More stories

  • in

    Tracing the path of carbon export in the ocean though DNA sequencing of individual sinking particles

    Field CB, Behrenfeld MJ, Randerson JT, Falkowski P. Primary production of the biosphere: integrating terrestrial and oceanic components. Science. 1998;281:237.CAS 
    Article 

    Google Scholar 
    Volk T, Hoffert M. Ocean carbon pumps: analysis of relative strengths and efficiencies in ocean-driven atmospheric CO2 changes. Geophys Monogr Ser. 1985;32:99–110.
    Google Scholar 
    Boyd PW, Claustre H, Levy M, Siegel DA, Weber T. Multi-faceted particle pumps drive carbon sequestration in the ocean. Nature. 2019;568:327–35.CAS 
    Article 

    Google Scholar 
    Siegel DA, Buesseler KO, Doney SC, Sailley SF, Behrenfeld MJ, Boyd PW. Global assessment of ocean carbon export by combining satellite observations and food-web models. Glob Biogeochem Cycles. 2014;28:181–196.Henson SA, Sanders R, Madsen E, Morris PJ, Le Moigne F, Quartly GD. A reduced estimate of the strength of the ocean’s biological carbon pump. Geophys Res Lett. 2011;38:L04606.Article 

    Google Scholar 
    Boyd PW, Trull TW. Understanding the export of biogenic particles in oceanic waters: is there consensus? Prog Oceanogr. 2007;72:276–312.Article 

    Google Scholar 
    Werdell PJ, Behrenfeld MJ, Bontempi PS, Boss E, Cairns B, Davis GT, et al. The plankton, aerosol, cloud, ocean ecosystem mission: status, science, advances. Bull Am Meteorol Soc. 2019;100:1775–94.Article 

    Google Scholar 
    Picheral M, Guidi L, Stemmann L, Karl DM, Iddaoud G, Gorsky G. The Underwater Vision Profiler 5: An advanced instrument for high spatial resolution studies of particle size spectra and zooplankton. Limnol Oceanogr-Methods. 2010;8:462–73.Article 

    Google Scholar 
    Olson RJ, Sosik HM. A submersible imaging-in-flow instrument to analyze nano-and microplankton: imaging FlowCytobot. Limnol Oceanogr Methods. 2007;5:195–203.Article 

    Google Scholar 
    de Vargas C, Audic S, Henry N, Decelle J, Mahé F, Logares R, et al. Eukaryotic plankton diversity in the sunlit ocean. Science. 2015;348:1261605.Scholin C, Birch J, Jensen S, Marin R III, Massion E, Pargett D, et al. The quest to develop ecogenomic sensors: a 25-year history of the Environmental Sample Processor (ESP) as a case study. Oceanography. 2017;30:100–13.Article 

    Google Scholar 
    Cruz BN, Brozak S, Neuer S. Microscopy and DNA-based characterization of sinking particles at the Bermuda Atlantic Time-series Study station point to zooplankton mediation of particle flux. Limnol Oceanogr. 2021;66:3697–713.CAS 
    Article 

    Google Scholar 
    Amacher J, Neuer S, Lomas M. DNA-based molecular fingerprinting of eukaryotic protists and cyanobacteria contributing to sinking particle flux at the Bermuda Atlantic time-series study. Deep Sea Res Part II Top Stud Oceanogr. 2013;93:71–83.CAS 
    Article 

    Google Scholar 
    Fontanez KM, Eppley JM, Samo TJ, Karl DM, DeLong EF. Microbial community structure and function on sinking particles in the North Pacific Subtropical Gyre. Front Microbiol. 2015;6:469.Article 

    Google Scholar 
    Preston CM, Durkin CA, Yamahara KM DNA metabarcoding reveals organisms contributing to particulate matter flux to abyssal depths in the North East Pacific ocean. Deep Sea Res Part II Top Stud Oceanogr. 2019;173:104708.Gutierrez-Rodriguez A, Stukel MR, Lopes dos Santos A, Biard T, Scharek R, Vaulot D, et al. High contribution of Rhizaria (Radiolaria) to vertical export in the California Current Ecosystem revealed by DNA metabarcoding. ISME J. 2019;13:964–76.CAS 
    Article 

    Google Scholar 
    Boeuf D, Edwards BR, Eppley JM, Hu SK, Poff KE, Romano AE, et al. Biological composition and microbial dynamics of sinking particulate organic matter at abyssal depths in the oligotrophic open ocean. Proc Natl Acad Sci. 2019;116:11824.CAS 
    Article 

    Google Scholar 
    Silver MW, Gowing MM. The “particle” flux: Origins and biological components. Prog Oceanogr. 1991;26:75–113.Article 

    Google Scholar 
    Ebersbach F, Assmy P, Martin P, Schulz I, Wolzenburg S, Nöthig E-M. Particle flux characterisation and sedimentation patterns of protistan plankton during the iron fertilisation experiment LOHAFEX in the Southern Ocean. Deep Sea Res Part Oceanogr Res Pap. 2014;89:94–103.CAS 
    Article 

    Google Scholar 
    Waite A, Bienfang PK, Harrison PJ. Spring bloom sedimentation in a subarctic ecosystem. II. Succession and sedimentation. Mar Biol. 1992;114:131–8.Article 

    Google Scholar 
    Venrick E, Lange C, Reid F, Dever EP. Temporal patterns of species composition of siliceous phytoplankton flux in the Santa Barbara Basin. J Plankton Res. 2007;30:283–97.Article 

    Google Scholar 
    Waite AM, Safi KA, Hall JA, Nodder SD. Mass sedimentation of picoplankton embedded in organic aggregates. Limnol Oceanogr. 2000;45:87–97.Article 

    Google Scholar 
    Valencia B, Stukel MR, Allen AE, McCrow JP, Rabines A, Palenik B, et al. Relating sinking and suspended microbial communities in the California Current Ecosystem: digestion resistance and the contributions of phytoplankton taxa to export. Environ Microbiol. 2021;23:6743–8.Article 

    Google Scholar 
    Scharek R, Tupas LM, Karl DM. Diatom fluxes to the deep sea in the oligotrophic North Pacific gyre at Station ALOHA. Mar Ecol Prog Ser. 1999;182:55–67.Article 

    Google Scholar 
    Beaulieu S. Accumulation and fate of phytodetritus on the sea floor. Oceanogr Mar Biol Annu Rev. 2002;40:171–232.
    Google Scholar 
    Ikenoue T, Kimoto K, Okazaki Y, Sato M, Honda MC, Takahashi K, et al. Phaeodaria: an important carrier of particulate organic carbon in the mesopelagic twilight zone of the North Pacific Ocean. Glob Biogeochem Cycles. 2019;33:1146–60.CAS 
    Article 

    Google Scholar 
    Smith KL, Ruhl HA, Huffard CL, Messié M, Kahru M. Episodic organic carbon fluxes from surface ocean to abyssal depths during long-term monitoring in NE Pacific. Proc Natl Acad Sci. 2018;115:12235.CAS 
    Article 

    Google Scholar 
    Durkin CA, Buesseler KO, Cetinić I, Estapa ML, Kelly RP, Omand M. A visual tour of carbon export by sinking particles. Glob Biogeochem Cycles. 2021;35:e2021GB006985.CAS 
    Article 

    Google Scholar 
    Estapa ML, Valdes J, Tradd K, Sugar J, Omand M, Buesseler K. The neutrally buoyant sediment trap: two decades of progress. J Atmospheric Ocean Technol. 2020;37:957–973.Rainville L, Pinkel R. Wirewalker: An autonomous wave-powered vertical profiler. J Atmos Ocean Technol. 2001;18:1048–51.Article 

    Google Scholar 
    Durkin CA, Estapa ML, Buesseler KO. Observations of carbon export by small sinking particles in the upper mesopelagic. Mar Chem. 2015;175:72–81.CAS 
    Article 

    Google Scholar 
    Malmstrom R RNAlater Recipe. protocols.io. https://doi.org/10.17504/protocols.io.c56y9d. Accessed 2 Oct 2018.Mackey MD, Mackey DJ, Higgins HW, Wright SW. CHEMTAX—a program for estimating class abundances from chemical markers: application to HPLC measurements of phytoplankton. Mar Ecol Prog Ser. 1996;144:265–83.CAS 
    Article 

    Google Scholar 
    Massana R, Murray AE, Preston CM, DeLong EF. Vertical distribution and phylogenetic characterization of marine planktonic Archaea in the Santa Barbara Channel. Appl Environ Microbiol. 1997;63:50.CAS 
    Article 

    Google Scholar 
    Stoeck T, Bass D, Nebel M, Christen R, Jones M, Breiner H-W, et al. Multiple marker parallel tag environmental DNA sequencing reveals a highly complex eukaryotic community in marine anoxic water. Mol Ecol. 2010;19:21–31.CAS 
    Article 

    Google Scholar 
    Penna A, Casabianca S, Guerra A, Vernesi C, Scardi M. Analysis of phytoplankton assemblage structure in the Mediterranean Sea based on high-throughput sequencing of partial 18S rRNA sequences. Mar Genomics. 2017;36:49–55.Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, et al. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nat Biotechnol. 2019;37:852–7.CAS 
    Article 

    Google Scholar 
    Callahan BJ, McMurdie PJ, Rosen MJ, Han AW, Johnson AJA, Holmes SP. DADA2: high-resolution sample inference from Illumina amplicon data. Nat Methods. 2016;13:581–3.CAS 
    Article 

    Google Scholar 
    Guillou L, Bachar D, Audic S, Bass D, Berney C, Bittner L, et al. The Protist Ribosomal Reference database (PR2): a catalog of unicellular eukaryote Small Sub-Unit rRNA sequences with curated taxonomy. Nucleic Acids Res. 2012;41:D597–D604.Article 

    Google Scholar 
    Bokulich NA, Kaehler BD, Rideout JR, Dillon M, Bolyen E, Knight R, et al. Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin. Microbiome. 2018;6:90.Article 

    Google Scholar 
    Tomas CR. Identifying marine phytoplankton. Elsevier; 1997.Hasle GR, Syvertsen EE. Marine diatoms. In: Tomas CR (ed). Identifying marine phytoplankton. San Diego, CA, USA: Academic Press; 1997. pp 5–385.Godhe A, Asplund ME, Härnström K, Saravanan V, Tyagi A, Karunasagar I. Quantification of diatom and dinoflagellate biomasses in coastal marine seawater samples by real-time PCR. Appl Environ Microbiol. 2008;74:7174–82.CAS 
    Article 

    Google Scholar 
    Smayda TJ. The suspension and sinking of phytoplankton in the sea. Oceanogr Mar Biol Annu Rev. 1970;8:353–414.
    Google Scholar 
    Sancetta C, Villareal T, Falkowski P. Massive fluxes of rhizosolenid diatoms: a common occurrence? Limnol Oceanogr. 1991;36:1452–7.Article 

    Google Scholar 
    Goldman JC. Potential role of large oceanic diatoms in new primary production. Deep Sea Res Part Oceanogr Res Pap. 1993;40:159–68.Article 

    Google Scholar 
    Kemp AE, Pike J, Pearce RB, Lange CB. The “Fall dump”—a new perspective on the role of a “shade flora” in the annual cycle of diatom production and export flux. Deep Sea Res Part II Top Stud Oceanogr. 2000;47:2129–54.Article 

    Google Scholar 
    Villareal TA, Woods S, Moore JK, CulverRymsza K. Vertical migration of Rhizosolenia mats and their significance to NO3− fluxes in the central North Pacific gyre. J Plankton Res. 1996;18:1103–21.Article 

    Google Scholar 
    Smayda TJ. Normal and accelerated sinking of phytoplankton in the sea. Mar Geol. 1971;11:105–22.Article 

    Google Scholar 
    Shiozaki T, Itoh F, Hirose Y, Onodera J, Kuwata A, Harada NA. DNA metabarcoding approach for recovering plankton communities from archived samples fixed in formalin. PLOS ONE. 2021;16:e0245936.CAS 
    Article 

    Google Scholar 
    Omand MM, Govindarajan R, He J, Mahadevan A. Sinking flux of particulate organic matter in the oceans: sensitivity to particle characteristics. Sci Rep. 2020;10:5582.CAS 
    Article 

    Google Scholar 
    DeVries T, Liang J-H, Deutsch C. A mechanistic particle flux model applied to the oceanic phosphorus cycle. Biogeosciences. 2014;11:5381–98.Article 

    Google Scholar 
    Siegel DA, Buesseler KO, Behrenfeld MJ, Benitez-Nelson CR, Boss E, Brzezinski MA, et al. Prediction of the export and fate of global ocean net primary production: the EXPORTS science plan. Front Mar Sci. 2016;3:22.Article 

    Google Scholar 
    NASA Ocean Biology Processing Group. MODIS-Aqua Level 3 mapped chlorophyll data version R2018.0. 2017. NASA Ocean Biology DAAC. https://doi.org/10.5067/AQUA/MODIS/L3M/CHL/2018. More

  • in

    Farm-scale differentiation of active microbial colonizers

    Blagodatskaya E, Kuzyakov Y. Active microorganisms in soil: critical review of estimation criteria and approaches. Soil Biol Biochem. 2013;67:192–211.CAS 
    Article 

    Google Scholar 
    Jones SE, Lennon JT. Dormancy contributes to the maintenance of microbial diversity. Proc Natl Acad Sci USA. 2010;107:5881.CAS 
    Article 

    Google Scholar 
    Lennon JT, Jones SE. Microbial seed banks: the ecological and evolutionary implications of dormancy. Nat Rev Microbiol. 2011;9:119–30.CAS 
    Article 

    Google Scholar 
    Couradeau E, Sasse J, Goudeau D, Nath N, Hazen TC, Bowen BP, et al. Probing the active fraction of soil microbiomes using BONCAT-FACS. Nat Commun. 2019;10:2770.Article 

    Google Scholar 
    Carini P, Marsden PJ, Leff JW, Morgan EE, Strickland MS, Fierer N. Relic DNA is abundant in soil and obscures estimates of soil microbial diversity. Nat Microbiol. 2016;2:16242.Article 

    Google Scholar 
    Sorensen JW, Shade A. Dormancy dynamics and dispersal contribute to soil microbiome resilience. Philos Trans R Soc B Biolog Sci. 2020;375:20190255.CAS 
    Article 

    Google Scholar 
    Raina J-B, Fernandez V, Lambert B, Stocker R, Seymour JR. The role of microbial motility and chemotaxis in symbiosis. Nat Rev Microbiol. 2019;17:284–94.CAS 
    Article 

    Google Scholar 
    Bahram M, Hildebrand F, Forslund SK, Anderson JL, Soudzilovskaia NA, Bodegom PM, et al. Structure and function of the global topsoil microbiome. Nature. 2018;560:233–7.CAS 
    Article 

    Google Scholar 
    Lauber Christian L, Hamady M, Knight R, Fierer N. Pyrosequencing-based assessment of soil pH as a predictor of soil bacterial community structure at the continental scale. Appl Environ Microbiol. 2009;75:5111–20.CAS 
    Article 

    Google Scholar 
    Lennon JT, Aanderud ZT, Lehmkuhl BK, Schoolmaster DR Jr. Mapping the niche space of soil microorganisms using taxonomy and traits. Ecology. 2012;93:1867–79.Article 

    Google Scholar 
    Albright MBN, Martiny JBH. Dispersal alters bacterial diversity and composition in a natural community. ISME J. 2018;12:296–9.Article 

    Google Scholar 
    Barberan A, Ladau J, Leff JW, Pollard KS, Menninger HL, Dunn RR, et al. Continental-scale distributions of dust-associated bacteria and fungi. Proc Natl Acad Sci USA. 2015;112:5756–61.CAS 
    Article 

    Google Scholar 
    Meyer KM, Memiaghe H, Korte L, Kenfack D, Alonso A, Bohannan BJM. Why do microbes exhibit weak biogeographic patterns? ISME J. 2018;12:1404–13.Article 

    Google Scholar 
    Eisenlord SD, Zak DR, Upchurch RA. Dispersal limitation and the assembly of soil Actinobacteria communities in a long-term chronosequence. Ecol Evol. 2012;2:538–49.Article 

    Google Scholar 
    Glassman SI, Lubetkin KC, Chung JA, Bruns TD. The theory of island biogeography applies to ectomycorrhizal fungi in subalpine tree “islands” at a fine scale. Ecosphere. 2017;8:e01677.Article 

    Google Scholar 
    Whitaker Rachel J, Grogan Dennis W, Taylor John W. Geographic barriers isolate endemic populations of hyperthermophilic archaea. Science. 2003;301:976–8.CAS 
    Article 

    Google Scholar 
    Amor DR, Ratzke C, Gore J. Transient invaders can induce shifts between alternative stable states of microbial communities. Sci Adv. 2020;6:eaay8676.CAS 
    Article 

    Google Scholar 
    Zhang C, Derrien M, Levenez F, Brazeilles R, Ballal SA, Kim J, et al. Ecological robustness of the gut microbiota in response to ingestion of transient food-borne microbes. ISME J. 2016;10:2235–45.Article 

    Google Scholar 
    Fox JE, Gulledge J, Engelhaupt E, Burow ME, McLachlan JA. Pesticides reduce symbiotic efficiency of nitrogen-fixing rhizobia and host plants. Proc Natl Acad Sci USA. 2007;104:10282.CAS 
    Article 

    Google Scholar 
    Ramirez KS, Craine JM, Fierer N. Consistent effects of nitrogen amendments on soil microbial communities and processes across biomes. Glob Change Biol. 2012;18:1918–27.Article 

    Google Scholar 
    Leff JW, Jones SE, Prober SM, Barberán A, Borer ET, Firn JL, et al. Consistent responses of soil microbial communities to elevated nutrient inputs in grasslands across the globe. Proc Natl Acad Sci USA. 2015;112:10967.CAS 
    Article 

    Google Scholar 
    Chambers CA, Smith SE, Smith FA. Effects of ammonium and nitrate ions on mycorrhizal infection, nodulation and growth of Trifolium subterraneum. New Phytol. 1980;85:47–62.CAS 
    Article 

    Google Scholar 
    van Diepen LTA, Lilleskov EA, Pregitzer KS, Miller RM. Simulated nitrogen deposition causes a decline of intra- and extraradical abundance of arbuscular mycorrhizal fungi and changes in microbial community structure in northern hardwood forests. Ecosystems. 2010;13:683–95.Article 

    Google Scholar 
    Young IM, Ritz K. Tillage, habitat space and function of soil microbes. Soil Tillage Res. 2000;53:201–13.Article 

    Google Scholar 
    Kabir Z. Tillage or no-tillage: impact on mycorrhizae. Can J Plant Sci. 2005;85:23–29.Article 

    Google Scholar 
    Bell T, Tylianakis JM. Microbes in the anthropocene: spillover of agriculturally selected bacteria and their impact on natural ecosystems. Proc R Soc B Biol Sci. 2016;283;20160896.Article 

    Google Scholar 
    Dang K, Gong X, Zhao G, Wang H, Ivanistau A, Feng B, Intercropping alters the soil microbial diversity and community to facilitate nitrogen assimilation: a potential mechanism for increasing proso millet grain yield. Front Microbiol. 2020;11;601054.Peay KG, Garbelotto M, Bruns TD. Evidence of dispersal limitation in soil microorganisms: Isolation reduces species richness on mycorrhizal tree islands. Ecology. 2010;91:3631–40.Article 

    Google Scholar 
    Mummey DL, Rillig MC. Spatial characterization of arbuscular mycorrhizal fungal molecular diversity at the submetre scale in a temperate grassland. FEMS Microbiol Ecol. 2008;64:260–70.CAS 
    Article 

    Google Scholar 
    Hiscox J, Savoury M, Müller CT, Lindahl BD, Rogers HJ, Boddy L. Priority effects during fungal community establishment in beech wood. ISME J. 2015;9:2246–60.Article 

    Google Scholar 
    Song Z, Kennedy PG, Liew FJ, Schilling JS. Fungal endophytes as priority colonizers initiating wood decomposition. Funct Ecol. 2017;31:407–18.Article 

    Google Scholar 
    Schmidt SK, Nemergut DR, Darcy JL, Lynch R. Do bacterial and fungal communities assemble differently during primary succession? Mol Ecol. 2014;23:254–8.CAS 
    Article 

    Google Scholar 
    Reche I, D’Orta G, Mladenov N, Winget DM, Suttle CA. Deposition rates of viruses and bacteria above the atmospheric boundary layer. ISME J. 2018;12:1154–62.CAS 
    Article 

    Google Scholar 
    Castaño C, Bonet JA, Oliva J, Farré G, Martínez de Aragón J, Parladé J, et al. Rainfall homogenizes while fruiting increases diversity of spore deposition in Mediterranean conditions. Fungal Ecol. 2019;41:279–88.Article 

    Google Scholar 
    Garbelotto M, Smith T, Schweigkofler W. Variation in rates of spore deposition of Fusarium circinatum, the causal agent of pine pitch canker, over a 12-month-period at two locations in Northern California. Phytopathology®. 2007;98:137–43.Article 

    Google Scholar 
    Bowers RM, Clements N, Emerson JB, Wiedinmyer C, Hannigan MP, Fierer N. Seasonal variability in bacterial and fungal diversity of the near-surface atmosphere. Environ Sci Technol. 2013;47:12097–106.CAS 
    Article 

    Google Scholar 
    Trexler RV, Bell TH. Testing sustained soil-to-soil contact as an approach for limiting the abiotic influence of source soils during experimental microbiome transfer. FEMS Microbiol Lett. 2019;366:fnz228.CAS 
    Article 

    Google Scholar 
    King, WL, Kaminsky LM, Gannett M, Thompson GL, Kao-Kniffin J, Bell TH. Soil salinization accelerates microbiome stabilization in iterative selections for plant performance. New Phytol. 2021. https://doi.org/10.1111/nph.17774. Advance online publication.Parada AE, Needham DM, Fuhrman JA. Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples. Environ Microbiol. 2016;18:1403–14.CAS 
    Article 

    Google Scholar 
    Apprill A, McNally S, Parsons RJ, Weber LK. Minor revision to V4 region SSU rRNA 806R gene primer greatly increases detection of SAR11 bacterioplankton. Aquat Microb Ecol. 2015;75:129–37.Article 

    Google Scholar 
    Gardes M, Bruns TD. ITS primers with enhanced specificity for basidiomycetes – application to the identification of mycorrhizae and rusts. Mol Ecol. 1993;2:113–8.CAS 
    Article 

    Google Scholar 
    Martin KJ, Rygiewicz PT. Fungal-specific PCR primers developed for analysis of the ITS region of environmental DNA extracts. BMC Microbiol. 2005;5:28.Article 

    Google Scholar 
    Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, et al. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nat Biotechnol. 2019;37:852–7.CAS 
    Article 

    Google Scholar 
    Callahan BJ, McMurdie PJ, Rosen MJ, Han AW, Johnson AJA, Holmes SP. DADA2: high-resolution sample inference from Illumina amplicon data. Nat Methods. 2016;13:581–3.CAS 
    Article 

    Google Scholar 
    Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, et al. The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res. 2013;41:D590–D596.CAS 
    Article 

    Google Scholar 
    Kõljalg U, Larsson K-H, Abarenkov K, Nilsson RH, Alexander IJ, Eberhardt U, et al. UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi. New Phytol. 2005;166:1063–8.Article 

    Google Scholar 
    R Core Team, R: a language and environment for statistical computing. R Foundation for Statistical Computing; 2012;Vienna;AustriaMcMurdie PJ, Holmes S. phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data. PLoS ONE. 2013;8:e61217.CAS 
    Article 

    Google Scholar 
    Oksanen J, Blanchet FG, Kindt R, Legendre P, Minchin P, O’Hara B, et al. Vegan: community ecology package. R Package Version 2.2-1. 2015;2:1–2. https://cran.r-project.org/web/packages/vegan/index.html.Ogle, DH, Wheeler P, Dinno A. FSA: fisheries stock analysis; 2020. https://cran.r-project.org/web/packages/FSA/index.htmlLahti L, Shetty S. Tools for microbiome analysis in R. Microbiome package. Bioconductor; 2017. https://microbiome.github.io/tutorials/Bell T. Experimental tests of the bacterial distance–decay relationship. ISME J. 2010;4:1357–65.Article 

    Google Scholar 
    Boynton PJ, Peterson CN, Pringle A. Superior dispersal ability can lead to persistent ecological dominance throughout succession. Appl Environ Microbiol. 2019;85:e02421–18.CAS 
    Article 

    Google Scholar 
    Nemergut DR, Schmidt SK, Fukami T, O’Neill SP, Bilinski TM, Stanish LF, et al. Patterns and processes of microbial community assembly. Microbiol Mol Biol Rev. 2013;77:342–56.Article 

    Google Scholar 
    Dickie A, N IA, Reich PB. Ectomycorrhizal fungal communities at forest edges. J Ecol. 2005;93:244–55.Article 

    Google Scholar 
    Vannette, RL, McMunn MS, Hall GW, Mueller TG, Munkres I, Perry D. Fungi are more dispersal limited than bacteria among flowers. https://www.biorxiv.org/content/10.1101/2020.05.19.104968v2. 2021.Zhang G, Wei G, Wei F, Chen Z, He M, Jiao S, et al., Dispersal limitation plays stronger role in the community assembly of fungi relative to bacteria in rhizosphere across the arable area of medicinal plant. Front Microbiol. 2021;12;713523.Svoboda P, Lindström ES, Ahmed Osman O, Langenheder S. Dispersal timing determines the importance of priority effects in bacterial communities. ISME J. 2018;12:644–6.Article 

    Google Scholar 
    Fukami T, Dickie IA, Paula Wilkie J, Paulus BC, Park D, Roberts A, et al. Assembly history dictates ecosystem functioning: evidence from wood decomposer communities. Ecol Lett. 2010;13:675–84.Article 

    Google Scholar 
    Rousk J, Bååth E, Brookes PC, Lauber CL, Lozupone C, Caporaso JG, et al. Soil bacterial and fungal communities across a pH gradient in an arable soil. ISME J. 2010;4:1340–51.Article 

    Google Scholar 
    Hartmann M, Frey B, Mayer J, Mäder P, Widmer F. Distinct soil microbial diversity under long-term organic and conventional farming. ISME J. 2015;9:1177–94.Article 

    Google Scholar 
    Lori M, Symnaczik S, Mäder P, De Deyn G, Gattinger A. Organic farming enhances soil microbial abundance and activity—a meta-analysis and meta-regression. PLoS ONE. 2017;12:e0180442.Article 

    Google Scholar 
    Blundell R, Schmidt JE, Igwe A, Cheung AL, Vannette RL, Gaudin ACM, et al. Organic management promotes natural pest control through altered plant resistance to insects. Nat Plants. 2020;6:483–91.CAS 
    Article 

    Google Scholar 
    Riedo, J, Wettstein FE, Rösch A, Herzog C, Banerjee S, Büchi L, et al. Widespread occurrence of pesticides in organically managed agricultural soils—the ghost of a conventional agricultural past? Environ Sci Technol. 2021;55;2919–2928.Lacerda-Júnior GV, Noronha MF, Cabral L, Delforno TP, de Sousa STP, Fernandes-Júnior PI, et al., Land use and seasonal effects on the soil microbiome of a Brazilian dry forest. Front Microbiol. 2019;10;648.Article 

    Google Scholar  More

  • in

    Agriculture and climate change are reshaping insect biodiversity worldwide

    Lister, B. C. & Garcia, A. Climate-driven declines in arthropod abundance restructure a rainforest food web. Proc. Natl Acad. Sci. USA 115, E10397–E10406 (2018).CAS 
    Article 

    Google Scholar 
    Soroye, P., Newbold, T. & Kerr, J. Climate change contributes to widespread declines among bumble bees across continents. Science 367, 685–688 (2020).CAS 
    Article 

    Google Scholar 
    Outhwaite, C. L., Gregory, R. D., Chandler, R. E., Collen, B. & Isaac, N. J. B. Complex long-term biodiversity change among invertebrates, bryophytes and lichens. Nat. Ecol. Evol. 4, 384–392 (2020).Article 

    Google Scholar 
    Crossley, M. S. et al. No net insect abundance and diversity declines across US long term ecological research sites. Nat. Ecol. Evol. 4, 1368–1376 (2020).Article 

    Google Scholar 
    Janzen, D. H. & Hallwachs, W. To us insectometers, it is clear that insect decline in our Costa Rican tropics is real, so let’s be kind to the survivors. Proc. Natl Acad. Sci. USA 118, e2002546117 (2021).CAS 
    Article 

    Google Scholar 
    Newbold, T. et al. Global effects of land use on local terrestrial biodiversity. Nature 520, 45–50 (2015).CAS 
    Article 

    Google Scholar 
    Spooner, F. E. B., Pearson, R. G. & Freeman, R. Rapid warming is associated with population decline among terrestrial birds and mammals globally. Glob. Change Biol. 24, 4521–4531 (2018).Article 

    Google Scholar 
    Powney, G. D. et al. Widespread losses of pollinating insects in Britain. Nat. Commun. 10, 1018 (2019).Article 

    Google Scholar 
    van Klink, R. et al. Meta-analysis reveals declines in terrestrial but increases in freshwater insect abundances. Science 368, 417–420 (2020).Article 

    Google Scholar 
    Yang, L. H. & Gratton, C. Insects as drivers of ecosystem processes. Curr. Opin. Insect Sci. 2, 26–32 (2014).Article 

    Google Scholar 
    Dainese, M. et al. A global synthesis reveals biodiversity-mediated benefits for crop production. Sci. Adv. 5, eaax0121 (2019).Article 

    Google Scholar 
    Halsch, C. A. et al. Insects and recent climate change. Proc. Natl. Acad. Sci. USA 118, e2002543117 (2021).CAS 
    Article 

    Google Scholar 
    Wagner, D. L., Fox, R., Salcido, D. M. & Dyer, L. A. A window to the world of global insect declines: moth biodiversity trends are complex and heterogeneous. Proc. Natl Acad. Sci. USA 118, e2002549117 (2021).CAS 
    Article 

    Google Scholar 
    Maxwell, S. L., Fuller, R. A., Brooks, T. M. & Watson, J. E. M. Biodiversity: the ravages of guns, nets and bulldozers. Nature 536, 143–145 (2016).CAS 
    Article 

    Google Scholar 
    Kerr, J. T. et al. Climate change impacts on bumblebees converge across continents. Science 349, 177–180 (2015).CAS 
    Article 

    Google Scholar 
    Uhler, J. et al. Relationship of insect biomass and richness with land use along a climate gradient. Nat. Commun. 12, 5946 (2021).CAS 
    Article 

    Google Scholar 
    Oliver, T. H. & Morecroft, M. D. Interactions between climate change and land use change on biodiversity: attribution problems, risks, and opportunities. Wiley Interdiscip. Rev. Clim. Change 5, 317–335 (2014).Article 

    Google Scholar 
    Williams, J. J. & Newbold, T. Local climatic changes affect biodiversity responses to land use: a review. Divers. Distrib. 26, 76–92 (2020).Article 

    Google Scholar 
    González del Pliego, P. et al. Thermally buffered microhabitats recovery in tropical secondary forests following land abandonment. Biol. Conserv. 201, 385–395 (2016).Article 

    Google Scholar 
    Senior, R. A., Hill, J. K., González del Pliego, P., Goode, L. K. & Edwards, D. P. A pantropical analysis of the impacts of forest degradation and conversion on local temperature. Ecol. Evol. 7, 7897–7908 (2017).Article 

    Google Scholar 
    Peters, M. K. et al. Climate–land-use interactions shape tropical mountain biodiversity and ecosystem functions. Nature 568, 88–92 (2019).CAS 
    Article 

    Google Scholar 
    Mantyka-Pringle, C. S., Martin, T. G. & Rhodes, J. R. Interactions between climate and habitat loss effects on biodiversity: a systematic review and meta-analysis. Glob. Change Biol. 18, 1239–1252 (2012).Article 

    Google Scholar 
    Northrup, J. M., Rivers, J. W., Yang, Z. & Betts, M. G. Synergistic effects of climate and land-use change influence broad-scale avian population declines. Glob. Change Biol. 25, 1561–1575 (2019).Article 

    Google Scholar 
    Deutsch, C. A. et al. Impacts of climate warming on terrestrial ectotherms across latitude. Proc. Natl Acad. Sci. USA 105, 6668–6672 (2008).CAS 
    Article 

    Google Scholar 
    Newbold, T., Oppenheimer, P., Etard, A. & Williams, J. J. Tropical and Mediterranean biodiversity is disproportionately sensitive to land-use and climate change. Nat. Ecol. Evol. 4, 1630–1638 (2020).Article 

    Google Scholar 
    Perez, T. M., Stroud, J. T. & Feeley, K. J. Thermal trouble in the tropics. Science 351, 1392–1393 (2016).CAS 
    Article 

    Google Scholar 
    Betts, M. G., Phalan, B., Frey, S. J. K., Rousseau, J. S. & Yang, Z. Old-growth forests buffer climate-sensitive bird populations from warming. Divers. Distrib. 24, 439–447 (2018).Article 

    Google Scholar 
    Hendershot, J. N. et al. Intensive farming drives long-term shifts in avian community composition. Nature 579, 393–396 (2020).CAS 
    Article 

    Google Scholar 
    Tscharntke, T. et al. Landscape moderation of biodiversity patterns and processes – eight hypotheses. Biol. Rev. 87, 661–685 (2012).Article 

    Google Scholar 
    Suggitt, A. J. et al. Extinction risk from climate change is reduced by microclimatic buffering. Nat. Clim. Change 8, 713–717 (2018).Article 

    Google Scholar 
    Hudson, L. N. et al. The database of the PREDICTS (Projecting Responses of Ecological Diversity in Changing Terrestrial Systems) project. Ecol. Evol. 7, 145–188 (2017).Article 

    Google Scholar 
    Harris, I., Osborn, T. J., Jones, P. & Lister, D. Version 4 of the CRU TS monthly high-resolution gridded multivariate climate dataset. Sci. Data 7, 109 (2020).Article 

    Google Scholar 
    Johansson, F., Orizaola, G. & Nilsson-Örtman, V. Temperate insects with narrow seasonal activity periods can be as vulnerable to climate change as tropical insect species. Sci. Rep. 10, 8822 (2020).CAS 
    Article 

    Google Scholar 
    Hoskins, A. J. et al. Downscaling land-use data to provide global 30′′ estimates of five land-use classes. Ecol. Evol. 6, 3040–3055 (2016).Article 

    Google Scholar 
    Grab, H. et al. Agriculturally dominated landscapes reduce bee phylogenetic diversity and pollination services. Science 363, 282–284 (2019).CAS 
    Article 

    Google Scholar 
    Rusch, A. et al. Agricultural landscape simplification reduces natural pest control: a quantitative synthesis. Agric. Ecosyst. Environ. 221, 198–204 (2016).Article 

    Google Scholar 
    Oliver, T. H. et al. Declining resilience of ecosystem functions under biodiversity loss. Nat. Commun. 6, 10122 (2015).Article 

    Google Scholar 
    Sunday, J. M. et al. Thermal-safety margins and the necessity of thermoregulatory behavior across latitude and elevation. Proc. Natl Acad. Sci. USA. 111, 5610–5615 (2014).CAS 
    Article 

    Google Scholar 
    Balmford, A. Extinction filters and current resilience: the significance of past selection pressures for conservation biology. Trends Ecol. Evol. 11, 193–196 (1996).CAS 
    Article 

    Google Scholar 
    Garibaldi, L. A. et al. Stability of pollination services decreases with isolation from natural areas despite honey bee visits. Ecol. Lett. 14, 1062–1072 (2011).Article 

    Google Scholar 
    Carvalheiro, L. G., Seymour, C. L., Veldtman, R. & Nicolson, S. W. Pollination services decline with distance from natural habitat even in biodiversity-rich areas. J. Appl. Ecol. 47, 810–820 (2010).Article 

    Google Scholar 
    Dainese, M., Luna, D. I., Sitzia, T. & Marini, L. Testing scale-dependent effects of seminatural habitats on farmland biodiversity. Ecol. Appl. 25, 1681–1690 (2015).Article 

    Google Scholar 
    Fourcade, Y. et al. Habitat amount and distribution modify community dynamics under climate change. Ecol. Lett. 24, 950–957 (2021).Article 

    Google Scholar 
    Alexander, L. V. et al. Global observed changes in daily climate extremes of temperature and precipitation. J. Geophys. Res. 111, D05109 (2006).
    Google Scholar 
    Seibold, S. et al. Arthropod decline in grasslands and forests is associated with landscape-level drivers. Nature 574, 671–674 (2019).CAS 
    Article 

    Google Scholar 
    De Palma, A. et al. Dimensions of biodiversity loss: spatial mismatch in land-use impacts on species, functional and phylogenetic diversity of European bees. Divers. Distrib. 23, 1435–1446 (2017).Article 

    Google Scholar 
    Collen, B., Ram, M., Zamin, T. & McRae, L. The tropical biodiversity data gap: addressing disparity in global monitoring. Trop. Conserv. Sci. 1, 75–88 (2008).Article 

    Google Scholar 
    Menéndez, R. How are insects responding to global warming? Tijdschr. Entomol. 150, 355 (2007).
    Google Scholar 
    Bale, J. S. et al. Herbivory in global climate change research: direct effects of rising temperature on insect herbivores. Glob. Change Biol. 8, 1–16 (2002).Article 

    Google Scholar 
    Hudson, L. N. et al. The 2016 release of the PREDICTS database. Natural History Museum Data Portal, https://doi.org/10.5519/0066354 (2016).Hudson, L. N. et al. The PREDICTS database: a global database of how local terrestrial biodiversity responds to human impacts. Ecol. Evol. 4, 4701–4735 (2014).Article 

    Google Scholar 
    De Palma, A. et al. Annual changes in the Biodiversity Intactness Index in tropical and subtropical forest biomes, 2001–2012. Sci. Rep. 11, 20249 (2021).Article 

    Google Scholar 
    Chao, A., Chazdon, R. L., Colwell, R. K. & Shen, T.-J. A new statistical approach for assessing similarity of species composition with incidence and abundance data. Ecol. Lett. 8, 148–159 (2005).Article 

    Google Scholar 
    Ndakidemi, B., Mtei, K. & Ndakidemi, P. A. Impacts of synthetic and botanical pesticides on beneficial insects. Agric. Sci. 07, 364–372 (2016).CAS 

    Google Scholar 
    Wang, X., Hua, F., Wang, L., Wilcove, D. S. & Yu, D. W. The biodiversity benefit of native forests and mixed‐species plantations over monoculture plantations. Divers. Distrib. 25, 1721–1735 (2019).Article 

    Google Scholar 
    Weedon, G. P. et al. The WFDEI meteorological forcing data set: WATCH Forcing Data methodology applied to ERA-Interim reanalysis data. Water Resour. Res. 50, 7505–7514 (2014).Article 

    Google Scholar 
    Warszawski, L. et al. The inter-sectoral impact model intercomparison project (ISI-MIP): project framework. Proc. Natl Acad. Sci. USA 111, 3228–3232 (2014).CAS 
    Article 

    Google Scholar 
    van Vuuren, D. P. et al. The representative concentration pathways: an overview. Clim. Change 109, 5–31 (2011).Article 

    Google Scholar 
    New, M., Hulme, M. & Jones, P. Representing twentieth-century space–time climate variability. Part I: development of a 1961–90 mean monthly terrestrial climatology. J. Clim. 12, 829–856 (1999).Article 

    Google Scholar 
    Hijmans, R. J. Raster: Geographic data analysis and modelling. R package version 2.8-42018, https://CRAN.R-project.org/package=raster (2018).Rigby, R. A., Stasinopoulos, D. M. & Akantziliotou, C. A framework for modelling overdispersed count data, including the Poisson-shifted generalized inverse Gaussian distribution. Comput. Stat. Data Anal. 53, 381–393 (2008).MathSciNet 
    Article 

    Google Scholar 
    Bates, D., Maechler, M., Bolker, B. & Walker, S. Fitting linear mixed-effects models using lme4. J. Stat. Softw. 67, 1–48 (2015).Article 

    Google Scholar  More

  • in

    Protected areas have a mixed impact on waterbirds, but management helps

    High Ambition Coalition for Nature and People. 50 Countries Announce Bold Commitment to Protect at Least 30% of the World’s Land and Ocean by 2030 (Campaign for Nature, 2021).Waldron A. et al. Protecting 30% of the Planet for Nature: Costs, Benefits and Economic Implications (Campaign for Nature, 2020).Geldmann, J., Manica, A., Burgess, N. D., Coad, L. & Balmford, A. A global-level assessment of the effectiveness of protected areas at resisting anthropogenic pressures. Proc. Natl Acad. Sci. USA 116, 23209–23223 (2019).CAS 
    Article 

    Google Scholar 
    Nelson, A. & Chomitz, K. M. Protected Area Effectiveness in Reducing Tropical Deforestation (The World Bank, 2009).Scharlemann, J. P. W. et al. Securing tropical forest carbon: the contribution of protected areas to REDD. Oryx 44, 352–357 (2010).Article 

    Google Scholar 
    Feng, Y. et al. Assessing the effectiveness of global protected areas based on the difference in differences model. Ecol. Indic. 130, 108078 (2021).Article 

    Google Scholar 
    Laurance, W. F. et al. The fate of Amazonian forest fragments: A 32-year investigation. Biol. Conserv. 144, 56–67 (2011).Article 

    Google Scholar 
    Laurance, W. F. et al. Averting biodiversity collapse in tropical forest protected areas. Nature 489, 290–294 (2012).CAS 
    Article 

    Google Scholar 
    Terraube, J., Van doninck, J., Helle, P. & Cabeza, M. Assessing the effectiveness of a national protected area network for carnivore conservation. Nat. Commun. 11, 2957 (2020).CAS 
    Article 

    Google Scholar 
    Barnes, M. D. et al. Wildlife population trends in protected areas predicted by national socio-economic metrics and body size. Nat. Commun. 7, 12747 (2016).CAS 
    Article 

    Google Scholar 
    Amano, T. et al. Successful conservation of global waterbird populations depends on effective governance. Nature 553, 199–202 (2018).CAS 
    Article 

    Google Scholar 
    Kleijn, D., Cherkaoui, I., Goedhart, P. W., van der Hout, J. & Lammertsma, D. Waterbirds increase more rapidly in Ramsar-designated wetlands than in unprotected wetlands. J. Appl. Ecol. 51, 289–298 (2014).Article 

    Google Scholar 
    Reyes-Arriagada, R. et al. Population trends of a mixed-species colony of Humboldt and Magellanic Penguins in Southern Chile after establishing a protected area. Avian Conserv. Ecol. 8, 13 (2013).
    Google Scholar 
    Bukart, K. Motion 101 passes at IUCN, calls for protecting 50% of Earth’s lands and seas. One Earth https://www.oneearth.org/motion-101-passes-at-iucn-calls-for-protecting-50-of-earths-lands-and-seas/ (2021).Protected Planet Report 2020 (UNEP-WCMC and IUCN, 2021).Global Assessment Report on Biodiversity and Ecosystem Services of the Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services (IPBES Secretariat, 2019).Barnes, M. D., Glew, L., Wyborn, C. & Craigie, I. D. Prevent perverse outcomes from global protected area policy. Nat, Ecol. Evol. 2, 759–762 (2018).Article 

    Google Scholar 
    Pressey, R. L., Cabeza, M., Watts, M. E., Cowling, R. M. & Wilson, K. A. Conservation planning in a changing world. Trends Ecol. Evol. 22, 583–592 (2007).Article 

    Google Scholar 
    Geldmann, J. et al. Effectiveness of terrestrial protected areas in reducing habitat loss and population declines. Biol. Conserv. 161, 230–238 (2013).Article 

    Google Scholar 
    Rodrigues, A. S. L. & Cazalis, V. The multifaceted challenge of evaluating protected area effectiveness. Nat. Commun. 11, 5147 (2020).CAS 
    Article 

    Google Scholar 
    Redford, K. H. The empty forest. BioScience 42, 412–422 (1992).Article 

    Google Scholar 
    Ferraro, P. J. Counterfactual thinking and impact evaluation in environmental policy. N. Direct. Eval. 2009, 75–84 (2009).Article 

    Google Scholar 
    Adams, V. M., Barnes, M. & Pressey, R. L. Shortfalls in conservation evidence: moving from ecological effects of interventions to policy evaluation. One Earth 1, 62–75 (2019).Article 

    Google Scholar 
    Wauchope, H. S. et al. Evaluating impact using time-series data. Trends Ecol. Evol. 36, 196–205 (2021).Article 

    Google Scholar 
    Kingsford, R. T., Roshier, D. A. & Porter, J. L. Australian waterbirds time and space travellers in dynamic desert landscapes. Mar. Freshw. Res. 61, 875–884 (2010).CAS 
    Article 

    Google Scholar 
    The Ramsar Convention Secretariat. Managing Ramsar Sites. ramsar.org https://www.ramsar.org/sites-countries/managing-ramsar-sites (2014).European Commission. The Birds Directive. https://ec.europa.eu/environment/nature/legislation/birdsdirective/index_en.htm (accessed 3 April 2022).Zhang, W., Sheldon, B. C., Grenyer, R. & Gaston, K. J. Habitat change and biased sampling influence estimation of diversity trends. Curr. Biol. 31, 3656–3662.e3 (2021).CAS 
    Article 

    Google Scholar 
    Bruner, A. G., Gullison, R. E., Rice, R. E. & da Fonseca, G. A. B. Effectiveness of parks in protecting tropical biodiversity. Science 291, 125–128 (2001).CAS 
    Article 

    Google Scholar 
    Carranza, T., Balmford, A., Kapos, V. & Manica, A. Protected area effectiveness in reducing conversion in a rapidly vanishing ecosystem: the Brazilian Cerrado. Conserv. Lett. 7, 216–223 (2014).Article 

    Google Scholar 
    Rabinowitz, D. In The Biological Aspects of Rare Plant Conservation (ed. Synge, H.) 205–217 (John Wiley & Sons, 1981).Daskalova, G. N., Myers-Smith, I. H. & Godlee, J. L. Rare and common vertebrates span a wide spectrum of population trends. Nat. Commun. 11, 4394 (2020).CAS 
    Article 

    Google Scholar 
    Hettiarachchi, M., Morrison, T. H. & McAlpine, C. Forty-three years of Ramsar and urban wetlands. Glob. Environ. Change 32, 57–66 (2015).Article 

    Google Scholar 
    Munishi, P., Chuwa, J., Kilungu, H., Moe, S. & Temu, R. Management effectiveness and conservation initiatives in the Kilombero Valley Flood Plains Ramsar Site, Tanzania. Tanzania J. For. Nat. Conserv. 81, 1–10 (2012).
    Google Scholar 
    Fahrig, L. Why do several small patches hold more species than few large patches? Glob. Ecol. Biogeogr. 29, 615–628 (2020).Article 

    Google Scholar 
    Newmark, W. D. Extinction of mammal populations in western North American National Parks. Conserv. Biol. 9, 512–526 (1995).Article 

    Google Scholar 
    Mascia, M. B. & Pailler, S. Protected area downgrading, downsizing, and degazettement (PADDD) and its conservation implications. Conserv. Lett. 4, 9–20 (2011).Article 

    Google Scholar 
    Di Marco, M. et al. Changing trends and persisting biases in three decades of conservation science. Glob. Ecol. Conserv. 10, 32–42 (2017).Article 

    Google Scholar 
    Wetlands International. Asian Waterbird Census. https://south-asia.wetlands.org/our-approach/healthy-wetland-nature/asian-waterbird-census/ (accessed 3 April 2022).Gill, D. A. et al. Capacity shortfalls hinder the performance of marine protected areas globally. Nature 543, 665–669 (2017).CAS 
    Article 

    Google Scholar 
    Geldmann, J. et al. A global analysis of management capacity and ecological outcomes in terrestrial protected areas. Conserv. Lett. 11, e12434 (2018).Article 

    Google Scholar 
    Kingsford, R. T., Bino, G. & Porter, J. L. Continental impacts of water development on waterbirds, contrasting two Australian river basins: global implications for sustainable water use. Glob. Change Biol. 23, 4958–4969 (2017).Article 

    Google Scholar 
    Jia, Q., Wang, X., Zhang, Y., Cao, L. & Fox, A. D. Drivers of waterbird communities and their declines on Yangtze River floodplain lakes. Biol. Conserv. 218, 240–246 (2018).Article 

    Google Scholar 
    Lehikoinen, A., Rintala, J., Lammi, E. & Pöysä, H. Habitat-specific population trajectories in boreal waterbirds: alarming trends and bioindicators for wetlands. Animal Conserv. 19, 88–95 (2016).Article 

    Google Scholar 
    Boyd, C. et al. Spatial scale and the conservation of threatened species. Conserv. Lett. 1, 37–43 (2008).Article 

    Google Scholar 
    Schleicher, J. et al. Protecting half of the planet could directly affect over one billion people. Nat. Sustain. 2, 1094–1096 (2019).Article 

    Google Scholar 
    Wauchope, H. et al. Quantifying the impact of protected areas on near-global waterbird population trends, a pre-analysis plan. Preprint at https://doi.org/10.7287/peerj.preprints.27741v2 (2019).Nosek, B. A., Ebersole, C. R., DeHaven, A. C. & Mellor, D. T. The preregistration revolution. Proc. Natl Acad. Sci. USA 115, 2600–2606 (2018).CAS 
    Article 

    Google Scholar 
    R Core Team. R: A Language and Environment for Statistical Computing (R Foundation for Statistical Computing, 2020).QGIS Geographic Information System (QGIS, 2021).Hadley Wickham. ggplot2: Elegant Graphics for Data Analysis (Springer-Verlag, 2016).Venables, W. N. & Ripley, B. D. Modern Applied Statistics with S (Springer, 2002).The World Database on Protected Areas (WDPA)/The Global Database on Protected Areas Management Effectiveness (GD-PAME) www.protectedplanet.net (UNEP-WCMC and IUCN, 2019).Global Self-consistent, Hierarchical, High-resolution Geography Database (GSHHG) (NOAA, 2017).Coetzer, K. L., Witkowski, E. T. F. & Erasmus, B. F. N. Reviewing Biosphere Reserves globally: effective conservation action or bureaucratic label? Biol. Rev. 89, 82–104 (2014).Article 

    Google Scholar 
    Ament, J. M. & Cumming, G. S. Scale dependency in effectiveness, isolation, and social-ecological spillover of protected areas. Conserv. Biol. 30, 846–855 (2016).Article 

    Google Scholar 
    Naimi, B., Hamm, N. A. S., Groen, T. A., Skidmore, A. K. & Toxopeus, A. G. Where is positional uncertainty a problem for species distribution modelling? Ecography 37, 191–203 (2014).Article 

    Google Scholar 
    Salmerón Gómez, R., García, Pérez, J., López Martín, M. D. M. & García, C. G. Collinearity diagnostic applied in ridge estimation through the variance inflation factor. J. Appl. Stat. 43, 1831–1849 (2016).MathSciNet 
    Article 

    Google Scholar 
    Gu, X. S. & Rosenbaum, P. R. Comparison of multivariate matching methods: structures, distances, and algorithms. J. Comput. Graph. Stat. 2, 405–420 (1993).
    Google Scholar 
    Stuart, E. A. Matching methods for causal inference: a review and a look forward. Stat. Sci. 25, 1–21 (2010).MathSciNet 
    Article 

    Google Scholar 
    King, G. & Nielsen, R. Why propensity scores should not be used for matching. Pol. Anal. 27, 435–454 (2019).Article 

    Google Scholar 
    Rosenbaum, P. R. DOS: design of observational studies. https://cran.r-project.org/web/packages/DOS/index.html (2018).Linden, A. A matching framework to improve causal inference in interrupted time-series analysis. J. Eval. Clin. Pract. 24, 408–415 (2018).Article 

    Google Scholar 
    Simmons, B. I., Hoeppke, C. & Sutherland, W. J. Beware greedy algorithms. J. Anim. Ecol. 88, 804–807 (2019).Article 

    Google Scholar 
    Austin, P. C. Balance diagnostics for comparing the distribution of baseline covariates between treatment groups in propensity-score matched samples. Stat. Med. 28, 3083–3107 (2009).MathSciNet 
    Article 

    Google Scholar 
    Rubin, D. B. Using propensity scores to help design observational studies: application to the tobacco litigation. Health Serv. Outcomes Res. Methodol. 2, 169–188 (2001).Article 

    Google Scholar 
    Fox, J. & Weisberg, S. An R Companion to Applied Regression (Sage, 2019).Hartig, F. DHARMa: residual diagnostics for hierarchical (multi-level/mixed) regression models. https://cran.r-project.org/web/packages/DHARMa/index.html (2021).Zeileis, A. & Hothorn, T. Diagnostic checking in regression relationships. R News 2, 7–10 (2002).
    Google Scholar 
    Bates, D., Maechler, M., Bolker, B. & Walker, S. Fitting linear mixed-effects models using lme4. J. Stat. Softw. 67, 48 (2015).Article 

    Google Scholar 
    Christensen, R. Ordinal–regression models for ordinal data. https://cran.r-project.org/web/packages/ordinal/index.html (2019).Lüdecke, D. ggeffects: tidy data frames of marginal effects from regression models. J. Op. Source Softw. 3, 772 (2018).Article 

    Google Scholar 
    McKay, M. D., Beckman, R. J. & Conover, W. J. Comparison of three methods for selecting values of input variables in the analysis of output from a computer code. Technometrics 21, 239–245 (1979).MathSciNet 

    Google Scholar 
    Carnell, R. lhs: latin hypercube samples. https://cran.r-project.org/web/packages/lhs/index.html (2020).Harris, I., Jones, P. D., Osborn, T. J. & Lister, D. H. Updated high-resolution grids of monthly climatic observations—the CRU TS3.10 Dataset. Int. J. Climatol. 34, 623–642 (2014).Article 

    Google Scholar 
    Lu, C. & Tian, H. Global nitrogen and phosphorus fertilizer use for agriculture production in the past half century: Shifted hot spots and nutrient imbalance. Earth Syst. Sci. Data 9, 181–192 (2017).Article 

    Google Scholar 
    Joppa, L. N. & Pfaff, A. High and far: biases in the location of protected areas. PLoS ONE 4, e8273 (2009).Article 

    Google Scholar 
    Hurtt, G. C. et al. Harmonization of land-use scenarios for the period 1500-2100: 600 years of global gridded annual land-use transitions, wood harvest, and resulting secondary lands. Clim. Change 109, 117–161 (2011).Article 

    Google Scholar 
    Lloyd, C. T., Sorichetta, A. & Tatem, A. J. High resolution global gridded data for use in population studies. Sci. Data 4, 17001 (2017).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).CAS 
    Article 

    Google Scholar 
    Sandvik, B. World Borders Dataset. Thematic Mapping http://thematicmapping.org/downloads/world_borders.php (2009).BirdLife International. Species Distribution Data Download http://www.birdlife.org/datazone/info/spcdownload (accessed 25 February 2020).Wilman, H. et al. EltonTraits 1.0: species-level foraging attributes of the world’s birds and mammals. Ecology 95, 2027 (2014).Article 

    Google Scholar 
    WWF International. Management Effectiveness Tracking Tool https://wwfeu.awsassets.panda.org/downloads/mett2_final_version_july_2007.pdf (2007). More

  • in

    Highly-resolved interannual phytoplankton community dynamics of the coastal Northwest Atlantic

    Boyce DG, Lewis MR, Worm B. Global phytoplankton decline over the past century. Nature. 2010;466:591–6.CAS 
    Article 

    Google Scholar 
    Bonachela JA, Klausmeier CA, Edwards KF, Litchman E, Levin SA. The role of phytoplankton diversity in the emergent oceanic stoichiometry. J Plankton Res. 2016;38:1021–35.CAS 
    Article 

    Google Scholar 
    Falkowski PG. The role of phytoplankton photosynthesis in global biogeochemical cycles. Photosynth Res. 1994;39:235–58.CAS 
    Article 

    Google Scholar 
    Longhurst A. Seasonal cycles of pelagic production and consumption. Prog Oceanogr. 1995;36:77–167.Article 

    Google Scholar 
    Li WKW, Glen Harrison W, Head EJH. Coherent assembly of phytoplankton communities in diverse temperate ocean ecosystems. Proc R Soc B Biol Sci. 2006;273:1953–60.Article 

    Google Scholar 
    Bolaños LM, Karp-Boss L, Choi CJ, Worden AZ, Graff JR, Haëntjens N, et al. Small phytoplankton dominate western North Atlantic biomass. ISME J. 2020;14:1–12.Article 

    Google Scholar 
    Buttigieg PL, Fadeev E, Bienhold C, Hehemann L, Offre P, Boetius A. Marine microbes in 4D—using time series observation to assess the dynamics of the ocean microbiome and its links to ocean health. Curr Opin Microbiol. 2018;43:169–85.Article 

    Google Scholar 
    Hirata T, Aiken J, Hardman-Mountford N, Smyth TJ, Barlow RG. An absorption model to determine phytoplankton size classes from satellite ocean colour. Remote Sens Environ. 2008;112:3153–9.Article 

    Google Scholar 
    Li WKW, Dickie PM. Monitoring phytoplankton, bacterioplankton, and virioplankton in a coastal inlet (Bedford Basin) by flow cytometry. Cytometry. 2001;44:236–46.CAS 
    Article 

    Google Scholar 
    Karl DM, Lukas R. The Hawaii Ocean Time-series (HOT) program: background, rationale and field implementation. Deep Sea Res Part II Top Stud Oceanogr. 1996;43:129–56.CAS 
    Article 

    Google Scholar 
    Steinberg DK, Carlson CA, Bates NR, Johnson RJ, Michaels AF, Knap AH. Overview of the US JGOFS Bermuda Atlantic Time-series Study (BATS): a decade-scale look at ocean biology and biogeochemistry. Deep Sea Res Part II Top Stud Oceanogr. 2001;48:1405–47.CAS 
    Article 

    Google Scholar 
    Harris R. The L4 time-series: the first 20 years. J Plankton Res. 2010;32:577–83.Article 

    Google Scholar 
    Hunter-Cevera KR, Neubert MG, Olson RJ, Solow AR, Shalapyonok A, Sosik HM. Physiological and ecological drivers of early spring blooms of a coastal phytoplankter. Science. 2016;354:326–9.CAS 
    Article 

    Google Scholar 
    Shi Q, Wallace D. A 3-year time series of volatile organic iodocarbons in Bedford Basin, Nova Scotia: a northwestern Atlantic fjord. Ocean Sci. 2018;14:1385–403.CAS 
    Article 

    Google Scholar 
    Crawford A, Shore J, Shan S. Measurement of tidal currents using an autonomous underwater vehicle. IEEE J Ocean Eng 2021;1–13.Kerrigan EA, Kienast M, Thomas H, Wallace DWR. Using oxygen isotopes to establish freshwater sources in Bedford Basin, Nova Scotia, a Northwestern Atlantic fjord. Estuar Coast Shelf Sci. 2017;199:96–104.CAS 
    Article 

    Google Scholar 
    Shan S, Sheng J. Examination of circulation, flushing time and dispersion in Halifax Harbour of Nova Scotia. Water Qual Res J. 2012;47:353–74.CAS 
    Article 

    Google Scholar 
    Clayton S, Dutkiewicz S, Jahn O, Follows MJ. Dispersal, eddies, and the diversity of marine phytoplankton. Limnol Oceanogr Fluids Environ. 2013;3:182–97.Article 

    Google Scholar 
    Barton AD, Dutkiewicz S, Flierl G, Bragg J, Follows MJ. Patterns of diversity in marine phytoplankton. Science. 2010;327:1509–11.CAS 
    Article 

    Google Scholar 
    Dutkiewicz S, Cermeno P, Jahn O, Follows MJ, Hickman AE, Taniguchi DAA, et al. Dimensions of marine phytoplankton diversity. Biogeosciences. 2020;17:609–34.Article 

    Google Scholar 
    Righetti D, Vogt M, Gruber N, Psomas A, Zimmermann NE. Global pattern of phytoplankton diversity driven by temperature and environmental variability. Sci Adv. 2019;5:eaau6253.Article 

    Google Scholar 
    Li WKW. Annual average abundance of heterotrophic bacteria and Synechococcus in surface ocean waters. Limnol Oceanogr. 1998;43:1746–53.Article 

    Google Scholar 
    DFO Canada. AZMP Bulletin PMZA. 2006. DFO.Cullen JJ, Doolittle WF, Levin SA, Li WKW. Patterns and prediction in microbial oceanography. Oceanography. 2007;20:34–46.Article 

    Google Scholar 
    El‐Swais H, Dunn KA, Bielawski JP, Li WKW, Walsh DA. Seasonal assemblages and short-lived blooms in coastal north-west Atlantic Ocean bacterioplankton. Environ Microbiol. 2015;17:3642–61.Article 

    Google Scholar 
    Georges AA, El-Swais H, Craig SE, Li WK, Walsh DA. Metaproteomic analysis of a winter to spring succession in coastal northwest Atlantic Ocean microbial plankton. ISME J. 2014;8:1301–13.CAS 
    Article 

    Google Scholar 
    Conover SAM. Nitrogen utilization during spring blooms of marine phytoplankton in Bedford Basin, Nova Scotia, Canada. Mar Biol. 1975;32:247–61.CAS 
    Article 

    Google Scholar 
    Lehman PW. Comparison of chlorophyll a and carotenoid pigments as predictors of phytoplankton biomass. Mar Biol. 1981;65:237–44.CAS 
    Article 

    Google Scholar 
    Siddig AAH, Ellison AM, Ochs A, Villar-Leeman C, Lau MK. How do ecologists select and use indicator species to monitor ecological change? Insights from 14 years of publication in Ecological Indicators. Ecol Indic. 2016;60:223–30.Article 

    Google Scholar 
    Zorz J, Willis C, Comeau AM, Langille MGI, Johnson CL, Li WKW, et al. Drivers of regional bacterial community structure and diversity in the Northwest Atlantic Ocean. Front Microbiol 2019;10.Comeau AM, Douglas GM, Langille MGI. Microbiome Helper: a custom and streamlined workflow for microbiome research. mSystems. 2017;2:e00127–16.CAS 
    Article 

    Google Scholar 
    Comeau AM, Li WKW, Tremblay J-É, Carmack EC, Lovejoy C. Arctic Ocean microbial community structure before and after the 2007 record sea ice minimum. PLOS ONE. 2011;6:e27492.CAS 
    Article 

    Google Scholar 
    Parada AE, Needham DM, Fuhrman JA. Every base matters: assessing small subunit rRNA primers for marine microbiomes with mock communities, time series and global field samples. Environ Microbiol. 2016;18:1403–14.CAS 
    Article 

    Google Scholar 
    Walters W, Hyde ER, Berg-Lyons D, Ackermann G, Humphrey G, Parada A, et al. Improved bacterial 16S rRNA gene (V4 and V4-5) and fungal Internal Transcribed Spacer marker gene primers for microbial community surveys. mSystems. 2015;1:e00009–15.Article 

    Google Scholar 
    Willis C, Desai D, LaRoche J. Influence of 16S rRNA variable region on perceived diversity of marine microbial communities of the Northern North Atlantic. FEMS Microbiol Lett. 2019;366:1–9.Article 

    Google Scholar 
    Bolyen E, Rideout JR, Dillon MR, Bokulich NA, Abnet CC, Al-Ghalith GA, et al. Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. Nat Biotechnol. 2019;37:852–7.CAS 
    Article 

    Google Scholar 
    Decelle J, Romac S, Stern RF, Bendif EM, Zingone A, Audic S, et al. PhytoREF: a reference database of the plastidial 16S rRNA gene of photosynthetic eukaryotes with curated taxonomy. Mol Ecol Resour. 2015;15:1435–45.CAS 
    Article 

    Google Scholar 
    Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, et al. The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucleic Acids Res. 2013;41:D590–96.CAS 
    Article 

    Google Scholar 
    NCBI Resource Coordinators. Database resources of the National Center for Biotechnology Information. Nucleic Acids Res. 2018;46:D8–13.Article 

    Google Scholar 
    R Core Team. R: A language and environment for statistical computing. 2020. R Foundation for Statistical Computing, Vienna, Austria. https://www.R-project.org/RStudio Team. RStudio: Integrated Development for R. 2020. RStudio, Inc., Boston, MA. http://www.rstudio.com/.Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol. 1990;215:403–10.CAS 
    Article 

    Google Scholar 
    Johnson M, Zaretskaya I, Raytselis Y, Merezhuk Y, McGinnis S, Madden TL. NCBI BLAST: a better web interface. Nucleic Acids Res. 2008;36:W5–9.CAS 
    Article 

    Google Scholar 
    Cáceres MD, Legendre P. Associations between species and groups of sites: indices and statistical inference. Ecology. 2009;90:3566–74.Article 

    Google Scholar 
    Edgar RC. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 2004;32:1792–7.CAS 
    Article 

    Google Scholar 
    Kumar S, Stecher G, Tamura K. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Mol Biol Evol. 2016;33:1870–4.CAS 
    Article 

    Google Scholar 
    Oksanen J, Blanchet F, Friendly M, Kindt R, Legendre P, McGlinn D, et al. vegan: community ecology package. R package version. 2019;2:5–6. https://CRAN.R-project.org/package=vegan.
    Google Scholar 
    Wickham H. ggplot2: Elegant graphics for data analysis. 2016. Springer-Verlag, New York.Sohm JA, Ahlgren NA, Thomson ZJ, Williams C, Moffett JW, Saito MA, et al. Co-occurring Synechococcus ecotypes occupy four major oceanic regimes defined by temperature, macronutrients and iron. ISME J. 2016;10:333–45.CAS 
    Article 

    Google Scholar 
    Ahlgren NA, Rocap G. Diversity and distribution of marine Synechococcus: multiple gene phylogenies for consensus classification and development of qPCR assays for sensitive measurement of clades in the ocean. Front Microbiol. 2012;3:1–24.Article 

    Google Scholar 
    Sunagawa S, Coelho LP, Chaffron S, Kultima JR, Labadie K, Salazar G, et al. Structure and function of the global ocean microbiome. Science. 2015;348:1261359.Article 

    Google Scholar 
    Logares R, Sunagawa S, Salazar G, Cornejo‐Castillo FM, Ferrera I, Sarmento H, et al. Metagenomic 16S rDNA Illumina tags are a powerful alternative to amplicon sequencing to explore diversity and structure of microbial communities. Environ Microbiol. 2014;16:2659–71.CAS 
    Article 

    Google Scholar 
    Faust K, Raes J. CoNet app: inference of biological association networks using Cytoscape. F1000Research. 2016;5:1519.Article 

    Google Scholar 
    Cline MS, Smoot M, Cerami E, Kuchinsky A, Landys N, Workman C, et al. Integration of biological networks and gene expression data using Cytoscape. Nat Protoc. 2007;2:2366–82.CAS 
    Article 

    Google Scholar 
    Fuhrman JA, Cram JA, Needham DM. Marine microbial community dynamics and their ecological interpretation. Nat Rev Microbiol. 2015;13:133–46.CAS 
    Article 

    Google Scholar 
    Cram JA, Chow C-ET, Sachdeva R, Needham DM, Parada AE, Steele JA, et al. Seasonal and interannual variability of the marine bacterioplankton community throughout the water column over ten years. ISME J. 2015;9:563–80.Article 

    Google Scholar 
    Schoemann V, Becquevort S, Stefels J, Rousseau V, Lancelot C. Phaeocystis blooms in the global ocean and their controlling mechanisms: a review. J Sea Res. 2005;53:43–66.CAS 
    Article 

    Google Scholar 
    Li W, Dickie P, Spry J. Plankton monitoring programme in the Bedford Basin, 1991-1997. 1998. Canadian Data Report of Fisheries and Aquatic Sciences 1036. Ocean Sciences Division, Maritimes Region, Fisheries and Oceans Canada.Bork P, Bowler C, Vargas C, de, Gorsky G, Karsenti E, Wincker P. Tara Oceans studies plankton at planetary scale. Science. 2015;348:873–873.CAS 
    Article 

    Google Scholar 
    Callahan BJ, McMurdie PJ, Holmes SP. Exact sequence variants should replace operational taxonomic units in marker-gene data analysis. ISME J. 2017;11:2639–43.Article 

    Google Scholar 
    McLachlan JL, Seguel MR, Fritz L. Tetreutreptia pomquetensis gen. et sp. nov. (Euglenophyceae): a quadriflagellate, phototrophic marine Euglenoid. J Phycol. 1994;30:538–44.Article 

    Google Scholar 
    Edlund MB, Stoermer EF. Resting spores of the freshwater diatoms Acanthoceras and Urosolenia. J Paleolimnol. 1993;9:55–61.Article 

    Google Scholar 
    Tomas CR. Marine Phytoplankton: a guide to naked flagellates and coccolithophorids. 2012. Academic Press.Haas S, Robicheau BM, Rakshit S, Tolman J, Algar CK, LaRoche J, et al. Physical mixing in coastal waters controls and decouples nitrification via biomass dilution. Proc Natl Acad Sci. 2021;118:e2004877118.CAS 
    Article 

    Google Scholar 
    Falkowski PG, Katz ME, Knoll AH, Quigg A, Raven JA, Schofield O, et al. The evolution of modern eukaryotic phytoplankton. Science. 2004;305:354–60.CAS 
    Article 

    Google Scholar 
    Needham DM, Sachdeva R, Fuhrman JA. Ecological dynamics and co-occurrence among marine phytoplankton, bacteria and myoviruses shows microdiversity matters. ISME J. 2017;11:1614–29.Article 

    Google Scholar 
    Choi CJ, Bachy C, Jaeger GS, Poirier C, Sudek L, Sarma VVSS, et al. Newly discovered deep-branching marine plastid lineages are numerically rare but globally distributed. Curr Biol. 2017;27:R15–16.CAS 
    Article 

    Google Scholar 
    Yoo YD, Seong KA, Kim HS, Jeong HJ, Yoon EY, Park J, et al. Feeding and grazing impact by the bloom-forming euglenophyte Eutreptiella eupharyngea on marine eubacteria and cyanobacteria. Harmful Algae. 2018;73:98–109.Article 

    Google Scholar 
    Dasilva CR, Li WKW, Lovejoy C. Phylogenetic diversity of eukaryotic marine microbial plankton on the Scotian Shelf Northwestern Atlantic Ocean. J Plankton Res. 2014;36:344–63.CAS 
    Article 

    Google Scholar 
    Bolaños LM, Choi CJ, Worden AZ, Baetge N, Carlson CA, Giovannoni SJ. Seasonality of the microbial community composition in the North Atlantic. Front Mar Sci. 2021;8:23.Article 

    Google Scholar 
    Monier A, Worden AZ, Richards TA. Phylogenetic diversity and biogeography of the Mamiellophyceae lineage of eukaryotic phytoplankton across the oceans. Environ Microbiol Rep. 2016;8:461–9.CAS 
    Article 

    Google Scholar 
    Irion S, Christaki U, Berthelot H, L’Helguen S, Jardillier L. Small phytoplankton contribute greatly to CO2-fixation after the diatom bloom in the Southern Ocean. ISME J. 2021;15:2509–22.CAS 
    Article 

    Google Scholar 
    Choi CJ, Jimenez V, Needham D, Poirier C, Bachy C, Alexander H, et al. Seasonal and geographical transitions in eukaryotic phytoplankton community structure in the Atlantic and Pacific Oceans. Front Microbiol. 2020;11:2187.
    Google Scholar 
    Leblanc K, Quéguiner B, Diaz F, Cornet V, Michel-Rodriguez M, Durrieu de Madron X, et al. Nanoplanktonic diatoms are globally overlooked but play a role in spring blooms and carbon export. Nat Commun. 2018;9:953.Article 

    Google Scholar 
    Lundholm N, Hasle GR. Fragilariopsis (Bacillariophyceae) of the Northern Hemisphere – morphology, taxonomy, phylogeny and distribution, with a description of F. pacifica sp. nov. Phycologia. 2010;49:438–60.Article 

    Google Scholar 
    Martínez-pérez C, Mohr W, Löscher CR, Dekaezemacker J, Littmann S, Yilmaz P, et al. The small unicellular diazotrophic symbiont, UCYN-A, is a key player in the marine nitrogen cycle. Nat Microbiol. 2016;1:16163.Article 

    Google Scholar 
    Zehr JP, Shilova IN, Farnelid HM, Muñoz-Marín M, del C, Turk-Kubo KA. Unusual marine unicellular symbiosis with the nitrogen-fixing cyanobacterium UCYN-A. Nat Microbiol. 2016;2:1–11.
    Google Scholar 
    Worden AZ, Janouskovec J, McRose D, Engman A, Welsh RM, Malfatti S, et al. Global distribution of a wild alga revealed by targeted metagenomics. Curr Biol. 2012;22:R675–77.CAS 
    Article 

    Google Scholar 
    Altenburger A, Blossom HE, Garcia-Cuetos L, Jakobsen HH, Carstensen J, Lundholm N, et al. Dimorphism in cryptophytes—The case of Teleaulax amphioxeia/Plagioselmis prolonga and its ecological implications. Sci Adv. 2020;6:eabb1611.CAS 
    Article 

    Google Scholar 
    Kling JD, Lee MD, Fu F, Phan MD, Wang X, Qu P, et al. Transient exposure to novel high temperatures reshapes coastal phytoplankton communities. ISME J. 2020;14:413–24.CAS 
    Article 

    Google Scholar 
    Chassot E, Bonhommeau S, Dulvy NK, Mélin F, Watson R, Gascuel D, et al. Global marine primary production constrains fisheries catches. Ecol Lett. 2010;13:495–505.Article 

    Google Scholar 
    Gentry RR, Froehlich HE, Grimm D, Kareiva P, Parke M, Rust M, et al. Mapping the global potential for marine aquaculture. Nat Ecol Evol. 2017;1:1317–24.Article 

    Google Scholar 
    Benway HM, Lorenzoni L, White AE, Fiedler B, Levine NM, Nicholson DP, et al. Ocean time series observations of changing marine ecosystems: an era of integration, synthesis, and societal applications. Front Mar Sci. 2019;6:393.Article 

    Google Scholar 
    Rigosi A, Fleenor W, Rueda F. State-of-the-art and recent progress in phytoplankton succession modelling. Environ Rev. 2010;18:423–40.Article 

    Google Scholar 
    Daniels CJ, Poulton AJ, Esposito M, Paulsen ML, Bellerby R, St John M, et al. Phytoplankton dynamics in contrasting early stage North Atlantic spring blooms: composition, succession, and potential drivers. Biogeosciences. 2015;12:2395–409.Article 

    Google Scholar 
    Masuda Y, Yamanaka Y, Hirata T, Nakano H. Competition and community assemblage dynamics within a phytoplankton functional group: Simulation using an eddy-resolving model to disentangle deterministic and random effects. Ecol Model. 2017;343:1–14.Article 

    Google Scholar 
    Percopo I, Siano R, Cerino F, Sarno D, Zingone A. Phytoplankton diversity during the spring bloom in the northwestern Mediterranean Sea. Botanica Marina. 2011;54:243–67.Article 

    Google Scholar 
    Sun J, Liu D. Geometric models for calculating cell biovolume and surface area for phytoplankton. J Plankton Res. 2003;25:1331–46.Article 

    Google Scholar 
    Agawin N, Duarte C, Agustí S, Vaqué D. Effect of N:P ratios on response of Mediterranean picophytoplankton to experimental nutrient inputs. Aquat Microb Ecol. 2004;34:57–67.Article 

    Google Scholar 
    Bertilsson S, Berglund O, Karl DM, Chisholm SW. Elemental composition of marine Prochlorococcus and Synechococcus: Implications for the ecological stoichiometry of the sea. Limnology Oceanogr. 2003;48:1721–31.CAS 
    Article 

    Google Scholar 
    Tomas CR. Identifying Marine Phytoplankton. 1997. Elsevier.Harrison PJ, Zingone A, Mickelson MJ, Lehtinen S, Ramaiah N, Kraberg AC, et al. Cell volumes of marine phytoplankton from globally distributed coastal data sets. Estuarine, Coastal Shelf Sci. 2015;162:130–42.CAS 
    Article 

    Google Scholar 
    Guillou L, Chrétiennot-Dinet M-J, Medlin LK, Claustre H, Goër SL, Vaulot D. Bolidomonas: a new genus with two species belonging to a new algal class, the Bolidophyceae (Heterokonta). J Phycol. 1999;35:368–81.Article 

    Google Scholar  More

  • in

    Coupling reconstruction of atmospheric hydrological profile and dry-up risk prediction in a typical lake basin in arid area of China

    Coupling accuracy analysisPrecipitation simulation accuracyThe comparison between annual precipitation simulated by WRF-Hydro and measured precipitation is shown in the following Fig. 3a. From the Fig. 3a, we can get that the correlation between simulated precipitation and measured precipitation is 0.783, which is relatively high and the simulation is good. In addition, the simulated precipitation is less than the measured precipitation value in time. We guess that this error is caused by the precision and quality of precipitation products. WRF-Hydro can easily underestimate the duration of heavy rain when simulating precipitation, so the simulated precipitation is slightly smaller than the measured precipitation in long-term sequence, but the overall accuracy is good.Figure 3(a) Comparison between WRF-HYDRO simulation and measured annual precipitation in Daihai; (b) Comparison of runoff simulation and remote sensing estimation in Daihai Lake; (c) Modified runoff simulation and remote sensing estimation in Daihai Lake.Full size imageThe comparison between the simulated spatial distribution of annual precipitation and the verified products in the study area is shown in the Fig. 4. Generally speaking, the precipitation of interpolation products is slightly higher than the simulation value, which is consistent with the above analysis. In addition, the spatial distribution law of the two is consistent with each other, and the spatial variation law is basically the same. However, the transition of simulation results in areas with severe precipitation changes is relatively gentle, while the transition of interpolation products is more severe. The coverage of the maximum value in the simulation results is smaller than that of interpolation products. The guess is caused by the error of setting the precipitation boundary line. The boundary of interpolation products is China as a whole, and the boundary of simulation results is only Daihai Basin, which fundamentally determines that the precipitation simulation results will be slightly smaller than the interpolation products. Because the climate and hydrology mutual chamber is defined in the model setting from the surrounding grid points, the smaller the area causes some areas with mutual chamber cannot enter the boundary line, resulting in the precipitation simulation results less than the interpolation products. But in terms of the overall spatial differentiation law, the distribution of simulation results in interpolation products is not very different, which has good practical value.Figure 4Spatial comparison of WRF-HYDRO simulation and interpolation of annual precipitation in Daihai.Full size imageSimulation accuracy of runoff into LakeThe comparison between the WRF-Hydro simulation results and remote sensing estimation results of the runoff from Daihai Lake for many years is shown in the Fig. 3b. It can be seen from the figure that the correlation between simulation results and remote sensing estimation results is 0.629, which is better. But it is obvious that the simulation results are higher than those of remote sensing. The reason may be that the model does not set up the parameters of man-made water from the river entering the lake, including agricultural irrigation water and industrial water intake. So the simulation results are overestimated to the runoff into the lake. Therefore, the simulated runoff into the lake is modified in this study to reduce the water consumption ignored by the model.The comparison between the revised simulated runoff and remote sensing estimation is shown in the Fig. 3c. As can be seen from the figure, the correlation is increased to 0.650. Although not much improvement, the simulation results and remote sensing results are distributed evenly around the boundary.Analysis of coupling resultsPrecipitation analysisThe precipitation in Daihai Basin is relatively abundant. Except for some extreme drought years and humid years, the average annual precipitation is 300–600 mm (see Fig. 5a), and the average annual precipitation is about 400 mm. It can be seen from the figure that the minimum annual precipitation is less than 250 mm; The maximum annual diameter is higher than 750 mm. The difference between extreme dry year and extreme wet year is three times.Figure 5(a) Distribution curve of annual precipitation in Daihai Basin; (b) Distribution curve of annual mean monthly precipitation in Daihai Basin.Full size imageThe monthly average of precipitation in the Daihai Basin for many years is shown in the Fig. 5b. It can be seen from the figure that the precipitation in the Daihai Basin is unevenly distributed throughout the year, with the least in January at 1.73 mm and the most in July at 112.10 mm. The precipitation in July–August accounts for more than 50% of the total annual precipitation. In addition, it can be seen from the figure that the precipitation in the Daihai Basin is mainly concentrated in June to September, which is also the flood season in the Daihai Basin, accounting for more than 70% of the total annual precipitation.Combined with Table 3, overall, the average precipitation from 1980 to 1994 is 401.75 mm, with little fluctuation; During the period from 1995 to 2011, except for extreme precipitation in some years (more than 600 mm in both 1995 and 2003), the precipitation decrease, with an average value of 371.39 mm. There are several dry years and wet years, and the fluctuation range was sharp; From 2012 to 2020, the fluctuation range is small, and the average value rises to 451.75 mm.Table 3 Average precipitation (mm) in different periods in Dahai BasinFull size tableThe spatial distribution of annual precipitation in Daihai Basin is shown in the Fig. 6. It is obvious from the figure that the precipitation in 1990, 1995 and 2020 is abundant compared with other years. In addition, it is found that although the annual precipitation in Daihai Basin varies in size, its spatial distribution is basically the same.Figure 6Spatial distribution of annual precipitation in Daihai Basin.Full size imageThe spatial pattern of annual precipitation in Daihai Basin is as follows: the southeast of Liangcheng County and the north of Zuoyun County, the northwest of Liangcheng County and the northwest of Fengzhen county are the three precipitation centers, which gradually decrease outward. And the central effect of Fengzhen county is not obvious in some years. In addition, it is found that the area around Daihai Lake has the least precipitation in the whole Daihai Basin. This may be related to the terrain surrounding the Daihai Basin.In the whole study area, the annual precipitation in the north of Zuoyun County is larger than that in other regions. In some years, the annual precipitation reaches 800 mm, and the extension area is wide. In some years, it extends to the southeast of Liangcheng County. Therefore, it is speculated that mountain torrents, debris flows, rainstorms, snowstorms and other natural disasters are prone to occur here.In addition, combined with the topographic map, it is found that the southeast and northwest of Liangcheng County are the highest elevation in the study area, which coincides with the extreme precipitation. At the same time, it is found that the spatial consistency of precipitation distribution in the whole study area is higher than that of terrain distribution in the study area. Therefore, it is speculated that the precipitation in the study area is seriously affected by the terrain, in other words, the precipitation in the study area is mostly terrain rain or mountain convective rain.Runoff analysisThe Runoff Curve of Daihai Lake is shown in the Fig. 7a. It can be seen from the figure that the flow into the lake shows a downward trend from 1980 to 2020. Although it rebounded in 1996–1999 and 2005–2007, after 2010, the runoff into the lake decreased sharply below 8 × 106m3. From 1980 to 1990, the runoff into the lake decreased linearly with a larger slope and a faster speed; However, from 1990 to 2000, the runoff into the lake appeared the first vibration wave peak, and from 2000 to 2007, the second vibration wave peak. From 2008 to 2012, the decline rate was sharp, and the runoff into the lake had been reduced to 3.95 × 106m3 in 2012; Since 2013, the runoff into the lake tends to be flat, but it has not exceeded 10 × 106m3.Figure 7(a) Change of runoff in Daihai Lake over the years; (b) Changes of lake area in Daihai over the years; (c) Changes of lake water level in Daihai over the years; (d) Changes of volume water in Daihai Lake over the years.Full size imageThe change curve of Daihai Lake area is shown in the Fig. 7b. It can be seen from the figure that the area of Daihai Lake is declining in a straight line. In a short period of 40 years, the lake area has shrunk nearly 100 km2. In addition, we found that the shrinkage rate of Daihai Lake area slowed down from 1980 to 1985, but the lake area shrank sharply from 1995 to 2000. After 2005, the atrophy curve almost coincided with the fitting curve, and the overall fitting R2 was as high as 0.958.The water level variation curve of Daihai Lake is shown in the Fig. 7c. As can be seen from the figure, the variation trend of water level in Daihai Lake is very similar to that of lake area. However, the slope of lake water level change is less than the change rate of lake area. In the 40 years since 1975, the water level in Daihai has dropped by nearly 10 m. In addition, the water level rose slightly in 1995–1996 and 2003–2006. And after 2006, Daihai water level decline rate also accelerated. Since 2006, the water level of Daihai has dropped nearly 6 m, with a rate of 0.45 m/year.The trend of the volume water volume of the Daihai Lake is shown in the Fig. 7d. It can be clearly seen from the figure that the decline curve of the Daihai Lake water volume is close to a straight line, especially from 2005 to the present, the fitting degree is as high as 0.981. There should be some geometrical relationship among the lake area, water level and water volume, and this relationship should be related to the digital elevation model of the lake bottom. In addition, the changes of lake bottom topography are not linear, so there are still subtle differences between the three changes.The annual surface runoff of Daihai Basin is shown in the Fig. 8. It can be seen from the figure that the Gongba River, the Wuhao River, the Buliang River and the Tiancheng River in the south of Daihai Lake supply the Daihai Lake for a long time, and the Bantanzi River in the West also flows into the Dai sea in some years. Combined with the spatial distribution of annual precipitation, it can be concluded that surface runoff is seriously affected by precipitation. The annual distribution is uneven. The surface runoff from the southeast of Liangcheng County generally flows into Daihai Lake to the north, but in some drought years, it will be stopped and cannot flow into Daihai Lake. Bantanzi River in the west of Daihai Lake also supplies Daihai Lake in the year of more precipitation.Figure 8Spatial distribution of surface runoff in Daihai Basin.Full size imageTaking the surface runoff of Daihai Basin in January, April, July and October 2015 as an example, the distribution of surface runoff in different seasons of the year is analyzed, as shown in the Fig. 9. It can be seen from the figure that the rivers in Daihai Basin are seasonal rivers, which are prone to be cut off in autumn and winter. In winter (December–February), there will be different degrees of snowfall events in Daihai Basin, but due to the river freezing period and small snowfall, there will be no runoff. In spring (March to May), the precipitation in Daihai Basin began to increase, and the surface runoff also began to increase, mainly from the southeast and northwest of Liangcheng County. Gongba River, Wuhao River, buliang River, Tiancheng River and Bantanzi River in the south of Daihai Lake will supply Daihai Lake, but these rivers have small flow in spring, which is easy to break. Summer (June–August) is the main period of precipitation in Daihai Basin, and the surface runoff will also surge. In July 2015, the runoff in some areas reached 2000 mm, which was prone to flood disaster. The rivers in the west and south of Daihai Lake will supply it, but the runoff into Daihai Lake is not high, and most of the runoff is concentrated in the upper and middle reaches. In autumn (from September to November), the precipitation in Daihai Basin decreases. Before the freezing period, the precipitation may form runoff, but it is difficult to flow into Daihai Lake due to the small flow.Figure 9Spatial distribution of surface runoff in different seasons in Daihai Basin.Full size imageStatistical analysis of other factorsClimatic factors

    (1)

    Evaporation capacity

    The variation curve of annual evaporation in Daihai is shown in the Fig. 10a. It can be seen from the figure that although the evaporation in Daihai Basin fluctuates, it shows an upward trend, with an upward slope of 8.855 and R2 of 0.560. From 1980 to 1986, the annual evaporation fluctuated around 1000 mm; From 1987 to 1992, the annual evaporation of Daihai Basin decreased sharply, but from 1993 to 2000, the annual evaporation increased sharply with a very high rate of increase; But after 2000, the annual evaporation fluctuated and remained at 1250 mm.

    (2)

    Average temperature

    Figure 10Perennial (a) evaporation (b) annual average temperature (c) annual average wind speed change in Daihai Basin.Full size imageThe variation curve of annual average temperature in Daihai is shown in the Fig. 10b. It can be seen from the figure that the annual average temperature in Daihai Basin presents an obvious fluctuating upward trend, and the fitting upward slope is 0.040, R2 is 0.406. In addition, it can be observed that in a 10-year cycle, there will be two small fluctuations and one large fluctuation, and the fluctuation will rise.

    (3)

    Wind speed

    The curve of annual average wind speed in Daihai is shown in the Fig. 10c. It can be seen from the figure that the annual average wind speed of Daihai Basin presents a fluctuating downward trend, and the fitting downward slope is 0.036, R2 is 0.368. In addition, it can be observed that the annual average wind speed fluctuated with a mean line of 6.2 from 1980 to 1987; In 1988 and 1990, it dropped sharply with a large slope; From 1990 to 2003, the fluctuation decreased. From 2003 to 2011, the fluctuation was stable at 4.5, and rose sharply in 2012. So far, the fluctuation has been stable at 5.2.Human factors

    (1)

    Cultivated land area

    The change curve of cultivated land area in Daihai Basin is shown in the figure. It can be seen from the Fig. 11a that the annual average wind speed in Daihai Basin presents an upward trend, with the fitting rising rate of 0.017 and R2 of 0.970, almost in a straight line. In addition, it can be observed that from 1996 to 2005, the rising rate appeared a trough, that is, the rising rate first increased rapidly and then decreased. From 2000 to 2005, the rising rate was very slow and approached zero; But since 2006, it has returned to a straight-line rise.

    (2)

    Industrial water consumption

    Figure 11Perennial (a) cultivated land area (b) industrial water consumption (c) total population change curve in Daihai Basin.Full size imageThe change curve of industrial water consumption in Daihai Basin is shown in the Fig. 11b. It can be seen from the figure that the industrial water consumption of Daihai Basin presents an upward trend, and the fitting rising rate is 0.433, R2 is 0.794. In addition, it can be observed that from 1975 to 1993, the industrial water consumption of Daihai Basin was below 3 × 106m3; From 1994 to 2005, except for the decrease in 1998–2000, it has been on the rise, and the rising speed is fast, which has increased five times in ten years; Since 2005, the industrial water consumption in Daihai Basin has been stable at about 15 × 106m3.

    (3)

    Total population

    The change curve of total population in Daihai Basin is shown in the Fig. 11c. It can be seen from the figure that the total population of Daihai Basin presents an upward trend, and the fitting rising rate is 0.074, R2 is 0.864. In addition, it can be observed that the total population of Daihai Basin increased slowly from 1975 to 1985; From 1986 to 1990, the total population remained flat; It fluctuated from 1990 to 2000; Since 2000, the total population has risen sharply.Analysis of driving factors of hydrological informationIn this study, the average temperature, annual precipitation, annual evaporation, average wind speed in natural factors and cultivated land area, agricultural water consumption, industrial water consumption and population in human factors are considered as the influencing factors of runoff change in Daihai Lake. Therefore, the flow into the lake and the above elements constitute a variable sequence, and the correlation matrix is calculated. See the Table 4 for details.Table 4 Correlation matrix between lake inflow and influencing factors.Full size tableIt can be seen from the Table 4 that the cultivated land area has the highest correlation with the runoff into the lake, with a correlation of − 0.777, which is highly significant, followed by the wind speed, with a correlation of 0.690, which is highly significant; In addition, the total population, industrial water consumption, evaporation and average temperature were significantly correlated. Therefore, the discharge of Daihai Lake is influenced by both nature and human. It can be seen from the table that industrial water consumption, total population, cultivated land area, evaporation and annual average temperature have a negative impact on the flow into the lake, while wind speed has a positive impact.At the same time, the correlation between different factors can be obtained from the Table. For example, the correlation between industrial water consumption and population, cultivated land area and evaporation is as high as 0.8, which is highly significant; The correlation between population and cultivated land, cultivated land and wind speed and evaporation is also about 0.8, which is highly significant; In addition, the correlations between industrial water consumption and annual average temperature, population and annual average temperature, wind speed, evaporation, cultivated land, cultivated land and annual average temperature, evaporation and wind speed, wind speed and annual average temperature are all over 0.5.It can be clearly observed from the table that except for agricultural water consumption, precipitation and evaporation, the annual average temperature is significantly correlated with other factors, and the correlation is more than 0.5. The correlation between annual precipitation and other factors is small and not significant. Therefore, it can be determined that there is data redundancy between different elements. In order to eliminate the data redundancy and get the determinants of the discharge into the lake, the correlation analysis of the variable sequence is carried out, as shown in the table.It can be seen from the Table 5 that the cumulative variance of the first three principal components has reached 87.016%, and the eigenvalues of the first two principal components are greater than 1, which has met the standard. The variance contribution rate of the first principal component was 59.641%, and the order of load rate was cultivated land (0.967), industrial water (0.950), population (0.859), evaporation (0.856), wind speed (0.841), and the load rate was greater than 0.8; In the first principal component, the influence of human factors is greater than that of natural factors. In the second principal component, the variance contribution rate is 18.821%, in which the annual precipitation (− 0.875) and agricultural water consumption (0.736) have higher load rate, and the influence of natural factors is greater than that of human factors.Table 5 Component matrix of principal component analysis of different influencing factorsFull size tableFuture forecastAccording to the analysis in Sect. 3.4, we find that human factors have a huge impact on the lake inflow. In lake water balance, precipitation and evaporation are determined by climate. Now, the Inner Mongolian government has taken a series of measures to protect the Daihai Lake. Therefore, when we predict the future lake water volume, we consider two situations: (1) the future lake water volume in the natural state without any interference (protection or destruction) measures; (2) keeping the existing water volume unchanged future lake water volume in the case.Situation IFor the Situation I, we use two forecasting methods. Method I is to directly predict the future lake water volume by using the variation law of lake volume water volume with time. Method II is to use the lake water balance equation to estimate the change in lake water volume, and then estimate the future lake water volume. The results obtained by these two calculation methods are shown in the Table 6.Table 6 Future prediction of Daihai Lake in situation I.Full size tableWhen estimating the dry years of the Daihai Lake, the results obtained by using the time-varying laws of lake area, water volume and lake depth are inconsistent. Among them, the dry year of the Daihai Lake obtained by using the water volume is 2031, the lake area is 2047, and the water depth is 2096. The three are vastly different. The reason is the uncertainty of our modeling data. As Daihai Lake is a lake in an arid area, data is extremely scarce, and there is almost no continuous measurement of water level, depth, and water volume. The lake area is interpreted from remote sensing images and is an annual average, which results in neglect of inter-annual hydrological changes. Similarly, the water depth is also obtained by remote sensing. The resolution of the remote sensing image is 30 m. We use the interpolation method to control the accuracy to about 5 m. However, in the later stage of the prediction, when the lake depth is lower than 10 m, the results begin to become inaccurate. The modeling data of lake water volume were obtained from WRF-Hydro simulations, so the uncertainty of the data led to the inconsistency of the results. We choose the most recent year as the final result of method I, that is, the forecast result of water volume.From the Table 6, we can observe that the calculation results of the two methods are quite different. The reason is that in method I, we assume that the volume of water in the lake changes linearly, and there is only one variable; in method II, the number of variables increases and the uncertainty increases. However, the years when the Daihai Lake is predicted to dry up are basically the same. Method I predicts that the Daihai Lake will be depleted in 2031, and method II is 2033, which is not much different.Situation IIFor the situation II, we control the agricultural water consumption and industrial water consumption to remain unchanged, estimate the change of volume water at this time, and then estimate the future lake water volume. Among them, the change in water consumption is only evaporation, and the change in water replenishment is precipitation and runoff. The future lake inflow and lake water volume calculated by using the water balance equation are shown in the Table 7:Table 7 Future prediction of Daihai Lake in situation II.Full size tableFrom the Table 7, we can see that under human control, although the of lake inflow will continue to decline compared with no measures, the rate of decline will be significantly slower. And the lake inflow will drop to 0 in 2060. Similarly, the water volume in the Daihai Lake will decline. But the rate is significantly slower compared with situation I. And the water volume will drop to 0 in 2140, nearly 110 years later than 2032–3033 without any control. This shows that man-made protection of the Daihai Lake is extremely important. More

  • in

    Human forager response to abrupt climate change at 8.2 ka on the Atlantic coast of Europe

    Carleton, C. & Collard, M. Recent major themes and research areas in the study of human-environmental interaction in prehistory. Environ. Archaeol. 25, 114–130 (2020).Article 

    Google Scholar 
    deMenocal, P. B. Climate and human evolution. Science 331, 540–542 (2011).ADS 
    CAS 
    Article 

    Google Scholar 
    Potts, R. Evolution and environmental change in early human prehistory. Annu. Rev. Anthropol. 41, 151–167 (2012).Article 

    Google Scholar 
    Mayewski, P. A. et al. Holocene climate variability. Quatern. Res. 62, 243–255 (2004).ADS 
    Article 

    Google Scholar 
    Rohling, E. J. & Pälike, H. Centennial-scale climate cooling with a sudden cold event around 8,200 years ago. Nature 434, 975 (2005).ADS 
    CAS 
    Article 

    Google Scholar 
    Thomas, E. R. et al. The 8.2ka event from Greenland ice cores. Quat. Sci. Rev. 26, 70–81 (2007).ADS 
    Article 

    Google Scholar 
    Lewis, C. F. M., Miller, A. A. L., Levac, E., Piper, D. J. W. & Sonnichsen, G. V. Lake agassiz outburst age and routing by labrador current and the 82 cal ka cold event. Quat. Int. 260, 83–97 (2012).Article 

    Google Scholar 
    Mary, Y. et al. Changes in Holocene meridional circulation and poleward Atlantic flow: The Bay of Biscay as a nodal point. Clim. Past 13, 201–216 (2017).Article 

    Google Scholar 
    Prasad, S. et al. The 8.2 ka event: Evidence for seasonal differences and the rate of climate change in western Europe. Glob. Planet. Change 67, 218–226 (2009).ADS 
    Article 

    Google Scholar 
    Seppä, H. et al. Spatial structure of the 8200 cal yr BP event in Northern Europe. Clim. Past Discuss. 3, 165–195 (2007).ADS 

    Google Scholar 
    Alley, R. B. & Ágústsdóttir, A. M. The 8k event: Cause and consequences of a major Holocene abrupt climate change. Quatern. Sci. Rev. 24, 1123–1149 (2005).ADS 
    Article 

    Google Scholar 
    Morrill, C. & Jacobsen, R. M. How widespread were climate anomalies 8200 years ago?. Geophys. Res. Lett. 32, 2 (2005).Article 

    Google Scholar 
    Dixit, Y., Hodell, D. A., Sinha, R. & Petrie, C. A. Abrupt weakening of the Indian summer monsoon at 8.2 kyr B.P. Earth Planet. Sci. Lett. 391, 16–23 (2014).ADS 
    CAS 
    Article 

    Google Scholar 
    Bustamante, M. G. et al. Holocene changes in monsoon precipitation in the Andes of NE Peru based on δ18O speleothem records. Quatern. Sci. Rev. 146, 274–287 (2016).ADS 
    Article 

    Google Scholar 
    Roffet-Salque, M. et al. Evidence for the impact of the 8.2-kyBP climate event on Near Eastern early farmers. Proc. Natl. Acad. Sci. 115, 8705–8709 (2018).ADS 
    CAS 
    Article 

    Google Scholar 
    Wicks, K. & Mithen, S. The impact of the abrupt 8.2 ka cold event on the Mesolithic population of western Scotland: A Bayesian chronological analysis using ‘activity events’ as a population proxy. J. Archaeol. Sci. 45, 240–269 (2014).Article 

    Google Scholar 
    van der Plicht, J., Akkermans, P. M. M. G., Nieuwenhuyse, O., Kaneda, A. & Russell, A. Tell Sabi Abyad, Syria: Radiocarbon chronology, cultural change, and the 8.2 ka event. Radiocarbon 53, 229–243 (2011).Article 

    Google Scholar 
    Vermeersch, P. M. et al. Early and middle holocene human occupation of the Egyptian Eastern desert: Sodmein cave. Afr. Archaeol. Rev. 32, 465–503 (2015).Article 

    Google Scholar 
    Gutiérrez-Zugasti, I. et al. Shell midden research in Atlantic Europe: State of the art, research problems and perspectives for the future. Quatern. Int. 239, 70–85 (2011).Article 

    Google Scholar 
    Bicho, N., Umbelino, C., Detry, C. & Pereira, T. The emergence of Muge Mesolithic shell middens in central Portugal and the 8200 cal yr BP cold event. J. Island Coast. Archaeol. 5, 86–104 (2010).Article 

    Google Scholar 
    Mannino, M. A., Spiro, B. F. & Thomas, K. D. Sampling shells for seasonality: oxygen isotope analysis on shell carbonates of the inter-tidal gastropod Monodonta lineata (da Costa) from populations across its modern range and from a Mesolithic site in southern Britain. J. Archaeol. Sci. 30, 667–679 (2003).Article 

    Google Scholar 
    García-Escárzaga, A. et al. Stable oxygen isotope analysis of Phorcus lineatus (da Costa, 1778) as a proxy for foraging seasonality during the Mesolithic in northern Iberia. Archaeol. Anthropol. Sci. 11, 5631–5644 (2019).Article 

    Google Scholar 
    Crisp, D. The effects of the severe winter of 1962–63 on marine life in Britain. J. Anim. Ecol. 33, 165–210 (1964).Article 

    Google Scholar 
    Mieszkowska, N., Hawkins, S., Burrows, M. & Kendall, M. Long-term changes in the geographic distribution and population structures of Osilinus lineatus (Gastropoda: Trochidae) in Britain and Ireland. J. Mar. Biol. Assoc. U.K. 87, 537–545 (2007).Article 

    Google Scholar 
    Hawkins, S. J. et al. Complex interactions in a rapidly changing world: Responses of rocky shore communities to recent climate change. Clim. Res. 37, 123–133 (2008).Article 

    Google Scholar 
    Gutiérrez-Zugasti I, Cuenca-Solana D. Biostratigraphy of shells and climate changes in the Cantabrian region (northern Spain) during the Pleistocene-Holocene transition. In: Archaeomalacology Shells in the Arcaheological Record. British Archaeological Reports International Series 2666 (eds Szabó K, Dupont C, Dimitrijevic V, Gómez-Castélum L, Serrand N). Archaeopress (2014).Thomas, K. D. Molluscs emergent, Part I: Themes and trends in the scientific investigation of mollusc shells as resources for archaeological research. J. Archaeol. Sci. 56, 133–140 (2015).Article 

    Google Scholar 
    García-Escárzaga, A. et al. Bayesian estimates of marine radiocarbon reservoir effect in northern Iberia during Early and Middle Holocene. Quatern. Geochronol. 67, 101232 (2022).Article 

    Google Scholar 
    Andrus, C. F. T. Shell midden sclerochronology. Quatern. Sci. Rev. 30, 2892–2905 (2011).ADS 
    Article 

    Google Scholar 
    Wang, T., Surge, D. & Mithen, S. Seasonal temperature variability of the Neoglacial (3300–2500 BP) and Roman Warm Period (2500–1600 BP) reconstructed from oxygen isotope ratios of limpet shells (Patella vulgata), Northwest Scotland. Palaeogeogr. Palaeoclimatol. Palaeoecol. 317–318, 104–113 (2012).Article 

    Google Scholar 
    Gutiérrez-Zugasti, I., García-Escárzaga, A., Martín-Chivelet, J. & González-Morales, M. R. Determination of sea surface temperatures using oxygen isotope ratios from Phorcus lineatus (Da Costa, 1778) in northern Spain: Implications for paleoclimate and archaeological studies. Holocene 25, 1002–1014 (2015).ADS 
    Article 

    Google Scholar 
    García-Escárzaga, A. et al. Growth patterns of the topshell Phorcus lineatus (da Costa, 1778) in northern Iberia deduced from shell sclerochronology. Chem. Geol. 526, 49–61 (2019).ADS 
    Article 

    Google Scholar 
    Bronk, R. C. Bayesian analysis of radiocarbon dates. Radiocarbon 51, 337–360 (2009).Article 

    Google Scholar 
    Bronk, R. C. Dealing with outliers and offsets in radiocarbon dating. Radiocarbon 51, 1023–1045 (2009).Article 

    Google Scholar 
    Reimer, P. J. et al. The IntCal20 northern hemisphere radiocarbon age calibration curve (0–55 cal kBP). Radiocarbon 62, 725–757 (2020).CAS 
    Article 

    Google Scholar 
    Heaton, T. J. et al. Marine20-the marine radiocarbon age calibration curve (0–55,000 cal BP). Radiocarbon 62, 779–820 (2020).CAS 
    Article 

    Google Scholar 
    Bailey, G. N. & Craighead, A. S. Late Pleistocene and Holocene coastal paleoeconomies: A reconsideration of the molluscan evidence from Northern Spain. Geoarchaeol. Int. J. 18, 175–204 (2003).Article 

    Google Scholar 
    Nuñez S. Dinámicas socio-ecológicas, resiliencia y vulnerabilidad en un paisaje atlántico montañoso: la región cantábrica durante el Holoceno. Unpublished PhD dissertation, Universidad de Cantabria (2018).Rasmussen, S. O. et al. A new Greenland ice core chronology for the last glacial termination. J. Geophys. Res. Atmos. 111, D06102 (2006).ADS 
    Article 

    Google Scholar 
    Ellison, C. R., Chapman, M. R. & Hall, I. R. Surface and deep ocean interactions during the cold climate event 8200 years ago. Science 312, 1929–1932 (2006).ADS 
    CAS 
    Article 

    Google Scholar 
    LeGrande, A. et al. Consistent simulations of multiple proxy responses to an abrupt climate change event. Proc. Natl. Acad. Sci. U.S.A. 103, 837–842 (2006).ADS 
    CAS 
    Article 

    Google Scholar 
    Domínguez-Villar, D. et al. Oxygen isotope precipitation anomaly in the North Atlantic region during the 8.2 ka event. Geology 37, 1095–1098 (2009).ADS 
    Article 

    Google Scholar 
    Lorenz, S. J., Kim, J.-H., Rimbu, N., Schneider, R. R. & Lohmann, G. Orbitally driven insolation forcing on Holocene climate trends: Evidence from alkenone data and climate modeling. Paleoceanography 21, 2 (2006).Article 

    Google Scholar 
    Gutiérrez-Zugasti, I. Coastal resource intensification across the Pleistocene-Holocene transition in Northern Spain: Evidence from shell size and age distributions of marine gastropods. Quatern. Int. 244, 54–66 (2011).Article 

    Google Scholar 
    Marín-Arroyo, A. B. Human response to Holocene warming on the Cantabrian Coast (northern Spain): An unexpected outcome. Quatern. Sci. Rev. 81, 1–11 (2013).ADS 
    Article 

    Google Scholar 
    Muñoz-Sobrino, C., Ramil-Rego, P., Gómez-Orellana, L. & Díaz Varela, R. A. Palynological data on major Holocene climatic events in NW Iberia. Boreas 34, 381–400 (2005).Article 

    Google Scholar 
    Moreno, A. et al. Revealing the last 13,500 years of environmental history from the multiproxy record of a mountain lake (Lago Enol, northern Iberian Peninsula). J. Paleolimnol. 46, 327–349 (2011).ADS 
    Article 

    Google Scholar 
    Smith, A. C. et al. North Atlantic forcing of moisture delivery to Europe throughout the Holocene. Sci. Rep. 6, 24745 (2016).ADS 
    CAS 
    Article 

    Google Scholar 
    Rossi, C., Bajo, P., Lozano, R. P. & Hellstrom, J. Younger Dryas to Early Holocene paleoclimate in Cantabria (N Spain): Constraints from speleothem Mg, annual fluorescence banding and stable isotope records. Quatern. Sci. Rev. 192, 71–85 (2018).ADS 
    Article 

    Google Scholar 
    Hald, M. et al. Variations in temperature and extent of Atlantic Water in the northern North Atlantic during the Holocene. Quatern. Sci. Rev. 26, 3423–3440 (2007).ADS 
    Article 

    Google Scholar 
    Matero, I. S. O., Gregoire, L. J., Ivanovic, R. F., Tindall, J. C. & Haywood, A. M. The 8.2 ka cooling event caused by Laurentide ice saddle collapse. Earth Planet. Sci. Lett. 473, 205–214 (2017).ADS 
    Article 

    Google Scholar 
    Griffiths, S. & Robinson, E. The 8.2 ka BP Holocene climate change event and human population resilience in northwest Atlantic Europe. Quatern. Int. 465, 251–257 (2018).Article 

    Google Scholar 
    Alday, A. et al. The silence of the layers: Archaeological site visibility in the Pleistocene-Holocene transition at the Ebro Basin. Quatern. Sci. Rev. 184, 85–106 (2018).ADS 
    Article 

    Google Scholar 
    González-Sampériz, P. et al. Patterns of human occupation during the early Holocene in the Central Ebro Basin (NE Spain) in response to the 8.2 ka climatic event. Quatern. Res. 71, 121–132 (2009).ADS 
    Article 

    Google Scholar 
    García-Martínez de Lagrán, I. et al. 8.2 ka BP paleoclimatic event and the Ebro Valley Mesolithic groups: Preliminary data from Artusia rock shelter (Unzué, Navarra, Spain). Quatern. Int. 403, 151–173 (2016).Article 

    Google Scholar 
    Neira Campos, A., Fuertes Prieto, N. & Herrero, A. D. The Mesolithic with geometrics south of the ‘Picos de Europa’ (Northern Iberian Peninsula): The main characteristics of the lithic industry and raw material procurement. Quatern. Int. 402, 90–99 (2016).Article 

    Google Scholar 
    Vidal-Encinas, J. M. & Prada-Marcos, M. E. Los hombres mesolíticos de la cueva de La Braña-Arintero (Valdelugueros, León). Jutan de Castillo y León (2010).Jones, J. R., Marín-Arroyo, A. B., Straus, L. G. & Richards, M. P. Adaptability, resilience and environmental buffering in European Refugia during the Late Pleistocene: Insights from La Riera Cave (Asturias, Cantabria, Spain). Sci. Rep. 10, 1217 (2020).ADS 
    CAS 
    Article 

    Google Scholar 
    Arias Cabal, P. & Fano Martínez, M. Á. Mesolítico Geométrico o Mesolítico con geométricos? El caso de la región Cantábrica. In El Mesolítico Geométrico en la Península Ibérica (eds Utrilla, P. & Montes, L.) (Universidad de Zaragoza, 2009).
    Google Scholar 
    Fuertes-Prieto N, Risseto J, Gutiérrez-Zugasti I, Cuenca-Solana D, González-Morales MR. New perspectives on Mesolithic technology in northern Iberia: data from El Mazo shell midden site (Asturias, Spain). In: Foraging Assemblages: Papers Presented at the Ninth International Conference on the Mesolithic in Europe, Belgrade 2015 (eds Boric D, Antonovic D, Mihailovic B) (2020).Fernández-López de Pablo, J. et al. Palaeodemographic modelling supports a population bottleneck during the Pleistocene-Holocene transition in Iberia. Nat. Commun. 10, 1872 (2019).ADS 
    Article 

    Google Scholar 
    McLaughlin, T. R., Gómez-Puche, M., Cascalheira, J., Bicho, N. & Fernández-López de Pablo, J. Late glacial and early Holocene human demographic responses to climatic and environmental change in Atlantic Iberia. Philos. Trans. R. Soc. B 376, 20190724 (2020).Article 

    Google Scholar 
    Crowther, A. et al. Coastal subsistence, maritime trade, and the colonization of small offshore islands in eastern African prehistory. J. Island Coast. Archaeol. 11, 211–237 (2016).Article 

    Google Scholar 
    King, C. L. et al. Marine resource reliance in the human populations of the Atacama Desert, northern Chile—A view from prehistory. Quatern. Sci. Rev. 182, 163–174 (2018).ADS 
    Article 

    Google Scholar 
    Caesar, L., Rahmstorf, S., Robinson, A., Feulner, G. & Saba, V. Observed fingerprint of a weakening Atlantic Ocean overturning circulation. Nature 556, 191 (2018).ADS 
    CAS 
    Article 

    Google Scholar 
    Kim, S. T., O’Neil, J. R., Hillaire-Marcel, C. & Mucci, A. Oxygen isotope fractionation between synthetic aragonite and water: Influence of temperature and Mg2+ concentration. Geochim. Cosmochim. Acta 71, 4704–4715 (2007).ADS 
    CAS 
    Article 

    Google Scholar 
    Fairbanks, R. G. A 17.000-year glacio-eustatic sea lever record: influence of glacial melting rates on the Younger Dryas event and deep-ocean circulation. Nature 342, 637–642 (1989).ADS 
    Article 

    Google Scholar 
    Leorri, E., Cearreta, A. & Milne, G. Field observations and modelling of Holocene sea-level changes in the southern Bay of Biscay: Implication for understanding current rates of relative sea-level change and vertical land motion along the Atlantic coast of SW Europe. Quatern. Sci. Rev. 42, 59–73 (2012).ADS 
    Article 

    Google Scholar 
    Hoffman, J. S. et al. Linking the 8.2 ka event and its freshwater forcing in the Labrador Sea. Geophys. Res. Lett. 39, 2 (2012).Article 

    Google Scholar 
    Gutiérrez-Zugasti, I. Shell fragmentation as a tool for quantification and identification of taphonomic processes in archaeomalacogical analysis: The case of the Cantabrian Region (Northern Spain). Archaeometry 53, 614–630 (2011).Article 

    Google Scholar 
    Gutiérrez, Z. I. La explotación de moluscos y otros recursos litorales en la región cantábrica durante el Pleistoceno final y el Holoceno inicial (Publican, 2009).
    Google Scholar 
    Harris, M., Weisler, M. & Faulkner, P. A refined protocol for calculating MNI in archaeological molluscan shell assemblages: A Marshall Islands case study. J. Archaeol. Sci. 57, 168–179 (2015).Article 

    Google Scholar  More

  • in

    We could still limit global warming to just 2˚C — but there's an 'if'

    Vote for our episode What’s the isiZulu for dinosaur? to win a People’s Voice Award in this year’s Webbys

    Listen to the latest from the world of science, with Benjamin Thompson, Nick Petrić Howe and Shamini Bundell.

    Your browser does not support the audio element.

    Download MP3

    In this episode:00:46 What COP26 promises will do for climateAt COP26 countries made a host of promises and commitments to tackle global warming. Now, a new analysis suggests these pledges could limit warming to below 2˚C – if countries stick to them.BBC News: Climate change: COP26 promises will hold warming under 2C03:48 Efficiency boost for energy storage solutionStoring excess energy is a key obstacle preventing wider adoption of renewable power. One potential solution has been to store this energy as heat before converting it back into electricity, but to date this process has been inefficient. Last week, a team reported the development of a new type of ‘photothermovoltaic’ that increases the efficiency of converting stored heat back into electricity, potentially making the process economically viable.Science: ‘Thermal batteries’ could efficiently store wind and solar power in a renewable grid07:56 Leeches’ lunches help ecologists count wildlifeBlood ingested by leeches may be a way to track wildlife, suggests new research. Using DNA from the blood, researchers were able to detect 86 different species in China’s Ailaoshan Nature Reserve. Their results also suggest that biodiversity was highest in the high-altitude interior of the reserve, suggesting that human activity had pushed wildlife away from other areas.ScienceNews: Leeches expose wildlife’s whereabouts and may aid conservation efforts11:05 How communication evolved in underground cave fishResearch has revealed that Mexican tetra fish are very chatty, and capable of making six distinct sounds. They also showed that fish populations living in underground caves in north-eastern Mexico have distinct accents.New Scientist: Blind Mexican cave fish are developing cave-specific accents14:36 Declassified data hints at interstellar meteorite strikeIn 2014 a meteorite hit the Earth’s atmosphere that may have come from far outside the solar system, making it the first interstellar object to be detected. However, as some of the data needed to confirm this was classified by the US Government, the study was never published. Now the United States Space Command have confirmed the researchers’ findings, although the work has yet to be peer reviewed.LiveScience: An interstellar object exploded over Earth in 2014, declassified government data revealVice: Secret Government Info Confirms First Known Interstellar Object on Earth, Scientists SaySubscribe to Nature Briefing, an unmissable daily round-up of science news, opinion and analysis free in your inbox every weekday.Never miss an episode: Subscribe to the Nature Podcast on Apple Podcasts, Google Podcasts, Spotify or your favourite podcast app. Head here for the Nature Podcast RSS feed. More