a synthetic sunshine duration based Global solar radiation (GSR) is developed from the Angstrom-Prescott sunshine duration model by Eq. 3 for comparisons27.$$ {text{GSR}} = left[ {{text{a}} + {text{b}}frac{{text{n}}}{{text{N}}}} right]{text{H}}_{{text{o}}} $$
    (3)
    were Ho (kWhm−2 day−1) is the daily extraterrestrial solar radiation on an horizontal surface, n is the daily sunshine duration measurements obtained from the Ghana Meteorological Agency (GMet), and N is the maximum possible daily sunshine duration or the day length in hours determined by Eq. 1. Generalized regression constants a = 0.25 and b = 0.5 for the study area were determined by Asilevi27 from experimental radiometric data based on correlation regression analysis between atmospheric clarity index (GSR/Ho) and atmospheric cloudlessness index (n/N), for estimating solar radiation over the study area, and compared with other satellite data retrieved from the National Renewable Energy Laboratory (NREL) and the German Aerospace Centre (DLR)27. Ho was calculated from astronomical parameters by Eq. 4:$$ {text{H}}_{0} = frac{{24{ } cdot { }60}}{pi } cdot {text{G}}_{{{text{sc}}}} cdot {text{d}}_{{text{r}}} left[ {omega_{{text{s}}} sin varphi sin delta + cos varphi cos delta sin omega_{{text{s}}} } right] $$
    (4)
    where Gsc is the Solar constant in MJm−2 min−1, dr is the relative Earth–Sun distance in meters (m), (omega_{s}) is the sunset hour angle (angular distance between the meridian of the observer and the meridian whose plane contains the sun), (delta) is the angle of declination in degrees (°) and (varphi) is the local latitude. A detailed presentation of the calculation was published in a previous work27.Statistical assessment analysisFor the purpose of assessing the NASA-POWER derived monthly mean GSR (GSRn) datasets in comparison with the estimated Global Solar Radiation (GSRe) datasets used in this paper, the following deviation and correlation methods in Eqs. 5–11, each showing a complimentary result were used: Standard deviation (({upsigma })), residual error (RE), Root mean square error (RMSE), Mean bias error (MBE), Mean percentage error (MPE), Pearson’s correlation coefficient (r), and Willmott index of agreement (d) for n observations31,32,33,34,35. GSRe, GSRn, and RE represent the estimated GSR, NASA-POWER GSR, and the residual error between GSRe and GSRn respectively. A positive RE indicates that sunshine-based estimated GSR is larger than the NASA-POWER reanalysis dataset, while a negative RE indicates that sunshine-based estimated GSR is smaller than the NASA-POWER reanalysis dataset. The arithmetic mean of any dataset is µ.The standard deviation (({upsigma })) was used to check the upper and lower limits of distribution around the mean deviations between GSRe and GSRn in order to ascertain violations between both datasets33. The RMSE is a standard statistical metric to quantify error margins in meteorology and climate research studies, and by definition is always positive, representing zero in the ideal case, plus a smaller value signifying a good marginal deviation31. The MBE is a good indicator for under-or overestimation in observations, with MBE values closest to zero being desirable. The MPE further indicates the percentage deviation between the GSRe and GSRn individual datasets35.$$ {upsigma } = sqrt {frac{1}{{{text{n}} – 1}}mathop sum limits_{{{text{i}} = 1}}^{{text{n}}} left( {{text{GSR}} – {upmu }} right)^{2} } $$
    (5)
    $$ {text{RE}} = {text{GSR}}_{{text{e}}} – {text{GSR}}_{{text{n}}} $$
    (6)
    $$ {text{RMSE}} = sqrt {frac{1}{{text{n}}}mathop sum limits_{{{text{i}} = 1}}^{{text{n}}} left( {{text{RE}}} right)^{2} } $$
    (7)
    $$ {text{MBE}} = frac{1}{{text{n}}}mathop sum limits_{{{text{i}} = 1}}^{{text{n}}} left( {{text{RE}}} right) $$
    (8)
    $$ {text{MPE}} = frac{1}{{text{n}}}mathop sum limits_{{{text{i}} = 1}}^{{text{n}}} left( {frac{{{text{RE}}}}{{{text{GSR}}_{{text{e}}} }} times 100{text{% }}} right) $$
    (9)
    $$ {text{r}} = frac{{mathop sum nolimits_{{{text{i}} = 1}}^{{text{n}}} left( {{text{GSR}}_{{text{e}}} – {upsigma }_{{text{e}}} } right)left( {{text{GSR}}_{{text{n}}} – {upsigma }_{{text{n}}} } right)}}{{left( {{text{n}} – 1} right){upsigma }_{{text{e}}} {upsigma }_{{text{n}}} }} $$
    (10)
    $$ {text{d}} = 1 – left[ {frac{{mathop sum nolimits_{{{text{i}} = 1}}^{{text{n}}} left( {{text{GSR}}_{{text{e}}} – {text{GSR}}_{{text{n}}} } right)^{2} }}{{mathop sum nolimits_{{{text{i}} = 1}}^{{text{n}}} left( {left| {{text{GSR}}_{{text{e}}} – {text{GSR}}_{{{text{nave}}}} left| + right|{text{GSR}}_{{text{n}}} – {text{GSR}}_{{{text{nave}}}} } right|} right)^{2} }}} right] $$
    (11)
    Further, as with other statistical studies in meteorology36, the Pearson’s correlation coefficient (r) was used to quantify the strength of correlation between GSRe and GSRn. Finally, the Willmott index of agreement (d) commonly used in meteorological literature computed from Eq. 7 is used to assess the degree of GSRe/GSRn agreement34. More

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    Spatio-temporal evolution characteristics analysis and optimization prediction of urban green infrastructure: a case study of Beijing, China

    Birenboim, A. The influence of urban environments on our subjective momentary experiences. Environ. Plan. B-Urban Anal. CIty Sci. 45, 915–932. https://doi.org/10.1177/2399808317690149 (2018).Article 

    Google Scholar 
    Flores, A., Pickett, S. T. A., Zipperer, W. C., Pouyat, R. V. & Pirani, R. Adopting a modern ecological view of the metropolitan landscape: The case of a greenspace system for the New York City region. Landsc. Urban Plan. 39, 295–308. https://doi.org/10.1016/S0169-2046(97)00084-4 (1998).Article 

    Google Scholar 
    Weijs-Perrée, M., Dane, G., Berg, P. V. D. & Dorst, M. V. A multi-level path analysis of the relationships between the momentary experience characteristics, satisfaction with urban public spaces, and momentary- and long-term subjective wellbeing. Int. J. Environ. Res. Public Health. https://doi.org/10.3390/ijerph16193621 (2019).Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Paulin, M. J. et al. Application of the natural capital model to assess changes in ecosystem services from changes in green infrastructure in Amsterdam. Ecosyst. Serv. 43, 101114. https://doi.org/10.1016/j.ecoser.2020.101114 (2020).Article 

    Google Scholar 
    Derkzen, M. L., van Teeffelen, A. J. A., Verburg, P. H. & Diamond, S. Quantifying urban ecosystem services based on high-resolution data of urban green space: An assessment for Rotterdam, the Netherlands. J. Appl. Ecol. 52, 1020–1032. https://doi.org/10.1111/1365-2664.12469 (2015).Article 

    Google Scholar 
    Leiva, M. A., Santibanez, D. A., Ibarra, S., Matus, P. & Seguel, R. A five-year study of particulate matter (PM2.5) and cerebrovascular diseases. Environ. Pollut. 181, 1–6. https://doi.org/10.1016/j.envpol.2013.05.057 (2013).CAS 
    Article 

    Google Scholar 
    Venkataramanan, V. et al. Knowledge, attitudes, intentions, and behavior related to green infrastructure for flood management: A systematic literature review. Sci. Total Environ. 720, 137606. https://doi.org/10.1016/j.scitotenv.2020.137606 (2020).CAS 
    Article 
    PubMed 

    Google Scholar 
    Wang, G. Z., Han, Q. & De Vries, B. The multi-objective spatial optimization of urban land use based on low-carbon city planning. Ecol. Indic. 125, 107540. https://doi.org/10.1016/j.ecolind.2021.107540 (2021).CAS 
    Article 

    Google Scholar 
    Cameron, R. W. F. et al. The domestic garden—Its contribution to urban green infrastructure. Urban For. Urban Green. 11, 129–137. https://doi.org/10.1016/j.ufug.2012.01.002 (2012).Article 

    Google Scholar 
    De la Sota, C., Ruffato-Ferreira, V. J., Ruiz-Garcia, L. & Alvarez, S. Urban green infrastructure as a strategy of climate change mitigation. A case study in northern Spain. Urban For. Urban Green. 40, 145–151. https://doi.org/10.1016/j.ufug.2018.09.004 (2019).Article 

    Google Scholar 
    Pongsakorn, S., Jiang, X. R. & Sullivan, W. C. Green infrastructure, green stormwater infrastructure, and human health a review. Curr. Landscape. Ecol. Rep. 2, 96–110. https://doi.org/10.1007/s40823-017-0028-y (2017).Article 

    Google Scholar 
    Liu, O. Y. & Russo, A. Assessing the contribution of urban green spaces in green infrastructure strategy planning for urban ecosystem conditions and services (Sust. Cities Soc., 2021). https://doi.org/10.1016/j.scs.2021.102772.Book 

    Google Scholar 
    McMahon, E. T. Green infrastructure. Plan. Commission. J. (2000).Mell, I. C. Green Infrastructure Concepts, Perceptions and Its Use in Spatial Planning. Doctor of Philosophy Thesis (Planning and Landscape Newcastle University, 2010).
    Google Scholar 
    Wang, J. X. & Banzhaf, E. Towards a better understanding of green infrastructure: A critical review. Ecol. Indic. 85, 758–772. https://doi.org/10.1016/j.ecolind.2017.09.018 (2018).Article 

    Google Scholar 
    Young, R., Zanders, J., Lieberknecht, K. & Fassman-Beck, E. A comprehensive typology for mainstreaming urban green infrastructure. J. Hydrol. 519, 2571–2583. https://doi.org/10.1016/j.jhydrol.2014.05.048 (2014).Article 

    Google Scholar 
    Wang, J. X., Xu, C., Pauleit, S., Kindler, A. & Banzhaf, E. Spatial patterns of urban green infrastructure for equity: A novel exploration. J. Clean Prod. 238, 117858. https://doi.org/10.1016/j.jclepro.2019.117858 (2019).Article 

    Google Scholar 
    Cook, E. A. Landscape structure indices for assessing urban ecological networks. Landsc. Urban Plan. 58, 269–280 (2002).Article 

    Google Scholar 
    Vogt, P. & Riitters, K. GuidosToolbox: Universal digital image object analysis. Eur. J. Remote Sens. 50, 352–361. https://doi.org/10.1080/22797254.2017.1330650 (2017).Article 

    Google Scholar 
    Vogt, P., Riitters, K. H., Estreguil, C., Kozak, J. & Wade, T. G. Mapping spatial patterns with morphological image processing. Landsc. Ecol. 22, 171–177. https://doi.org/10.1007/s10980-006-9013-2 (2007).Article 

    Google Scholar 
    Kuttner, M., Hainz-Renetzeder, C., Hermann, A. & Wrbka, T. Borders without barriers—Structural functionality and green infrastructure in the Austrian-Hungarian transboundary region of Lake Neusiedl. Ecol. Indic. 31, 59–72. https://doi.org/10.1016/j.ecolind.2012.04.014 (2013).Article 

    Google Scholar 
    Ma, Q. W., Li, Y. H. & Xu, L. H. Identification of green infrastructure networks based on ecosystem services in a rapidly urbanizing area. J. Clean Prod. 300, 126945. https://doi.org/10.1016/j.jclepro.2021.126945 (2021).Article 

    Google Scholar 
    Furberg, D., Ban, Y. & Mörtberg, U. Monitoring urban green infrastructure changes and impact on habitat connectivity using high-resolution satellite data. Remote Sens. 12, 3072. https://doi.org/10.3390/rs12183072 (2020).Article 

    Google Scholar 
    Barbati, A., Corona, P., Salvati, L. & Gasparella, L. Natural forest expansion into suburban countryside: Gained ground for a green infrastructure?. Urban For. Urban Green. 12, 36–43. https://doi.org/10.1016/j.ufug.2012.11 (2013).Article 

    Google Scholar 
    Fluhrer, T., Chapa, F. & Hack, J. A methodology for assessing the implementation potential for retrofitted and multifunctional urban green infrastructure in public areas of the global south. Sustainability https://doi.org/10.3390/su13010384 (2021).Article 

    Google Scholar 
    Carroll, C., McRae, B. H. & Brookes, A. Use of linkage mapping and centrality analysis across habitat gradients to conserve connectivity of gray wolf populations in western North America. Conserv. Biol. 26, 78–87. https://doi.org/10.1111/j.1523-1739.2011.01753.x (2012).Article 
    PubMed 

    Google Scholar 
    Saura, S. & Torne, J. Conefor Sensinode 2.2: A software package for quantifying the importance of habitat patches for landscape connectivity. Environ. Modell. Softw. 24, 135–139 (2009).Article 

    Google Scholar 
    Jaworek-Jakubska, J., Filipiak, M., Michalski, A. & Napierała-Filipiak, A. Spatio-temporal changes of urban forests and planning evolution in a highly dynamical urban area: The case study of Wrocław, Poland. Forests 11, 17. https://doi.org/10.3390/f11010017 (2019).Article 

    Google Scholar 
    Ren, Z. B., He, X. Y., Zheng, H. F. & Wei, H. X. Spatio-temporal patterns of urban forest basal area under China’s rapid urban expansion and greening: Implications for urban green infrastructure management. Forests 9, 272. https://doi.org/10.3390/f9050272 (2018).Article 

    Google Scholar 
    Elliott, R. M. et al. Identifying linkages between urban green infrastructure and ecosystem services using an expert opinion methodology. Ambio 49, 569–583. https://doi.org/10.1007/s13280-019-01223-9 (2019).Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    García, A. M., Santé, I., Loureiro, X. & Miranda, D. Green infrastructure spatial planning considering ecosystem services assessment and trade-off analysis. Application at landscape scale in Galicia region (NW Spain). Ecosyst. Serv. 43, 101115. https://doi.org/10.1016/j.ecoser.2020.101115 (2020).Article 

    Google Scholar 
    Tiwari, A. & Kumar, P. Integrated dispersion-deposition modelling for air pollutant reduction via green infrastructure at an urban scale. Sci. Total Environ. 723, 138078. https://doi.org/10.1016/j.scitotenv.2020.138078 (2020).CAS 
    Article 
    PubMed 

    Google Scholar 
    Zhang, Y. Q. et al. Unexpected air quality impacts from implementation of green infrastructure in urban environments: A Kansas City case study. Sci. Total Environ. 744, 140960. https://doi.org/10.1016/j.scitotenv.2020.140960 (2020).CAS 
    Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Alizadehtazi, B., Gurian, P. L. & Montalto, F. A. Observed variability in soil moisture in engineered urban green infrastructure systems and linkages to ecosystem services. J. Hydrol. 590, 125381. https://doi.org/10.1016/j.jhydrol.2020.125381 (2020).Article 

    Google Scholar 
    Dennis, M., Cook, P. A., James, P., Wheater, C. P. & Lindley, S. J. Relationships between health outcomes in older populations and urban green infrastructure size, quality and proximity. BMC Public Health https://doi.org/10.1186/s12889-020-08762-x (2020).Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Van Oijstaeijen, W., Van Passel, S. & Cools, J. Urban green infrastructure: A review on valuation toolkits from an urban planning perspective. J. Environ. Manag. 267, 110603. https://doi.org/10.1016/j.jenvman.2020.110603 (2020).Article 

    Google Scholar 
    Majekodunmi, M., Emmanuel, R. & Jafry, T. A spatial exploration of deprivation and green infrastructure ecosystem services within Glasgow city. Urban For. Urban Green. 52, 126698. https://doi.org/10.1016/j.ufug.2020.126698 (2020).Article 

    Google Scholar 
    Liberalesso, T., Oliveira Cruz, C., Matos Silva, C. & Manso, M. Green infrastructure and public policies: An international review of green roofs and green walls incentives. Land Use Pol. 96, 104693. https://doi.org/10.1016/j.landusepol.2020.104693 (2020).Article 

    Google Scholar 
    Lin, H. Y., Qian, J., Yan, L. J. & Huang, S. R. Analysis of spatial-temporal pattern and scenario simulation of green infrastructure in Wuyi County based on morphological spatial pattern analysis and CA-Markov model. Acta Agricult. Zhejiangensis. https://doi.org/10.3969/j.issn.1004-1524.2019.07.21 (2019).Article 

    Google Scholar 
    Mitsova, D., Shuster, W. & Wang, X. H. A cellular automata model of land cover change to integrate urban growth with open space conservation. Landsc. Urban Plan. 99, 141–153. https://doi.org/10.1016/j.landurbplan.2010.10.001 (2011).Article 

    Google Scholar 
    Dennis, M. et al. Mapping urban green infrastructure: A novel landscape-based approach to incorporating land use and land cover in the mapping of human-dominated systems. Land 7, 17. https://doi.org/10.3390/land7010017 (2018).Article 

    Google Scholar 
    Hu, Y. J. et al. Urban expansion and farmland loss in Beijing during 1980–2015. Sustainability 10, 3927. https://doi.org/10.3390/su10113927 (2018).Article 

    Google Scholar 
    Li, W. J., Wang, Y., Xie, S. Y., Sun, R. H. & Cheng, X. Impacts of landscape multifunctionality change on landscape ecological risk in a megacity, China: A case study of Beijing. Ecol. Indic. 117 (2020).Song, W., Pijanowski, B. C. & Tayyebi, A. Urban expansion and its consumption of high-quality farmland in Beijing, China. Ecol. Indic. 54, 60–70. https://doi.org/10.1016/j.ecolind.2015.02.015 (2015).Article 

    Google Scholar 
    Li, Z. Z., Cheng, X. Q. & Han, H. R. Future impacts of land use change on ecosystem services under different scenarios in the ecological conservation area, Beijing, China. Forests https://doi.org/10.3390/f11050584 (2020).Article 

    Google Scholar 
    Liu, D. Y. et al. Interoperable scenario simulation of land-use policy for Beijing-Tianjin-Hebei region, China. Land Use Pol. 75, 155–165. https://doi.org/10.1016/j.landusepol.2018.03.040 (2018).Article 

    Google Scholar 
    Mo, W. B., Wang, Y., Zhang, Y. X. & Zhuang, D. F. Impacts of road network expansion on landscape ecological risk in a megacity, China: A case study of Beijing. Sci. Total Environ. 574, 1000–1011. https://doi.org/10.1016/j.scitotenv.2016.09.048 (2017).CAS 
    Article 
    PubMed 

    Google Scholar 
    Melgani, F. & Bruzzone, L. Classification of hyperspectral remote sensing images with support vector machines. IEEE Trans. Geosci. Remote Sens. 42, 1778–1790. https://doi.org/10.1109/Tgrs.2004.831865 (2004).Article 

    Google Scholar 
    Zhang, C., Wang, T. J., Atkinson, P. M., Pan, X. & Li, H. P. A novel multi-parameter support vector machine for image classification. Int. J. Remote Sens. 36, 1890–1906. https://doi.org/10.1080/01431161.2015.1029096 (2015).CAS 
    Article 

    Google Scholar 
    Peterson, L. K., Bergen, K. M., Brown, D. G., Vashchuk, L. & Blam, Y. Forested land-cover patterns and trends over changing forest management eras in the Siberian Baikal region. For. Ecol. Manag. 257, 911–922. https://doi.org/10.1016/j.foreco.2008.10.037 (2009).Article 

    Google Scholar 
    Sang, L. L., Zhang, C., Yang, J. Y., Zhu, D. H. & Yun, W. J. Simulation of land use spatial pattern of towns and villages based on CA-Markov model. Math. Comput. Model. 54, 938–943. https://doi.org/10.1016/j.mcm.2010.11.019 (2011).Article 

    Google Scholar 
    Liu, D. Y., Zheng, X. Q. & Wang, H. B. Land-use Simulation and Decision-Support system (LandSDS): Seamlessly integrating system dynamics, agent-based model, and cellular automata. Ecol. Model. 417, 108924. https://doi.org/10.1016/j.ecolmodel.2019.108924 (2020).Article 

    Google Scholar 
    Kazak, J. K. The use of a decision support system for sustainable urbanization and thermal comfort in adaptation to climate change actions-The case of the Wroclaw larger urban zone (Poland). Sustainability https://doi.org/10.3390/su10041083 (2013).Article 

    Google Scholar 
    Sonnenberg, F. A. & Beck, J. R. Markov-models in medical decision-making—A practical guide. Med. Decis. Mak. 13, 322–338. https://doi.org/10.1177/0272989×9301300409 (1993).CAS 
    Article 

    Google Scholar 
    Nadoushan, M. A., Soffianian, A. & Alebrahim, A. Modeling land use/cover changes by the combination of Markov chain and cellular automata Markov CA-Markov models. Int. J. Environ. Health Res. https://doi.org/10.4103/WKMP-0092.159922 (2015).Article 

    Google Scholar 
    Mansour, S., Al-Belushi, M. & Al-Awadhi, T. Monitoring land use and land cover changes in the mountainous cities of Oman using GIS and CA-Markov modelling techniques. Land Use Pol. 91, 104414. https://doi.org/10.1016/j.landusepol.2019.104414 (2020).Article 

    Google Scholar 
    Karimi, H., Jafarnezhad, J., Khaledi, J. & Ahmadi, P. Monitoring and prediction of land use/land cover changes using CA-Markov model: A case study of Ravansar County in Iran. Arab. J. Geosci. https://doi.org/10.1007/s12517-018-3940-5 (2018).Article 

    Google Scholar 
    Mondal, M. S., Sharma, N. C. P. K. G. & Kappas, M. Statistical independence test and validation of CA Markov land use land cover (LULC) prediction results. Egypt. J. Remote Sens. Space Sci. https://doi.org/10.1016/j.ejrs.2016.08.001 (2016).Article 

    Google Scholar 
    Liu, Q. et al. Multi-scenario simulation of land use change and its eco-environmental effect in Hainan Island based on CA-Markov model. Ecol. Environ. Sci. 30, 1522–1531. https://doi.org/10.16258/j.cnki.1674-5906.2021.07.021 (2021).Article 

    Google Scholar 
    Pontius, R. G. Statistical methods to partition effects of quantity and location during comparison of categorical maps at multiple resolutions. Photogramm. Eng. Remote Sens. 68, 1041–1049 (2002).
    Google Scholar 
    Soille, P. & Vogt, P. Morphological segmentation of binary patterns. Pattern Recognit. Lett. 30, 456–459 (2009).Article 

    Google Scholar 
    Chang, Q., Liu, X. W., Wu, J. S. & He, P. MSPA-based urban green infrastructure planning and management approach for urban sustainability: Case study of Longgang in China. J. Urban Plan. Dev. https://doi.org/10.1061/(asce)up.1943-5444.0000247 (2015).Article 

    Google Scholar 
    Li, K. M. et al. Spatiotemporal evolution characteristics of urban green infrastructure in central Liaoning urban agglomeration during the past 20 years based on landscape ecology and morphology. Acta Ecol. Sin. https://doi.org/10.5846/stxb202007221918 (2021).Article 

    Google Scholar 
    Ning, J. et al. Spatiotemporal patterns and characteristics of land-use change in China during 2010–2015. J. Geogr. Sci. 28, 547–562. https://doi.org/10.1007/s11442-018-1490-0 (2018).Article 

    Google Scholar 
    Sawyer, S. C., Epps, C. W. & Brashares, J. S. Placing linkages among fragmented habitats: Do least-cost models reflect how animals use landscapes?. J. Appl. Ecol. 48, 668–678. https://doi.org/10.1111/j.1365-2664.2011.01970.x (2011).Article 

    Google Scholar 
    Yin, G. Y., Liu, L. M. & Jiang, X. L. The sustainable arable land use pattern under the tradeoff of agricultural production, economic development, and ecological protection—An analysis of Dongting Lake basin, China. Environ. Sci. Pollut. Res. 24, 25329–25345. https://doi.org/10.1007/s11356-017-0132-x (2017).Article 

    Google Scholar  More

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    Ecological networks of dissolved organic matter and microorganisms under global change

    Experimental designThe comparative field microcosm experiments were conducted on Laojun Mountain in China (26.6959 N; 99.7759 E) in September–October 2013, and on Balggesvarri Mountain in Norway (69.3809 N; 20.3483 E) in July 2013, designed to be broadly representative of subtropical and subarctic climatic zones, respectively, as first reported in Wang et al.29. In the Laojun Mountain region, mean annual temperatures ranged from 4.2 to 12.9 °C, with July mean temperatures of 17–25 °C. In the Balggesvarri Mountain region, mean annual temperatures ranged from −2.9 to 0.7 °C, with July mean temperatures of 8–16 °C. The experiments were characterised by an aquatic ecosystem with consistent initial DOM composition but different locally colonised microbial communities and newly produced endogenous DOM. While allowing us to minimise the complexity of natural ecosystems, the experiment provided a means for investigating DOM-microbe associations at large spatial scales by controlling the initial DOM supply. Briefly, we selected locations with five different elevations on each mountainside. The elevations were 3822, 3505, 2915, 2580 and 2286 m a.s.l. on Laojun Mountain in China, and 750, 550, 350, 170 and 20 m a.s.l. on Balggesvarri Mountain in Norway. At each elevation, we established 30 aquatic microcosms (1.5 L bottle) composed of 15 g of sterilised lake sediment and 1.2 L of sterilised artificial lake water at one of ten nutrient levels of 0, 0.45, 1.80, 4.05, 7.65, 11.25, 15.75, 21.60, 28.80 and 36.00 mg N L−1 of KNO3 in the overlying water. To compensate for nitrate additions shifting stoichiometric ratios, KH2PO4 was added to the bottles so that the N/P ratio of the initial overlying water was 14.93, which was similar to the annual average ratio in Taihu Lake during 2007 (that is, 14.49). Thus, we use “nutrient enrichment” to indicate a series of targeted nutrient levels of both nitrate and phosphate, the former of which was used to represent nutrient enrichment in the statistical analyses. Each nutrient level was replicated three times. The lake sediments were obtained from the centre of Taihu Lake, China, and were aseptically canned per bottle after autoclaving at 121 °C for 30 min. Nutrient levels for the experiments were selected based on conditions of the eutrophic Taihu Lake, and the highest nitrate concentration was based on the maximum total nitrogen in 2007 (20.79 mg L−1; Fig. S19). We chose the nutrient level of this year because a massive cyanobacteria bloom in Taihu Lake happened in May 2007 and initiated an odorous drinking water crisis in the nearby city of Wuxi.The microcosms were left in the field for one month allowing airborne bacteria to freely colonise the sediments and water. To keep the microbial dispersal events as natural as possible, we did not cover the experimental microcosms in case of rainfall. To avoid or minimize potential influence of extreme nature events, we (i) left the top 20% of each microcosm empty to prevent water from overflowing during heavy rains, and (ii) checked the experimental sites twice during each experimental period, and added sterilized water to obtain a final volume of approximately 1.2 L. The bottom of our microcosm was buried into the local soils by 10% of the bottle height, partly to reduce UV exposure to sediments. More considerations of the experimental design were detailed in the Supplementary Methods. To avoid the effects of daily temperature variation, we measured the water temperature and pH within 2 h before noon at all elevations in the day before the final sample collection. At the end of the experimental period, we aseptically sampled the water and sediments of the 300 bottles (that is, 2 mountains × 5 elevations × 10 nutrient levels × 3 replicates) for the following analyses of physiochemical variables, bacterial community and DOM composition.Physiochemical variables and bacterial communityWe measured environmental variables, namely, the total nitrogen (TN), total phosphorus (TP), dissolved nutrients (that is, NOx−, NO2−, NH4+ and PO43−), total organic carbon (TOC), dissolved organic carbon (DOC) and chlorophyll a (Chl a) in the sediments, and the NO3−, NO2−, NH4+, PO43− and pH in the overlying water (Table S2, Fig. S20), according to Wang et al.29.The sediment bacteria were examined using high-throughput sequencing of 16S rRNA genes. The sequences were processed in QIIME (v1.9)45 and OTUs were defined at 97% sequence similarity. The bacterial sequences were rarefied to 20,000 per sample. Further details on physicochemical and bacterial community analyses are available in Wang et al.29.ESI FT-ICR MS analysis of DOM samplesHighly accurate mass measurements of DOM within the sediment samples were conducted using a 15 Tesla solariX XR system, a ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometer (FT-ICR MS, Bruker Daltonics, Billerica, MA) coupled with an electrospray ionization (ESI) interface, as demonstrated previously46 with some modifications. It should be noted that FT-ICR MS does not identify molecules, but only molecular formulae in terms of elemental composition and there can be many molecular structures sharing the same elemental compositions. DOM was solid-phase extracted (SPE) with Agilent VacElut resins before FT-ICR MS measurement47 with minor modifications. Briefly, an aliquot of 0.7 g freeze-dried sediment was sonicated with 30 ml ultrapure water for 2 h, and centrifuged at 5000 × g for 20 min. The extracted water was filtered through the 0.45 μm Millipore filter and further acidified to pH 2 using 1 M HCl. Cartridges were drained, rinsed with ultrapure water and methanol (ULC-MS grade), and conditioned with pH 2 ultrapure water. Calculated volumes of extracts were slowly passed through cartridges based on DOC concentration. Cartridges were rinsed with pH 2 ultrapure water and dried with N2 gas. Samples were finally eluted with methanol into precombusted amber glass vials, dried with N2 gas and stored at −20 °C until DOM analysis. The extracts were continuously injected into the standard ESI source with a flow rate of 2 μl min−1 and an ESI capillary voltage of 3.5 kV in negative ion mode. One hundred single scans with a transient size of 4 mega word (MW) data points, an ion accumulation time of 0.3 s, and within the mass range of m/z 150–1200, were co-added to a spectrum with absorption mode for phase correction, thereby resulting in a resolving power of 750,000 (FWHM at m/z 400). All FT-ICR mass spectra were internally calibrated using organic matter homologous series separated by 14 Da (-CH2 groups). The mass measurement accuracy was typically within 1 ppm for singly charged ions across a broad m/z range (150–1200 m/z).Data Analysis software (BrukerDaltonik v4.2) was used to convert raw spectra to a list of m/z values using FT-MS peak picker with a signal-to-noise ratio (S/N) threshold set to 7 and absolute intensity threshold to the default value of 100. Putative chemical formulae were assigned using the software Formularity (v1.0)48 following the Compound Identification Algorithm49. In total, 19,538 molecular formulas were putatively assigned for all samples (n = 300) based on the following criteria: S/N  > 7, and mass measurement error  0.80, P ≤ 0.001; Fig. S9). Similar conclusions were also obtained with either OTUs or genera when relating the pairwise distances of molecular traits with SparCC correlation coefficient ρ values among DOM molecules in Fig. 4c. To reduce type I errors in the correlation calculations created by low-occurrence genera or molecules, the majority rule was applied; that is, we retained genera or molecules that were observed in more than half of the total samples (≥75 samples) in China or Norway. The filtered table, including 1340 and 1246 DOM molecules, and 75 and 49 bacterial genera in China and Norway, respectively, was then used for pairwise correlation calculation of DOM and bacteria using SparCC with default parameters35.Finally, bipartite network analysis at a molecular level was performed to quantify the specialization of DOM-bacteria networks (Box 1). The specialization considers interaction abundance and is standardised to account for heterogeneity in the interaction strength and species richness, which describes the levels of “vulnerability” of DOM molecules and “generality” of bacterial taxa27. The threshold correlation for inclusion in bipartite networks was |ρ| = 0.30 to exclude weak interactions and we retained the adjacent matrix with only the interactions between DOM and bacteria. We then constructed two types of interaction networks (i.e., negative and positive networks) based on negative and positive correlation coefficients (SparCC ρ ≤ −0.30 and ρ ≥ 0.30, respectively). According to resource-consumer relationships, negative networks likely indicate the degradation of larger molecules into smaller structures, while positive networks may suggest the production of new molecules via degradation or biosynthetic processes. The SparCC ρ values were multiplied by 10,000 and rounded to integers, and the absolute values were taken for negative networks to enable the calculations of specialization indices. A separate negative and positive sub-network was obtained for each microcosm by selecting the DOM molecules and bacterial taxa in each sample based on its bacterial and DOM compositions. For the network level analysis, we calculated H2′, a measure of specialization27, for each network:$${H}_{2}=-mathop{sum }limits_{i{{mbox{=}}}1}^{i}mathop{sum }limits_{j{{mbox{=}}}1}^{j}{{mbox{(}}}{{{mbox{p}}}}_{{ij}}{{{{{{rm{ln}}}}}}}{{{mbox{p}}}}_{{ij}}{{mbox{)}}}$$
    (2)
    $${H}_{2}{prime} =frac{{H}_{2{max }}{-}{H}_{2}}{{H}_{2{max }}{-}{H}_{2{min }}}$$
    (3)
    where ({{{mbox{p}}}}_{{ij}}{{mbox{=}}}{{{mbox{a}}}}_{{ij}}{{mbox{/}}}m), represents the proportion of interactions in a i × j matrix. ({{{mbox{a}}}}_{{ij}}) is the number of interactions between DOM molecule i and bacterial genus j, which is also referred as “link weight”. m is the total number of interactions between all DOM molecules and bacterial genera. H2′ is the standardised H2 against the minimum (H2min) and maximum (H2max) possible for the same distribution of interaction totals. For the molecular level analysis, we calculated the specialization index Kullback–Leibler distance (d′) for DOM molecules (di′) and bacterial genera (dj′), which describes the levels of “vulnerability” of DOM molecules and “generality” of bacterial genera, respectively:$${d}_{i}=mathop{sum }limits_{j=1}^{j}left(frac{{{{mbox{a}}}}_{{ij}}}{{{{mbox{A}}}}_{i}}{{{mbox{ln}}}}frac{{{{mbox{a}}}}_{{ij}}m}{{{{mbox{A}}}}_{i}{{{mbox{A}}}}_{j}}right)$$
    (4)
    $${d}_{i}{prime} =frac{{d}_{i}-{d}_{{min }}}{{d}_{{max }}-{d}_{{min }}}$$
    (5)
    where ({A}_{i}) = (mathop{sum }limits_{j{{mbox{=}}}1}^{j}{{{mbox{a}}}}_{{ij}}) and ({A}_{j}) = (mathop{sum }limits_{i{{mbox{=}}}1}^{i}{{{mbox{a}}}}_{{ij}}), are the total number of interactions of DOM molecule i and bacterial genus j, respectively. di′ is the standardised di against the minimum (dmin) and maximum (dmax) possible for the same distribution of interaction totals. The equations of dj′ are analogous to di′, replacing j by i. Weighted means of d′ for DOM were calculated for each network as the sum of the product of d′ for each individual molecule i (di′) and relative intensity Ii divided by the sum of all intensities d′  = Ʃ(di′ × Ii)/Ʃ(Ii). Weighted means of d′ for bacteria were calculated as the sum of the d′ of each individual bacterial genus j (dj′) and relative abundance of bacterial genus Ij divided by the sum of all abundance. All calculations were performed using the R package FD V1.0.12. The observed H2′ and d′ values ranged from 0 (complete generalization) to 1 (complete specialization)28 (Fig. S21). Specifically, elevated H2′ or d′ values indicate a high degree of specialization, while lower values suggest increased generalization, that is, higher vulnerability of DOM and/or higher generality of microbes. To directly compare the network indices across the elevations or nutrient enrichment levels, we used a null modelling approach. We standardised the three observed specialization indices (Sobserved; that is, H2′, d′ of DOM, and d′ of bacteria) by calculating their z-scores63 using the equation:$${z}_{S}=({S}_{{{{{{rm{observed}}}}}}}-overline{{{S}}_{{{{{{rm{null}}}}}}}})/({sigma }_{S_{{{{{rm{null}}}}}}})$$
    (6)
    where (overline{{{S}}_{{{{{{rm{null}}}}}}}}) and ({sigma }_{S_{{{{{rm{null}}}}}}}) were, respectively, the mean and standard deviation of the null distribution of S (Snull). One hundred randomised null networks were generated for each bipartite network to derive Snull using the swap.web algorithm, which keeps species richness and the number of interactions per species constant along with network connectance. This null model analysis indicates that interactions between DOM and bacteria were non-random as the observed network specialization indices were generally significantly lower than expected by chance (P  0.05), which tests whether the model structure differs from the observed data, high comparative fit index (CFI  > 0.95) and low standardised root mean squared residual (SRMR  More

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    Exceptional soft-tissue preservation of Jurassic Vampyronassa rhodanica provides new insights on the evolution and palaeoecology of vampyroteuthids

    In their original description of V. rhodanica, Fischer & Riou16 determined that the previously undescribed genus was a Jurassic relative of V. infernalis. This assignment was based on the configuration of the arm crown and armature, fin type, presence of luminous organs, lateral eyes, and the absence of an ink sac. Assuming this assignment is correct, then V. rhodanica is a member of the suborder Vampyromorphina, which includes the family Vampyroteuthidae22,29.Reappraisal of the anatomy shows that V. rhodanica and V. infernalis both have 8 arms and uniserial suckers flanked by cirri. They both possess V. infernalis-like sucker attachments34,36, which are broader at the base and taper up to a radially symmetrical sucker.Both species have distinctly modified arms though the morphology differs in each. V. infernalis, has retractable filaments in the position of arm pair II27,33,34, though there is no evidence of these appendages in V. rhodanica. Instead, the species has elongate dorsal arms (arm pair I) with a unique configuration of suckers and cirri on the distal section.The suckers and cirri of V. rhodanica are more numerous than those of V. infernalis27,37. They are also more closely positioned. Proportionally, the suckers of both species have a consistent ratio to mantle length37, though the diameter of the cirri and infundibulum are greater in V. rhodanica. The V. infernalis-like attachment1,3,34 is present in both species, though in V. rhodanica, the distal part of the neck protrudes into the acetabular cavity. Of note, the sucker stalks on the dorsal arms of V. rhodanica are more elongate than those on the other arms (Figs. 2b,c, and 3a,b). This variation in suckers and their attachments suggests a specialized function between the dorsal and sessile appendages. On the longer dorsal arms, the larger sucker diameter, and more elongate stalks (Figs. 2b and 4) indicate the potential for increased mobility over their extant relatives, and possibly facilitated additional manipulation and prey capture capability.Figure 4Hypothesised reconstruction of V. rhodanica based on the data from this study (A. Lethiers, CR2P). The scale is based on measurements from the holotype (MNHN.B.74247) and the arm crown is completed using dimensions from MNHN.B.74244.Full size imageIn addition to the arm crown specialization, V. rhodanica has a more streamlined shape than V. infernalis, which is caused by a proportionally narrower head. Their muscular body is narrower and more elongate than the gelatinous V. infernalis16,27,37 suggesting a higher energy locomotory style. This is consistent with increased predation relative to the modern form. Observations in this study support many assertions of Fischer & Riou16 about the characters in V. rhodanica, though the presence of luminous organs cannot be confirmed. Rather than luminous organs much larger than those present in the deep-sea, extant V. infernalis, it is possible that these structures represent displaced cartilage prior to fossilization (Supplementary Fig. 6).Two other genera from the La Voulte-sur-Rhône locality, Gramadella and Proteroctopus are, like V. rhodanica, considered to be Incertae sedis Vampyromorpha22. All three share morphological similarities that include an elongated mantle fused with the head, and a longer dorsal arm pair with armature on the distal ends1,16,22,38. Neither the second nor fourth arm pair have been modified. Each has one pair of fins. In Gramadella, the fins are lateral and skirt-like16,38. In V. rhodanica and Proteroctopus these fins are located posteriorly1,16.V. rhodanica shows the greatest length variation between the dorsal and sessile arms (Fig. 4), though proportionally, Gramadella, and Proteroctopus have longer dorsal arms1,31. Fischer & Riou31 and Kruta et al.1 described biserial suckers in their descriptions of Gramadella, and Proteroctopus, respectively. In Proteroctopus, these suckers have a proportionally smaller diameter than the uniserial row in V. rhodanica, and do not exhibit the same tapered pattern.None of these specimens shows evidence of an ink sac, though it is present in contemporaneous genera from the same assemblage (Mastigophora, Rhomboteuthis and Romaniteuthis)8,16. That this character occurs only in some taxa from the same assemblage suggests variation in ecology, possibly associated with the steep, bathymetric relief in the La Voulte-sur-Rhône paleoenvironment11. The mosaic of characters found within the coleoid taxa at La Voulte-sur-Rhône suggests that Mesozoic vampyromorphs co-occurred in different ecological niches during the mid-Jurassic.Today, extant V. infernalis is uniquely adapted to a low-energy, deep-sea mode of life27,28,29,39, though the timing of character acquisition and progression of this ecology is unclear24. It is hypothesised that the vampyromorph Necroteuthis Kretzoi 1942 was already exploiting this niche by the Oligocene29, and that the initial shift to offshore environments was possibly driven by onshore competition24,29. The data obtained here suggests that V. rhodanica, the purportedly oldest-known genus of the Vampyromorphina group, was an active predator following a pelagic mode of life.Indeed, several anatomical details, mainly found in the brachial crown, seem to support this hypothesis. Though we cannot directly compare functionality of the arm crown elements with other Jurassic taxa, we can infer function based on observation in modern forms. In Octopoda, the sister group to Vampyromorpha, suckers are attached to the arm by a cylindrical layer of muscle, encircling oblique musculature40,41, that connects the arm musculature and the lateral margin of the acetabulum34,40,41,42. This facilitates a variety of functions including locomotion, manipulation, and prey retention43. The sucker attaches by flattening the infundibulum against the surface and then the encircling epithelium creates a watertight seal36,40,41,42,43,44,45. Contraction of the radial acetabular muscles provides the pressure differential required to create the suction force43,44,46.The stalked sucker attachments2,34 of decabrachians (Fig. 3d, and Supplementary Fig. 4) are muscular35 and connect the musculature of the arm with the base of the sucker, forming part of the acetabulum33,34. Tension on the sucker stretches this muscular attachment, which pulls locally on the acetabular base. This facilitates a greater pressure differential inside the sucker, allowing the teeth on the sucker ring to maintain the hold47.Extant V. infernalis lack decabrachian-like stalks2,18 and the neck of the attachment joins to the base of the acetabulum (Fig. 3c, and Supplementary Fig. 4), rather than being inserted into it18. The infundibulum is not distinct, and the suckers do not provide strong suction27. Instead, suckers function by secreting mucus to coat detritus—marine snow captured by retractable filaments—which is then moved to the mouth by cirri7,27.A mosaic of these characters is present in V. rhodanica (Fig. 3a,b), therefore, suggesting their potential for increased attachment and hold on prey over extant V. infernalis. These include a larger infundibular diameter, a neck attachment integrated with the acetabular muscles, and the elongated stalks of the dorsal suckers.Additionally, the paired, filamentous cirri observed in extant cirrates48 are present in V. rhodanica (Fig. 4, and Supplementary Fig. 2). In extant forms they are understood to have a sensory function and are used in the detection and capture of prey48. In V. infernalis, they serve to transport the food proximally along the arms to the mouth27. The greater diameters of cirri, and placement along the entire arm in V. rhodanica (Fig. 4), suggests an increased sensory function in these fossil forms.The shape of the arms also contributes to the suction potential49 in coleoids. Functional analysis in Octopoda highlights a positive correlation between distal tapering of the arms and their flexibility. A tapered, flexible arm facilitates more precise adhesion than a cylindrical-shaped one and requires a greater force for sucker detachment49. Suckers detach sequentially, rather than the more simultaneous release observed in models of arms with less taper variation. The tapered diameter of the suckers, like those seen on the sessile arms of V. rhodanica, potentially facilitated this kind of sequential detachment49 allowing them more adherence force and flexibility. Though V. rhodanica has just two suckers on the distal tips of their dorsal arms, the most distal is marginally smaller in diameter than the proximal one. On the dorsal arms, this tapering is observed in conjunction with a well-developed axial nerve cord (Fig. 2b). In extant forms, the nerve cord facilitates complex motor functions42. The combination of these characters in V. rhodanica suggests their arms had increased potential to be actively used in prey capture50 over extant V. infernalis.Though arm crown characters offer insight on the ecology of V. rhodanica, in fossil coleoid phylogenies only a few characters are based on the suckers1, 3. Two studies that have attempted to create a phylogeny using morphological characters that include both fossil and extant taxa return V. rhodanica and V. infernalis as sister taxa1,3. These matrices are, by necessity, heavily influenced by the gladius51 and more than 50% of the characters are based on this feature1,3. Indeed, the authors1 note that the lack of gladius data for some fossil forms, including V. rhodanica, creates an inherent bias in the phylogenetic matrix. Fischer & Riou16 suggested that V. rhodanica and V. infernalis are related on the basis of the observable morphological characters in the family Vampyroteuthidae, though without morphological information on the gladius, a recent systematic synthesis of fossil Octobrachia22 positioned V. rhodanica as Vampyromorpha Incertae sedis.X-ray CT analysis in this study did not allow a reconstruction of the gladius. Nevertheless, it does provide new data on soft tissues, and permits comparisons between extant and fossil taxa. Specifically, we can add distinct states to 4 of the 132 characters in the existing phylogenetic matrix from Sutton et al.3 that was modified and used in Kruta et al.1. These four characters (#89–#92) represent the suckers, and sucker attachments. Detailed examination revealed that the sessile and dorsal arms have the Vampyroteuthis-like attachment. In the dorsal arms, this is more elongated, though it cannot be considered pedunculate like those seen in modern decabrachians. Indeed, the attachment type (plug and base34) is the same, only the length varies. As previously discussed, this variation may have functional implications.When updated with these new data, the matrix from this study returns the same topology seen in Kruta et al.1 that supports the positioning of V. rhodanica and V. infernalis as sister taxa. Further, it strengthens their relationship as they both share a sucker attachment that is not clearly attached to the arm muscles, a state that was previously considered autapomorphic in V. infernalis. However, it is important to note that no additional characters were added for the gladius, which is the cornerstone of coleoid systematics52. Indeed, just 29 of the 132 matrix characters can so far be coded for V. rhodanica, with only 9 of these relating to the 74 states of the gladius.Assuming the phylogenetic work so far is correct, then both species belong to the family Vampyromorphina, and are joined by the Oligocene fossil Necroteuthis hungarica29. While the lack of gladius characters precludes a full phylogenetic understanding of this group, preservation and observation of the soft tissues allow us to infer information regarding palaeobiology.The data obtained in this study demonstrates that the characters observed in V. infernalis, including the sucker attachments and lack of ink sac, were present in Jurassic Vampyromorpha. Comparative anatomy of V. rhodanica and extant V. infernalis revealed that the fossil taxon displayed more morphological variation and were more diversified than previously understood. The assemblage of characters observed in V. rhodanica are consistent with a pelagic predatory lifestyle and corroborate the likelihood of a distinctly different ecological niche. These findings support the hypothesis that a shift towards a deep-sea environment occurred prior to the Oligocene5,29. More

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    Social microbiota and social gland gene expression of worker honey bees by age and climate

    Evans, J. D. & Spivak, M. Socialized medicine: individual and communal disease barriers in honey bees. J. Invertebr. Pathol. 103, S62–S72 (2010).PubMed 
    Article 

    Google Scholar 
    Hughes, D. P., Pierce, N. E. & Boomsma, J. J. Social insect symbionts: evolution in homeostatic fortresses. Trends Ecol. Evol. 23, 672–677 (2008).PubMed 
    Article 

    Google Scholar 
    Simone, M., Evans, J. D. & Spivak, M. Resin collection and social immunity in honey bees. Evolution 63, 3016–3022 (2009).CAS 
    PubMed 
    Article 

    Google Scholar 
    Dalenberg, H., Maes, P., Mott, B., Anderson, K. E. & Spivak, M. Propolis envelope promotes beneficial bacteria in the honey bee (Apis mellifera) mouthpart microbiome. Insects 11, 1–12 (2020).Article 

    Google Scholar 
    Poulsen, M., Bot, A. N. M., Nielsen, M. G. & Boomsma, J. J. Experimental evidence for the costs and hygienic significance of the antibiotic metapleural gland secretion in leaf-cutting ants. Behav. Ecol. Sociobiol. 52, 151–157 (2002).Article 

    Google Scholar 
    Rosengaus, R. B., Traniello, J. F. A., Lefebvre, M. L. & Maxmen, A. B. Fungistatic activity of the sternal gland secretion of the dampwood termite Zootermopsis angusticollis. Insect. Soc. 51, 259–264 (2004).Article 

    Google Scholar 
    Kwong, W. K. & Moran, N. A. Gut microbial communities of social bees. Nat. Rev. Microbiol. 14, 374–384 (2016).CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Maes, P. W., Floyd, A. S., Mott, B. M. & Anderson, K. E. Overwintering honey bee colonies: effect of worker age and climate on the hindgut microbiota. Insects 12, 1–16 (2021).Article 

    Google Scholar 
    Brown, B. P. & Wernegreen, J. J. Deep divergence and rapid evolutionary rates in gut-associated Acetobacteraceae of ants. BMC Microbiol. 16, 140 (2016).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Douglas, A. E. The microbial dimension in insect nutritional ecology. Funct. Ecol. 23, 38–47 (2009).Article 

    Google Scholar 
    Kešnerová, L. et al. Gut microbiota structure differs between honeybees in winter and summer. ISME J. 14, 801–814 (2020).PubMed 
    Article 

    Google Scholar 
    Raymann, K., Shaffer, Z. & Moran, N. A. Antibiotic exposure perturbs the gut microbiota and elevates mortality in honeybees. PLoS Biol. 15, 1–22 (2017).Article 
    CAS 

    Google Scholar 
    Anderson, K. E. & Ricigliano, V. A. Honey bee gut dysbiosis: a novel context of disease ecology. Curr. Opin. Insect Sci. 22, 125–132 (2017).PubMed 
    Article 

    Google Scholar 
    Maes, P. W., Rodrigues, P. A. P., Oliver, R., Mott, B. M. & Anderson, K. E. Diet-related gut bacterial dysbiosis correlates with impaired development, increased mortality and Nosema disease in the honeybee (Apis mellifera). Mol. Ecol. 25, 5439–5450 (2016).CAS 
    PubMed 
    Article 

    Google Scholar 
    Miller, D. L., Smith, E. A. & Newton, I. L. G. A bacterial symbiont protects honey bees from fungal disease. bioRxiv https://doi.org/10.1101/2020.01.21.914325 (2020).Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Motta, E. V. S., Raymann, K. & Moran, N. A. Glyphosate perturbs the gut microbiota of honey bees. Proc. Natl. Acad. Sci. USA 115, 10305–10310 (2018).CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Grice, E. A. & Segre, J. A. The skin microbiome. Nat. Rev. Microbiol. 9, 244–253 (2011).CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Corby-Harris, V. et al. Origin and effect of Alpha 2.2 Acetobacteraceae in honey bee larvae and description of Parasaccharibacter apium gen. nov., sp. nov.. Appl. Environ. Microbiol. 80, 7460–7472 (2014).ADS 
    PubMed 
    PubMed Central 
    Article 
    CAS 

    Google Scholar 
    Floyd, A. S. et al. Microbial ecology of european foul brood disease in the honey bee (Apis mellifera): towards a microbiome understanding of disease susceptibility. Insects 11, 1–16 (2020).MathSciNet 
    Article 

    Google Scholar 
    Babendreier, D., Joller, D., Romeis, J., Bigler, F. & Widmer, F. Bacterial community structures in honeybee intestines and their response to two insecticidal proteins. FEMS Microbiol. Ecol. 59, 600–610 (2007).CAS 
    PubMed 
    Article 

    Google Scholar 
    Sabree, Z. L., Hansen, A. K. & Moran, N. A. Independent studies using deep sequencing resolve the same set of core bacterial species dominating gut communities of honey bees. PLoS ONE 7, e41250 (2012).ADS 
    CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Anderson, K. E. et al. Microbial ecology of the hive and pollination landscape: bacterial associates from floral nectar, the alimentary tract and stored food of honey bees (Apis mellifera). PLoS ONE 8, e83125 (2013).ADS 
    PubMed 
    PubMed Central 
    Article 
    CAS 

    Google Scholar 
    Rokop, Z. P., Horton, M. A. & Newton, I. L. G. Interactions between cooccurring lactic acid bacteria in honey bee hives. Appl. Environ. Microbiol. 81, 7261–7270 (2015).ADS 
    CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Cox-foster, D. L. et al. A metagenomic survey of microbes in honey bee colony collapse disorder. Science 318, 283–287 (2007).ADS 
    CAS 
    PubMed 
    Article 

    Google Scholar 
    Anderson, K. E., Rodrigues, P. A. P., Mott, B. M., Maes, P. & Corby-Harris, V. Ecological succession in the honey bee gut: shift in lactobacillus strain dominance during early adult development. Microb. Ecol. 71, 1008–1019 (2016).CAS 
    PubMed 
    Article 

    Google Scholar 
    Powell, J. E., Martinson, V. G., Urban-Mead, K. & Moran, N. A. Routes of acquisition of the gut microbiota of the honey bee Apis mellifera. Appl. Environ. Microbiol. 80, 7378–7387 (2014).ADS 
    PubMed 
    PubMed Central 
    Article 
    CAS 

    Google Scholar 
    Zheng, H., Powell, J. E., Steele, M. I., Dietrich, C. & Moran, N. A. Honeybee gut microbiota promotes host weight gain via bacterial metabolism and hormonal signaling. Proc. Natl. Acad. Sci. USA 114, 4775–4780 (2017).CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Anderson, K. E. et al. Hive-stored pollen of honey bees: many lines of evidence are consistent with pollen preservation, not nutrient conversion. Mol. Ecol. https://doi.org/10.1111/mec.12966 (2014).Article 
    PubMed 
    PubMed Central 

    Google Scholar 
    Ludvigsen, J. et al. Shifts in the midgut/pyloric microbiota composition within a honey bee apiary throughout a season. Microb. Environ. 30, 235–244 (2015).Article 

    Google Scholar 
    Corby-Harris, V., Maes, P. & Anderson, K. E. The bacterial communities associated with honey bee (Apis mellifera) foragers. PLoS ONE 9, e95056 (2014).ADS 
    PubMed 
    PubMed Central 
    Article 
    CAS 

    Google Scholar 
    Münch, D., Kreibich, C. D. & Amdam, G. V. Aging and its modulation in a long-lived worker caste of the honey bee. J. Exp. Biol. 216, 1638–1649 (2013).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Amdam, G. V. Social context, stress, and plasticity of aging. Aging Cell 10, 18–27 (2011).CAS 
    PubMed 
    Article 

    Google Scholar 
    Haddad, L. S., Kelbert, L. & Hulbert, A. J. Extended longevity of queen honey bees compared to workers is associated with peroxidation-resistant membranes. Exp. Gerontol. 42, 601–609 (2007).CAS 
    PubMed 
    Article 

    Google Scholar 
    Robinson, G. E. Hormonal and genetic control of honeybee division of labour. Behav. Physiol. Bees 14–27 (1991).Anderson, K. E. et al. The queen gut refines with age: longevity phenotypes in a social insect model. bioRxiv https://doi.org/10.1101/297507 (2018).Article 

    Google Scholar 
    Amdam, G. V., Norberg, K., Hagen, A. & Omholt, S. W. Social exploitation of vitellogenin. Proc. Natl. Acad. Sci. 100, 1799–1802 (2003).ADS 
    CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Jones, B., Shipley, E. & Arnold, K. E. Social immunity in honeybees—density dependence, diet, and body mass trade-offs. Ecol. Evol. 8, 4852–4859 (2018).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Alaux, C., Ducloz, F., Crauser, D. & Le Conte, Y. Diet effects on honeybee immunocompetence. Biol. Lett. 6, 562–565 (2010).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Ohashi, K., Natori, S. & Kubo, T. Expression of amylase and glucose oxidase in the hypopharyngeal gland with an age-dependent role change of the worker honeybee (Apis mellifera L.). Eur. J. Biochem. 265, 127–133 (1999).CAS 
    PubMed 
    Article 

    Google Scholar 
    Vannette, R. L., Mohamed, A. & Johnson, B. R. Forager bees (Apis mellifera) highly express immune and detoxification genes in tissues associated with nectar processing. Sci. Rep. 5, (2015).Ohashi, K., Natori, S. & Kubo, T. Change in the mode of gene expression of the hypopharyngeal gland cells with an age-dependent role change of the worker honeybee Apis mellifera L.. Eur. J. Biochem. 249, 797–802 (1997).CAS 
    PubMed 
    Article 

    Google Scholar 
    Huang, Z. Y. & Robinson, G. E. Regulation of honey bee division of labor by colony age demography. Behav. Ecol. Sociobiol. 39, 147–158 (1996).Article 

    Google Scholar 
    Vojvodic, S. et al. The transcriptomic and evolutionary signature of social interactions regulating honey bee caste development. Ecol. Evol. 5, 4795–4807 (2015).PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Ohashi, K. et al. Functional flexibility of the honey bee hypopharyngeal gland in a dequeened colony. Zool. Sci. 17, 1089–1094 (2000).CAS 
    Article 

    Google Scholar 
    Harwood, G., Salmela, H., Freitak, D. & Amdam, G. Social immunity in honey bees: royal jelly as a vehicle in transferring bacterial pathogen fragments between nestmates. J. Exp. Biol. 224 (2021).Santos, K. S. et al. Profiling the proteome complement of the secretion from hypopharyngeal gland of Africanized nurse-honeybees (Apis mellifera L.). Insect. Biochem. Mol. Biol. 35, 85–91 (2005).CAS 
    PubMed 
    Article 

    Google Scholar 
    Cremer, S., Armitage, S. A. O. & Schmid-Hempel, P. Social immunity. Curr. Biol. 17, 693–702 (2007).Article 
    CAS 

    Google Scholar 
    Mattila, H. R. & Otis, G. W. Dwindling pollen resources trigger the transition to broodless populations of long-lived honeybees each autumn. Ecol. Entomol. 32, 496–505 (2007).Article 

    Google Scholar 
    Crailsheim, K., Riessberger, U., Blaschon, B., Nowogrodzki, R. & Hrassnigg, N. Short-term effects of simulated bad weather conditions upon the behaviour of food-storer honeybees during day and night (Apis mellifera carnica Pollmann). Apidologie 30, 299–310 (1999).Article 

    Google Scholar 
    Ricigliano, V. A. et al. Honey bees overwintering in a southern climate: Longitudinal effects of nutrition and queen age on colony-level molecular physiology and performance. Sci. Rep. 8, 1–11 (2018).CAS 
    Article 

    Google Scholar 
    Ricigliano, V. A. et al. Honey bee colony performance and health are enhanced by apiary proximity to US Conservation Reserve Program (CRP) lands. Sci. Rep. 9, 1–11 (2019).CAS 
    Article 

    Google Scholar 
    Fukuda, H. S. K. Seasonal change of the honey bee worker longevity in Sapporo, North Japan with notes on some factors affecting life span. Ecol. Soc. Jpn. 16, 206–212 (1966).
    Google Scholar 
    Mattila, H. R., Harris, J. L. & Otis, G. W. Timing of production of winter bees in honey bee (Apis mellifera) colonies. Insect. Soc. 48, 88–93 (2001).Article 

    Google Scholar 
    Feliciano-Cardona, S. et al. Honey bees in the tropics show winter bee-like longevity in response to seasonal dearth and brood reduction. Front. Ecol. Evol. 8, 1–8 (2020).Article 

    Google Scholar 
    Döke, M. A., Frazier, M. & Grozinger, C. M. Overwintering honey bees: biology and management. Curr. Opin. Insect. Sci. 10, 185–193 (2015).PubMed 
    Article 

    Google Scholar 
    Liu, C. M. et al. BactQuant: an enhanced broad-coverage bacterial quantitative real-time PCR assay. BMC Microbiol. 12, 56 (2012).CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Liu, C. M. et al. FungiQuant: a broad-coverage fungal quantitative real-time PCR assay. BMC Microbiol. 12, 1 (2012).CAS 
    Article 

    Google Scholar 
    Schloss, P. D. et al. Introducing mothur: open-source, platform-independent, community-supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75, 7537–7541 (2009).ADS 
    CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Evans, J. D. Beepath: an ordered quantitative-PCR array for exploring honey bee immunity and disease. J. Invertebr. Pathol. 93, 135–139 (2006).CAS 
    PubMed 
    Article 

    Google Scholar 
    Bourgeois, A. L., Rinderer, T. E., Beaman, L. D. & Danka, R. G. Genetic detection and quantification of Nosema apis and N. ceranae in the honey bee. J. Invertebr. Pathol. 103, 53–58 (2010).CAS 
    PubMed 
    Article 

    Google Scholar 
    Pearson, K. Mathematical contributions to the theory of evolution. On a form of spurious correlation which may arise when indices are used in the measurement of organs. Proc. R. Soc. Lond. 60, 489–498 (1986).Gloor, G. B. & Reid, G. Compositional analysis: a valid approach to analyze microbiome high throughput sequencing data. Can. J. Microbiol. 703, 0821 (2016).
    Google Scholar 
    Comas, M. CoDaPack 2.0: a stand-alone, multi-platform compositional software. Options 1–10 (2011).Větrovský, T. & Baldrian, P. The variability of the 16S rRNA gene in bacterial genomes and its consequences for bacterial community analyses. PLoS ONE 8, 1–10 (2013).Article 
    CAS 

    Google Scholar 
    Yek, S. H., Nash, D. R., Jensen, A. B. & Boomsma, J. J. Regulation and specificity of antifungal metapleural gland secretion in leaf-cutting ants. Proc. Biol. Sci. 279, 4215–4222 (2012).PubMed 
    PubMed Central 

    Google Scholar 
    Evans, J. D. et al. Immune pathways and defence mechanisms in honey bees Apis mellifera. Insect. Mol. Biol. 15, 645–656 (2006).CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Steinmann, N., Corona, M., Neumann, P. & Dainat, B. Overwintering is associated with reduced expression of immune genes and higher susceptibility to virus infection in honey bees. PLoS ONE 10, 1–18 (2015).Article 
    CAS 

    Google Scholar 
    Seehuus, S.-C.C., Norberg, K., Gimsa, U., Krekling, T. & Amdam, G. V. Reproductive protein protects functionally sterile honey bee workers from oxidative stress. Proc. Natl. Acad. Sci. USA 103, 962–967 (2006).ADS 
    CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Liu, J. R., Yang, Y. C., Shi, L. S. & Peng, C. C. Antioxidant properties of royal jelly associated with larval age and time of harvest. J. Agric. Food Chem. 56, 11447–11452 (2008).CAS 
    PubMed 
    Article 

    Google Scholar 
    Li-E, M., Jia, L., Yan, J., Xiao-Wen, L. & Xin, L. Isolation, purification and characterization of superoxide dismutase from royal jelly of the Italian worker bee, Apis mellifera. Acta Entomol. Sin. 47, 171–177 (2004).
    Google Scholar 
    Bottacini, F. et al. Bifidobacterium asteroides PRL2011 genome analysis reveals clues for colonization of the insect gut. 7, 1–14 (2012).Killer, J., Dubná, S., Sedláček, I. & Švec, P. Lactobacillus apis sp. nov., from the stomach of honeybees (Apis mellifera), having an in vitro inhibitory effect on the causative agents of American and European foulbrood. Int. J. Syst. Evol. Microbiol. 64, 152–157 (2014).Casteels, P. et al. Isolation and characterization of abaecin, a major antibacterial response peptide in the honeybee (Apis mellifera). Eur. J. Biochem. 187, 381–386 (1990).CAS 
    PubMed 
    Article 

    Google Scholar 
    Casteels, P., Ampe, C., Jacobs, F. & Tempst, P. Functional and chemical characterization of hymenoptaecin, an antibacterial polypeptide that is infection-inducible in the honeybee (Apis mellifera). J. Biol. Chem. 268, 7044–7054 (1993).CAS 
    PubMed 
    Article 

    Google Scholar 
    Barke, J. et al. A mixed community of actinomycetes produce multiple antibiotics for the fungus farming ant Acromyrmex octospinosus. BMC Biol. 8, 109 (2010).PubMed 
    PubMed Central 
    Article 
    CAS 

    Google Scholar 
    Lyapunov, Y. E., Kuzyaev, R. Z., Khismatullin, R. G. & Bezgodova, O. A. Intestinal enterobacteria of the hibernating Apis mellifera mellifera L. bees. Microbiology 77, 373–379 (2008).Paiva, C. N. & Bozza, M. T. Are reactive oxygen species always detrimental to pathogens?. Antioxid. Redox Signal. 20, 1000–1034 (2014).CAS 
    PubMed 
    PubMed Central 
    Article 

    Google Scholar 
    Burritt, N. L. et al. Sepsis and hemocyte loss in honey bees (Apis mellifera) Infected with Serratia marcescens strain sicaria. PLoS ONE 11, 1–26 (2016).Article 
    CAS 

    Google Scholar 
    Bae, Y. S., Choi, M. K. & Lee, W. J. Dual oxidase in mucosal immunity and host-microbe homeostasis. Trends Immunol. 31, 278–287 (2010).CAS 
    PubMed 
    Article 

    Google Scholar 
    Ha, E. M., Oh, C. T., Bae, Y. S. & Lee, W. J. A direct role for dual oxidase in Drosophila gut immunity. Science 80(310), 847–850 (2005).ADS 
    Article 
    CAS 

    Google Scholar 
    Crailsheim, K., Hrassnigg, N., Gmeinbauer, R., Szolderits, M. J. & Schneider, L. H. W. Pollen utilization in non-breeding honeybees in Winter. J. Insect. Phys. 39, 369–373 (1993).Article 

    Google Scholar 
    Corona, M. & Robinson, G. E. Genes of the antioxidant system of the honey bee: annotation and phylogeny. 15, 687–701 (2006).Schwarz, R. S., Huang, Q. & Evans, J. D. Hologenome theory and the honey bee pathosphere. Curr. Opin. Insect. Sci. 10, 1–7 (2015).PubMed 
    Article 

    Google Scholar 
    Corona, M., Hughes, K. A., Weaver, D. B. & Robinson, G. E. Gene expression patterns associated with queen honey bee longevity. Mech. Age. Dev. 126, 1230–1238 (2005).CAS 
    Article 

    Google Scholar 
    Santos, D. E., Souza, A. D. O., Tibério, G. J., Alberici, L. C. & Hartfelder, K. Differential expression of antioxidant system genes in honey bee (Apis mellifera L.) caste development mitigates ROS-mediated oxidative damage in queen larvae. 20200173, (2020). More