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BioTIME: A database of biodiversity time series for the Anthropocene

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posted on 2024-10-20, 00:01 authored by Maria Dornelas, Laura H Antão, Faye Moyes, Amanda E Bates, Anne E Magurran, Dušan Adam, Asem A Akhmetzhanova, Ward Appeltans, José Manuel Arcos, Haley Arnold, Narayanan Ayyappan, Gal Badihi, Andrew H Baird, Miguel Barbosa, Tiago Egydio Barreto, Claus Bässler, Alecia BellgroveAlecia Bellgrove, Jonathan Belmaker, Lisandro Benedetti-Cecchi, Brian J Bett, Anne D Bjorkman, Magdalena Błażewicz, Shane A Blowes, Christopher P Bloch, Timothy C Bonebrake, Susan Boyd, Matt Bradford, Andrew J Brooks, James H Brown, Helge Bruelheide, Phaedra Budy, Fernando Carvalho, Edward Castañeda-Moya, Chaolun Allen Chen, John F Chamblee, Tory J Chase, Laura Siegwart Collier, Sharon K Collinge, Richard Condit, Elisabeth J Cooper, J Hans C Cornelissen, Unai Cotano, Shannan Kyle Crow, Gabriella Damasceno, Claire H Davies, Robert A Davis, Frank P Day, Steven Degraer, Tim DohertyTim Doherty, Timothy E Dunn, Giselda Durigan, J Emmett Duffy, Dor Edelist, Graham J Edgar, Robin Elahi, Sarah C Elmendorf, Anders Enemar, SK Morgan Ernest, Rubén Escribano, Marc Estiarte, Brian S Evans, Tung Yung Fan, Fabiano Turini Farah, Luiz Loureiro Fernandes, Fábio Z Farneda, Alessandra Fidelis, Robert Fitt, Anna Maria Fosaa, Geraldo Antonio Daher Correa Franco, Grace E Frank, William R Fraser, Hernando García, Roberto Cazzolla Gatti, Or Givan, Elizabeth Gorgone-Barbosa, William A Gould, Corinna Gries, Gary D Grossman, Julio R Gutierréz, Stephen Hale, Mark E Harmon, John Harte, Gary Haskins, Donald L Henshaw, Luise Hermanutz, Pamela Hidalgo, Pedro Higuchi, Andrew Hoey, Gert Van Hoey, Annika Hofgaard, Kristen Holeck, Robert D Hollister, Richard Holmes, Mia Hoogenboom, Chih hao Hsieh, Stephen P Hubbell, Falk Huettmann, Christine L Huffard, Allen H Hurlbert, Natália Macedo Ivanauskas, David Janík, Ute Jandt, Anna Jażdżewska, Tore Johannessen, Jill Johnstone, Julia Jones, Faith AM Jones, Jungwon Kang, Tasrif Kartawijaya, Erin C Keeley, Douglas A Kelt, Rebecca Kinnear, Kari Klanderud, Halvor Knutsen, Christopher C Koenig, Alessandra R Kortz, Kamil Král, Linda A Kuhnz, Chao Yang Kuo, David J Kushner, Claire Laguionie-Marchais, Lesley T Lancaster, Cheol Min Lee, Jonathan S Lefcheck, Esther Lévesque, David Lightfoot, Francisco Lloret, John D Lloyd, Adrià López-Baucells, Maite Louzao, Joshua S Madin, Borgþór Magnússon, Shahar Malamud, Iain Matthews, Kent P McFarland, Brian McGill, Diane McKnight, William O McLarney, Jason Meador, Peter L Meserve, Daniel J Metcalfe, Christoph FJ Meyer, Anders Michelsen, Nataliya Milchakova, Tom Moens, Even Moland, Jon Moore, Carolina Mathias Moreira, Jörg Müller, Grace Murphy, Isla H Myers-Smith, Randall W Myster, Andrew Naumov, Francis Neat, James A Nelson, Michael Paul Nelson, Stephen F Newton, Natalia Norden, Jeffrey C Oliver, Esben M Olsen, Vladimir G Onipchenko, Krzysztof Pabis, Robert J Pabst, Alain Paquette, Sinta Pardede, David M Paterson, Raphaël Pélissier, Josep Peñuelas, Alejandro Pérez-Matus, Oscar Pizarro, Francesco Pomati, Eric Post, Herbert HT Prins, John C Priscu, Pieter Provoost, Kathleen L Prudic, Erkki Pulliainen, BR Ramesh, Olivia Mendivil Ramos, Andrew Rassweiler, Jose Eduardo Rebelo, Daniel C Reed, Peter B Reich, Suzanne M Remillard, Anthony J Richardson, J Paul Richardson, Itai van Rijn, Ricardo Rocha, Victor H Rivera-Monroy, Christian Rixen, Kevin P Robinson, Ricardo Ribeiro Rodrigues, Denise de Cerqueira Rossa-Feres, Lars Rudstam, Henry Ruhl, Catalina S Ruz, Erica M Sampaio, Nancy Rybicki, Andrew Rypel, Sofia Sal, Beatriz Salgado, Flavio AM Santos, Ana Paula Savassi-Coutinho, Sara Scanga, Jochen Schmidt, Robert Schooley, Fakhrizal Setiawan, Kwang Tsao Shao, Gaius R Shaver, Sally Sherman, Thomas W Sherry, Jacek Siciński, Caya Sievers, Ana Carolina da Silva, Fernando Rodrigues da Silva, Fabio L Silveira, Jasper Slingsby, Tracey Smart, Sara J Snell, Nadejda A Soudzilovskaia, Gabriel BG Souza, Flaviana Maluf Souza, Vinícius Castro Souza, Christopher D Stallings, Rowan Stanforth, Emily H Stanley, José Mauro Sterza, Maarten Stevens, Rick Stuart-Smith, Yzel Rondon Suarez, Sarah Supp, Jorge Yoshio Tamashiro, Sukmaraharja Tarigan, Gary P Thiede, Simon Thorn, Anne Tolvanen, Maria Teresa Zugliani Toniato, Ørjan Totland, Robert R Twilley, Gediminas Vaitkus, Nelson Valdivia, Martha Isabel Vallejo, Thomas J Valone, Carl Van Colen, Jan Vanaverbeke, Fabio Venturoli, Hans M Verheye, Marcelo Vianna, Rui P Vieira, Tomáš Vrška, Con Quang Vu, Lien Van Vu, Robert B Waide, Conor Waldock, Dave Watts, Sara Webb, Tomasz Wesołowski, Ethan P White, Claire E Widdicombe, Dustin Wilgers, Richard Williams, Stefan B Williams, Mark Williamson, Michael R Willig, Trevor J Willis, Sonja Wipf, Kerry D Woods, Eric J Woehler, Kyle Zawada, Michael L Zettler
Motivation: The BioTIME database contains raw data on species identities and abundances in ecological assemblages through time. These data enable users to calculate temporal trends in biodiversity within and amongst assemblages using a broad range of metrics. BioTIME is being developed as a community-led open-source database of biodiversity time series. Our goal is to accelerate and facilitate quantitative analysis of temporal patterns of biodiversity in the Anthropocene. Main types of variables included: The database contains 8,777,413 species abundance records, from assemblages consistently sampled for a minimum of 2 years, which need not necessarily be consecutive. In addition, the database contains metadata relating to sampling methodology and contextual information about each record. Spatial location and grain: BioTIME is a global database of 547,161 unique sampling locations spanning the marine, freshwater and terrestrial realms. Grain size varies across datasets from 0.0000000158 km2 (158 cm2) to 100 km2 (1,000,000,000,000 cm2). Time period and grain: BioTIME records span from 1874 to 2016. The minimal temporal grain across all datasets in BioTIME is a year. Major taxa and level of measurement: BioTIME includes data from 44,440 species across the plant and animal kingdoms, ranging from plants, plankton and terrestrial invertebrates to small and large vertebrates. Software format: .csv and .SQL.

History

Journal

Global Ecology and Biogeography

Volume

27

Pagination

760-786

Location

England

Open access

  • Yes

ISSN

1466-822X

eISSN

1466-8238

Language

English

Publication classification

C Journal article, C1 Refereed article in a scholarly journal

Copyright notice

2018, The Authors

Issue

7

Publisher

WILEY

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    Research Publications

    Keywords

    Science & TechnologyLife Sciences & BiomedicinePhysical SciencesEcologyGeography, PhysicalEnvironmental Sciences & EcologyPhysical Geographybiodiversityglobalspatialspecies richnesstemporalturnoverPRIMEVAL TEMPERATE FORESTBIRD COMMUNITY DYNAMICSESTUARINE COASTAL LAGOONBIALOWIEZA NATIONAL-PARKLAND-BRIDGE ISLANDSLONG-TERM CHANGESIMULATED HERBIVORYPOPULATION TRENDSSECONDARY FORESTDECIDUOUS FORESTEuropean Research Council and EU, Grant/ Award Number: AdG-250189European Research Council and EU, Grant/ Award Number: PoC-727440European Research Council and EU, Grant/ Award Number: ERC-SyG-2013-610028Natural Environmental Research Council, Grant/Award Number: NE/L002531/1;National Science Foundation, Grant/Award Number: DEB- 1237733, DEB-1456729, 9714103, 0632263, 0856516, 1432277, DEB- 9705814, BSR-8811902, DEB 9411973, DEB 0080538, DEB 0218039, DEB 0620910, DEB 0963447, DEB-1546686, DEB-129764, OCE 95-21184, OCE 0099226,National Science Foundation (LTER) , Grant/Award Number: DEB- 1235828, DEB-1440297, DBI-0620409, DEB-9910514, DEB-1237517, OCE- 0417412, OCE-1026851, OCE-1236905, OCE-1637396, DEB 1440409, DEB- 0832652, DEB-0936498, DEB-0620652, DEB-1234162 and DEB-082329Fundaç~ao para a Ci^encia e Tecnologia, Grant/Award Number: POPH/FSE SFRH/ BD/90469/2012, SFRH/BD/84030/2012, PTDC/BIA-BIC/111184/2009; SFRH/BD/ 80488/2011 and PD/BD/52597/2014Ci^encia sem Fronteiras/CAPES, Grant/ Award Number: 1091/13-1; Instituto Milenio de Oceanografía, Grant/Award Number: IC120019;ARC Centre of Excellence, Grant/Award Number: CE0561432;NSERC Canada; CONICYT/FONDECYT, Grant/ Award Number: 1160026, ICM PO5-002,CONICYT/FONDECYT, 11110351, 1151094, 1070808 and 1130511;RSF, Grant/Award Number: 14-50-00029;Gordon and Betty Moore Foundation, Grant/ Award Number: GBMF4563;Catalan Government; Marie Curie Individual Fellowship, Grant/Award Number: QLK5-CT2002- 51518MERG-CT-2004-022065; CNPq, Grant/Award Number: 306170/ 2015-9, 475434/2010-2, 403809/2012-6 and 561897/2010;FAPESP (S~ao Paulo Research Foundation), Grant/Award Number: 2015/10714-6, 2015/06743-0, 2008/ 10049-9, 2013/50714-0 and 1999/09635- 0 e 2013/50718-5;EU CLIMOOR, Grant/ Award Number: ENV4-CT97-0694;VULCAN, Grant/Award Number: EVK2-CT- 2000-00094Spanish, Grant/Award Number: REN2000-0278/CCI, REN2001-003/ GLO and CGL2016-79835-PCatalan, Grant/Award Number: AGAUR SGR-2014- 453 and SGR-2017-1005;DFG, Grant/ Award Number: 120/10-2;Polar Continental Shelf Program; CENPES – PETROBRAS; FAPERJ, Grant/Award Number: E-26/ 110.114/2013;Wellcome Trust, Grant/Award Number: 105621/Z/ 14/Z;UK Natural Environment Research Council ShrubTundra Grant, Grant/Award Number: NE/M016323/1; IPYNetherlands Organization for Scientific Research in the Tropics NWO, grant W84-194.Ciências sem Fronteiras and Coordenação de Pessoal de Nível Superior (CAPES, Brazil), Grant/Award Number: 1091/13-1.National Science foundation (LTER), Award Number: OCE- 9982105, OCE-0620276, OCE-1232779 FCT - SFRH / BPD / 82259 / 2011U.S. Fish and Wildlife Service/State Wildlife federal grant number T-15.Australian Research Council Centre of Excellence for Coral Reef Studies (CE140100020).Australian Research Council Future Fellowship FT110100609.School of Life and Environmental SciencesCentre for Integrative Ecology3102 Bioinformatics and computational biology

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