Philippa Kaur

Andrade, G. S. & Rhodes, J. R. Protected areas and local communities: an inevitable partnership toward successful conservation strategies? Ecol. Soc. 17, 14–23 (2012).Article 

Google Scholar 
UNHCR. United Nations High Commissioner for Refugees. The Sustainable Development Goals and Addressing Statelessness (2017). https://www.refworld.org/docid/58b6e3364.html [accessed 16 April 2021]Ngorima, A., Brown, A., Masunungure, C. & Biggs, D. Local community benefits from elephants: Can willingness to support anti-poaching efforts be strengthened? Conserv. Sci. Pract. 2, e303 (2020).
Google Scholar 
Ripple, W. J. et al. Status and ecological effects of the world’s largest carnivores. Science 343, 1241484 (2014).O’Bryan, C. J. et al. The contribution of predators and scavengers to human well-being. Nat. Ecol. Evol. 2, 229–236 (2018).Article 
PubMed 

Google Scholar 
Levi, T. et al. Community ecology and conservation of bear-salmon ecosystems. Front. Ecol. Evol. 8, 433 (2020).Article 

Google Scholar 
Raynor, J. L., Grainger, C. A. & Parker, D. P. Wolves make roadways safer, generating large economic returns to predator conservation. Proc. Natl Acad. Sci. U.S.A. 118, e2023251118 (2021).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Tortato, F. R., Izzo, T. J., Hoogesteijn, R. & Peres, C. A. The numbers of the beast: Valuation of jaguar (Panthera onca) tourism and cattle depredation in the Brazilian Pantanal. Glob. Ecol. Conserv. 11, 106–114 (2017).Article 

Google Scholar 
Jacobsen, K. S. et al. What is a lion worth to local people—quantifying of the costs of living alongside a top predator. Ecol. Econ. 198, 107431 (2022).Article 

Google Scholar 
Thirgood, S., Woodroffe, R. & Rabinowitz, A. The impact of human-wildlife conflict on human lives and livelihoods. Conserv. Biol. Ser. 9, 13 (2005).
Google Scholar 
Mackenzie, C. A. & Ahabyona, P. Elephants in the garden: financial and social costs of crop raiding. Ecol. Econ. 75, 72–82 (2012).Article 

Google Scholar 
Anaya, F. C. & Espírito-Santo, M. M. Protected areas and territorial exclusion of traditional communities. Ecol. Soc. 23 (2018).Nsukwini, S. & Bob, U. Protected areas, community costs and benefits: a comparative study of selected conservation case studies from northern KwaZulu-Natal, South Africa. GeoJ. Tour. Geosites 27, 1377–1391 (2019).Article 

Google Scholar 
Heydinger, J. M., Packer, C. & Tsaneb, J. Desert-adapted lions on communal land: surveying the costs incurred by, and perspectives of, communal-area livestock owners in northwest Namibia. Biol. Conserv. 236, 496–504 (2019).Article 

Google Scholar 
Dickman, A. J., Macdonald, E. A. & Macdonald, D. W. A review of financial instruments to pay for predator conservation and encourage human–carnivore coexistence. Proc. Natl Acad. Sci. U.S.A. 108, 13937–13944 (2011).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Wang, S. W. & Macdonald, D. W. Livestock predation by carnivores in Jigme Singye Wangchuck National Park, Bhutan. Biol. Conserv. 129, 558–565 (2006).Article 

Google Scholar 
Holmern, T., Nyahongo, J. & Røskaft, E. Livestock loss caused by predators outside the Serengeti National Park, Tanzania. Biol. Conserv. 135, 518–526 (2007).Article 

Google Scholar 
Thornton, P. K. et al. Locating poor livestock keepers at the global level for research and development targeting. Land Use Policy 20, 311–322 (2003).Article 

Google Scholar 
McDermott, J. J., Staal, S. J., Freeman, H. A., Herrero, M. & Van de Steeg, J. A. Sustaining intensification of smallholder livestock systems in the tropics. Livest. Sci. 130, 95–109 (2010).Article 

Google Scholar 
Dyson-Hudson, N. & Dyson-Hudson, R. The structure of East African herds and the future of East African herders. Dev. Change 13, 213–238 (1982).Article 

Google Scholar 
Herrero, M. et al. Greenhouse gas mitigation potentials in the livestock sector. Nat. Clim. Change 6, 452–461 (2016).Article 

Google Scholar 
Kgathi, D. L., Ngwenya, B. N. & Wilk, J. Shocks and rural livelihoods in the Okavango Delta, Botswana. Dev. South. Afr. 24, 289–308 (2007).Article 

Google Scholar 
Letta, M., Montalbano, P. & Tol, R. S. Temperature shocks, short-term growth and poverty thresholds: evidence from rural Tanzania. World Dev. 112, 13–32 (2018).Article 

Google Scholar 
Cottrell, R. S. et al. Food production shocks across land and sea. Nat. Sustain. 2, 130–137 (2019).Article 

Google Scholar 
Li, J. et al. Role of Tibetan Buddhist monasteries in snow leopard conservation. Conserv. Biol. 28, 87–94 (2014).Article 
PubMed 

Google Scholar 
Bhatia, S., Redpath, S. M., Suryawanshi, K. & Mishra, C. The relationship between religion and attitudes toward large carnivores in northern India? Hum. Dimens. Wildl. 22, 30–42 (2017).Article 

Google Scholar 
Gebresenbet, F., Baraki, B., Yirga, G., Sillero-Zubiri, C. & Bauer, H. A culture of tolerance: coexisting with large carnivores in the Kafa Highlands, Ethiopia. Oryx 52, 751–760 (2018).Article 

Google Scholar 
Cardillo, M. et al. Human population density and extinction risk in the world’s carnivores. PLoS Biol. 2, e197 (2004).Article 
PubMed 
PubMed Central 

Google Scholar 
Hazzah, L., Mulder, M. B. & Frank, L. Lions and warriors: social factors underlying declining African lion populations and the effect of incentive-based management in Kenya. Biol. Conserv. 142, 2428–2437 (2009).Article 

Google Scholar 
Plaza, P. I., Martínez-López, E. & Lambertucci, S. A. The perfect threat: pesticides and vultures. Sci. Total Environ. 687, 1207–1218 (2019).Article 
CAS 
PubMed 

Google Scholar 
Mateo-Tomás, P. & López-Bao, J. V. Poisoning poached megafauna can boost trade in African vultures. Biol. Conserv. 241, 108389 (2020).Article 

Google Scholar 
Tumenta, P. N. et al. Threat of rapid extermination of the lion (Panthera leo leo) in Waza National Park, Northern Cameroon. Afr. J. Ecol. 48, 888–894 (2010).Article 

Google Scholar 
Braczkowski, A. et al. Detecting early warnings of pressure on an African lion (Panthera leo) population in the Queen Elizabeth Conservation Area, Uganda. Ecol. Solut. Evid. 1, e12015 (2020b).Article 

Google Scholar 
Ickes, K. Hyper-abundance of Native Wild Pigs (Sus scrofa) in a Lowland Dipterocarp Rain Forest of Peninsular Malaysia 1. Biotropica 33, 682–690 (2001).Article 

Google Scholar 
Ripple, W. J. et al. Widespread mesopredator effects after wolf extirpation. Biol. Conserv. 160, 70–79 (2013).Article 

Google Scholar 
Ripple, W. J. & Beschta, R. L. Linking a cougar decline, trophic cascade, and catastrophic regime shift in Zion National Park. Biol. Conserv. 133, 397–408 (2006).Article 

Google Scholar 
Ripple, W. J. & Beschta, R. L. Trophic cascades involving cougar, mule deer, and black oaks in Yosemite National Park. Biol. Conserv. 141, 1249–1256 (2008).Article 

Google Scholar 
Gilbert, S. L. et al. Socioeconomic benefits of large carnivore recolonization through reduced wildlife-vehicle collisions. Conserv. Lett. 10, 431–439 (2017).Article 

Google Scholar 
ILRI. Rangelands Atlas. (ILRI, IUCN, FAO, WWF, UNEP and ILC, 2021). Nairobi Kenya: ILRI.Williams, D. R. et al. Proactive conservation to prevent habitat losses to agricultural expansion. Nat. Sustain. 4, 314–322 (2021).Article 

Google Scholar 
McManus, J. S. et al. Dead or alive? Comparing costs and benefits of lethal and non-lethal human-wildlife conflict mitigation on livestock farms. Oryx 49, 687–695 (2015).Article 

Google Scholar 
Broekhuis, F. et al. Identification of human-carnivore conflict hotspots to prioritize mitigation efforts. Ecol. Evol. 7, 10630–10639 (2017).Article 
PubMed 
PubMed Central 

Google Scholar 
Lozano, J. et al. Human-carnivore relations: a systematic review. Biol. Conserv. 237, 480–492 (2019).Article 

Google Scholar 
Khorozyan, I. & Waltert, M. A global view on evidence-based effectiveness of interventions used to protect livestock from wild cats. Conserv. Sci. Pract. 3, e317 (2021).
Google Scholar 
Di Minin, E., Slotow, R., Fink, C., Bauer, H. & Packer, C. A pan-African spatial assessment of human conflicts with lions and elephants. Nat. Commun. 12, 1–10 (2021).Article 

Google Scholar 
Lybbert, T. J. et al. Stochastic wealth dynamics and risk management among a poor population. Econ. J. 114, 750–777 (2004).Article 

Google Scholar 
Otte, M. J. & Chilonda, P. Cattle and Small Ruminant Production Systems in Sub-Saharan. Africa – Systematic Rev. (FAO, Rome, Italy, 2002).
Google Scholar 
Maystadt, J. F. & Ecker, O. Extreme weather and civil war: Does drought fuel conflict in Somalia through livestock price shocks? Am. J. Agric. Econ. 96, 1157–1182 (2014).Article 

Google Scholar 
Galvin, K. A. Transitions: pastoralists living with change. Annu. Rev. Anthropol. 38, 185–198 (2009).Article 

Google Scholar 
Stavi, I. et al. Food security among dryland pastoralists and agropastoralists: The climate, land-use change, and population dynamics nexus. Anthropocene Rev. (2021). 20530196211007512.Ogra, M. V. Human–wildlife conflict and gender in protected area borderlands: a case study of costs, perceptions, and vulnerabilities from Uttarakhand (Uttaranchal), India. Geoforum 39, 1408–1422 (2008).Article 

Google Scholar 
Botreau, H., & Cohen, M. J. Gender Inequalities and Food Insecurity: Ten Years After The Food Price Crisis, Why Are Women Farmers Still Food-Insecure? Oxfam:Oxford, UK (2019).Salerno, J. et al. Wildlife impacts and changing climate pose compounding threats to human food security. Curr. Biol. 31, 5077–5085 (2021).Article 
CAS 
PubMed 

Google Scholar 
Prado, E. L. & Dewey, K. G. Nutrition and brain development in early life. Nutr. Rev. 72, 267–284 (2014).Article 
PubMed 

Google Scholar 
Madhusudan, M. D. The global village: linkages between international coffee markets and grazing by livestock in a south Indian wildlife reserve. Conserv. Biol. 19, 411–420 (2005).Article 

Google Scholar 
Margulies, J. D. & Karanth, K. K. The production of human-wildlife conflict: A political animal geography of encounter. Geoforum 95, 153–164 (2018).Article 

Google Scholar 
Simoons, F. J., Simoons, F. I. & Lodrick, D. O. Background to understanding the cattle situation of India: The sacred cow concept in Hindu religion and folk culture. Zeitschrift Für Ethnologie 106, 121–137 (1981).Good, C., Burnham, D. & Macdonald, D. W. A cultural conscience for conservation. Animals 7, 52 (2017).Article 
PubMed 
PubMed Central 

Google Scholar 
Courchamp, F. et al. The paradoxical extinction of the most charismatic animals. PLoS Biol. 16, e2003997 (2018).Article 
PubMed 
PubMed Central 

Google Scholar 
Bond, J. & Mkutu, K. Exploring the hidden costs of human–wildlife conflict in northern Kenya. Afr. Stud. Rev. 61, 33–54 (2018).Article 

Google Scholar 
Di Minin, E., Leader-Williams, N. & Bradshaw, C. J. Banning trophy hunting will exacerbate biodiversity loss. Trends Ecol. Evol. 31, 99–102 (2016).Article 
PubMed 

Google Scholar 
Dickman, A. et al. Trophy hunting bans imperil biodiversity. Science 365, 874–874 (2019).Article 
PubMed 

Google Scholar 
Bruskotter, J. T., Vucetich, J. A., Gilbert, S. L., Carter, N. H. & George, K. A. Tragic trade‐offs accompany carnivore coexistence in the modern world. Conserv. Lett. 15, e412841 (2022).Dempsey, J. et al. Biodiversity targets will not be met without debt and tax justice. Nat. Ecol. Evol. 6, 237–239 (2022).Hallegatte, S. & Rozenberg, J. Climate change through a poverty lens. Nat. Clim. Change 7, 250–256 (2017).Article 

Google Scholar 
Islam, S. N., and Winkel, J. Climate change and social inequality. DESA Working Paper No. 152. New York, NY: United Nations Department of Economic & Social Affairs (2017).Platteau, J. P. Monitoring elite capture in community-driven development. Dev. Change 35, 223–246 (2004).Article 

Google Scholar 
Karanth, K. K. & DeFries, R. Nature-based tourism in Indian protected areas: new challenges for park management. Conserv. Lett. 4, 137–149 (2011).Article 

Google Scholar 
Ament, J. M., Collen, B., Carbone, C., Mace, G. M. & Freeman, R. Compatibility between agendas for improving human development and wildlife conservation outside protected areas: insights from 20 years of data. People Nat. 1, 305–316 (2019).Article 

Google Scholar 
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. U.S.A. 116, 23209–23215 (2019).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Naidoo, R. et al. Evaluating the impacts of protected areas on human well-being across the developing world. Sci. Adv. 5, eaav3006 (2019).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Lichtenfeld, L. L., Trout, C. & Kisimir, E. L. Evidence-based conservation: predator-proof bomas protect livestock and lions. Biodivers. Conserv. 24, 483–491 (2015).Article 

Google Scholar 
Persson, J., Rauset, G. R. & Chapron, G. Paying for an endangered predator leads to population recovery. Conserv. Lett. 8, 345–350 (2015).Article 

Google Scholar 
Barichievy, C. et al. A demographic model to support an impact financing mechanism for black rhino metapopulations. Biol. Conserv. 257, 109073 (2021).Article 

Google Scholar 
Maingi, S. W. Safari tourism and its role in sustainable poverty eradication in East Africa: the case of Kenya. Worldwide Hosp. Tour. Themes 13, 81–94 (2021).Homewood, K. M., Trench, P. C. & Brockington, D. Pastoralist livelihoods and wildlife revenues in East Africa: a case for coexistence? Pastoralism: Res. Pol. Pract. 2, 1–23 (2012).Article 

Google Scholar 
Thornton, P., Nelson, G., Mayberry, D. & Herrero, M. Impacts of heat stress on global cattle production during the 21st century: a modelling study. Lancet Planet. Health 6, e192–e201 (2022).Article 
PubMed 

Google Scholar 
Lessmann, C. & Seidel, A. Regional inequality, convergence, and its determinants–a view from outer space. Eur. Econ. Rev. 92, 110–132 (2017).Article 

Google Scholar 
Brooks, T. M. et al. Measuring terrestrial area of habitat (AOH) and its utility for the IUCN Red List. Trends Ecol. Evol. 34, 977–986 (2019).Article 
PubMed 

Google Scholar 
Miller, J. R. Mapping attack hotspots to mitigate human–carnivore conflict: approaches and applications of spatial predation risk modeling. Biodivers. Conserv. 24, 2887–2911 (2015).Article 

Google Scholar 
Gastineau, A., Robert, A., Sarrazin, F., Mihoub, J. B. & Quenette, P. Y. Spatiotemporal depredation hotspots of brown bears, Ursus arctos, on livestock in the Pyrenees, France. Biol. Conserv. 238, 108210 (2019).Article 

Google Scholar 
Kruuk, H. Surplus killing by carnivores. J. Zool. 166, 233–244 (1972).Article 

Google Scholar 
Khorozyan, I. et al. Effects of shepherds and dogs on livestock depredation by leopards (Panthera pardus) in north-eastern Iran. PeerJ 5, e3049 (2017).Article 
PubMed 
PubMed Central 

Google Scholar 
Lucherini, M., Guerisoli, M. D. L. M. & Luengos Vidal, E. M. Surplus killing by pumas Puma concolor: rumours and facts. Mammal. Rev. 48, 277–283 (2018).Article 

Google Scholar 
Ocaido, M., Muwazi, R. T. & Opuda-Asibo, J. Financial analysis of livestock production systems around Lake Mburo National Park, in South Western Uganda. Livest. Res. Rural Dev. 21, 70 (2009).
Google Scholar 
Dyson-Hudson, R. & Dyson-Hudson, N. Nomadic pastoralism. Annu. Rev. Anthropol. 9, 15–61 (1980).Barber, J. P. The Karamoja District of Uganda: a pastoral people under colonial rule. J. Afr. Hist. 3, 111–124 (1962).Article 

Google Scholar 
Oberg, K. Analysis of the Bahima marriage ceremony. Africa 19, 107–120 (1949).Article 

Google Scholar 
Purseglove, J. W. Banyankole Agriculture. East Afr. Agric. J. 5, 198–207 (1939).
Google Scholar 
Canonici, N. N. Food in Zulu folktales. South. Afr. J. Folk. Stud. 2, 24–36 (1991).
Google Scholar 
United Nations. World Population Prospects 2022: Summary of Results. UN DESA/POP/2022/TR/NO. 3 (2022).Tomas, W. M. et al. Sustainability agenda for the Pantanal Wetland: perspectives on a collaborative interface for science, policy, and decision-making. Trop. Conserv. Sci. 12, 1940082919872634 (2019).Article 

Google Scholar 
Vale, P. et al. Mapping the cattle industry in Brazil’s most dynamic cattle-ranching state: Slaughterhouses in Mato Grosso, 1967-2016. PLOS One 14, e0215286 (2019).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
De Leeuw, P. N., Bekure, S., & Grandin, B. E. Aspects of livestock productivity in Maasai group ranches in Kenya. ILCA Bull. (1984).Barua, M., Bhagwat, S. A. & Jadhav, S. The hidden dimensions of human–wildlife conflict: health impacts, opportunity and transaction costs. Biol. Conserv. 157, 309–316 (2013).Article 

Google Scholar 
Choudhury, A. Human–elephant conflicts in Northeast India. Hum. Dimens. Wildl. 9, 261–270 (2004).Article 

Google Scholar 
Sherman, P. B., & Dixon, J. A. Economics of protected areas: a new look at benefits and costs. Earthscan Publications Limited (1990).Braczkowski, A. et al. Evidence for increasing human‐wildlife conflict despite a financial compensation scheme on the edge of a Ugandan National Park. Conserv. Sci. Pract. 2, e309 (2020c).
Google Scholar 
Gulati, S., Karanth, K., Nguyet Anh Le, N. & Noack, F. Human casualties are the dominant cost of human–wildlife conflict in India. Proc. Natl Acad. Sci. 118, e1921338118 (2021).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Rondinini, C. et al. Global habitat suitability models of terrestrial mammals. Philos. Trans. R. Soc. 366, 2633–2641 (2011).Article 

Google Scholar 
Lewis, J. S. et al. Biotic and abiotic factors predicting the global distribution and population density of an invasive large mammal. Sci. Rep. 7, 44152 (2017).Article 
PubMed 
PubMed Central 

Google Scholar 
Strassburg, B. et al. Global priority areas for ecosystem restoration. Nature 586, 724–729 (2020).Article 
CAS 
PubMed 

Google Scholar 
O’Bryan, C. J. et al. The importance of indigenous peoples’ lands for the conservation of terrestrial mammals. Conserv. Biol. 35, 1002–1008 (2021).Article 
PubMed 

Google Scholar 
Rondinini, C., Wilson, K. A., Boitani, L., Grantham, H. & Possingham, H. P. Tradeoffs of different types of species occurrence data for use in systematic conservation planning. Ecol. Lett. 9, 1136–1145 (2006).Article 
PubMed 

Google Scholar 
Henderson, J. V., Storeygard, A. & Weil, D. N. Measuring economic growth from outer space. Am. Econ. Rev. 102, 994–1028 (2012).Article 
PubMed 
PubMed Central 

Google Scholar 
Ebener, S., Murray, C., Tandon, A. & Elvidge, C. C. From wealth to health: modelling the distribution of income per capita at the sub-national level using night-time light imagery. Int. J. Health Geographics 4, 5 (2005).Article 

Google Scholar 
Chen, X. & Nordhaus, W. D. Using luminosity data as a proxy for economic statistics. Proc. Natl Acad. Sci. 108, 8589–8594 (2011).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Jean, N. et al. Combining satellite imagery and machine learning to predict poverty. Science 353, 790–794 (2016).Article 
CAS 
PubMed 

Google Scholar 
FAO Meat live weight, cattle database. License: CC BY-NC-SA 3.0 IGO. http://www.fao.org/faostat/en/#search/cattle (2021). Accessed 24 April 2021.Gilbert, M. et al. Global distribution data for cattle, buffaloes, horses, sheep, goats, pigs, chickens and ducks in 2010. Sci. Data 5, 1–11 (2018).Article 

Google Scholar 
United Nations University & World Health Organization. Human Energy Requirements: Report of a Joint FAO/WHO/UNU Expert Consultation: Rome, 17–24 October 2001 (Vol. 1) Food & Agriculture Org (2004). More

Robertson, G. P. et al. Cellulosic biofuel contributions to a sustainable energy future: Choices and outcomes. Sci. (80-.) 356, 1–9 (2017).Article 

Google Scholar 
Ma, L. et al. The impact of stand age and fertilization on the soil microbiome of Miscanthus × giganteus. Phytobiomes J. 5, 51–59 (2021).Article 

Google Scholar 
Hestrin, R., Lee, M. R., Whitaker, B. K. & Pett-Ridge, J. The switchgrass microbiome: a review of structure, function, and taxonomic distribution. Phytobiomes J. 5, 14–28 (2021).Article 

Google Scholar 
Heaton, E. A., Dohleman, F. G. & Long, S. P. Meeting US biofuel goals with less land: The potential of Miscanthus. Glob. Chang. Biol. 14, 2000–2014 (2008).Article 
ADS 

Google Scholar 
Langholtz, M., Stokes, B. & Eaton, L. 2016 billion-ton report: Advancing domestic resources for a thriving bioeconomy (Executive Summary). Ind. Biotechnol. 12, 282–289 (2016).Article 

Google Scholar 
Roley, S. S. et al. Associative nitrogen fixation (ANF) across a nitrogen input gradient. PLoS One 13, 1–19 (2018).Article 

Google Scholar 
Toju, H. et al. Core microbiomes for sustainable agroecosystems. Nat. Plants 4, 247–257 (2018).Article 
PubMed 

Google Scholar 
Busby, P. E. et al. Research priorities for harnessing plant microbiomes in sustainable agriculture. PLoS Biol. 15, 1–14 (2017).Article 

Google Scholar 
Wang, N. R. & Haney, C. H. Harnessing the genetic potential of the plant microbiome. Biochem. (Lond.) 42, 20–25 (2020).Article 
CAS 

Google Scholar 
Haskett, T. L., Tkacz, A. & Poole, P. S. Engineering rhizobacteria for sustainable agriculture. ISME J. 15, 949–964 (2020).Article 
PubMed 
PubMed Central 

Google Scholar 
Hacquard, S. et al. Microbiota and host nutrition across plant and animal kingdoms. Cell Host Microbe 17, 603–616 (2015).Article 
CAS 
PubMed 

Google Scholar 
Gopal, M. & Gupta, A. Microbiome selection could spur next-generation plant breeding strategies. Front. Microbiol. 7, 1971 (2016).Article 
PubMed 
PubMed Central 

Google Scholar 
Hardoim, P. R. et al. The hidden world within plants: Ecological and evolutionary considerations for defining functioning of microbial endophytes. Microbiol. Mol. Biol. Rev. 79, 293–320 (2015).Article 
PubMed 
PubMed Central 

Google Scholar 
Andrews, J. H. & Harris, R. F. The ecology and biogeography of microorganisms on plant surfaces. Annu. Rev. Phytopathol. 38, 145–180 (2000).Article 
PubMed 

Google Scholar 
Bulgarelli, D., Schlaeppi, K., Spaepen, S., van Themaat, E. V. L. & Schulze-Lefert, P. Structure and functions of the bacterial microbiota of plants. Annu. Rev. Plant Biol. 64, 807–838 (2013).Article 
CAS 
PubMed 

Google Scholar 
Müller, D. B., Vogel, C., Bai, Y. & Vorholt, J. A. The Plant Microbiota: Systems-Level Insights and Perspectives. Annu. Rev. Genet. 50, 120215–034952 (2016).Article 

Google Scholar 
Kuzyakov, Y. & Razavi, B. S. Rhizosphere size and shape: Temporal dynamics and spatial stationarity. Soil Biol. Biochem. 135, 343–360 (2019).Article 
CAS 

Google Scholar 
Bell, T. H. et al. Manipulating wild and tamed phytobiomes: Challenges and opportunities. Phytobiomes J. 3, 3–21 (2019).Article 

Google Scholar 
Chen, T. et al. A plant genetic network for preventing dysbiosis in the phyllosphere. Nature 580, 653–657 (2020).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Vorholt, J. A. Microbial life in the phyllosphere. Nat. Rev. Microbiol. 10, 828–840 (2012).Article 
CAS 
PubMed 

Google Scholar 
Koskella, B. The phyllosphere. Curr. Biol. 30, R1143–R1146 (2020).Article 
CAS 
PubMed 

Google Scholar 
Lindow, S. E. & Brandl, M. T. Microbiology of the phyllosphere. Appl. Environ. Microbiol. 69, 1875–1883 (2003).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Bringel, F. & Couée, I. Pivotal roles of phyllosphere microorganisms at the interface between plant functioning and atmospheric trace gas dynamics. Front. Microbiol. 6, 486 (2015).Dorokhov, Y. L., Sheshukova, E. V. & Komarova, T. V. Methanol in plant life. Front. Plant Sci. 871, 1–6 (2018).
Google Scholar 
Cavicchioli, R. et al. Scientists’ warning to humanity: microorganisms and climate change. Nat. Rev. Microbiol. 17, 569–586 (2019).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Peñuelas, J. & Terradas, J. The foliar microbiome. Trends Plant Sci. 19, 278–280 (2014).Article 
PubMed 

Google Scholar 
Edwards, J. et al. Structure, variation, and assembly of the root-associated microbiomes of rice. Proc. Natl Acad. Sci. USA. 112, E911–E920 (2015).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Zhalnina, K. et al. Dynamic root exudate chemistry and microbial substrate preferences drive patterns in rhizosphere microbial community assembly. Nat. Microbiol. 3, 470 (2018).Article 
CAS 
PubMed 

Google Scholar 
Xu, L. et al. Drought delays development of the sorghum root microbiome and enriches for monoderm bacteria. Proc. Natl Acad. Sci. 115, E4284–E4293 (2018).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Shade, A. & Stopnisek, N. Abundance-occupancy distributions to prioritize plant core microbiome membership. Curr. Opin. Microbiol. 49, 50–58 (2019).Article 
PubMed 

Google Scholar 
Stopnisek, N. & Shade, A. Persistent microbiome members in the common bean rhizosphere: an integrated analysis of space, time, and plant genotype. ISME J. 15, 2708–2722 (2021).Grady, K. L., Sorensen, J. W., Stopnisek, N., Guittar, J. & Shade, A. Assembly and seasonality of core phyllosphere microbiota on perennial biofuel crops. Nat. Commun. 10, 4135 (2019).Singer, E., Bonnette, J., Kenaley, S. C., Woyke, T. & Juenger, T. E. Plant compartment and genetic variation drive microbiome composition in switchgrass roots. Environ. Microbiol. Rep. 11, 185–195 (2019).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Lundberg, D. S. et al. Defining the core Arabidopsis thaliana root microbiome. Nature 488, 86–90 (2012).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Bulgarelli, D. et al. Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota. Nature 488, 91–95 (2012).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Bahulikar, R. A., Torres-Jerez, I., Worley, E., Craven, K. & Udvardi, M. K. Diversity of nitrogen-fixing bacteria associated with switchgrass in the native tallgrass prairie of Northern Oklahoma. Appl. Environ. Microbiol. 80, 5636–5643 (2014).Article 
ADS 
PubMed 
PubMed Central 

Google Scholar 
Roley, S. S., Xue, C., Hamilton, S. K., Tiedje, J. M. & Robertson, G. P. Isotopic evidence for episodic nitrogen fixation in switchgrass (Panicum virgatum L.). Soil Biol. Biochem. 129, 90–98 (2019).Article 
CAS 

Google Scholar 
Bowers, R. M. et al. Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nat. Biotechnol. 35, 725–731 (2017).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Yoon, S. H., Ha, S. M., Lim, J., Kwon, S. & Chun, J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van. Leeuwenhoek, Int. J. Gen. Mol. Microbiol. 110, 1281–1286 (2017).Article 
CAS 

Google Scholar 
Julsing, M. K., Rijpkema, M., Woerdenbag, H. J., Quax, W. J. & Kayser, O. Functional analysis of genes involved in the biosynthesis of isoprene in Bacillus subtilis. Appl. Microbiol. Biotechnol. 75, 1377–1384 (2007).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Carlström, C. I. et al. Synthetic microbiota reveal priority effects and keystone strains in the Arabidopsis phyllosphere. Nat. Ecol. Evol. 3, 1445–1454 (2019).Article 
PubMed 
PubMed Central 

Google Scholar 
Laskowska, E. & Kuczyńska-Wiśnik, D. New insight into the mechanisms protecting bacteria during desiccation. Curr. Genet. 66, 313–318 (2020).Article 
CAS 
PubMed 

Google Scholar 
Zou, H. et al. The metabolism and biotechnological application of betaine in microorganism. Appl. Microbiol. Biotechnol. 100, 3865–3876 (2016).Article 
CAS 
PubMed 

Google Scholar 
Rastogi, G., Coaker, G. L. & Leveau, J. H. J. New insights into the structure and function of phyllosphere microbiota through high-throughput molecular approaches. FEMS Microbiol. Lett. 348, 1–10 (2013).Article 
CAS 
PubMed 

Google Scholar 
Urrejola, C. et al. Genomic features for desiccation tolerance and sugar biosynthesis in the extremophile gloeocapsopsis sp. UTEX B3054. Front. Microbiol. 10, 1–11 (2019).Article 

Google Scholar 
Lacerda-Júnior, G. V. et al. Land use and seasonal effects on the soil microbiome of a Brazilian dry forest. Front. Microbiol. 10, 1–14 (2019).Article 

Google Scholar 
Dai, J. et al. Unraveling adaptation of Pontibacter korlensis to radiation and infertility in desert through complete genome and comparative transcriptomic analysis. Sci. Rep. 5, 1–9 (2015).Article 

Google Scholar 
Harty, C. E. et al. Ethanol stimulates trehalose production through a SpoT-DksA-AlgU-dependent pathway in Pseudomonas aeruginosa. J. Bacteriol. 201, 1–21 (2019).Kimmerer, T. W. & MacDonald, R. C. Acetaldehyde and ethanol biosynthesis in leaves of plants. Plant Physiol. 84, 1204–1209 (1987).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Ferner, E., Rennenberg, H. & Kreuzwieser, J. Effect of flooding on C metabolism of flood-tolerant (Quercus robur) and non-tolerant (Fagus sylvatica) tree species. Tree Physiol. 32, 135–145 (2012).Article 
CAS 
PubMed 

Google Scholar 
Kimmerer, T. W. & Kozlowski, T. T. Ethylene, ethane, acetaldehyde, and ethanol production by plants under stress. Plant Physiol. 69, 840–847 (1982).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Liu, Y. et al. Assessment of drought tolerance of 49 switchgrass (Panicum virgatum) genotypes using physiological and morphological parameters. Biotechnol. Biofuels 8, 1–18 (2015).Article 

Google Scholar 
Wingler, A. et al. Trehalose 6-phosphate is required for the onset of leaf senescence associated with high carbon availability. Plant Physiol. 158, 1241–1251 (2012).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Gottschlich, L., Geiser, P., Bortfeld-Miller, M., Field, C. M. & Vorholt, J. A. Complex general stress response regulation in Sphingomonas melonis Fr1 revealed by transcriptional analyses. Sci. Rep. 9, 1–13 (2019).Article 
CAS 

Google Scholar 
Chen, C., Li, S., McKeever, D. R. & Beattie, G. A. The widespread plant-colonizing bacterial species Pseudomonas syringae detects and exploits an extracellular pool of choline in hosts. Plant J. 75, 891–902 (2013).Article 
CAS 
PubMed 

Google Scholar 
Valenzuela-Soto, E. M. & Figueroa-Soto, C. G. Biosynthesis and degradation of glycine betaine and its potential to control plant growth and development. in Osmoprotectant-Mediated Abiotic Stress Tolerance in Plants (eds. Anwar Hossain, M., Kumar, V., Burritt, D. J., Fujita, M. & Makela, P. S. A.) 241–256 (Springer, 2019). https://doi.org/10.1007/978-3-030-27423-8_5.Kerchev, P., De Smet, B., Waszczak, C., Messens, J. & Van Breusegem, F. Redox strategies for crop improvement. Antioxid. Redox Signal 23, 1186–1205 (2015).Article 
CAS 
PubMed 

Google Scholar 
Considine, M. J. & Foyer, C. H. Redox regulation of plant development. Antioxid. Redox Signal. 21, 1305–1326 (2014).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Spaepen, S., Vanderleyden, J. & Remans, R. Indole-3-acetic acid in microbial and microorganism-plant signaling. FEMS Microbiol. Rev. 31, 425–448 (2007).Article 
CAS 
PubMed 

Google Scholar 
Egamberdieva, D., Wirth, S. J., Alqarawi, A. A., Abd-Allah, E. F. & Hashem, A. Phytohormones and beneficial microbes: Essential components for plants to balance stress and fitness. Front. Microbiol. 8, 1–14 (2017).Article 

Google Scholar 
Lajoie, G., Maglione, R. & Kembel, S. W. Adaptive matching between phyllosphere bacteria and their tree hosts in a neotropical forest. Microbiome 8, 1–10 (2020).Article 

Google Scholar 
McGenity, T. J., Crombie, A. T. & Murrell, J. C. Microbial cycling of isoprene, the most abundantly produced biological volatile organic compound on Earth. ISME J. 12, 931–941 (2018).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Sharkey, T. D., Wiberley, A. E. & Donohue, A. R. Isoprene emission from plants: Why and how. Ann. Bot. 101, 5–18 (2008).Article 
CAS 
PubMed 

Google Scholar 
Zuo, Z. et al. Isoprene acts as a signaling molecule in gene networks important for stress responses and plant growth. Plant Physiol. 180, 124–152 (2019).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Sharkey, T. D. & Yeh, S. Isoprene emission from plants. Plant Mol. Biol. 52, 407–436 (2001).CAS 

Google Scholar 
Sharkey, T. D., Loreto, F. & Delwiche, C. High carbon dioxide and sun/shade effects on isoprene emission from oak and aspen tree leaves. Plant, Cell Environ. 14, 333–338 (1991).Article 
CAS 

Google Scholar 
Eller, A. S. D. et al. Volatile organic compound emissions from switchgrass cultivars used as biofuel crops. Atmos. Environ. 45, 3333–3337 (2011).Article 
ADS 
CAS 

Google Scholar 
Morrison, E. C., Drewer, J. & Heal, M. R. A comparison of isoprene and monoterpene emission rates from the perennial bioenergy crops short-rotation coppice willow and Miscanthus and the annual arable crops wheat and oilseed rape. GCB Bioenergy 8, 211–225 (2016).Article 
CAS 

Google Scholar 
Sivy, T. L., Shirk, M. C. & Fall, R. Isoprene synthase activity parallels fluctuations of isoprene release during growth of Bacillus subtilis. Biochem. Biophys. Res. Commun. 294, 71–75 (2002).Article 
CAS 
PubMed 

Google Scholar 
Crombie, A. T. et al. Poplar phyllosphere harbors disparate isoprene-degrading bacteria. Proc. Natl Acad. Sci. USA. 115, 13081–13086 (2018).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
El Khawand, M. et al. Isolation of isoprene degrading bacteria from soils, development of isoA gene probes and identification of the active isoprene-degrading soil community using DNA-stable isotope probing. Environ. Microbiol. 18, 2743–2753 (2016).Article 
CAS 
PubMed 

Google Scholar 
Nowicka, B. & Kruk, J. Occurrence, biosynthesis and function of isoprenoid quinones. Biochim. Biophys. Acta – Bioenerg. 1797, 1587–1605 (2010).Article 
CAS 

Google Scholar 
Kałużna, M. et al. Pseudomonas cerasi sp. nov. (non Griffin, 1911) isolated from diseased tissue of cherry. Syst. Appl. Microbiol. 39, 370–377 (2016).Article 
PubMed 

Google Scholar 
El-Tarabily, K. A., Nassar, A. H., Hardy, G. E. S. J. & Sivasithamparam, K. Plant growth promotion and biological control of Pythium aphanidermatum, a pathogen of cucumber, by endophytic actinomycetes. J. Appl. Microbiol 106, 13–26 (2009).Article 
CAS 
PubMed 

Google Scholar 
Javed, Z., Tripathi, G. D., Mishra, M. & Dashora, K. Actinomycetes – the microbial machinery for the organic-cycling, plant growth, and sustainable soil health. Biocatal. Agric. Biotechnol. 31, 101893 (2021).Article 
CAS 

Google Scholar 
Anwar, S., Ali, B. & Sajid, I. Screening of rhizospheric actinomycetes for various in-vitro and in-vivo plant growth promoting (PGP) traits and for agroactive compounds. Front. Microbiol. 7, 1–11 (2016).Article 

Google Scholar 
Bao, L. et al. Microbial community overlap between the phyllosphere and rhizosphere of three plants from Yongxing Island, South China Sea. Microbiologyopen 9, 1–18 (2020).Article 

Google Scholar 
Remus-Emsermann, M. N. P. & Schlechter, R. O. Phyllosphere microbiology: at the interface between microbial individuals and the plant host. N. Phytol. 218, 1327–1333 (2018).Article 

Google Scholar 
Beilsmith, K. et al. Genome-wide association studies on the phyllosphere microbiome: embracing complexity in host–microbe interactions. Plant J. 97, 164–181 (2019).Article 
CAS 
PubMed 

Google Scholar 
Levy, A., Conway, J. M., Dangl, J. L. & Woyke, T. Elucidating bacterial gene functions in the plant microbiome. Cell Host Microbe 24, 475–485 (2018).Article 
CAS 
PubMed 

Google Scholar 
Trivedi, P., Leach, J. E., Tringe, S. G., Sa, T. & Singh, B. K. Plant–microbiome interactions: from community assembly to plant health. Nat. Rev. Microbiol. 18, 607–621 (2020).Article 
CAS 
PubMed 

Google Scholar 
Choi, H. et al. Identification of viruses and viroids infecting tomato and pepper plants in vietnam by metatranscriptomics. Int. J. Mol. Sci. 21, 1–16 (2020).Article 
ADS 

Google Scholar 
Marzano, S. Y. L. & Domier, L. L. Novel mycoviruses discovered from metatranscriptomics survey of soybean phyllosphere phytobiomes. Virus Res 213, 332–342 (2016).Article 
CAS 
PubMed 

Google Scholar 
Chao S, et al. Metatranscriptomic sequencing suggests the presence of novel RNA viruses in rice rransmitted by brown planthopper. Viruses. 13, 2464 (2021).Delmotte, N. et al. Community proteogenomics reveals insights into the physiology of phyllosphere bacteria. Proc. Natl Acad. Sci. 106, 16428–16433 (2009).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Suzuki, Y., Makino, A. & Mae, T. An efficient method for extraction of RNA from rice leaves at different ages using benzyl chloride. J. Exp. Bot. 52, 1575–1579 (2001).Article 
CAS 
PubMed 

Google Scholar 
Caporaso, J. G. et al. Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample. Proc. Natl Acad. Sci. 108, 4516–4522 (2011).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Bolger, A. M., Lohse, M. & Usadel, B. Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30, 2114–2120 (2014).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357–359 (2012).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Li, H. et al. The sequence alignment/map format and SAMtools. Bioinformatics 25, 2078–2079 (2009).Article 
PubMed 
PubMed Central 

Google Scholar 
Quinlan, A. R. & Hall, I. M. BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26, 841–842 (2010).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Druzhinina, I. S. et al. Massive lateral transfer of genes encoding plant cell wall-degrading enzymes to the mycoparasitic fungus Trichoderma from its plant-associated hosts. PLoS Genet. 14, e1007322 (2018).Article 
PubMed 
PubMed Central 

Google Scholar 
Haridas, S. et al. 101 Dothideomycetes genomes: A test case for predicting lifestyles and emergence of pathogens. Stud. Mycol. 96, 141–153 (2020).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Gostinčar, C. et al. Genome sequencing of four Aureobasidium pullulans varieties: Biotechnological potential, stress tolerance, and description of new species. BMC Genomics 15, 549 (2014).Article 
PubMed 
PubMed Central 

Google Scholar 
Gill, U. S. et al. Draft genome sequence resource of switchgrass rust pathogen, puccinia novopanici isolate ard-01. Phytopathology 109, 1513–1515 (2019).Article 
CAS 
PubMed 

Google Scholar 
Bowsher, A. W., Benucci, G. M. N., Bonito, G. & Shade, A. Seasonal dynamics of core fungi in the switchgrass phyllosphere, and co-occurrence with leaf bacteria. Phytobiomes J. 5, 60–68 (2021).Li, D., Liu, C. M., Luo, R., Sadakane, K. & Lam, T. W. MEGAHIT: An ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph. Bioinformatics 31, 1674–1676 (2015).Article 
CAS 
PubMed 

Google Scholar 
Kang, D. D. et al. MetaBAT 2: An adaptive binning algorithm for robust and efficient genome reconstruction from metagenome assemblies. PeerJ 2019, 1–13 (2019).
Google Scholar 
Nayfach, S., Shi, Z. J., Seshadri, R., Pollard, K. S. & Kyrpides, N. C. New insights from uncultivated genomes of the global human gut microbiome. Nature 568, 505–510 (2019).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Parks, D. H., Imelfort, M., Skennerton, C. T., Hugenholtz, P. & Tyson, G. W. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res. 25, 1043–1055 (2015).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Swan, B. K. et al. Prevalent genome streamlining and latitudinal divergence of planktonic bacteria in the surface ocean. Proc. Natl Acad. Sci. USA. 110, 11463–11468 (2013).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Eren, A. M. et al. Anvi’o: an advanced analysis and visualization platform for’omics data. PeerJ. 2015, 1–29 (2015).
Google Scholar 
Lee, M. D. GToTree: a user-friendly workflow for phylogenomics. Bioinformatics 35, 4162–4164 (2019).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Shaffer, M. et al. DRAM for distilling microbial metabolism to automate the curation of microbiome function. Nucleic Acids Res. 48, 8883–8900 (2020).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Parks, D. H. et al. A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life. Nat. Biotechnol. 36, 996 (2018).Article 
CAS 
PubMed 

Google Scholar 
Suzuki, R. & Shimodaira, H. Pvclust: an R package for assessing the uncertainty in hierarchical clustering. Bioinformatics 22, 1540–1542 (2006).Article 
CAS 
PubMed 

Google Scholar 
Blin, K. et al. AntiSMASH 6.0: improving cluster detection and comparison capabilities. Nucleic Acids Res. 49, W29–W35 (2021).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Navarro-Muñoz, J. C. et al. A computational framework to explore large-scale biosynthetic diversity. Nat. Chem. Biol. 16, 60–68 (2020).Article 
PubMed 

Google Scholar 
Zimmermann, J., Kaleta, C. & Waschina, S. Gapseq: informed prediction of bacterial metabolic pathways and reconstruction of accurate metabolic models. Genome Biol. 22, 1–35 (2021).Article 

Google Scholar 
Tseng, T. T., Tyler, B. M. & Setubal, J. C. Protein secretion systems in bacterial-host associations, and their description in the Gene Ontology. BMC Microbiol 9, 1–9 (2009).Article 

Google Scholar 
Lucke, M., Correa, M. G. & Levy, A. The role of secretion systems, effectors, and secondary metabolites of beneficial rhizobia in interactions with plants and microbes. Front. Plant Sci. 11, 589416 (2020).Article 
PubMed 
PubMed Central 

Google Scholar 
Palmer, J. L., Hilton, S., Picot, E., Bending, G. D. & Schäfer, H. Tree phyllospheres are a habitat for diverse populations of CO-oxidizing bacteria. Environ. Microbiol. 23, 6309–6327 (2021).Article 
CAS 
PubMed 

Google Scholar 
Bay, S. K. et al. Trace gas oxidizers are widespread and active members of soil microbial communities. Nat. Microbiol. 6, 246–256 (2021).Article 
CAS 
PubMed 

Google Scholar  More

Benca, J. P., Duijnstee, I. A. & Looy, C. V. Fossilized pollen malformations as indicators of past environmental stress and meiotic disruption: Insights from modern conifers. Paleobiology, 1–34 (2022).Marshall, J. E., Lakin, J., Troth, I. & Wallace-Johnson, S. M. Uv-b radiation was the devonian-carboniferous boundary terrestrial extinction kill mechanism. Sci. Adv. 6, eaba0768 (2020).Article 
ADS 
CAS 

Google Scholar 
Looy, C. V., Twitchett, R. J., Dilcher, D. L., Van Konijnenburg-Van Cittert, J. H. & Visscher, H. Life in the end-permian dead zone. Proc. Natl. Acad. Sci. 98, 7879–7883 (2001).Article 
ADS 
CAS 

Google Scholar 
Foster, C. & Afonin, S. Abnormal pollen grains: An outcome of deteriorating atmospheric conditions around the permian-triassic boundary. J. Geol. Soc. 162, 653–659 (2005).Article 
ADS 

Google Scholar 
Hochuli, P. A., Schneebeli-Hermann, E., Mangerud, G. & Bucher, H. Evidence for atmospheric pollution across the permian-triassic transition. Geology 45, 1123–1126 (2017).Article 
ADS 

Google Scholar 
Galasso, F., Bucher, H. & Schneebeli-Hermann, E. Mapping monstrosity: Malformed sporomorphs across the smithian/spathian boundary interval and beyond (salt range, pakistan). Global Planet. Change 219, 103975 (2022).Article 

Google Scholar 
Van de Schootbrugge, B. et al. Floral changes across the triassic/jurassic boundary linked to flood basalt volcanism. Nat. Geosci. 2, 589–594 (2009).Article 
ADS 

Google Scholar 
Lindström, S. et al. Volcanic mercury and mutagenesis in land plants during the end-triassic mass extinction. Sci. Adv. 5, eaaw4018 (2019).Article 
ADS 

Google Scholar 
Gravendyck, J., Schobben, M., Bachelier, J. B. & Kürschner, W. M. Macroecological patterns of the terrestrial vegetation history during the end-triassic biotic crisis in the central european basin: A palynological study of the bonenburg section (nw-germany) and its supra-regional implications. Global Planet. Change 194, 103286 (2020).Article 

Google Scholar 
Vilas-Boas, M., Pereira, Z., Cirilli, S., Duarte, L. V. & Fernandes, P. New data on the palynology of the triassic-jurassic boundary of the silves group, lusitanian basin, portugal. Rev. Palaeobot. Palynol. 290, 104426 (2021).Article 

Google Scholar 
Galasso, F., Feist-Burkhardt, S. & Schneebeli-Hermann, E. The palynology of the toarcian oceanic anoxic event at dormettingen, southwest germany, with emphasis on changes in vegetational dynamics. Rev. Palaeobotany Palynol. 304, 104701 (2022).Article 

Google Scholar 
Galasso, F., Feist-Burkhardt, S. & Schneebeli-Hermann, E. Do spores herald the toarcian oceanic anoxic event?. Rev. Palaeobot. Palynol. 306, 104748 (2022).Article 

Google Scholar 
Hay, W. W. & Floegel, S. New thoughts about the cretaceous climate and oceans. Earth Sci. Rev. 115, 262–272 (2012).Article 
ADS 
CAS 

Google Scholar 
Faucher, G., Erba, E., Bottini, C. & Gambacorta, G. Calcareous nannoplankton response to the latest cenomanian oceanic anoxic event 2 perturbation. RIVISTA ITALIANA DI PALEONTOLOGIA E STRATIGRAFIA (2017).Cohen, K. M., Finney, S. C., Gibbard, P. L. & Fan, J.-X. The ics international chronostratigraphic chart. Epis. J. Int. Geosci. 36, 199–204 (2013).
Google Scholar 
Caron, M. & Homewood, P. Evolution of early planktic foraminifers. Mar. Micropaleontol. 7, 453–462 (1983).Article 
ADS 

Google Scholar 
Jarvis, I. et al. Microfossil assemblages and the cenomanian-turonian (late cretaceous) oceanic anoxic event. Cretac. Res. 9, 3–103 (1988).Article 

Google Scholar 
Huber, B. T., Leckie, R. M., Norris, R. D., Bralower, T. J. & CoBabe, E. Foraminiferal assemblage and stable isotopic change across the cenomanian-turonian boundary in the subtropical north atlantic. J. Foraminiferal Res. 29, 392–417 (1999).
Google Scholar 
Culver, S. J. & Rawson, P. F. Biotic response to global change: The last 145 million years (Cambridge University Press, 2006).Erba, E. Calcareous nannofossils and mesozoic oceanic anoxic events. Mar. Micropaleontol. 52, 85–106 (2004).Article 
ADS 

Google Scholar 
Gebhardt, H., Kuhnt, W. & Holbourn, A. Foraminiferal response to sea level change, organic flux and oxygen deficiency in the cenomanian of the tarfaya basin, southern morocco. Mar. Micropaleontol. 53, 133–157 (2004).Article 
ADS 

Google Scholar 
Hardenbol, J. et al. Mesozoic and cenozoic sequence chronostratigraphic framework of european basins. Soc. Sediment. Geol. (1998).Miller, K. G. et al. The phanerozoic record of global sea-level change. Science 310, 1293–1298 (2005).Article 
ADS 
CAS 

Google Scholar 
Voigt, S., Gale, A. S. & Voigt, T. Sea-level change, carbon cycling and palaeoclimate during the late cenomanian of northwest europe; an integrated palaeoenvironmental analysis. Cretac. Res. 27, 836–858 (2006).Article 

Google Scholar 
Haq, B. U. Cretaceous eustasy revisited. Global Planet. Change 113, 44–58 (2014).Article 
ADS 

Google Scholar 
Sames, B. et al. Short-term sea-level changes in a greenhouse world-a view from the cretaceous. Palaeogeogr. Palaeoclimatol. Palaeoecol. 441, 393–411 (2016).Article 

Google Scholar 
Arthur, M. A., Dean, W. E. & Pratt, L. M. Geochemical and climatic effects of increased marine organic carbon burial at the cenomanian/turonian boundary. Nature 335, 714–717 (1988).Article 
ADS 

Google Scholar 
Tsikos, H. et al. Carbon-isotope stratigraphy recorded by the cenomanian-turonian oceanic anoxic event: Correlation and implications based on three key localities. J. Geol. Soc. 161, 711–719 (2004).Article 
ADS 
CAS 

Google Scholar 
Jarvis, I., Lignum, J. S., Gröcke, D. R., Jenkyns, H. C. & Pearce, M. A. Black shale deposition, atmospheric co2 drawdown, and cooling during the cenomanian-turonian oceanic anoxic event. Paleoceanography26 (2011).van Bentum, E. C., Reichart, G.-J. & Damsté, J. S. S. Organic matter provenance, palaeoproductivity and bottom water anoxia during the cenomanian/turonian oceanic anoxic event in the newfoundland basin (northern proto north atlantic ocean). Org. Geochem. 50, 11–18 (2012).Article 

Google Scholar 
Owens, J. D., Lyons, T. W. & Lowery, C. M. Quantifying the missing sink for global organic carbon burial during a cretaceous oceanic anoxic event. Earth Planet. Sci. Lett. 499, 83–94 (2018).Article 
ADS 
CAS 

Google Scholar 
Bralower, T. J. Calcareous nannofossil biostratigraphy and assemblages of the cenomanian-turonian boundary interval: Implications for the origin and timing of oceanic anoxia. Paleoceanography 3, 275–316 (1988).Article 
ADS 

Google Scholar 
Leckie, R. M., Bralower, T. J. & Cashman, R. Oceanic anoxic events and plankton evolution: Biotic response to tectonic forcing during the mid-cretaceous. Paleoceanography 17, 13–1 (2002).Article 

Google Scholar 
Slater, S. M., Bown, P., Twitchett, R. J., Danise, S. & Vajda, V. Global record of “ghost’’ nannofossils reveals plankton resilience to high co2 and warming. Science 376, 853–856 (2022).Article 
ADS 
CAS 

Google Scholar 
Forster, A., Schouten, S., Moriya, K., Wilson, P. A. & Sinninghe Damsté, J. S. Tropical warming and intermittent cooling during the cenomanian/turonian oceanic anoxic event 2: Sea surface temperature records from the equatorial atlantic. Paleoceanography22 (2007).Barclay, R. S., McElwain, J. C. & Sageman, B. B. Carbon sequestration activated by a volcanic co2 pulse during ocean anoxic event 2. Nat. Geosci. 3, 205–208 (2010).Article 
ADS 
CAS 

Google Scholar 
Damsté, J. S. S., van Bentum, E. C., Reichart, G.-J., Pross, J. & Schouten, S. A co2 decrease-driven cooling and increased latitudinal temperature gradient during the mid-cretaceous oceanic anoxic event 2. Earth Planet. Sci. Lett. 293, 97–103 (2010).Article 
ADS 

Google Scholar 
Heimhofer, U. et al. Vegetation response to exceptional global warmth during oceanic anoxic event 2. Nat. Commun. 9, 1–8 (2018).Article 
CAS 

Google Scholar 
Huber, B. T., MacLeod, K. G., Watkins, D. K. & Coffin, M. F. The rise and fall of the cretaceous hot greenhouse climate. Global Planet. Change 167, 1–23 (2018).Article 
ADS 

Google Scholar 
Robinson, S. A. et al. Southern hemisphere sea-surface temperatures during the cenomanian-turonian: Implications for the termination of oceanic anoxic event 2. Geology 47, 131–134 (2019).Article 
ADS 
CAS 

Google Scholar 
Voigt, S., Gale, A. S. & Flögel, S. Midlatitude shelf seas in the cenomanian-turonian greenhouse world: Temperature evolution and north atlantic circulation. Paleoceanography19 (2004).Van Helmond, N. et al. Freshwater discharge controlled deposition of cenomanian-turonian black shales on the nw european epicontinental shelf (wunstorf, north germany). Clim. Past Discuss 10, 3755–3786 (2014).ADS 

Google Scholar 
Li, Y.-X., Montanez, I. P., Liu, Z. & Ma, L. Astronomical constraints on global carbon-cycle perturbation during oceanic anoxic event 2 (oae2). Earth Planet. Sci. Lett. 462, 35–46 (2017).Article 
ADS 
CAS 

Google Scholar 
O’Brien, C. L. et al. Cretaceous sea-surface temperature evolution: Constraints from tex86 and planktonic foraminiferal oxygen isotopes. Earth Sci. Rev. 172, 224–247 (2017).Article 
ADS 

Google Scholar 
Jones, C. E. & Jenkyns, H. C. Seawater strontium isotopes, oceanic anoxic events, and seafloor hydrothermal activity in the jurassic and cretaceous. Am. J. Sci. 301, 112–149 (2001).Article 
ADS 
CAS 

Google Scholar 
Snow, L. J., Duncan, R. A. & Bralower, T. J. Trace element abundances in the rock canyon anticline, pueblo, colorado, marine sedimentary section and their relationship to caribbean plateau construction and oxygen anoxic event 2. Paleoceanography20 (2005).Kuroda, J. et al. Contemporaneous massive subaerial volcanism and late cretaceous oceanic anoxic event 2. Earth Planet. Sci. Lett. 256, 211–223 (2007).Article 
ADS 
CAS 

Google Scholar 
Turgeon, S. C. & Creaser, R. A. Cretaceous oceanic anoxic event 2 triggered by a massive magmatic episode. Nature 454, 323–326 (2008).Article 
ADS 
CAS 

Google Scholar 
Floegel, S. et al. Simulating the biogeochemical effects of volcanic co2 degassing on the oxygen-state of the deep ocean during the cenomanian/turonian anoxic event (oae2). Earth Planet. Sci. Lett. 305, 371–384 (2011).Article 
ADS 
CAS 

Google Scholar 
Tegner, C. et al. Magmatism and eurekan deformation in the high arctic large igneous province: 40ar-39ar age of kap washington group volcanics, north greenland. Earth Planet. Sci. Lett. 303, 203–214 (2011).Article 
ADS 
CAS 

Google Scholar 
Du Vivier, A. D. et al. Marine 187os/188os isotope stratigraphy reveals the interaction of volcanism and ocean circulation during oceanic anoxic event 2. Earth Planet. Sci. Lett. 389, 23–33 (2014).Article 
ADS 

Google Scholar 
Du Vivier, A., Selby, D., Condon, D., Takashima, R. & Nishi, H. Pacific 187os/188os isotope chemistry and u-pb geochronology: Synchroneity of global os isotope change across oae 2. Earth Planet. Sci. Lett. 428, 204–216 (2015).Article 
ADS 

Google Scholar 
Meyers, P. A. Why are the (delta )13corg values in phanerozoic black shales more negative than in modern marine organic matter?. Geochem. Geophys. Geosyst. 15, 3085–3106 (2014).Article 
ADS 
CAS 

Google Scholar 
Jenkyns, H. C., Dickson, A. J., Ruhl, M. & Van den Boorn, S. H. Basalt-seawater interaction, the plenus cold event, enhanced weathering and geochemical change: Deconstructing oceanic anoxic event 2 (cenomanian-turonian, late cretaceous). Sedimentology 64, 16–43 (2017).Article 
CAS 

Google Scholar 
Scaife, J. et al. Sedimentary mercury enrichments as a marker for submarine large igneous province volcanism? evidence from the mid-cenomanian event and oceanic anoxic event 2 (late cretaceous). Geochem. Geophys. Geosyst. 18, 4253–4275 (2017).Article 
ADS 
CAS 

Google Scholar 
Schröder-Adams, C. J., Herrle, J. O., Selby, D., Quesnel, A. & Froude, G. Influence of the high arctic igneous province on the cenomanian/turonian boundary interval, sverdrup basin, high canadian arctic. Earth Planet. Sci. Lett. 511, 76–88 (2019).Article 
ADS 

Google Scholar 
Jolet, P., Philip, J., Thomel, G., Lopez, G. & Tronchetti, G. Nouvelles données biostratigraphiques sur la limite cénomanien-turonien. la coupe de cassis (sud-est de la france): Proposition d’un hypostratotype européen. Comptes Rendus de l’Académie des Sciences-Series IIA-Earth and Planetary Science325, 703–709 (1997).Bown, P. R. & Young, J. Calcareous nannofossil biostratigraphy (Springer, 1998).Green, T., Renne, P. R. & Keller, C. B. Continental flood basalts drive phanerozoic extinctions. Proc. Natl. Acad. Sci. 119, e2120441119 (2022).Article 
CAS 

Google Scholar 
Percival, L. M. et al. Does large igneous province volcanism always perturb the mercury cycle? Comparing the records of oceanic anoxic event 2 and the end-cretaceous to other mesozoic events. Am. J. Sci. 318, 799–860 (2018).Article 
ADS 
CAS 

Google Scholar 
Salazar, L. et al. Diversity patterns of ferns along elevational gradients in andean tropical forests. Plant Ecol. Divers. 8, 13–24 (2015).Article 

Google Scholar 
Mehltreter, K., Walker, L. R. & Sharpe, J. M. Fern ecology (Cambridge University Press, 2010).Carvajal-Hernández, C. I., Gómez-Díaz, J. A., Kessler, M. & Krömer, T. Influence of elevation and habitat disturbance on the functional diversity of ferns and lycophytes. Plant Ecol. Divers. 11, 335–347 (2018).Article 

Google Scholar 
Kürschner, W. M., Batenburg, S. J. & Mander, L. Aberrant classopollis pollen reveals evidence for unreduced (2 n) pollen in the conifer family cheirolepidiaceae during the triassic-jurassic transition. Proc. Royal Soc. B: Biol. Sci. 280, 20131708 (2013).Article 

Google Scholar 
Traverse, A. Paleopalynology Vol. 28 (Springer Science & Business Media, 2007).Tyson, R. V. Palynofacies investigation of callovian (middle jurassic) sediments from dsdp site 534, blake-bahama basin, western central atlantic. Mar. Pet. Geol. 1, 3–13 (1984).Article 

Google Scholar 
RV, T. Sedimentary organic matter: Organic facies and palynofacieschapman & hall. London, 615pp (1995).Vakhrameyev, V. Classopollis pollen as an indicator of jurassic and cretaceous climate. Int. Geol. Rev. 24, 1190–1196 (1982).Article 

Google Scholar 
Vakhrameev, V. Range and palaeoecology of mesozoic conifers, the cheirolepidiaceae. Paleontol. Zh. 1, 19–34 (1970).
Google Scholar 
WATSON, J. Some lower cretaceous conifers of the cheirolepidiaceae from the usa and england. Palaeontology 20, 715–749 (1977).
Google Scholar 
Fonseca, C., Mendonça Filho, J. G., Lézin, C., De Oliveira, A. D. & Duarte, L. V. Organic matter deposition and paleoenvironmental implications across the cenomanian-turonian boundary of the subalpine basin (se france): Local and global controls. Int. J. Coal Geol. 218, 103364 (2020).Article 
CAS 

Google Scholar 
Benca, J. P., Duijnstee, I. A. & Looy, C. V. Uv-b-induced forest sterility: Implications of ozone shield failure in earth’s largest extinction. Sci. Adv. 4, e1700618 (2018).Article 
ADS 

Google Scholar 
Wilson, L. A study in variation of picea glauca (moench) voss pollen. Grana 4, 380–387 (1963).
Google Scholar 
Lindström, S., McLoughlin, S. & Drinnan, A. N. Intraspecific variation of taeniate bisaccate pollen within permian glossopterid sporangia, from the prince charles mountains, antarctica. Int. J. Plant Sci. 158, 673–684 (1997).Article 

Google Scholar 
Leitch, A. & Leitch, I. Ecological and genetic factors linked to contrasting genome dynamics in seed plants. New Phytol. 194, 629–646 (2012).Article 
CAS 

Google Scholar 
Coffin, M. F. & Eldholm, O. Large igneous provinces: crustal structure, dimensions, and external consequences. Rev. Geophys. 32, 1–36 (1994).Article 
ADS 

Google Scholar 
Wignall, P. B. Large igneous provinces and mass extinctions. Earth Sci. Rev. 53, 1–33 (2001).Article 
ADS 
CAS 

Google Scholar 
McElwain, J. C., Wade-Murphy, J. & Hesselbo, S. P. Changes in carbon dioxide during an oceanic anoxic event linked to intrusion into gondwana coals. Nature 435, 479–482 (2005).Article 
ADS 
CAS 

Google Scholar 
Bond, D. P., Wignall, P. B., Keller, G. & Kerr, A. Large igneous provinces and mass extinctions: An update. Volcan., Impacts, Mass Extinc.: Causes Effects 505, 29–55 (2014).
Google Scholar 
Burgess, S., Bowring, S., Fleming, T. & Elliot, D. High-precision geochronology links the ferrar large igneous province with early-jurassic ocean anoxia and biotic crisis. Earth Planet. Sci. Lett. 415, 90–99 (2015).Article 
ADS 
CAS 

Google Scholar 
Burgess, S. D., Muirhead, J. D. & Bowring, S. A. Initial pulse of siberian traps sills as the trigger of the end-permian mass extinction. Nat. Commun. 8, 1–6 (2017).Article 
ADS 
CAS 

Google Scholar 
Ernst, R. E. & Youbi, N. How large igneous provinces affect global climate, sometimes cause mass extinctions, and represent natural markers in the geological record. Palaeogeogr. Palaeoclimatol. Palaeoecol. 478, 30–52 (2017).Article 

Google Scholar 
Ruhl, M. et al. Reduced plate motion controlled timing of early jurassic karoo-ferrar large igneous province volcanism. Sci. Adv. 8, eabo0866 (2022).Article 
CAS 

Google Scholar 
Dickens, G. R., Paull, C. K. & Wallace, P. Direct measurement of in situ methane quantities in a large gas-hydrate reservoir. Nature 385, 426–428 (1997).Article 
ADS 
CAS 

Google Scholar 
Courtillot, V. E. & Renne, P. R. On the ages of flood basalt events. C.R. Geosci. 335, 113–140 (2003).Article 
ADS 

Google Scholar 
Rampino, M. R., Rodriguez, S., Baransky, E. & Cai, Y. Global nickel anomaly links siberian traps eruptions and the latest permian mass extinction. Sci. Rep. 7, 1–6 (2017).Article 
CAS 

Google Scholar 
Clapham, M. E. & Renne, P. R. Flood basalts and mass extinctions. Annu. Rev. Earth Planet. Sci. 47, 275–303 (2019).Article 
ADS 
CAS 

Google Scholar 
McElwain, J. C., Popa, M. E., Hesselbo, S. P., Haworth, M. & Surlyk, F. Macroecological responses of terrestrial vegetation to climatic and atmospheric change across the triassic/jurassic boundary in east greenland. Paleobiology 33, 547–573 (2007).Article 

Google Scholar 
Van de Schootbrugge, B. et al. End-triassic calcification crisis and blooms of organic-walled ‘disaster species’. Palaeogeogr. Palaeoclimatol. Palaeoecol. 244, 126–141 (2007).Article 

Google Scholar 
Ruckwied, K., Götz, A. E., Pálfy, J. & Török, Á. Palynology of a terrestrial coal-bearing series across the triassic/jurassic boundary (mecsek mts, hungary). Central Euro. Geol. 51, 1–15 (2008).Article 
CAS 

Google Scholar 
Götz, A., Ruckwied, K., Pálfy, J. & Haas, J. Palynological evidence of synchronous changes within the terrestrial and marine realm at the triassic/jurassic boundary (csővár section, hungary). Rev. Palaeobot. Palynol. 156, 401–409 (2009).Article 

Google Scholar 
Hochuli, P. A., Hermann, E., Vigran, J. O., Bucher, H. & Weissert, H. Rapid demise and recovery of plant ecosystems across the end-permian extinction event. Global Planet. Change 74, 144–155 (2010).Article 
ADS 

Google Scholar 
Bonis, N. et al.Palaeoenvironmental changes and vegetation history during the Triassic-Jurassic transition (LPP Contribution Series No. 29, 2010).Bonis, N. R. & Kürschner, W. M. Vegetation history, diversity patterns, and climate change across the triassic/jurassic boundary. Paleobiology 38, 240–264 (2012).Article 

Google Scholar 
Visscher, H. et al. Environmental mutagenesis during the end-permian ecological crisis. Proc. Natl. Acad. Sci. 101, 12952–12956 (2004).Article 
ADS 
CAS 

Google Scholar  More

Darwin, C. The Descent of Man and Selection in Relation to Sex. (John Murray, 1871).Andersson, M. Sexual Selection. (Princeton University Press, 1994).Shuster, S. & Wade, M. J. Mating Systems and Strategies. (Princeton University Press, 2003).Gosden, T. P. & Svensson, E. I. Spatial and temporal dynamics in a sexual selection mosaic. Evolution 62, 845–856 (2008).Article 
PubMed 

Google Scholar 
Kasumovic, M. M., Bruce, M. J., Andrade, M. C. B. & Herberstein, M. E. Spatial and temporal demographic variation drives within-season fluctuations in sexual selection. Evolution 62, 2316–2325 (2008).Article 
PubMed 

Google Scholar 
Mobley, K. B. & Jones, A. G. Environmental, demographic, and genetic mating system variation among five geographically distinct dusky pipefish (Syngnathus floridae) populations. Mol. Ecol. 18, 1476–1490 (2009).Article 
PubMed 

Google Scholar 
Hoffer, J. N., Mariën, J., Ellers, J. & Koene, J. M. Sexual selection gradients change over time in a simultaneous hermaphrodite. eLife 6, e25139 (2017).Article 
PubMed 
PubMed Central 

Google Scholar 
Sih, A., Montiglio, P.-O., Wey, T. W. & Fogarty, S. Altered physical and social conditions produce rapidly reversible mating systems in water striders. Behav. Ecol. 28, 632–639 (2017).Article 

Google Scholar 
Preston, B. T., Stevenson, I. R., Pemberton, J. M. & Wilson, K. Dominant rams lose out by sperm depletion. Nature 409, 681–682 (2001).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Cornwallis, C. K. & Uller, T. Towards an evolutionary ecology of sexual traits. Trends Ecol. Evol. 25, 145–152 (2010).Article 
PubMed 

Google Scholar 
Forsgren, E., Amundsen, T., Borg, A. A. & Bjelvenmark, J. Unusually dynamic sex roles in a fish. Nature 429, 551–554 (2004).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Hare, R. M. & Simmons, L. W. Sexual selection maintains a female-specific character in a species with dynamic sex roles. Behav. Ecol. 32, 609–616 (2021).Article 

Google Scholar 
Fox, R. J., Donelson, J. M., Schunter, C., Ravasi, T. & Gaitán-Espitia, J. D. Beyond buying time: the role of plasticity in phenotypic adaptation to rapid environmental change. Philos. Trans. R. Soc. B 374, 20180174 (2019).Article 

Google Scholar 
Ingleby, F. C., Hunt, J. & Hosken, D. J. The role of genotype-by-environment interactions in sexual selection. J. Evol. Biol. 23, 2031–2045 (2010).Article 
CAS 
PubMed 

Google Scholar 
Lindström, J., Pike, T. W., Blount, J. D. & Metcalfe, N. B. Optimization of resource allocation can explain the temporal dynamics and honesty of sexual signals. Am. Nat. 174, 515–525 (2009).Article 
PubMed 

Google Scholar 
Janicke, T., David, P. & Chapuis, E. Environment-dependent sexual selection: Bateman’s parameters under varying levels of food availability. Am. Nat. 185, 756–768 (2015).Article 
PubMed 

Google Scholar 
Morimoto, J., Pizzari, T. & Wigby, S. Developmental environment effects on sexual selection in male and female Drosophila melanogaster. PLoS ONE 11, e0154468 (2016).Article 
PubMed 
PubMed Central 

Google Scholar 
Cattelan, S., Evans, J. P., Garcia-Gonzalez, F., Morbiato, E. & Pilastro, A. Dietary stress increases the total opportunity for sexual selection and modifies selection on condition-dependent traits. Ecol. Lett. 23, 447–456 (2020).Article 
PubMed 

Google Scholar 
Glavaschi, A., Cattelan, S., Grapputo, A. & Pilastro, A. Imminent risk of predation reduces the relative strength of postcopulatory sexual selection in the guppy. Philos. Trans. R. Soc. B 375, 20200076 (2020).Article 

Google Scholar 
Clark, D. C., DeBano, S. J. & Moore, A. J. The influence of environmental quality on sexual selection in Nauphoeta cinerea (Dictyoptera: Blaberidae). Behav. Ecol. 8, 46–53 (1997).Article 

Google Scholar 
Emlen, S. & Oring, L. Ecology, sexual selection and the evolution of mating systems. Science 197, 215–223 (1977).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Liker, A., Freckleton, R. P. & Székely, T. The evolution of sex roles in birds is related to adult sex ratio. Nat. Commun. 4, 1–6 (2013).Article 

Google Scholar 
Wacker, S. et al. Operational sex ratio but not density affects sexual selection in a fish. Evolution 67, 1937–1949 (2013).Article 
PubMed 

Google Scholar 
Wacker, S., Ness, M. H., Östlund-Nilsson, S. & Amundsen, T. Social structure affects mating competition in a damselfish. Coral Reefs 36, 1279–1289 (2017).Article 
ADS 

Google Scholar 
Janicke, T. & Morrow, E. H. Operational sex ratio predicts the opportunity and direction of sexual selection across animals. Ecol. Lett. 21, 384–391 (2018).Article 
PubMed 

Google Scholar 
Procter, D. S., Moore, A. J. & Miller, C. W. The form of sexual selection arising from male-male competition depends on the presence of females in the social environment. J. Evol. Biol. 25, 803–812 (2012).Article 
CAS 
PubMed 

Google Scholar 
Eldakar, O. T., Dlugos, M. J., Pepper, J. W. & Wilson, D. S. Population structure mediates sexual conflict in Water striders. Science 326, 816–816 (2009).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Martin, A. M., Festa-Bianchet, M., Coltman, D. W. & Pelletier, F. Demographic drivers of age-dependent sexual selection. J. Evol. Biol. 29, 1437–1446 (2016).Article 
CAS 
PubMed 

Google Scholar 
Pilakouta, N. & Ålund, M. Sexual selection and environmental change: what do we know and what comes next? Curr. Zool. 67, 293–298 (2021).Article 
PubMed 
PubMed Central 

Google Scholar 
Kahn, A. T., Dolstra, T., Jennions, M. D. & Backwell, P. R. Y. Strategic male courtship effort varies in concert with adaptive shifts in female mating preferences. Behav. Ecol. 24, 906–913 (2013).Article 

Google Scholar 
Jordan, L. A. & Brooks, R. C. Recent social history alters male courtship preferences. Evolution 66, 280–287 (2012).Article 
PubMed 

Google Scholar 
Wilson, D. R., Nelson, X. J. & Evans, C. S. Seizing the opportunity: Subordinate male fowl respond rapidly to variation in social context. Ethology 115, 996–1004 (2009).Article 

Google Scholar 
Gwynne, D. T., Bailey, W. J. & Annells, A. The sex in short supply for matings varies over small Spatial scales in a Katydid (Kawanaphila nartee, Orthoptera: Tettigoniidae). Behav. Ecol. Sociobiol. 42, 157–162 (1998).Article 

Google Scholar 
Fedina, T. Y. & Lewis, S. M. Female mate choice across mating stages and between sequential mates in flour beetles. J. Evol. Biol. 20, 2138–2143 (2007).Article 
CAS 
PubMed 

Google Scholar 
Clark, H. L. & Backwell, P. R. Y. Temporal and spatial variation in female mating preferences in a fiddler crab. Behav. Ecol. Sociobiol. 69, 1779–1784 (2015).Article 

Google Scholar 
Serbezov, D., Bernatchez, L., Olsen, E. M. & Vøllestad, L. A. Mating patterns and determinants of individual reproductive success in brown trout (Salmo trutta) revealed by parentage analysis of an entire stream living population. Mol. Ecol. 19, 3193–3205 (2010).Article 
PubMed 

Google Scholar 
Gerlach, N. M., McGlothlin, J. W., Parker, P. G. & Ketterson, E. D. Reinterpreting Bateman gradients: multiple mating and selection in both sexes of a songbird species. Behav. Ecol. 23, 1078–1088 (2012).Article 

Google Scholar 
Dubuc, C., Ruiz-Lambides, A. & Widdig, A. Variance in male lifetime reproductive success and estimation of the degree of polygyny in a primate. Behav. Ecol. 25, 878–889 (2014).Article 
PubMed 
PubMed Central 

Google Scholar 
Breuer, T. et al. Variance in the male reproductive success of western gorillas: acquiring females is just the beginning. Behav. Ecol. Sociobiol. 64, 515–528 (2010).Article 

Google Scholar 
Germain, R. R., Hallworth, M. T., Kaiser, S. A., Sillett, T. S. & Webster, M. S. Variance in within-pair reproductive success influences the opportunity for selection annually and over the lifetimes of males in a multi-brooded songbird. Evolution 75, 915–930 (2021).Article 
PubMed 

Google Scholar 
Lande, R. & Arnold, S. J. The measurement of selection on correlated characters. Evolution 37, 1210–1226 (1983).Article 
PubMed 

Google Scholar 
Klug, H., Heuschele, J., Jennions, M. D. & Kokko, H. The mismeasurement of sexual selection. J. Evol. Biol. 23, 447–462 (2010).Article 
CAS 
PubMed 

Google Scholar 
Jennions, M. D., Kokko, H. & Klug, H. The opportunity to be misled in studies of sexual selection. J. Evol. Biol. 25, 591–598 (2012).Article 
CAS 
PubMed 

Google Scholar 
Krakauer, A. H., Webster, M. S., Duval, E. H., Jones, A. G. & Shuster, S. M. The opportunity for sexual selection: not mismeasured, just misunderstood. J. Evol. Biol. 24, 2064–2071 (2011).Article 
CAS 
PubMed 

Google Scholar 
Hebets, E. A., Stafstrom, J. A., Rodriguez, R. L. & Wilgers, D. J. Enigmatic ornamentation eases male reliance on courtship performance for mating success. Anim. Behav. 81, 963–972 (2011).Article 

Google Scholar 
Fitzpatrick, J. L. & Lüpold, S. Sexual selection and the evolution of sperm quality. Mol. Hum. Reprod. 20, 1180–1189 (2014).Article 
PubMed 

Google Scholar 
Jones, A. G. On the opportunity for sexual selection, the Bateman gradient and the maximum intensity of sexual selection. Evolution 63, 1673–1684 (2009).Article 
PubMed 

Google Scholar 
Henshaw, J. M., Kahn, A. T. & Fritzsche, K. A rigorous comparison of sexual selection indexes via simulations of diverse mating systems. Proc. Natl Acad. Sci. USA 113, E300–E308 (2016).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Evans, J. P. & Garcia-Gonzalez, F. The total opportunity for sexual selection and the integration of pre- and post-mating episodes of sexual selection in a complex world. J. Evol. Biol. 29, 2338–2361 (2016).Article 
CAS 
PubMed 

Google Scholar 
Downhower, J. F., Blumer, L. S. & Brown, L. Opportunity for selection: an appropriate measure for evaluating variation in the potential for selection? Evolution 41, 1395–1400 (1987).Article 
PubMed 

Google Scholar 
Klug, H. & Stone, L. More than just noise: Chance, mating success, and sexual selection. Ecol. Evol. 11, 6326–6340 (2021).Article 
PubMed 
PubMed Central 

Google Scholar 
Anthes, N., Häderer, I. K., Michiels, N. K. & Janicke, T. Measuring and interpreting sexual selection metrics: evaluation and guidelines. Methods Ecol. Evol. 8, 918–931 (2016).Article 

Google Scholar 
Klug, H., Lindström, K. & Kokko, H. Who to include in measures of sexual selection is no trivial matter. Ecol. Lett. 13, 1094–1102 (2010).Article 
PubMed 

Google Scholar 
Collet, J. M., Dean, R. F., Worley, K., Richardson, D. S. & Pizzari, T. The measure and significance of Bateman’s principles. Proc. R. Soc. B 281, 20132973 (2014).Article 
PubMed 
PubMed Central 

Google Scholar 
Collet, J., Richardson, D. S., Worley, K. & Pizzari, T. Sexual selection and the differential effect of polyandry. Proc. Natl Acad. Sci. USA 109, 8641–8645 (2012).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
McDonald, G. C., Spurgin, L. G., Fairfield, E. A., Richardson, D. S. & Pizzari, T. Pre- and postcopulatory sexual selection favor aggressive, young males in polyandrous groups of red junglefowl. Evolution 71, 1653–1669 (2017).Article 
PubMed 

Google Scholar 
Morimoto, J. et al. Sex peptide receptor-regulated polyandry modulates the balance of pre- and post-copulatory sexual selection in Drosophila. Nat. Commun. 10, 283 (2019).Article 
ADS 
PubMed 
PubMed Central 

Google Scholar 
Shuster, S. M., Willen, R. M., Keane, B. & Solomon, N. G. Alternative mating tactics in socially monogamous prairie voles, Microtus ochrogaster. Front. Ecol. Evol. 7, 7 (2019).Article 

Google Scholar 
Dowling, J. & Webster, M. S. Working with what you’ve got: unattractive males show greater mate-guarding effort in a duetting songbird. Biol. Lett. 13, 20160682 (2017).Article 
PubMed 
PubMed Central 

Google Scholar 
Pizzari, T. & McDonald, G. C. Sexual selection in socially structured, polyandrous populations: Some insights from the fowl. Adv. Study Behav. 51, 77–141 (2019).Article 

Google Scholar 
Archer, M. S. & Elgar, M. A. Female preference for multiple partners: sperm competition in the hide beetle, Dermestes maculatus (DeGeer). Anim. Behav. 58, 669–675 (1999).Article 
CAS 
PubMed 

Google Scholar 
Qvarnström, A. & Forsgren, E. Should females prefer dominant males? Trends Ecol. Evol. 13, 498–501 (1998).Article 
PubMed 

Google Scholar 
Webster, M. S., Tarvin, K. A., Tuttle, E. M. & Pruett-Jones, S. Promiscuity drives sexual selection in a socially monogamous bird. Evolution 61, 2205–2211 (2007).Article 
PubMed 

Google Scholar 
Brunton, D. H. Energy expenditure in reproductive effort of male and female Killdeer (Charadrius vociferus). Auk 105, 553–564 (1988).Article 

Google Scholar 
Johnson, L. S., Hicks, B. G. & Masters, B. S. Increased cuckoldry as a cost of breeding late for male house wrens (Troglodytes aedon). Behav. Ecol. 13, 670–675 (2002).Article 

Google Scholar 
Boinski, S. Mating patterns in squirrel monkeys (Saimiri oerstedi): implications for seasonal sexual dimorphism. Behav. Ecol. Sociobiol. 21, 13–21 (1987).Article 

Google Scholar 
McDonald, G. C., Spurgin, L. G., Fairfield, E. A., Richardson, D. S. & Pizzari, T. Differential female sociality is linked with the fine-scale structure of sexual interactions in replicate groups of red junglefowl, Gallus gallus. Proc. R. Soc. B 286, 20191734 (2019).Article 
PubMed 
PubMed Central 

Google Scholar 
Carleial, R. et al. Temporal dynamics of competitive fertilization in social groups of red junglefowl (Gallus gallus) shed new light on avian sperm competition. Philos. Trans. R. Soc. B 375, 20200081 (2020).Article 

Google Scholar 
Lessells, C. M. & Birkhead, T. R. Mechanisms of sperm competition in birds: mathematical models. Behav. Ecol. Sociobiol. 27, 325–337 (1990).Article 

Google Scholar 
Taborsky, T., Oliveira, R. F. & Brockmann, H. J. The Evolution of Alternative Reproductive Tactics: Concepts and Questions. in Alternative Reproductive Tactics: An Integrative Approach (Cambridge University Press, 2008).Ghislandi, P. G. et al. Resource availability, mating opportunity and sexual selection intensity influence the expression of male alternative reproductive tactics. J. Evol. Biol. 31, 1035–1046 (2018).Article 
PubMed 

Google Scholar 
Lehtonen, T. K., Wong, B. B. M. & Lindström, K. Fluctuating mate preferences in a marine fish. Biol. Lett. 6, 21–23 (2010).Article 
PubMed 

Google Scholar 
Chaine, A. S. & Lyon, B. E. Adaptive plasticity in female mate choice dampens sexual selection on male ornaments in the lark bunting. Science 319, 459–462 (2008).Article 
ADS 
CAS 
PubMed 

Google Scholar 
R Core Team. R: A Language and Environment for Statistical Computing. (R Foundation for Statistical Computing, 2019).Bates, D., Mächler, M., Bolker, B. & Walker, S. Fitting Linear Mixed-Effects Models Using lme4. J. Stat. Softw. 67, 1–48 (2015).Article 

Google Scholar 
Kuznetsova, A., Brockhoff, P. B. & Christensen, R. H. lmerTest package: tests in linear mixed effects models. J. Stat. Softw. 82, 1–26 (2017).Article 

Google Scholar 
Oklander, L. I., Kowalewski, M. & Corach, D. Male reproductive strategies in black and gold howler monkeys (Alouatta caraya). Am. J. Primatol. 76, 43–55 (2014).Article 
PubMed 

Google Scholar 
Pröhl, H. & Hödl, W. Parental investment, potential reproductive rates, and mating system in the strawberry dart-poison frog, Dendrobates pumilio. Behav. Ecol. Sociobiol. 46, 215–220 (1999).Article 

Google Scholar 
Turnell, B. R. & Shaw, K. L. High opportunity for postcopulatory sexual selection under field conditions. Evolution 69, 2094–2104 (2015).Article 
PubMed 

Google Scholar 
Gill, L. F., van Schaik, J., von Bayern, A. M. P. & Gahr, M. L. Genetic monogamy despite frequent extrapair copulations in “strictly monogamous” wild jackdaws. Behav. Ecol. 31, 247–260 (2020).Article 
PubMed 

Google Scholar 
Carleial, R., McDonald, G. C. & Pizzari, T. Dynamic phenotypic correlates of social status and mating effort in male and female red junglefowl, Gallus gallus. J. Evol. Biol. 33, 22–40 (2020).Article 
PubMed 

Google Scholar 
McDonald, G. C. & Pizzari, T. Structure of sexual networks determines the operation of sexual selection. Proc. Natl Acad. Sci. USA 115, E53–E61 (2018).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Janicke, T., Häderer, I. K., Lajeunesse, M. J. & Anthes, N. Darwinian sex roles confirmed across the animal kingdom. Sci. Adv. 2, e1500983 (2016).Article 
ADS 
PubMed 
PubMed Central 

Google Scholar 
Webster, M. S., Pruett-Jones, S., Westneat, D. F. & Arnold, S. J. Measuring the effects of pairing success, extra-pair copulations and mate quality on the opportunity for sexual selection. Evolution 49, 1147–1157 (1995).PubMed 

Google Scholar 
Etches, R. J. Reproduction in Poultry. (CABI, 1996).Schielzeth, H. Simple means to improve the interpretability of regression coefficients: Interpretation of regression coefficients. Methods Ecol. Evol. 1, 103–113 (2010).Article 

Google Scholar 
Løvlie, H., Cornwallis, C. K. & Pizzari, T. Male mounting alone reduces female promiscuity in the fowl. Curr. Biol. 15, 1222–1227 (2005).Article 
PubMed 

Google Scholar 
Berglund, A. Many mates make male pipefish choosy. Behaviour 132, 213–218 (1995).Article 

Google Scholar 
Carleial, R., Pizzari, T., Richardson, D. S. & McDonald, G. C. Data for: Disentangling the causes of temporal variation in the opportunity for sexual selection. figshare Dataset (2023) https://doi.org/10.6084/m9.figshare.21902133.v1.McLain, D. K., Burnette, L. B. & Deeds, D. A. Within season variation in the intensity of sexual selection on body size in the bug Margus obscurator (Hemiptera Coreidae). Ethol. Ecol. Evol. 5, 75–86 (1993).Article 

Google Scholar 
Schlicht, E. & Kempenaers, B. Effects of social and extra-pair mating on sexual selection in Blue tits (Cyanistes caeruleus). Evolution 67, 1420–1434 (2013).PubMed 

Google Scholar  More

Benson, E. S. Sci. Context 29, 107–128 (2016).Article 
PubMed 

Google Scholar 
Buckmaster, C. A. Lab Anim. 44, 237 (2015).Article 

Google Scholar 
Kelly, M. J. et al. J. Zool. 244, 473–488 (1998).Article 

Google Scholar 
Spagnuolo, O. S. B., Lemerle, M. A., Holekamp, K. E. & Wiesel, I. Mamm. Biol. https://doi.org/10.1007/s42991-022-00309-4 (2022).Article 
PubMed 
PubMed Central 

Google Scholar 
California Department of Fish and Wildlife. Mountain lion P-22 compassionately euthanized following complete health evaluation results. wildlife.ca.gov, https://wildlife.ca.gov/News/mountain-lion-p-22-compassionately-euthanized-following-complete-health-evaluation-results (17 December 2022).Road Ecology Center, UC Davis. California roadkill observation system, https://www.wildlifecrossing.net/california/ (accessed 19 December 2022).Wong-Parodi, G. & Feygina, I. Environ. Commun. 15, 571–593 (2021).Article 

Google Scholar 
Carmi, N., Arnon, S. & Orion, N. J. Environ. Educ. 46, 183–201 (2015).Article 

Google Scholar 
Manfredo, M. J., Urquiza-Haas, E. G., Don Carlos, A. W., Bruskotter, J. T. & Dietsch, A. M. Biol. Conserv. 241, 108297 (2020).Article 

Google Scholar 
Schueler, D. S. & Newberry, M. G. III Appl. Environ. Educ. Commun. 19, 259–273 (2020).Article 

Google Scholar 
Jennings, L. Public gets to name Dallas Zoo’s baby giraffe. Dallas Zoo https://zoohoo.dallaszoo.com/2014/11/05/public-gets-to-name-dallas-zoos-baby-giraffe/ (5 November 2014).Verma, A., van der Wal, R. & Fischer, A. Ambio 44(Suppl 4), 648–660 (2015).Article 
PubMed 
PubMed Central 

Google Scholar 
Macdonald, D. W., Jacobsen, K. S., Burnham, D., Johnson, P. J. & Loveridge, A. J. Animals 6, 26 (2016).Article 
PubMed 
PubMed Central 

Google Scholar 
Jones, M. D., Shanahan, E. A. & McBeth, M. K. The Science of Stories: Applications of the Narrative Policy Framework in Public Policy Analysis (Palgrave MacMillan, 2014). More

Pawlowski, J. et al. CBOL Protist working group: barcoding eukaryotic richness beyond the animal, plant, and fungal kingdoms. PLOS Biol. 10, e1001419 (2012).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
del Campo, J. et al. The others: our biased perspective of eukaryotic genomes. Trends Ecol. Evol. 29, 252–259 (2014).Article 
PubMed 
PubMed Central 

Google Scholar 
Handbook of the Protists (Springer, 2017). https://doi.org/10.1007/978-3-319-28149-0.Lang, B. F., O’Kelly, C., Nerad, T., Gray, M. W. & Burger, G. The closest unicellular relatives of animals. Curr. Biol. 12, 1773–1778 (2002).Article 
CAS 
PubMed 

Google Scholar 
del Campo, J. et al. Ecological and evolutionary significance of novel protist lineages. Eur. J. Protistol. 55, 4–11 (2016).Article 
PubMed 
PubMed Central 

Google Scholar 
Grau-Bové, X. et al. Dynamics of genomic innovation in the unicellular ancestry of animals. Life 6, e26036 (2017).
Google Scholar 
Gawryluk, R. M. R. et al. Non-photosynthetic predators are sister to red algae. Nature 572, 240–243 (2019).Article 
CAS 
PubMed 

Google Scholar 
Gabr, A., Grossman, A. R. & Bhattacharya, D. Paulinella, a model for understanding plastid primary endosymbiosis. J. Phycol. 56, 837–843 (2020).Article 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Gao, Z., Karlsson, I., Geisen, S., Kowalchuk, G. & Jousset, A. Protists: Puppet masters of the rhizosphere microbiome. Trends Plant Sci. 24, 165–176 (2019).Article 
CAS 
PubMed 

Google Scholar 
Caron, D. A. New accomplishments and approaches for assessing protistan diversity and ecology in natural ecosystems. Bioscience 59, 287–299 (2009).Article 

Google Scholar 
Gooday, A. J., Schoenle, A., Dolan, J. R. & Arndt, H. Protist diversity and function in the dark ocean: Challenging the paradigms of deep-sea ecology with special emphasis on foraminiferans and naked protists. Eur. J. Protistol. 75, 125721 (2020).Article 
PubMed 

Google Scholar 
Stoecker, D. K., Johnson, M. D., de Vargas, C. & Not, F. Acquired phototrophy in aquatic protists. Aquat. Microb. Ecol. 57, 279–310 (2009).Article 

Google Scholar 
Strom, S. L., Benner, R., Ziegler, S. & Dagg, M. J. Planktonic grazers are a potentially important source of marine dissolved organic carbon. Limnol. Oceanogr. 42, 1364–1374 (1997).Article 
ADS 
CAS 

Google Scholar 
Orsi, W. D. et al. Identifying protist consumers of photosynthetic picoeukaryotes in the surface ocean using stable isotope probing. Environ. Microbiol. 20, 815–827 (2018).Article 
CAS 
PubMed 

Google Scholar 
Corno, G. & Jürgens, K. Direct and indirect effects of protist predation on population size structure of a bacterial strain with high phenotypic plasticity. Appl. Environ. Microbiol. 72, 78–86 (2006).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Mahé, F. et al. Parasites dominate hyperdiverse soil protist communities in Neotropical rainforests. Nat. Ecol. Evol. 1, 91 (2017).Article 
PubMed 

Google Scholar 
Ruppert, K. M., Kline, R. J. & Rahman, M. S. Past, present, and future perspectives of environmental DNA (eDNA) metabarcoding: A systematic review in methods, monitoring, and applications of global eDNA. Glob. Ecol. Conserv. 17, e00547 (2019).Article 

Google Scholar 
Epstein, S. & López-García, P. “Missing” protists: a molecular prospective. Biodivers. Conserv. 17, 261–276 (2008).Article 

Google Scholar 
López-García, P., Rodríguez-Valera, F., Pedrós-Alió, C. & Moreira, D. Unexpected diversity of small eukaryotes in deep-sea Antarctic plankton. Nature 409, 603–607 (2001).Article 
ADS 
PubMed 

Google Scholar 
Lovejoy, C., Massana, R. & Pedrós-Alió, C. Diversity and distribution of marine microbial eukaryotes in the Arctic Ocean and adjacent seas. Appl. Environ. Microbiol. 72, 3085–3095 (2006).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Worden, A. Z., Cuvelier, M. L. & Bartlett, D. H. In-depth analyses of marine microbial community genomics. Trends Microbiol. 14, 331–336 (2006).Article 
CAS 
PubMed 

Google Scholar 
Countway, P. D. et al. Distinct protistan assemblages characterize the euphotic zone and deep sea (2500 m) of the western North Atlantic (Sargasso Sea and Gulf Stream). Environ. Microbiol. 9, 1219–1232 (2007).Article 
CAS 
PubMed 

Google Scholar 
Massana, R. & Pedrós-Alió, C. Unveiling new microbial eukaryotes in the surface ocean. Curr. Opin. Microbiol. 11, 213–218 (2008).Article 
PubMed 

Google Scholar 
Alexander, E. et al. Microbial eukaryotes in the hypersaline anoxic L’Atalante deep-sea basin. Environ. Microbiol. 11, 360–381 (2009).Article 
CAS 
PubMed 

Google Scholar 
Stoeck, T. et al. Multiple marker parallel tag environmental DNA sequencing reveals a highly complex eukaryotic community in marine anoxic water. Mol. Ecol. 19, 21–31 (2010).Article 
CAS 
PubMed 

Google Scholar 
Logares, R. et al. Patterns of rare and abundant marine microbial eukaryotes. Curr. Biol. 24, 813–821 (2014).Article 
CAS 
PubMed 

Google Scholar 
de Vargas, C. et al. Eukaryotic plankton diversity in the sunlit ocean. Science 348, 150 (2015).Article 

Google Scholar 
Fell, J. W., Scorzetti, G., Connell, L. & Craig, S. Biodiversity of micro-eukaryotes in Antarctic Dry Valley soils with More

Smith, V. H. Eutrophication of freshwater and coastal marine ecosystems: A global problem. Environ. Sc. Pollut. R. Int. 10, 126–139 (2003).Article 
CAS 

Google Scholar 
Jeppesen, E., Sondergaard, M. & Jensen, J. P. Lake responses to reduced nutrient loading an analysis of contemporary long term data from 35 case studies. Freshw. Biol. 50, 1747–1771 (2005).Article 
CAS 

Google Scholar 
Kim, L. H., Choi, E. & Michal, K. S. Sediment characteristics, phosphorus types and phosphorus release rates between river and lake sediments. Chemosphere 50, 53–61 (2003).Article 
ADS 
CAS 

Google Scholar 
Jiang, X. J., Xiang, C. & Yao, Y. Effects of biological activity, light, temperature and oxygen on phosphorus release processes at the sediment and water interface of Taihu Lake, China. Water Res. 42, 2251–2259 (2008).Article 
CAS 

Google Scholar 
Wang, S. R., Jin, X. C. & Bu, Q. Y. Effects of dissolved oxygen supply level on phosphorus release from lake sediments. Colloids Surf. A 316, 245–252 (2008).Article 
CAS 

Google Scholar 
Miao, S. Y., De-Laune, R. D. & Jug-Sujinda, A. Influence of sediment redox conditions on release/solubility of metals and nutrients in a Louisiana Mississippi River deltaic plain freshwater lake. Sci. Total Environ. 371, 334–343 (2006).Article 
ADS 
CAS 

Google Scholar 
Smits, J. G. C. & Van Beek, J. K. L. ECO: A generic eutrophication model including comprehensive sediment-water interaction. PLoS ONE 8, e68104 (2013).Article 
ADS 
CAS 

Google Scholar 
Topcu, A. & Pulatsu, S. Phosphorus fractions and cycling in the sediment of a shallow eutrophic pond. Tarim Bilim. Derg. 20, 63–70 (2014).Article 

Google Scholar 
Jeppesen, E., Sondergaard, M. & Jensen, J. P. Lake responses to reduced nutrient loading-an analysis of contemporary long-term data from 35 case studies. Freshw. Biol. 50, 1747–1771 (2005).Article 
CAS 

Google Scholar 
Song, C. L., Cao, X. Y. & Liu, Y. B. Seasonal variations in chlorophyll a concentrations in relation to potentials of sediment phosphate release by different mechanisms in a large chinese shallow eutrophic lake (Lake Taihu). Geomicrobiol. J. 26, 508–515 (2009).Article 
CAS 

Google Scholar 
Pop, O., Martin, U., Abel, C. & Müller, J. P. The twin-arginine signal peptide of PhoD and the TatAd/Cd proteins of Bacillus subtilis form an autonomous tat translocation system. J. Biol. Chem. 277, 3268–3273 (2002).Article 
CAS 

Google Scholar 
Luo, H. W., Zhang, H. M. & Long, R. A. Depth distributions of alkaline phosphatase and phosphonate utilization genes in the North Pacific Subtropical Gyre. Aquat. Microb. Ecol. 62, 61–69 (2011).Article 

Google Scholar 
Tan, H. et al. Long-term phosphorus fertilisation increased the diversity of the total bacterial community and the phoD phosphorus mineraliser group in pasture soils. Biol. Fertil. Soils 49, 661–672 (2012).Article 

Google Scholar 
Wan, W. J. et al. Spatial differences in soil microbial diversity caused by pH-driven organic phosphorus mineralization. Land Degrad. Dev. 32, 766–776 (2021).Article 

Google Scholar 
Chen, X. et al. Response of soil phoD phosphatase gene to long-term combined applications of chemical fertilizers and organic materials. Appl. Soil Ecol. 119, 197–204 (2017).Article 
ADS 

Google Scholar 
Sagnon, A. et al. Amendment with Burkina Faso phosphate rock-enriched composts alters soil chemical properties and microbial structure, and enhances sorghum agronomic performance. Sci. Rep. 12, 13945 (2022).Article 
ADS 
CAS 

Google Scholar 
Chhabra, S. et al. Fertilization management affects the alkaline phosphatase bacterial community in barley rhizosphere soil. Biol. Fertil. Soils 49, 31–39 (2012).Article 

Google Scholar 
Luo, H. W., Benner, R., Long, R. A. & Hu, J. J. Subcellular localization of marine bacterial alkaline phosphatases. Proc. Natl. Acad. Sci. 106, 212–219 (2009).Article 

Google Scholar 
Zhang, T. X. et al. Suspended particles phoD alkaline phosphatase gene diversity in large shallow eutrophic Lake Taihu. Sci. Total Environ. 728, 138615 (2020).Article 
ADS 
CAS 

Google Scholar 
Li, H. et al. Nutrients regeneration pathway, release potential, transformation pattern and algal utilization strategies jointly drove cyanobacterial growth and their succession. J. Environ. Sci. 103, 255–267 (2021).Article 
CAS 

Google Scholar 
Sun, T. T., Huang, T. & Liu, Y. X. Effects of cyanobacterial growth and decline on the phoD-harboring bacterial community structure in sediments of Lake Chaohu. J. Lake Sci. 34, 32 (2022).ADS 

Google Scholar 
Li, Y., Ai, M. J., Sun, Y., Zhang, Y. Q. & Zhang, J. Q. Spirosoma lacussanchae sp. nov., a phosphate-solubilizing bacterium isolated from a freshwater reservoir. Int. J. Syst. Evol. Microbiol. 67, 3144–3149 (2017).Article 
CAS 

Google Scholar 
Li, Y., Zhang, J. J., Xu, W. L. & Mou, Z. S. Microbial community structure in the sediments and its relation to environmental factors in eutrophicated Sancha Lake. Int. J. Environ. Res. Public Health 16, 1931–1946 (2019).Article 
CAS 

Google Scholar 
Jia, B. Y., Tang, Y. & Fu, W. L. Relationship among sediment characteristics, eutrophication process and human activities in the Sancha Lake. China Environ. Sci. 33, 1638–1644 (2013).CAS 

Google Scholar 
Li, Y., Zhang, J. J., Zhang, J. Q., Xu, W. L. & Mou, Z. S. Characteristics of inorganic phosphate-solubilizing bacteria from the sediments of a Eutrophic Lake. Int. J. Environ. Res. Public Health 16, 2141 (2019).Article 
CAS 

Google Scholar 
Ruban, V., Brigault, S., Demare, D. & Philippe, A. M. An investigation of the origin and mobility of phosphorus in freshwater sediments from Bort-Les-Orgues reservoir, France. J. Environ. Monit. 1, 403–407 (1999).Article 
CAS 

Google Scholar 
Ruban, V., López-Sánchez, J. F. & Pardo, P. Harmonized protocol and certified reference material for the determination of extractable contents of phosphorus in freshwater sediments: A synthesis of recent works. Fresenius J. Anal. Chem. 370, 224–228 (2001).Article 
CAS 

Google Scholar 
Li, Y., Zhang, J. Q., Gong, Z. L., Fu, W. L. & Wu, D. M. Fractions and temporal and spatial distribution of phosphorus in the sediments of Sancha lake. Appl. Ecol. Environ. Res. 17, 11731–11743 (2019).Article 

Google Scholar 
Li, Y., Zhang, J. Q., Gong, Z. L., Xu, W. L. & Mou, Z. S. Gcd gene diversity of quinoprotein glucose dehydrogenase in the sediment of Sancha lake and its response to the environment. Int. J. Environ. Res. Public Health 16, 1–10 (2019).Article 

Google Scholar 
Luo, G. W. et al. Long-term fertilisation regimes affect the composition of the alkaline phosphomonoesterase encoding microbial community of a vertisol and its derivative soil fractions. Biol. Fertil. Soils 53, 375–388 (2017).Article 
CAS 

Google Scholar 
Lagos, L. et al. Effect of phosphorus addition on total and alkaline phosphomonoesterase-harboring bacterial populations in ryegrass rhizosphere microsites. Biol. Fertil. Soils 52, 1007–1019 (2016).Article 
CAS 

Google Scholar 
Acuña, J. et al. Bacterial alkaline phosphomono-esterase in the rhizospheres of plants grown in chilean extreme environments. Biol. Fertil. Soils 52, 763–773 (2016).Article 

Google Scholar 
Nicholas, A. B. et al. Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing. Nat. Methods. 10, 57–59 (2013).Article 

Google Scholar 
Price, M. N., Dehal, P. S. & Arkin, A. P. FastTree: Computing large minimum evolution trees with profiles instead of a distance matrix. Mol. Biol. Evol. 26, 1641–1650 (2009).Article 
CAS 

Google Scholar 
Fan, X. F. & Xing, P. The vertical distribution of sediment archaeal community in the (black bloom) disturbing Zhushan Bay of Lake Taihu. Archaea 2016, 201–208 (2016).Article 

Google Scholar 
White, J. R., Nagarajan, N. & Pop, M. O. Statistical methods for detecting differentially abundant features in clinical metagenomic samples (differential abundance in clinical metagenomics). PLoS Comput. Biol. 5, 1–11 (2009).Article 

Google Scholar 
Hu, H., Chen, X. J., Hou, F. J., Wu, Y. P. & Cheng, Y. X. Bacterial and fungal community structures in loess plateau grasslands with different grazing intensities. Front. Microbiol. 8, 606 (2017).Article 

Google Scholar 
Dai, J. Y. et al. Bacterial alkaline phosphatases and affiliated encoding genes in natural waters: A review. J. Lake Sci. 28, 1153–1166 (2016).Article 

Google Scholar 
Chróst, R. J. & Overbeck, J. Kinetics of alkaline phosphatase activity and phosphorus availability for phytoplankton and bacterio-plankton in lake plusee (North German Eutrophic Lake). Microb. Ecol. 13, 229–248 (1987).Article 

Google Scholar 
Margalef, O. et al. Global patterns of phosphatase activity in natural soils. Sci. Rep. 7, 1337 (2017).Article 
ADS 
CAS 

Google Scholar 
Zhao, D. D., Luo, J. F., Huang, X. Y. & Lin, W. T. Diversity of bacterial APase phoD gene in the Pearl River water. Acta Sci. Circum. 35, 722–728 (2015).CAS 

Google Scholar 
Valdespino-Castillo, P. M. et al. Alkaline phosphatases in microbialites and bacterioplankton from Alchichica soda lake, Mexico. FEMS Microbiol. Ecol. 90, 504–519 (2014).CAS 

Google Scholar 
Ni, Z. K., Li, Y. & Wang, S. R. Cognizing and characterizing the organic phosphorus in lake sediments: Advances and challenges. Water Res. 220, 118663 (2022).Article 
CAS 

Google Scholar 
Han, S. S. & Wen, T. M. Phosphorus release and affecting factors in the sediments of eutrophic water. J. Ecol. 23, 98–101 (2004).
Google Scholar 
Wang, F. F., Qu, J. H. & Hu, Y. S. Spatio-temporal characteristics and correlation of phosphate, pH and alkaline phosphatase on water-sediment interface of Lake Taihu. Ecol. Environ. Sci. 21, 907–912 (2012).
Google Scholar 
Lu, Y. M. et al. Bioavailability of organic phosphorus in Lake Chaohu sediments. J. Environ. Eng. Technol. 10, 197–204 (2020).
Google Scholar 
LeBrun, E. S., King, R. S., Back, J. A. & Kang, S. Microbial community structure and function decoupling across a phosphorus gradient in streams. Microb. Ecol. 75, 64–73 (2018).Article 
CAS 

Google Scholar 
Zhang, J. et al. Connecting sources, fractions and algal availability of sediment phosphorus in shallow lakes: An approach to the criteria for sediment phosphorus concentrations. J. Environ. Sci. 25, 798–810 (2023).Article 

Google Scholar 
Hu, Y. J. et al. Effects of long-term fertilization on phoD-harboring bacterial community in Karst soils. Sci. Total Environ. 628–629, 53–63 (2018).Article 
ADS 

Google Scholar  More

Fernández-Martínez, M. et al. Global trends in carbon sinks and their relationships with CO2 and temperature. Nat. Clim. Change 9, 73–79 (2019).Article 
ADS 

Google Scholar 
Scheffer, M. et al. Early-warning signals for critical transitions. Nature 461, 53–59 (2009).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Dakos, V. et al. Slowing down as an early warning signal for abrupt climate change. Proc. Natl Acad. Sci. USA 105, 14308–14312 (2008).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Gasser, T. et al. Path-dependent reductions in CO2 emission budgets caused by permafrost carbon release. Nat. Geosci. 11, 830–835 (2018).Article 
ADS 
CAS 

Google Scholar 
Zhu, Z. et al. Greening of the Earth and its drivers. Nat. Clim. Change 6, 791–795 (2016).Article 
ADS 
CAS 

Google Scholar 
Bastos, A. et al. Contrasting effects of CO2 fertilization, land-use change and warming on seasonal amplitude of Northern Hemisphere CO2 exchange. Atmos. Chem. Phys. 19, 12361–12375 (2019).Article 
ADS 
CAS 

Google Scholar 
Pugh, T. A. M. et al. Role of forest regrowth in global carbon sink dynamics. Proc. Natl Acad. Sci. USA 116, 4382–4387 (2019).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Wang, S. et al. Recent global decline of CO2 fertilization effects on vegetation photosynthesis. Science 370, 1295–1300 (2020).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Peñuelas, J. et al. Assessment of the impacts of climate change on Mediterranean terrestrial ecosystems based on data from field experiments and long-term monitored field gradients in Catalonia. Environ. Exp. Bot. 152, 49–59 (2018).Article 

Google Scholar 
Terrer, C. et al. Nitrogen and phosphorus constrain the CO2 fertilization of global plant biomass. Nat. Clim. Change 9, 684–689 (2019).Article 
ADS 
CAS 

Google Scholar 
Gatti, L. V. et al. Amazonia as a carbon source linked to deforestation and climate change. Nature 595, 388–393 (2021).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Carpenter, S. R. & Brock, W. A. Rising variance: a leading indicator of ecological transition. Ecol. Lett. 9, 311–318 (2006).Article 
CAS 
PubMed 

Google Scholar 
Dakos, V., Nes, E. H. & Scheffer, M. Flickering as an early warning signal. Theor. Ecol. 6, 309–317 (2013).Article 

Google Scholar 
Sillmann, J., Daloz, A. S., Schaller, N. & Schwingshackl, C. in Climate Change 3rd edn (ed. Letcher, T. M.) 359–372 (Elsevier, 2021).Reichstein, M. et al. Climate extremes and the carbon cycle. Nature 500, 287–295 (2013).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Wang, X. et al. A two-fold increase of carbon cycle sensitivity to tropical temperature variations. Nature 506, 212–215 (2014).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Barnosky, A. D. et al. Approaching a state shift in Earth’s biosphere. Nature 486, 52–58 (2012).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Buermann, W. et al. Climate-driven shifts in continental net primary production implicated as a driver of a recent abrupt increase in the land carbon sink. Biogeosciences 13, 1597–1607 (2016).Article 
ADS 
CAS 

Google Scholar 
Luyssaert, S. et al. CO2 balance of boreal, temperate, and tropical forests derived from a global database. Glob. Change Biol. 13, 2509–2537 (2007).Article 
ADS 

Google Scholar 
Peñuelas, J. et al. Shifting from a fertilization-dominated to a warming-dominated period. Nat. Ecol. Evol. 1, 1438–1445 (2017).Article 
PubMed 

Google Scholar 
Fernández-Martínez, M. et al. Nutrient availability as the key regulator of global forest carbon balance. Nat. Clim. Change 4, 471–476 (2014).Article 
ADS 

Google Scholar 
Fernández-Martínez, M. et al. Spatial variability and controls over biomass stocks, carbon fluxes and resource-use efficiencies in forest ecosystems. Trees Struct. Funct. 28, 597–611 (2014).Article 

Google Scholar 
Ciais, P. et al. Five decades of northern land carbon uptake revealed by the interhemispheric CO2 gradient. Nature 568, 221–225 (2019).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Tilman, D., Lehman, C. L. & Thomson, K. T. Plant diversity and ecosystem productivity: theoretical considerations. Proc. Natl Acad. Sci. USA 94, 1857–1861 (1997).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
de Mazancourt, C. et al. Predicting ecosystem stability from community composition and biodiversity. Ecol. Lett. 16, 617–625 (2013).Article 
PubMed 

Google Scholar 
Sakschewski, B. et al. Resilience of Amazon forests emerges from plant trait diversity. Nat. Clim. Change 6, 1032–1036 (2016).Article 
ADS 

Google Scholar 
Fernández‐Martínez, M. et al. The role of climate, foliar stoichiometry and plant diversity on ecosystem carbon balance. Glob. Change Biol. 26, 7067–7078 (2020).Article 
ADS 

Google Scholar 
Musavi, T. et al. Stand age and species richness dampen interannual variation of ecosystem-level photosynthetic capacity. Nat. Ecol. Evol. 1, 0048 (2017).Article 

Google Scholar 
Anderegg, W. R. L. et al. Hydraulic diversity of forests regulates ecosystem resilience during drought. Nature 561, 538–541 (2018).Article 
ADS 
CAS 
PubMed 

Google Scholar 
IPBES: Summary for Policymakers. In The Global Assessment Report on Biodiversity and Ecosystem Services (eds Díaz, S. et al.) 1–56 (IPBES, 2019).Heath, J. P. Quantifying temporal variability in population abundances. Oikos 115, 573–581 (2006).Article 

Google Scholar 
Fernández-Martínez, M., Vicca, S., Janssens, I. A., Martín-Vide, J. & Peñuelas, J. The consecutive disparity index, D, as measure of temporal variability in ecological studies. Ecosphere 9, e02527 (2018).Article 

Google Scholar 
Kreft, H. & Jetz, W. Global patterns and determinants of vascular plant diversity. Proc Natl Acad Sci USA 104, 5925–5930 (2007).Article 
ADS 
CAS 
PubMed 
PubMed Central 

Google Scholar 
Ackerman, D. E., Chen, X. & Millet, D. B. Global nitrogen deposition (2° × 2.5° grid resolution) simulated with GEOS-Chem for 1984–1986, 1994–1996, 2004–2006, and 2014–2016 (University of Minnesota, 2018); https://conservancy.umn.edu/handle/11299/197613.Harris, I., Jones, P. D. D., Osborn, T. J. J. & Lister, D. H. H. Updated high-resolution grids of monthly climatic observations—the CRU TS3.10 Dataset. Int. J. Climatol. 34, 623–642 (2013).Article 

Google Scholar 
Graven, H. D. et al. Enhanced seasonal exchange of CO2 by northern ecosystems since 1960. Science 341, 1085–1089 (2013).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Wang, K. et al. Causes of slowing-down seasonal CO2 amplitude at Mauna Loa. Glob. Change Biol. 26, 4462–4477 (2020).Article 
ADS 

Google Scholar 
Tilman, D., Reich, P. B. & Knops, J. M. H. Biodiversity and ecosystem stability in a decade-long grassland experiment. Nature 441, 629–632 (2006).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Liang, J. et al. Positive biodiversity–productivity relationship predominant in global forests. Science 354, aaf8957–aaf8957 (2016).Article 
PubMed 

Google Scholar 
Gessner, M. O. et al. Diversity meets decomposition. Trends Ecol. Evol. 25, 372–380 (2010).Article 
PubMed 

Google Scholar 
Peguero, G. et al. Fast attrition of springtail communities by experimental drought and richness–decomposition relationships across Europe. Glob. Change Biol. 25, 2727–2738 (2019).Article 
ADS 

Google Scholar 
Díaz, S. & Cabido, M. Vive la différence: plant functional diversity matters to ecosystem processes. Trends Ecol. Evol. 16, 646–655 (2001).Article 

Google Scholar 
Cardinale, B. J. Biodiversity improves water quality through niche partitioning. Nature 472, 86–91 (2011).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Ciais, P. et al. Europe-wide reduction in primary productivity caused by the heat and drought in 2003. Nature 437, 529–533 (2005).Article 
ADS 
CAS 
PubMed 

Google Scholar 
Scheffer, M. Critical Transitions in Nature and Society (Princeton University Press, 2009).Ostfeld, R. & Keesing, F. Pulsed resources and community dynamics of consumers in terrestrial ecosystems. Trends Ecol. Evol. 15, 232–237 (2000).Article 
CAS 
PubMed 

Google Scholar 
Chevallier, F. et al. CO2 surface fluxes at grid point scale estimated from a global 21 year reanalysis of atmospheric measurements. J. Geophys. Res. 115, D21307 (2010).Article 
ADS 

Google Scholar 
Chevallier, F. et al. Toward robust and consistent regional CO2 flux estimates from in situ and spaceborne measurements of atmospheric CO2. Geophys. Res. Lett. 41, 1065–1070 (2014).Article 
ADS 
CAS 

Google Scholar 
Rödenbeck, C., Houweling, S., Gloor, M. & Heimann, M. CO2 flux history 1982–2001 inferred from atmospheric data using a global inversion of atmospheric transport. Atmos. Chem. Phys. 3, 1919–1964 (2003).Article 
ADS 

Google Scholar 
Rödenbeck, C., Zaehle, S., Keeling, R. & Heimann, M. How does the terrestrial carbon exchange respond to interannual climatic variations? A quantification based on atmospheric CO2 data. Biogeosciences 15, 2481–2498 (2018).Sitch, S. et al. Recent trends and drivers of regional sources and sinks of carbon dioxide. Biogeosciences 12, 653–679 (2015).Article 
ADS 

Google Scholar 
Fernández‐Martínez, M. & Peñuelas, J. Measuring temporal patterns in ecology: the case of mast seeding. Ecol. Evol. 11, 2990–2996 (2021).Article 
PubMed 
PubMed Central 

Google Scholar 
Wood, S. N. Generalized Additive Models: An introduction with R 2nd edn (Chapman and Hall/CRC, 2017).Ohlson, J. A. & Kim, S. Linear Valuation Without OLS: The Theil–Sen Estimation Approach (SSRN, 2015); https://ssrn.com/abstract=2276927.Komsta, L. Package mblm, 0.12.1: Median-based linear models (2013).Keeling, C. D. et al. in A History of Atmospheric CO2 and its effects on Plants, Animals, and Ecosystems (eds Ehleringer, J. R. et al.) 83–113 (Springer Verlag, 2005).Leroux, B. G., Lei, X. & Breslow, N. in Statistical Models in Epidemiology, the Environment and Clinical Trials (eds Halloran, M. & Berry, D.) 179–191 (Springer-Verlag, 2000).Lee, D. CARBayes: an R package for Bayesian spatial modeling with conditional autoregressive priors. J. Stat. Softw. 55, 1–24 (2013).Article 

Google Scholar 
Gonzalez, A. et al. Scaling‐up biodiversity–ecosystem functioning research. Ecol. Lett. 15, ele.13456 (2020).
Google Scholar 
R Core Team. R: A Language and Environment for Statistical Computing (R Foundation for Statistical Computing, 2020). More