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@article{yeakel2014,
title = {Collapse of an ecological network in Ancient Egypt},
author = {Yeakel, Justin D. and Pires, Mathias M. and Rudolf, Lars and Dominy, Nathaniel J. and Koch, Paul L. and {Guimarães}, Paulo R. and Gross, Thilo},
year = {2014},
month = {10},
date = {2014-10},
journal = {PNAS},
pages = {14472--14477},
volume = {111},
number = {40},
doi = {10.1073/pnas.1408471111},
note = {Citation Key: Yeakel2014Collapse}
}
@article{shaw2024,
title = {A framework for reconstructing ancient food webs using functional trait data},
author = {Shaw, Jack O. and Dunhill, Alexander M. and Beckerman, Andrew P. and Dunne, Jennifer A. and Hull, Pincelli M.},
year = {2024},
doi = {10.1101/2024.01.30.578036},
langid = {en}
}
@article{rohr2010,
title = {Modeling Food Webs: Exploring Unexplained Structure Using Latent Traits.},
author = {Rohr, {Rudolf Philippe} and Scherer, Heike and Kehrli, Patrik and Mazza, Christian and Bersier, {Louis{-}Félix}},
year = {2010},
month = {08},
date = {2010-08},
journal = {The American Naturalist},
pages = {170--177},
volume = {176},
number = {2},
doi = {10.1086/653667},
url = {https://www.journals.uchicago.edu/doi/10.1086/653667},
note = {Publisher: The University of Chicago Press}
}
@article{yeakel2014,
title = {Collapse of an ecological network in Ancient Egypt},
author = {Yeakel, Justin D. and Pires, Mathias M. and Rudolf, Lars and Dominy, Nathaniel J. and Koch, Paul L. and {Guimarães}, Paulo R. and Gross, Thilo},
year = {2014},
month = {10},
date = {2014-10},
journal = {PNAS},
pages = {14472--14477},
volume = {111},
number = {40},
doi = {10.1073/pnas.1408471111},
note = {Citation Key: Yeakel2014Collapse}
}
@article{pires2015,
title = {Pleistocene megafaunal interaction networks became more vulnerable after human arrival},
author = {Pires, Mathias M. and Koch, Paul L. and {Fariña}, Richard A. and de Aguiar, Marcus A. M. and dos Reis, {Sérgio F.} and {Guimarães}, Paulo R.},
year = {2015},
month = {09},
date = {2015-09-07},
journal = {Proceedings of the Royal Society B: Biological Sciences},
pages = {20151367},
volume = {282},
number = {1814},
doi = {10.1098/rspb.2015.1367},
url = {http://rspb.royalsocietypublishing.org/lookup/doi/10.1098/rspb.2015.1367},
note = {Citation Key: Pires2015Pleistocene},
langid = {en}
}
@article{fricke2022,
title = {Collapse of terrestrial mammal food webs since the Late Pleistocene},
author = {Fricke, Evan C. and Hsieh, Chia and Middleton, Owen and Gorczynski, Daniel and Cappello, Caroline D. and Sanisidro, Oscar and Rowan, John and Svenning, Jens-Christian and Beaudrot, Lydia},
year = {2022},
month = {08},
date = {2022-08-26},
journal = {Science},
pages = {1008--1011},
volume = {377},
number = {6609},
doi = {10.1126/science.abn4012},
url = {http://dx.doi.org/10.1126/science.abn4012},
langid = {en}
}
@article{dunne2008,
title = {Compilation and Network Analyses of Cambrian Food Webs},
author = {Dunne, Jennifer A and Williams, Richard J and Martinez, Neo D and Wood, Rachel A and Erwin, Douglas H},
editor = {Dobson, Andrew P},
year = {2008},
month = {04},
date = {2008-04-29},
journal = {PLoS Biology},
pages = {e102},
volume = {6},
number = {4},
doi = {10.1371/journal.pbio.0060102},
url = {http://dx.doi.org/10.1371/journal.pbio.0060102},
langid = {en}
}
@article{brimacombe2023,
title = {Shortcomings of reusing species interaction networks created by different sets of researchers},
author = {Brimacombe, Chris and Bodner, Korryn and Michalska-Smith, Matthew and Poisot, {Timothée} and Fortin, {Marie-Josée}},
editor = {Jordano, Pedro},
year = {2023},
month = {04},
date = {2023-04-03},
journal = {PLOS Biology},
pages = {e3002068},
volume = {21},
number = {4},
doi = {10.1371/journal.pbio.3002068},
url = {http://dx.doi.org/10.1371/journal.pbio.3002068},
langid = {en}
}
@article{williams2000,
title = {Simple rules yield complex food webs},
author = {Williams, Richard J. and Martinez, Neo D.},
year = {2000},
month = {03},
date = {2000-03},
journal = {Nature},
pages = {180--183},
volume = {404},
number = {6774},
doi = {10.1038/35004572},
url = {https://www.nature.com/articles/35004572},
note = {Number: 6774
Publisher: Nature Publishing Group},
langid = {en}
}
@article{williams2008,
title = {Success and its limits among structural models of complex food webs},
author = {Williams, Richard J. and Martinez, Neo D.},
year = {2008},
month = {05},
date = {2008-05},
journal = {The Journal of Animal Ecology},
pages = {512--519},
volume = {77},
number = {3},
doi = {10.1111/j.1365-2656.2008.01362.x},
note = {PMID: 18284474},
langid = {eng}
}
@article{allesina2008,
title = {A General Model for Food Web Structure},
author = {Allesina, Stefano and Alonso, David and Pascual, Mercedes},
year = {2008},
month = {05},
date = {2008-05-02},
journal = {Science},
pages = {658--661},
volume = {320},
number = {5876},
doi = {10.1126/science.1156269},
url = {https://www.science.org/doi/full/10.1126/science.1156269},
note = {Publisher: American Association for the Advancement of Science}
}
@article{petchey2008,
title = {Size, foraging, and food web structure},
author = {Petchey, Owen L. and Beckerman, Andrew P. and Riede, Jens O. and Warren, Philip H.},
year = {2008},
month = {03},
date = {2008-03-18},
journal = {Proceedings of the National Academy of Sciences},
pages = {4191--4196},
volume = {105},
number = {11},
doi = {10.1073/pnas.0710672105},
url = {https://pnas.org/doi/full/10.1073/pnas.0710672105},
langid = {en}
}
@article{delmas2019,
title = {Analysing ecological networks of species interactions},
author = {Delmas, Eva and Besson, Mathilde and Brice, {Marie-Hélène} and Burkle, Laura A. and Riva, Giulio V. Dalla and Fortin, {Marie-Josée} and Gravel, Dominique and {Guimarães}, Paulo R. and Hembry, David H. and Newman, Erica A. and Olesen, Jens M. and Pires, Mathias M. and Yeakel, Justin D. and Poisot, {Timothée}},
year = {2019},
date = {2019},
journal = {Biological Reviews},
pages = {16--36},
volume = {94},
number = {1},
doi = {10.1111/brv.12433},
url = {http://onlinelibrary.wiley.com/doi/abs/10.1111/brv.12433},
note = {{\_}eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1111/brv.12433},
langid = {en}
}
@article{schoener1989,
title = {Food webs from the small to the large},
author = {Schoener, Thomas W},
year = {1989},
date = {1989},
journal = {Ecology},
pages = {1559--1589},
volume = {70},
number = {6}
}
@article{milo2002,
title = {Network Motifs: Simple Building Blocks of Complex Networks},
author = {Milo, R. and Shen-Orr, S. and Itzkovitz, S. and Kashtan, N. and Chklovskii, D. and Alon, U.},
year = {2002},
month = {10},
date = {2002-10-25},
journal = {Science},
pages = {824--827},
volume = {298},
number = {5594},
doi = {10.1126/science.298.5594.824},
url = {https://www.science.org/doi/10.1126/science.298.5594.824},
note = {Publisher: American Association for the Advancement of Science}
}
@article{strydom2021,
title = {SVD Entropy Reveals the High Complexity of Ecological Networks},
author = {Strydom, Tanya and Dalla Riva, Giulio V. and Poisot, {Timothée}},
year = {2021},
date = {2021},
journal = {Frontiers in Ecology and Evolution},
volume = {9},
doi = {10.3389/fevo.2021.623141},
url = {https://www.frontiersin.org/articles/10.3389/fevo.2021.623141/full},
note = {Publisher: Frontiers},
langid = {English}
}
@article{bastolla2009,
title = {The architecture of mutualistic networks minimizes competition and increases biodiversity},
author = {Bastolla, Ugo and Fortuna, Miguel A. and {Pascual-García}, Alberto and Ferrera, Antonio and Luque, Bartolo and Bascompte, Jordi},
year = {2009},
month = {04},
date = {2009-04-23},
journal = {Nature},
pages = {1018--1020},
volume = {458},
number = {7241},
doi = {10.1038/nature07950},
url = {http://www.nature.com/doifinder/10.1038/nature07950},
note = {publisher: Springer Nature}
}
@article{riva2023,
title = {Toward a cohesive understanding of ecological complexity},
author = {Riva, Federico and Graco-Roza, Caio and Daskalova, Gergana N. and Hudgins, Emma J. and Lewthwaite, {Jayme M. M.} and Newman, Erica A. and Ryo, Masahiro and Mammola, Stefano},
year = {2023},
month = {06},
date = {2023-06-21},
journal = {Science Advances},
pages = {eabq4207},
volume = {9},
number = {25},
doi = {10.1126/sciadv.abq4207},
url = {https://www.science.org/doi/full/10.1126/sciadv.abq4207},
note = {Publisher: American Association for the Advancement of Science}
}
@article{poisot2012,
title = {The dissimilarity of species interaction networks},
author = {Poisot, {Timothée} and Canard, Elsa and Mouillot, David and Mouquet, Nicolas and Gravel, Dominique},
year = {2012},
date = {2012},
journal = {Ecology Letters},
pages = {1353{\textendash}1361},
volume = {15},
number = {12},
doi = {10.1111/ele.12002},
url = {http://onlinelibrary.wiley.com/doi/10.1111/ele.12002/full},
langid = {ENG}
}
@article{williams2000,
title = {Simple rules yield complex food webs},
author = {Williams, Richard J. and Martinez, Neo D.},
year = {2000},
month = {03},
date = {2000-03},
journal = {Nature},
pages = {180--183},
volume = {404},
number = {6774},
doi = {10.1038/35004572},
url = {https://www.nature.com/articles/35004572},
note = {Number: 6774
Publisher: Nature Publishing Group},
langid = {en}
}
@article{roopnarine2006,
title = {Extinction Cascades and Catastrophe in Ancient Food Webs},
author = {Roopnarine, Peter D.},
year = {2006},
date = {2006},
journal = {Paleobiology},
pages = {1--19},
volume = {32},
number = {1},
url = {https://www.jstor.org/stable/4096814},
note = {Publisher: Paleontological Society}
}
@article{dansereau2023,
title = {Spatially explicit predictions of food web structure from regional level data},
author = {Dansereau, Gabriel and Barros, Ceres and Poisot, {Timothée}},
year = {2023},
month = {09},
date = {2023-09-15},
url = {https://ecoevorxiv.org/repository/view/5941/},
note = {Publisher: EcoEvoRxiv},
langid = {en}
}
@article{thompson2012,
title = {Food webs: reconciling the structure and function of biodiversity},
author = {Thompson, Ross M. and Brose, Ulrich and Dunne, Jennifer and Hall, Robert O. and Hladyz, Sally and Kitching, Roger L. and Martinez, Neo D. and Rantala, Heidi and Romanuk, Tamara N. and Stouffer, Daniel B. and Tylianakis, Jason M.},
year = {2012},
month = {12},
date = {2012-12},
journal = {Trends in Ecology & Evolution},
pages = {689--697},
volume = {27},
number = {12},
doi = {10.1016/j.tree.2012.08.005}
}
@article{guimarães2020,
title = {The Structure of Ecological Networks Across Levels of Organization},
author = {{Guimarães}, Paulo R.},
year = {2020},
month = {11},
date = {2020-11-02},
journal = {Annual Review of Ecology, Evolution, and Systematics},
volume = {51},
number = {1},
doi = {10.1146/annurev-ecolsys-012220-120819},
url = {https://www.annualreviews.org/doi/10.1146/annurev-ecolsys-012220-120819},
langid = {en}
}
@article{stouffer2010,
title = {Understanding food-web persistence from local to global scales},
author = {Stouffer, Daniel B. and Bascompte, Jordi},
year = {2010},
month = {02},
date = {2010-02},
journal = {Ecology Letters},
pages = {154--161},
volume = {13},
number = {2},
doi = {10.1111/j.1461-0248.2009.01407.x},
url = {http://doi.wiley.com/10.1111/j.1461-0248.2009.01407.x},
langid = {en}
}
@article{martinez1992,
title = {Constant Connectance in Community Food Webs},
author = {Martinez, Neo D.},
year = {1992},
date = {1992},
journal = {The American Naturalist},
pages = {1208--1218},
volume = {139},
number = {6},
url = {http://www.jstor.org/stable/2462337},
note = {publisher: [University of Chicago Press, American Society of Naturalists]
tex.ids: Mart92}
}
@article{watts1998,
title = {Collective dynamics of {\textquoteleft}small-world{\textquoteright} networks},
author = {Watts, Duncan J. and Strogatz, Steven H.},
year = {1998},
month = {06},
date = {1998-06},
journal = {Nature},
pages = {440--442},
volume = {393},
number = {6684},
doi = {10.1038/30918},
url = {https://www.nature.com/articles/30918},
note = {Publisher: Nature Publishing Group},
langid = {en}
}
@article{estrada2008,
title = {Using Network Centrality Measures to Manage Landscape Connectivity},
author = {Estrada, Ernesto and Bodin, {Örjan}},
year = {2008},
date = {2008},
journal = {Ecological Applications},
pages = {1810--1825},
volume = {18},
number = {7},
doi = {10.1890/07-1419.1},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1890/07-1419.1},
note = {{\_}eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1890/07-1419.1},
langid = {en}
}
@article{eklöf2016,
title = {The phylogenetic component of food web structure and intervality},
author = {{Eklöf}, Anna and Stouffer, Daniel B.},
year = {2016},
month = {02},
date = {2016-02-01},
journal = {Theoretical Ecology},
pages = {107--115},
volume = {9},
number = {1},
doi = {10.1007/s12080-015-0273-9},
url = {https://link.springer.com/article/10.1007/s12080-015-0273-9},
langid = {en}
}
@article{moore1988,
title = {Resource compartmentation and the stability of real ecosystems},
author = {Moore, John C. and William Hunt, H.},
year = {1988},
month = {05},
date = {1988-05},
journal = {Nature},
pages = {261--263},
volume = {333},
number = {6170},
doi = {10.1038/333261a0},
url = {https://www.nature.com/articles/333261a0},
note = {Publisher: Nature Publishing Group},
langid = {en}
}
@article{landi2018,
title = {Complexity and stability of ecological networks: a review of the theory},
author = {Landi, Pietro and Minoarivelo, Henintsoa O. and {Brännström}, {Åke} and Hui, Cang and Dieckmann, Ulf},
year = {2018},
month = {10},
date = {2018-10-01},
journal = {Population Ecology},
pages = {319--345},
volume = {60},
number = {4},
doi = {10.1007/s10144-018-0628-3},
url = {https://doi.org/10.1007/s10144-018-0628-3},
langid = {en}
}
@article{dunne2002,
title = {Network structure and biodiversity loss in food webs: robustness increases with connectance},
author = {Dunne, Jennifer and Williams, Richard J and Martinez, {Néo D}},
year = {2002},
date = {2002},
journal = {Ecol. Lett.},
pages = {558--567},
volume = {5},
number = {4}
}
@article{allesina2009,
title = {Functional links and robustness in food webs},
author = {Allesina, Stefano and Bodini, Antonio and Pascual, Mercedes},
year = {2009},
month = {06},
date = {2009-06-27},
journal = {Philosophical Transactions of the Royal Society B: Biological Sciences},
pages = {1701--1709},
volume = {364},
number = {1524},
doi = {10.1098/rstb.2008.0214},
url = {https://royalsocietypublishing.org/doi/10.1098/rstb.2008.0214},
note = {Publisher: Royal Society}
}
@article{solé2001,
title = {Complexity and fragility in ecological networks},
author = {{Solé}, Ricard V. and Montoya, M.},
year = {2001},
month = {10},
date = {2001-10-07},
journal = {Proceedings of the Royal Society of London. Series B: Biological Sciences},
pages = {2039--2045},
volume = {268},
number = {1480},
doi = {10.1098/rspb.2001.1767},
url = {https://royalsocietypublishing.org/doi/10.1098/rspb.2001.1767},
langid = {en}
}
@article{neutel2002,
title = {Stability in Real Food Webs: Weak Links in Long Loops},
author = {Neutel, Anje-Margriet and Heesterbeek, Johan A. P. and de Ruiter, Peter C.},
year = {2002},
month = {05},
date = {2002-05-10},
journal = {Science},
pages = {1120--1123},
volume = {296},
number = {5570},
doi = {10.1126/science.1068326},
url = {https://www.science.org/doi/abs/10.1126/science.1068326},
note = {Publisher: American Association for the Advancement of Science
Citation Key: Neutel2002Stability}
}
@article{banville2024,
title = {Deciphering probabilistic species interaction networks},
author = {Banville, Francis and Strydom, Tanya and Blyth, Penelope and Brimacombe, Chris and Catchen, Michael D. and Dansereau, Gabriel and Higino, Gracielle and Malpas, Thomas and Mayall, Hana and Norman, Kari and Gravel, Dominique and Poisot, {Timothée}},
year = {2024},
month = {07},
date = {2024-07-24},
url = {https://ecoevorxiv.org/repository/view/7442/},
note = {Publisher: EcoEvoRxiv},
langid = {en}
}
@inbook{roopnarine2009,
title = {Ecological Modelling of Paleocommunity Food Webs},
author = {Roopnarine, Peter D},
year = {2009},
date = {2009},
publisher = {The Paleontological Society Papers},
volume = {15},
langid = {en}
}
@article{fath2019,
title = {Ecological network analysis metrics: The need for an entire ecosystem approach in management and policy},
author = {Fath, Brian D. and Asmus, Harald and Asmus, Ragnhild and Baird, Dan and Borrett, Stuart R. and de Jonge, Victor N. and Ludovisi, Alessandro and Niquil, Nathalie and Scharler, Ursula M. and {Schückel}, Ulrike and Wolff, Matthias},
year = {2019},
month = {05},
date = {2019-05-15},
journal = {Ocean & Coastal Management},
pages = {1--14},
volume = {174},
doi = {10.1016/j.ocecoaman.2019.03.007},
url = {https://www.sciencedirect.com/science/article/pii/S0964569118305969}
}
@article{antunes2024,
title = {Linking biodiversity, ecosystem function, and Nature{\textquoteright}s contributions to people: a macroecological energy flux perspective},
author = {Antunes, Ana Carolina and Berti, Emilio and Brose, Ulrich and Hirt, Myriam R. and Karger, Dirk N. and {O{\textquoteright}Connor}, Louise M. J. and Pollock, Laura J. and Thuiller, Wilfried and Gauzens, Benoit},
year = {2024},
month = {05},
date = {2024-05-01},
journal = {Trends in Ecology & Evolution},
pages = {427--434},
volume = {39},
number = {5},
doi = {10.1016/j.tree.2024.01.004},
url = {https://www.cell.com/trends/ecology-evolution/abstract/S0169-5347(24)00004-1},
note = {Publisher: Elsevier
PMID: 38310065},
langid = {English}
}
@article{braga2019,
title = {Spatial analyses of multi-trophic terrestrial vertebrate assemblages in Europe},
author = {Braga, J and Pollock, Laura J. and Barros, C. and Montoya, J. and Gravel, Dominique and Maiorano, Luigi and Ficetola, Gentile Francesco and Dray, {Stéphane} and Thuiller, Wilfried},
year = {2019},
date = {2019},
journal = {Global Ecology and Biogeography},
pages = {1636--1648},
volume = {28},
number = {11}
}
@article{galiana2021,
title = {The spatial scaling of food web structure across European biogeographical regions},
author = {Galiana, {Núria} and Barros, Ceres and Braga, {João} and Ficetola, Gentile Francesco and Maiorano, Luigi and Thuiller, Wilfried and Montoya, {José M.} and Lurgi, Miguel},
year = {2021},
date = {2021},
journal = {Ecography},
pages = {653--664},
volume = {44},
number = {5},
doi = {10.1111/ecog.05229},
url = {https://onlinelibrary.wiley.com/doi/abs/10.1111/ecog.05229},
note = {{\_}eprint: https://onlinelibrary.wiley.com/doi/pdf/10.1111/ecog.05229},
langid = {en}
}