231 results on '"Koepfli, Klaus‐Peter"'
Number of results to display per page
Search Results
202. Gen?mica evolutiva de lontras (carnivora, mustelidae, lutrinae)
- Author
-
Ferran, Vera de, Eizirik, Eduardo, and Koepfli, Klaus-Peter
- Subjects
Gen?mica Evolutiva ,Phylogenetics ,Phylogeography ,Historical Demography ,Filogeografia ,Genomas Completos ,ZOOLOGIA [CIENCIAS BIOLOGICAS] ,Hist?ria Demogr?fica ,Evolutionary Genomics ,Filogen?tica ,Whole-Genome - Abstract
O uso de abordagens gen?micas est? revolucionando diversas ?reas da biologia, incluindo estudos evolutivos, ecol?gicos e biogeogr?ficos, bem como sua aplica??o na conserva??o e manejo de esp?cies amea?adas. Apesar de seu grande potencial, estas ferramentas ainda n?o s?o amplamente aplicadas ? maior parte da biodiversidade do planeta, e seu uso pode acelerar a resolu??o de problemas antigos bem como revelar n?veis adicionais de complexidade a padr?es previamente descritos. Nesta tese, m?todos gen?micos foram utilizados para caracterizar a hist?ria evolutiva das lontras (Mammalia: Carnivora: Mustelidae: Lutrinae), incluindo diferentes abordagens para investigar um conjunto de problemas relevantes neste campo. A tese inclui uma Introdu??o Geral, seguida de tr?s cap?tulos de resultados, formatados como artigos cient?ficos, os quais abordaram os seguintes temas: (i) filogen?mica das 13 esp?cies atuais de lontras, utilizando genomas completos e incluindo an?lises de data??o molecular, reconstru??o de hist?ria demogr?fica e caracteriza??o da diversidade gen?mica atual; (ii) filogeografia de Lontra longicaudis utilizando marcadores gen?micos (Ultraconserved Elements [UCEs]), os quais indicaram que esta esp?cie n?o ? monofil?tica; e (iii) identifica??o e caracteriza??o de marcadores moleculares (loci de microssat?lites) nos genomas de 11 esp?cies de lontras, gerando conjuntos recomendados para estudos gen?ticos e ecol?gicos destes organismos. A tese inclui ainda um cap?tulo sobre perspectivas futuras, com base nos resultados apresentados, e dois ap?ndices narrando atividades adicionais de pesquisa realizadas durante o doutorado com foco em popula??es naturais de ariranha (Pteronura brasiliensis). De forma geral, os diferentes estudos aqui contidos contribu?ram para resolver v?rias quest?es, destacando-se as seguintes: (i) rela??es filogen?ticas e estimativa dos tempos de diverg?ncia entre todas as esp?cies de lontras atualmente reconhecidas; (ii) apoio com dados nucleares para o reconhecimento da lontra africana Aonyx congicus como uma esp?cie distinta; (iii) reconstru??o comparativa da hist?ria demogr?fica das lontras de diferentes continentes; (iv) estimativa da diversidade gen?mica das lontras atuais, e compara??o com seu status de conserva??o; e (v) indica??o que L. longicaudis deve ser subdividida em duas esp?cies distintas, com as popula??es trans-andinas sendo reconhecidas como L. annectens. Desta forma, espera-se que os resultados obtidos contribuam para o avan?o deste campo, bem como para o embasamento de esfor?os de conserva??o com foco nestes organismos. The use of genomic approaches is revolutionizing several areas of Biology, including evolutionary, ecological and biogeographic studies, along with their application on the conservation and management of endangered species. In spite of their great potential, these tools are still not broadly applied to the majority of the world?s biodiversity, and their use can accelerate the resolution of old problems as well as reveal additional levels of complexity in previously described patterns. In this thesis, I have applied genomic methods to characterize the evolutionary history of otters (Mammalia: Carnivora: Mustelidae: Lutrinae), including different approaches to investigate a set of relevant problems in this field. The thesis comprises a General Introduction, followed by three data chapters formatted as scientific manuscripts, which address the following topics: (i) phylogenomics of the 13 currently recognized species of extant otters, using complete genomes and including molecular dating analyses, reconstruction of demographic history and characterization of present-day genomic diversity; (ii) phylogeography of Lontra longicaudis using genome-wide markers (Ultraconserved Elements [UCEs]), which indicated that this species is not monophyletic; and (iii) identification and characterization of molecular markers (microsatellite loci) in the genomes of 11 otter species, generating sets that are recommended for genetic and ecological studies targeting these organisms. The thesis also includes a chapter on perspectives for future studies in this area, based on the results presented here, and two appendices describing additional research activities performed during the Ph.D. program, focusing on natural populations of the giant otter (Pteronura brasiliensis). Overall, the studies contained herein have contributed to resolve several questions, among which the following can be highlighted: (i) phylogenetic relationships and divergence time estimates among all the currently recognized otter species; (ii) support with nuclear data for the recognition of the African otter Aonyx congicus as a distinct species; (iii) comparative reconstruction of demographic history for otters from different continents; (iv) estimates of genomic diversity for extant otters, and comparison to their conservation status; and (v) indication that L. longicaudis must be subdivided into two distinct species, with trans-Andean populations being recognized as L. annectens. Therefore, I hope that the results obtained in these studies contribute to the advancement of this field, as well as provide useful data that can be incorporated in conservation efforts focusing on these organisms. Conselho Nacional de Pesquisa e Desenvolvimento Cient?fico e Tecnol?gico - CNPq
- Published
- 2021
203. A Reference Genome Assembly of American Bison, Bison bison bison
- Author
-
Oppenheimer, Jonas, Rosen, Benjamin D, Heaton, Michael P, Vander Ley, Brian L, Shafer, Wade R, Schuetze, Fred T, Stroud, Brad, Kuehn, Larry A, McClure, Jennifer C, Barfield, Jennifer P, Blackburn, Harvey D, Kalbfleisch, Theodore S, Bickhart, Derek M, Davenport, Kimberly M, Kuhn, Kristen L, Green, Richard E, Shapiro, Beth, Smith, Timothy PL, and Koepfli, Klaus-Peter
- Subjects
Male ,Evolutionary Biology ,Genome ,Bison ,trio binning ,Life on Land ,bovine ,Chromosome Mapping ,Genetic Variation ,Genetic ,Haplotypes ,Genome resources ,nanopore sequencing ,interspecies hybrid ,Genetics ,Animals ,Cattle ,Female ,Hybridization - Abstract
Bison are an icon of the American West and an ecologically, commercially, and culturally important species. Despite numbering in the hundreds of thousands today, conservation concerns remain for the species, including the impact on genetic diversity of a severe bottleneck around the turn of the 20th century and genetic introgression from domestic cattle. Genetic diversity and admixture are best evaluated at genome-wide scale, for which a high-quality reference is necessary. Here, we use trio binning of long reads from a bison-Simmental cattle (Bos taurus taurus) male F1 hybrid to sequence and assemble the genome of the American plains bison (Bison bison bison). The male haplotype genome is chromosome-scale, with a total length of 2.65 Gb across 775 scaffolds (839 contigs) and a scaffold N50 of 87.8 Mb. Our bison genome is ~13× more contiguous overall and ~3400× more contiguous at the contig level than the current bison reference genome. The bison genome sequence presented here (ARS-UCSC_bison1.0) will enable new research into the evolutionary history of this iconic megafauna species and provide a new tool for the management of bison populations in federal and commercial herds.
- Published
- 2021
204. An Annotated Draft Genome for the Andean Bear, Tremarctos ornatus
- Author
-
Richard E. Green, Brendan O'Connell, Beth Shapiro, Jonas Oppenheimer, Nedda F. Saremi, Li Yu, Christopher Vollmers, Shard A Milne, Oliver A. Ryder, Ashley Byrne, and Koepfli, Klaus-Peter
- Subjects
0106 biological sciences ,0301 basic medicine ,AcademicSubjects/SCI01140 ,Subfamily ,Nuclear gene ,Jhered/6 ,Genome Resources ,Population genetics ,Sequence assembly ,Biology ,010603 evolutionary biology ,01 natural sciences ,Genome ,03 medical and health sciences ,Genetics ,Animals ,Andean bear ,Molecular Biology ,Genetics (clinical) ,Phylogeny ,Cell Nucleus ,Evolutionary Biology ,Phylogenetic tree ,Contig ,Human Genome ,Oxford nanopore ,Molecular Sequence Annotation ,South America ,biology.organism_classification ,Tremarctos ornatus ,030104 developmental biology ,Evolutionary biology ,spectacled bear ,Female ,CHiCago ,Ursidae ,Biotechnology - Abstract
The Andean bear is the only extant member of the Tremarctine subfamily and the only extant ursid species to inhabit South America. Here, we present an annotated de novo assembly of a nuclear genome from a captive-born female Andean bear, Mischief, generated using a combination of short and long DNA and RNA reads. Our final assembly has a length of 2.23 Gb, and a scaffold N50 of 21.12 Mb, contig N50 of 23.5 kb, and BUSCO score of 88%. The Andean bear genome will be a useful resource for exploring the complex phylogenetic history of extinct and extant bear species and for future population genetics studies of Andean bears.
- Published
- 2021
205. A Reference Genome Assembly of Simmental Cattle, Bos taurus taurus
- Author
-
Richard E. Green, Larry A. Kuehn, Fred T Schuetze, Derek M. Bickhart, Harvey D. Blackburn, Benjamin D. Rosen, Michael P. Heaton, Kristen L. Kuhn, Brad Stroud, Kimberly M Davenport, Brian L. Vander Ley, Beth Shapiro, Jonas Oppenheimer, Wade R Shafer, Timothy P. L. Smith, Jennifer C McClure, Jennifer P. Barfield, Theodore S. Kalbfleisch, and Koepfli, Klaus-Peter
- Subjects
0106 biological sciences ,0301 basic medicine ,Male ,pangenome ,Genome Resources ,Genomics ,Biology ,010603 evolutionary biology ,01 natural sciences ,Genome ,03 medical and health sciences ,food ,Rare Diseases ,Genetic variation ,Simmental cattle ,Genetics ,Animals ,nanopore ,Fleckvieh ,Molecular Biology ,Genetics (clinical) ,Evolutionary Biology ,Bison ,trio binning ,Haplotype ,Human Genome ,food.cheese_milk_source ,Chromosome Mapping ,Breed ,030104 developmental biology ,F1 hybrid ,Haplotypes ,Evolutionary biology ,White Spots ,Cattle ,Female ,Biotechnology ,Reference genome - Abstract
Genomics research has relied principally on the establishment and curation of a reference genome for the species. However, it is increasingly recognized that a single reference genome cannot fully describe the extent of genetic variation within many widely distributed species. Pangenome representations are based on high-quality genome assemblies of multiple individuals and intended to represent the broadest possible diversity within a species. A Bovine Pangenome Consortium (BPC) has recently been established to begin assembling genomes from more than 600 recognized breeds of cattle, together with other related species to provide information on ancestral alleles and haplotypes. Previously reported de novo genome assemblies for Angus, Brahman, Hereford, and Highland breeds of cattle are part of the initial BPC effort. The present report describes a complete single haplotype assembly at chromosome-scale for a fullblood Simmental cow from an F1 bison–cattle hybrid fetus by trio binning. Simmental cattle, also known as Fleckvieh due to their red and white spots, originated in central Europe in the 1830s as a triple-purpose breed selected for draught, meat, and dairy production. There are over 50 million Simmental cattle in the world, known today for their fast growth and beef yields. This assembly (ARS_Simm1.0) is similar in length to the other bovine assemblies at 2.86 Gb, with a scaffold N50 of 102 Mb (max scaffold 156.8 Mb) and meets or exceeds the continuity of the best Bos taurus reference assemblies to date.
- Published
- 2021
206. Diversity and Paleodemography of the Addax (Addax nasomaculatus), a Saharan Antelope on the Verge of Extinction
- Author
-
Lei Chen, Elisabeth Hempel, Faysal Bibi, Johannes Müller, Frieder Mayer, Klaus-Peter Koepfli, José Horacio Grau, Sergei Kliver, Michael Hofreiter, Alexandra Trinks, Axel Barlow, Johanna L. A. Paijmans, Michael V. Westbury, Hempel, Elisabeth [0000-0002-0089-8741], Westbury, Michael V [0000-0003-0478-3930], Paijmans, Johanna L A [0000-0002-1938-7052], Barlow, Axel [0000-0002-5532-9458], Koepfli, Klaus-Peter [0000-0001-7281-0676], Hofreiter, Michael [0000-0003-0441-4705], Apollo - University of Cambridge Repository, Paijmans, Johanna LA [0000-0002-1938-7052], Westbury, Michael V. [0000-0003-0478-3930], and Paijmans, Johanna L. A. [0000-0002-1938-7052]
- Subjects
Antelope ,Museum collections ,Hippotragus ,Population ,Zoology ,Conservation ,QH426-470 ,Extinction, Biological ,Critically endangered ,Effective population size ,Addax nasomaculatus ,biology.animal ,Archival DNA ,PSMC ,Genetics ,Animals ,education ,Genetics (clinical) ,Bovid ,archival DNA ,education.field_of_study ,Genome assembly ,biology ,Extinct in the wild ,Population size ,Endangered Species ,conservation ,Biodiversity ,biology.organism_classification ,critically endangered ,Oryx ,Phylogeography ,Antelopes ,Genome, Mitochondrial ,genome assembly ,Hybridization, Genetic ,antelope ,bovid ,museum collections - Abstract
Since the 19th century, the addax (Addax nasomaculatus) has lost approximately 99% of its former range. Along with its close relatives, the blue antelope (Hippotragus leucophaeus) and the scimitar-horned oryx (Oryx dammah), the addax may be the third large African mammal species to go extinct in the wild in recent times. Despite this, the evolutionary history of this critically endangered species remains virtually unknown. To gain insight into the population history of the addax, we used hybridization capture to generate ten complete mitochondrial genomes from historical samples and assembled a nuclear genome. We found that both mitochondrial and nuclear diversity are low compared to other African bovids. Analysis of mitochondrial genomes revealed a most recent common ancestor ~32 kya (95% CI 11–58 kya) and weak phylogeographic structure, indicating that the addax likely existed as a highly mobile, panmictic population across its Sahelo–Saharan range in the past. PSMC analysis revealed a continuous decline in effective population size since ~2 Ma, with short intermediate increases at ~500 and ~44 kya. Our results suggest that the addax went through a major bottleneck in the Late Pleistocene, remaining at low population size prior to the human disturbances of the last few centuries.
- Published
- 2021
207. A collective statement in support of saving pangolins.
- Author
-
Choo, Siew Woh, Chong, Ju Lian, Gaubert, Philippe, Hughes, Alice Catherine, O'Brien, Stephen, Chaber, Anne-Lise, Antunes, Agostinho, Platto, Sara, Sun, Nick Ching-Min, Yu, Li, Koepfli, Klaus-Peter, Suwal, Tulshi Laxmi, Thakur, Mukesh, Ntie, Stephan, Panjang, Elisa, Kumaran, Jayaraj Vijaya, Mahmood, Tariq, Heighton, Sean P., Dorji, Dago, and Gonedelé, Bi Sery
- Published
- 2022
- Full Text
- View/download PDF
208. Photography-based taxonomy is inadequate, unnecessary, and potentially harmful for biological sciences
- Author
-
Fenton P.D. Cotterill, Fernanda P. Werneck, Stephen W. Chordas, Enrique González-Soriano, Pierangelo Luporini, Santiago Claramunt, Santosh Kumar, Adriano B. Kury, Marcelo José Sturaro, Atsushi Tominaga, Marcos Gonçalves Lhano, Giulio Cuccodoro, Bernardo F. Santos, Alejandro Oceguera-Figueroa, Klaus Henle, Giovanni B. Delmastro, Thibaut Delsinne, Jeremy A. Miller, Thomas Ziegler, Ishan Agarwal, Rodrigo M. Feitosa, Robert C. Glotzhober, Giuliano Doria, Adeline Soulier-Perkins, Diego Baldo, Valéria da Cunha Tavares, Danilo Pacheco Cordeiro, Eli Greenbaum, Carlos Alberto Santos de Lucena, Stuart V. Nielsen, Jörn Köhler, Fernando Pacheco Rodrigues, Justin C. Bagley, Shun Ichiro Naomi, Gustavo Hormiga, Geoffrey Odhiambo Ong'ondo, Aurélien Miralles, Alexandre Uarth Christoff, Florian M. Steiner, Matthias Glaubrecht, Victor Van Cakenberghe, Wolfgang Rabitsch, Jack W. Sites, Norma J. Salcedo, Mario Alberto Cozzuol, Ward C. Wheeler, Krister T. Smith, Brian Tilston Smith, Ignacio Jose De La Riva De La Viña, Leo J. Borkin, Ângelo Parise Pinto, Marivene R. Manuel-Santos, Ana Carolina Pavan, M. J. Alves, Dan Cogălniceanu, Luciana F. Santoferrara, James M. Carpenter, Thierry Deuve De Resbecq, Beat Schätti, Jean Pierre Vacher, John G. Day, Ray C. Schmidt, Otto M. P. Oliveira, Lázaro Guevara, Jean-Lou Justine, Karthikeyan Vasudevan, Donat Agosti, Cécile Mourer-Chauviré, Brett C. Ratcliffe, Birgit C. Schlick-Steiner, Sebastian Kvist, Nathan K. Lujan, Robert Alexander Pyron, Rosana M. Rocha, Roberto Poggi, José A. Langone, Larry Lee Grismer, Václav Gvoždík, Natsuhiko Yoshikawa, Thaís P. Miranda, Elizabeth Prendini, Abel Pérez-González, Katharina C. Wollenberg Valero, Jean-Yves Rasplus, Cristiano R. Moreira, Antonietta La Terza, Fabio Siqueira Pitaluga de Godoi, Michael W. Holmes, Thomas E. Lacher, Ronald H. Pine, Matthew P. Heinicke, Steven M. Goodman, John D. Lynch, Elöd Kondorosy, Anderson Feijó, Orfeo Picariello, Wolfgang Denzer, Stefano Valdesalici, Aléssio Datovo, Jean Pierre Hugot, Yuri L. R. Leite, Heinz Grillitsch, Hernán Ortega, Dimitri Forero, Jean Carlos Santos, Marie Claude Durette-Desset, Victor H. Gonzalez, Mrugank Prabhu, Walter E. Schargel, Beate Röll, Caleb D. McMahan, Mitsuru Kuramoto, Edson A. Adriano, Jérôme Constant, Richard Laval, María A. Mendoza-Becerril, Cédric d'Udekem d'Acoz, Alain Didier Missoup, Frank Tillack, Janet K. Braun, Lindsey Swierk, André L. Netto-Ferreira, Xiaofeng Lin, Karl Heinz Jungfer, Fabio Di Dario, Vanessa Kruth Verdade, Pavel Štys, Franco Andreone, Andrés A. Ojanguren-Affilastro, Manuel Ruedi, Didier Van den Spiegel, Rahul Khot, Lars Krogmann, Lance Grande, Robert C. Drewes, Luis M. P. Ceríaco, Jeffrey W. Streicher, Jacob A. Esselstyn, Josiah H. Townsend, Wolfgang Arthofer, Wiesław Bogdanowicz, Marcos A. Raposo, Omar Torres-Carvajal, Dirk Ahrens, Theo Blick, Carlos DoNascimiento, Eric Drouet, Claudia Patricia Ornelas-García, Gervásio Silva Carvalho, Zachary H. Falin, Gaetano Odierna, Michael Maia Mincarone, Sabine Agatha, Christian De Muizon, Célio F. B. Haddad, Pablo Rodrigues Gonçalves, Maarten P.M. Vanhove, Ronald Janssen, Ulrich Burkhardt, Bernard Landry, Paúl M. Velazco, Melanie L. J. Stiassny, Erna Aescht, Sarah Siqueira Oliveira, Koshiro Eto, Thomas van de Kamp, Fabio Cianferoni, Leonardo Ferreira Machado, Luiz Carlos Pinho, Dennis Rödder, Fábio Raposo do Amaral, Shan Gao, Paulo Passos, Nikolai L. Orlov, Emanuel Tschopp, Bert Van Bocxlaer, Roman Hołyński, Isabella Van De Velde, Indraneil Das, Luciano Damián Patitucci, Daniel J. Bennett, Annemarie Ohler, Rachunliu G. Kamei, Patrick Grootaert, Tony Robillard, Jun Gong, Massimo Delfino, Antonio C. Marques, Daizy Bharti, Ira Richling, José L. O. Birindelli, Thiago Borges Fernandes Semedo, Philippe Grandcolas, Eric J. Sargis, Andreas Taeger, Jesús Molinari, Link E. Olson, Christoph Kucharzewski, Luc Janssens de Bisthoven, José P. Pombal, Ryan C. McKellar, Serge Gofas, Mário C. C. de Pinna, Kristofer M. Helgen, Pablo Quintela-Alonso, Marcos Tavares, Wolfgang A. Nässig, Jodi J. L. Rowley, Jairo Arroyave, Fabio Maria Guarino, Djoko T. Iskandar, Martin Fikáček, Joel Cracraft, Robert M. Timm, Lassad Neifar, Marcelo C. Andrade, Moisés Escalona, Max Kieckbusch, George R. Zug, J. V. Remsen, Weibo Song, Paula Beatriz Araujo, Marco Brandalise de Andrade, Luiz Alexandre Campos, Eva V. Bärmann, Thomas Lehmann, Thorsten Stoeck, Jorge Salazar-Bravo, Charles Morphy D. Santos, Joël Minet, Mann Kyoon Shin, Gustavo A. Bravo, Felipe Franco Curcio, Antoine Pariselle, Hidetoshi Ota, David R. Luz, Abdulaziz S. Alqarni, Joseph A. Cook, Cameron D. Siler, Zilda Margarete Seixas de Lucena, Guarino R. Colli, Máriom A. Carvajal, Franziska Bauer, Yves Samyn, Luke Tornabene, Stefan Merker, Favízia Freitas de Oliveira, Murilo N. L. Pastana, Luís Fábio Silveira, Moira Jane FitzPatrick, Stephen D. Busack, Max R. Lambert, Julián Faivovich, Masafumi Matsui, Bernhard A. Huber, Alexandre Aleixo, Mariana P. Marques, Jean-François Trape, Marcello Guimarães Simões, Brian L. Fisher, Brandi S. Coyner, Michael F. Bates, Marcelo Salles Rocha, Silke Schweiger, Jean Raffaëlli, Vladimir Dinets, Paulo C. A. Garcia, Devanshu Gupta, Juan M. Guayasamin, W. Brian Simison, Rudy Jocqué, Aniruddha Datta-Roy, Marcelo R. Britto, Cristiane Bastos-Silveira, Celso O. Azevedo, Roger Bour, Aidin Niamir, Leandro M. Vieira, Mark Epstein, Neal Woodman, Marcelo R. de Carvalho, José Antonio González-Orej, Martin Kruger, Ulisses Caramaschi, Marcus Guidoti, Cibele Biondo, Scott Lyell Gardner, François Dusoulier, Francisco Langeani, John E. Lattke, Helen M. Barber-James, Jan Zima, Guilherme R. R. Brito, Ricardo Moratelli, Stylianos Chatzimanolis, Carlos José Einicker Lamas, John B. Iverson, Maria Hołyńska, Aaron M. Bauer, Luc Brendonck, Klaus-Peter Koepfli, Angelica Crottini, Cristian Hernan Fulvio Perez, Tiago Georg Pikart, Eliécer E. Gutiérrez, Luis García-Prieto, Lawrence R. Heaney, Thomas A. Munroe, Thomas C. Giarla, Laurie J. Vitt, Enrico Borgo, Antonio J. C. Aguiar, Sven O. Kullander, Jean Sébastien Steyer, Marcial Quiroga-Carmona, Matthew J. Miller, Kraig Adler, Werner Conradie, Enrique La Marca, Thomas Schmitt, Dieter Uhl, Mario de Vivo, Rainer Hutterer, Silvio Shigueo Nihei, Perry L. Wood, Amira Chaabane, Tim Tokaryk, Octávio Mateus, Andrés Sebastián Quinteros, Daniel S. Fernandes, Alexandra Cartaxana, Pedro F. Victoriano, Ernest C.J. Seamark, William R. Branch, Mark-Oliver Rödel, Diego Astúa, Marcio R. Pie, Julien Pétillon, Henrard Arnaud, Hossein Rajaei, Sushil K. Dutta, Hussam Zaher, Hernández Díaz Yoalli Quetzalli, Martin Carr, Renan Carrenho, Estefanía Rodríguez, Robert Trusch, Patrick David, Rafaela Lopes Falaschi, Rafael O. de Sá, Miguel Ângelo Marini, Varad B. Giri, Jean-Claude Rage, Guilherme S. T. Garbino, Björn Berning, Thierry Frétey, Vítor de Q. Piacentini, Paulo A. Buckup, David C. Lees, Alfred L. Gardner, Marco Pavia, Pablo Ricardo Mulieri, Lorenzo Prendini, Eliana M. Cancello, Cinthia Chagas, Bruce B. Collette, Leigh R. Richards, Eduardo I. Faúndez, Timothy J. Colston, Thomas Keith Philips, Miguel Trefaut Rodrigues, Renato Gregorin, Karin Meißner, Nathan S. Upham, A. Townsend Peterson, Tiago Kütter Krolow, Felipe Ferraz Figueiredo Moreira, Olivier Montreuil, Leandro M. Sousa, Thomas Weisse, Natalia B. Ananjeva, Donald C. Taphorn, Renata Stopiglia, Marcelo Duarte, Benoit Guénard, Cyril Gallut, Giovanni Boano, David Modrý, Erik Verheyen, Jonas José Mendes Aguiar, Sven Mecke, Alexandre Hassanin, Robert M. Zink, Marcello Mezzasalma, André Silva Roza, Reginaldo Constantino, Alice Hirschmann, Ulisses Pinheiro, Edmundo González-Santillán, Carlos A. Mendoza-Palmero, Tom Artois, Fernando J. M. Rojas-Runjaic, Kailas Chandra, Pablo Teta, Michael Karner, Esteban O. Lavilla, Mauricio Ortega-Andrade, Alexandra Marçal Correia, Deepak Veerappan, Daniela M. Takiya, Bolívar R. Garcete-Barrett, Alexander Kupfer, Sérgio N. Stampar, Daniel Burckhardt, Michael S. Engel, Teresa Kearney, Silvia E. Pavan, Luiz Roberto Malabarba, Mark D. Scherz, Pedro L. V. Peloso, Christiane Denys, Matthias F. Geiger, Alexander Pelzer, Jose G. Tello, Fabio S. Nascimento, Juan D. Daza, Franger J. García, Cinthia A. Brasileiro, Martín J. Ramírez, Marcos Pérsio Dantas Santos, Twan A. A. M. Leenders, Alain Canard, Tomáš Mazuch, Axel Hausmann, Flávio Alicino Bockmann, Prosanta Chakrabarty, Jasmine Purushothaman, Ara Monadjem, David A. Donoso, Kaushik Deuti, Stephen Mahony, Duke S. Rogers, Don E. Wilson, Julian C. Kerbis Peterhans, Jader Marinho-Filho, Alain Dubois, Marcio Luiz de Oliveira, Jan Decher, John M. Midgley, Fernando C. Jerep, Bastian Bentlage, Ivan Löbl, Gregory J. Watkins-Colwell, Uwe Fritz, Annamaria Nistri, Lúcia H. Rapp Py-Daniel, Bruce D. Patterson, Peter J. Taylor, Burton K. Lim, James L. Patton, Colin S. Schoeman, Stéphane Grosjean, Ismael Franz, Cristian Simón Abdala, John S. Sparks, Marcos R. Bornschein, Leonora Pires Costa, Martín O. Pereyra, João Filipe Riva Tonini, Richard Schodde, Blanca Pérez-Luz, Cristiano Feldens Schwertner, Peter Jäger, Marcin Jan Kamiński, Philipp Wagner, Jakob Hallermann, Hendrik Freitag, Olavi Kurina, Laure Desutter-Grandcolas, Romain Garrouste, Pedro De Podestà Uchôa de Aquino, Guillermo D’Elía, Sharlene E. Santana, Roberto E. Reis, Wouter Dekoninck, Sushma Reddy, Alfred L. Rosenberger, James R. McCranie, Wolfgang Böhme, Ricardo C. Benine, Cyrille D'Haese, Paulo H. F. Lucinda, Jacques H. C. Delabie, Carr, Martin, Department of Biology, Northern Arizona University [Flagstaff], Museu Nacional de Historia Natural e da Ciencia, Departamento de Zoologia, Instituto de Ciências Biológicas, Universidade de Brasilia [Brasília] (UnB), National Museum of Natural History, National Museum of Natural History - Leiden, Institut de Systématique, Evolution, Biodiversité (ISYEB ), Muséum national d'Histoire naturelle (MNHN)-Université Pierre et Marie Curie - Paris 6 (UPMC)-École pratique des hautes études (EPHE)-Centre National de la Recherche Scientifique (CNRS), École pratique des hautes études (EPHE), Université Pierre et Marie Curie (Paris 6), Centre National de la Recherche Scientifique (CNRS), Sorbonne Universités, Universidad Nacional de Tucumán (UNT), King Saud University, Cornell University, Universidade Federal de São Paulo, Austrian Museum, Villanova University, Universität Salzburg, Plazi, University of São Paulo, Zoologisches Forschungsmuseum Alexander Koenig, Museu Paraense Emílio Goeldi, Russian Academy of Sciences, Federal University of Para - Universidade Federal do Para [Belem - Brésil], Pontificia Universidade Catolica do Rio Grande do Sul (PUCRS), Museo Regionale di Scienze Naturali, Universidade Federal do Rio Grande do Sul [Porto Alegre] (UFRGS), Royal Museum for Central Africa [Tervuren] (RMCA), Universidad Nacional Autónoma de México (UNAM), Institute of Ecology, Technische Universität Berlin (TUB), Hasselt University, Universidade Federal de Pernambuco [Recife] (UFPE), Universidade Federal do Espírito Santo (UFES), Institut de Recherche pour le Développement (IRD [Nouvelle-Calédonie]), Albany Museum, National Museum, Senckenberg Naturhistorische Sammlungen, Universidade Estadual Paulista Júlio de Mesquita Filho [São José do Rio Preto] (UNESP), Stephen F. Austin State University, Smithsonian Institution, Tyrolean State Museum, Università di Camerino, Universidade Federal do ABC, Museu de Zoologia da Universidade Estadual de Londrina, Senckenberg Research Institute, Museo Civico di Storia Naturale, Muzeum i Instytut Zoologii Polskiej Akademii Nauk, Russian Academy of Sciences [Moscow] (RAS), Port Elizabeth Museum, Sam Noble Museum, Harvard University [Cambridge], North West University, Museu Nacional do Rio de Janeiro, Musée d'Histoire Naturelle de Bâle, Senckenberg Museum [Frankfurt], North Carolina Museum of Natural Sciences, Université de Rennes 1 (UR1), Université de Rennes (UNIV-RENNES), Museu de Zoologia (MZ), Universidade de São Paulo (USP), American Museum of Natural History, University of Huddersfield, North Dakota State University (NDSU), Faculté des Sciences de Sfax, Université de Sfax - University of Sfax, Departamento de Polícia Técnico Científica (DPTC), Museum of Natural Science, Louisiana State University (LSU), Zoological Survey of India, University of Tennessee System, Ohio State University [Columbus] (OSU), Museu de Ciências Naturais, Universidade Luterana do Brasil (ULBRA), Museo di Storia Naturale, Università degli Studi di Firenze, Ovidius University of Constanta, The University of Mississippi [Oxford], Royal Belgian Institute of Natural Sciences (RBINS), The University of New Mexico [Albuquerque], Instituto Nacional de Pesquisas da Amazônia (INPA), University of Stellenbosh, Universidade Federal de Minas Gerais, Centro de Investigaçao em Biodiversidade e Recursos Genéticos, Museum d'Histoire Naturelle, Centre de Biologie pour la Gestion des Populations (UMR CBGP), Centre de Coopération Internationale en Recherche Agronomique pour le Développement (Cirad)-Institut National de la Recherche Agronomique (INRA)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-Université de Montpellier (UM)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Muséum national d'Histoire naturelle (MNHN)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA), Muséum national d'Histoire naturelle (MNHN)-Université Pierre et Marie Curie - Paris 6 (UPMC)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Centre National de la Recherche Scientifique (CNRS), École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL), Université Pierre et Marie Curie - Paris 6 (UPMC), Sorbonne Université (SU), King Saud University [Riyadh] (KSU), Cornell University [New York], Villanova University [USA], Universidade de São Paulo = University of São Paulo (USP), Museu Paraense Emílio Goeldi [Belém, Brésil] (MPEG), the Russian Academy of Sciences [Moscow, Russia] (RAS), Federal University of Para - Universidade Federal do Pará - UFPA [Belém, Brazil] (UFPA), Universidad Nacional Autónoma de México = National Autonomous University of Mexico (UNAM), Technical University of Berlin / Technische Universität Berlin (TU), Hasselt University (UHasselt), Universidade Federal do Espirito Santo (UFES), Universidade Estadual Paulista Júlio de Mesquita Filho = São Paulo State University (UNESP), Università degli Studi di Camerino = University of Camerino (UNICAM), Harvard University, North-West University [Potchefstroom] (NWU), Université de Rennes (UR), American Museum of Natural History (AMNH), Museo di Storia Naturale di Firenze, Università degli Studi di Firenze = University of Florence (UniFI), Stellenbosch University, Museum d'Histoire Naturelle [Genève] (MHN), Ceríaco, Luis M. P., Gutiérrez, Eliécer E., Dubois, Alain, Abdala, Cristian Simón, Alqarni, Abdulaziz S., Adler, Kraig, Adriano, Edson A., Aescht, Erna, Agarwal, Ishan, Agatha, Sabine, Agosti, Donat, Aguiar, Antonio J. C., Aguiar, Jonas José Mende, Ahrens, Dirk, Aleixo, Alexandre, Alves, Maria Judite, Do Amaral, Fabio Raposo, Ananjeva, Natalia, Andrade, Marcelo C., De Andrade, Marco Brandalise, Andreone, Franco, Aquino, Pedro P. U., Araujo, Paula Beatriz, Arnaud, Henrard, Arroyave, Jairo, Arthofer, Wolfgang, Artois, Tom J., Astúa, Diego, Azevedo, Celso, Bagley, Justin C., Baldo, Diego, Barber James, Helen Margaret, Bärmann, Eva V., Bastos Silveira, Cristiane, Bates, Michael F., Bauer, Aaron M., Bauer, Franziska, Benine, Ricardo C., Bennett, Daniel J., Bentlage, Bastian, Berning, Björn, Bharti, Daizy, Biondo, Cibele, Birindelli, José, Blick, Theo, Boano, Giovanni, Bockmann, Flávio A., Bogdanowicz, Wieslaw, Böhme, Wolfgang, Borgo, Enrico, Borkin, Leo, Bornschein, Marcos Ricardo, Bour, Roger, Branch, William R., Brasileiro, Cinthia A., Braun, Janet K., Bravo, Gustavo A., Brendonck, Luc, Brito, Guilherme R. R., Britto, Marcelo R., Buckup, Paulo A., Burckhardt, Daniel, Burkhardt, Ulrich, Busack, Stephen D., Campos, Luiz A., Canard, Alain, Cancello, Eliana M., Caramaschi, Ulisse, Carpenter, James M., Carrenho, Renan, Cartaxana, Alexandra, Carvajal, Mariom A., Carvalho, Gervásio Silva, De Carvalho, Marcelo Rodrigue, Chaabane, Amira, Chagas, Cinthia, Chakrabarty, Prosanta, Chandra, Kaila, Chatzimanolis, Styliano, Chordas, Stephen W., Christoff, Alexandre U., Cianferoni, Fabio, Claramunt, Santiago, Cogãlniceanu, Dan, Collette, Bruce B., Colli, Guarino R., Colston, Timothy J., Conradie, Werner, Constant, Jérôme, Constantino, Reginaldo, Cook, Joseph A., Cordeiro, Danilo, Correia, Alexandra Marçal, Cotterill, Fenton P. D., Coyner, Brandi, Cozzuol, Mario A., Cracraft, Joel, Crottini, Angelica, Cuccodoro, Giulio, Curcio, Felipe Franco, D'Udekem D'Acoz, Cédric, D'Elía, Guillermo, D'Haese, Cyrille, Das, Indraneil, Datovo, Aléssio, Datta Roy, Aniruddha, David, Patrick, Day, John G., Daza, Juan D., De Bisthoven, Luc Janssen, De La Riva De La Viña, Ignacio Jose, De Muizon, Christian, De Pinna, Mario, Piacentini, Vítor De Q., De Sá, Rafael O., De Vivo, Mario, Decher, Jan, Dekoninck, Wouter, Delabie, Jacques H. C., Delfino, Massimo, Delmastro, Giovanni B., Delsinne, Thibaut, Denys, Christiane, Denzer, Wolfgang, Desutter Grandcolas, Laure, Deuti, Kaushik, De Resbecq, Thierry Deuve, Di Dario, Fabio, Dinets, Vladimir, Donascimiento, Carlo, Donoso, David A., Doria, Giuliano, Drewes, Robert C., Drouet, Eric, Duarte, Marcelo, Durette Desset, Marie Claude, Dusoulier, Françoi, Dutta, Sushil Kumar, Engel, Michael S., Epstein, Mark, Escalona, Moisé, Esselstyn, Jacob A., Eto, Koshiro, Faivovich, Julián, Falaschi, Rafaela Lope, Falin, Zachary H., Faundez, Eduardo I., Feijó, Anderson, Feitosa, Rodrigo M., Fernandes, Daniel Silva, Fikáček, Martin, Fisher, Brian L., Fitzpatrick, Moira J., Forero, Dimitri, Franz, Ismael, Freitag, Hendrik, Frétey, Thierry, Fritz, Uwe, Gallut, Cyril, Gao, Shan, Garbino, Guilherme S. T., Garcete Barrett, Bolívar R., García Prieto, Lui, García, Franger J., Garcia, Paulo C. A., Gardner, Alfred L., Gardner, Scott Lyell, Garrouste, Romain, Geiger, Matthias F., Giarla, Thomas C., Giri, Varad, Glaubrecht, Matthia, Glotzhober, Robert C., Godoi, Fabio S. P., Gofas, Serge, Gonçalves, Pablo R., Gong, Jun, Gonzalez, Victor H., González Orej, José Antonio, González Santillán, Edmundo, González Soriano, Enrique, Goodman, Steven M., Grandcolas, Philippe, Grande, Lance, Greenbaum, Eli, Gregorin, Renato, Grillitsch, Heinz, Grismer, Larry Lee, Grootaert, Patrick, Grosjean, Stéphane, Guarino, FABIO MARIA, Guayasamin, Juan M., Guénard, Benoit, Guevara, Lázaro, Guidoti, Marcu, Gupta, Devanshu, Gvoždík, Václav, Haddad, Célio F. B., Hallermann, Jakob, Hassanin, Alexandre, Hausmann, Axel, Heaney, Lawrence R., Heinicke, Matthew P., Helgen, Kristofer M., Henle, Klau, Hirschmann, Alice, Holmes, Michael W., Hołyńska, Maria, Hołyński, Roman, Hormiga, Gustavo, Huber, Bernhard A., Hugot, Jean Pierre, Hutterer, Rainer, Iskandar, Djoko, Iverson, John B., Jäger, Peter, Janssen, Ronald, Jerep, Fernando, Jocqué, Rudy, Jungfer, Karl Heinz, Justine, Jean Lou, Kamei, Rachunliu G., Kamiński, Marcin Jan, Karner, Michael, Kearney, Teresa, Khot, Rahul, Kieckbusch, Max, Köhler, Jörn, Koepfli, Klaus Peter, Kondorosy, Elöd, Krogmann, Lar, Krolow, Tiago Kütter, Krüger, Martin, Kucharzewski, Christoph, Kullander, Sven O., Kumar, Santosh, Kupfer, Alexander, Kuramoto, Mitsuru, Kurina, Olavi, Kury, Adriano, Kvist, Sebastian, La Marca, Enrique, La Terza, Antonietta, Laval, Richard, Lacher, Thomas E., Lamas, Carlos J. E., Lambert, Max R., Landry, Bernard, Langeani, Francisco, Langone, José A., Lattke, John E., Lavilla, Esteban O., Leenders, Twan, Lees, David C., Leite, Yuri L. R., Lehmann, Thoma, Lhano, Marcos Gonçalve, Lim, Burton K., Lin, Xiaofeng, Löbl, Ivan, De Lucena, Carlos A. S., De Lucena, Zilda Margarete S., Lucinda, Paulo, Lujan, Nathan K., Luporini, Pierangelo, Luz, David R., Lynch, John D., Machado, Leonardo Ferreira, Mahony, Stephen, Malabarba, Luiz R., Manuel Santos, Marivene, Marinho Filho, Jader, Marini, Miguel Â., Marques, Antonio Carlo, Marques, Mariana P., Mateus, Octávio, Matsui, Masafumi, Mazuch, Tomáš, Mccranie, Jame, Mckellar, Ryan C., Mcmahan, Caleb D., Mecke, Sven, Meißner, Karin, Mendoza Becerril, María A., Mendoza Palmero, Carlos A., Merker, Stefan, Mezzasalma, Marcello, Midgley, John Mark, Miller, Jeremy, Miller, Matthew J., Mincarone, Michael Maia, Minet, Joël, Miralles, Aurélien, Miranda, Thaís P., Missoup, Alain Didier, Modrý, David, Molinari, Jesú, Monadjem, Ara, Montreuil, Olivier, Moratelli, Ricardo, Moreira, Cristiano Rangel, Moreira, Felipe F. F., Mourer Chauviré, Cécile, Mulieri, Pablo Ricardo, Munroe, Thomas A., Naomi, Shun Ichiro, Nascimento, Fabio, Nässig, Wolfgang A., Neifar, Lassad, Netto Ferreira, Andre L., Niamir, Aidin, Nielsen, Stuart V., Nihei, Silvio S., Nistri, Annamaria, Oceguera Figueroa, Alejandro, Odierna, Gaetano, Ohler, Annemarie, Ojanguren Affilastro, Andres A., De Oliveira, Favízia Freita, De Oliveira, Marcio Luiz, De Oliveira, Otto Müller Patrão, Oliveira, Sarah Siqueira, Olson, Link E., Ong'Ondo, Geoffrey O., Orlov, Nikolai, Ornelas García, Claudia Patricia, Ortega, Hernan, Ortega Andrade, Mauricio, Ota, Hidetoshi, Pariselle, Antoine, Passos, Paulo, Pastana, Murilo N. L., Patterson, Bruce D., Patitucci, Luciano D., Patton, James L., Pavan, Ana C., Pavan, Silvia E., Pavia, Marco, Peloso, Pedro L. V., Pelzer, Alexander, Pereyra, Martín O., Perez Gonzalez, Abel, Pérez Luz, Blanca, Pérez, Cristian Hernan Fulvio, Peterhans, Julian Kerbi, Peterson, A. Townsend, Pétillon, Julien, Philips, Thomas Keith, Picariello, ORFEO LUCIO ANTONIO, Pie, Marcio R., Pikart, Tiago G., Pine, Ronald H., Pinheiro, Ulisse, Pinho, Luiz Carlo, Pinto, Ângelo P., Costa, Leonora Pire, Poggi, Roberto, Pombal, José P., Prabhu, Mrugank, Prendini, Elizabeth, Prendini, Lorenzo, Purushothaman, Jasmine, Pyron, Robert Alexander, Quintela Alonso, Pablo, Quinteros, Andres Sebastian, Quiroga Carmona, Marcial, Rabitsch, Wolfgang, Raffaëlli, Jean, Rage, Jean Claude, Rajaei, Hossein, Ramírez, Martín J., Raposo, Marcos A., Py Daniel, Lucia H. Rapp, Rasplus, Jean Yve, Ratcliffe, Brett C., Reddy, Sushma, Reis, Roberto E., Remsen, James V., Richards, Leigh R., Richling, Ira, Robillard, Tony, Rocha, Marcelo Salle, Rocha, Rosana Moreira, Rödder, Denni, Rödel, Mark Oliver, Rodrigues, Fernando P., Rodriguez, Estefania, Rogers, Duke S., Rojas Runjaic, Fernando J. M., Röll, Beate, Rosenberger, Alfred L., Rowley, Jodi, Roza, André Silva, Ruedi, Manuel, Salazar Bravo, Jorge, Salcedo, Norma J., Samyn, Yve, Santana, Sharlene E., Santoferrara, Luciana, Santos, Bernardo F., Santos, Charles Morphy D., Santos, Jean Carlo, Santos, Marcos Pérsio Danta, Sargis, Eric J., Schargel, Walter E., Schätti, Beat, Scherz, Mark D., Schlick Steiner, Birgit C., Schmidt, Ray C., Schmitt, Thoma, Schodde, Richard, Schoeman, Colin S., Schweiger, Silke, Schwertner, Cristiano F., Seamark, Ernest C. J., Semedo, Thiago B. F., Shin, Mann Kyoon, Siler, Cameron D., Silveira, Luís Fábio, Simison, W. Brian, Simões, Marcello, Sites, Jack W., Smith, Brian Tilston, Smith, Krister T., Song, Weibo, Soulier Perkins, Adeline, Sousa, Leandro M., Sparks, John S., Stampar, Sérgio N., Steiner, Florian M., Steyer, Jean Sébastien, Stiassny, Melanie L. J., Stoeck, Thorsten, Stopiglia, Renata, Streicher, Jeffrey W., Sturaro, Marcelo J., Stys, Pavel, Swierk, Lindsey, Taeger, Andrea, Takiya, Daniela M., Taphorn, Donald C., Tavares, Marco, Tavares, Valeria Da C., Taylor, Peter John, Tello, Jose G., Teta, Pablo, Tillack, Frank, Timm, Robert M., Tokaryk, Tim, Tominaga, Atsushi, Tonini, João Filipe Riva, Tornabene, Luke, Torres Carvajal, Omar, Townsend, Josiah, Trape, Jean Françoi, Rodrigues, Miguel Trefaut, Trusch, Robert, Tschopp, Emanuel, Uhl, Dieter, Upham, Nathan S., Vacher, Jean Pierre, Valdesalici, Stefano, Van Bocxlaer, Bert, Van Cakenberghe, Victor, Van De Kamp, Thoma, Van De Velde, Isabella, Van Den Spiegel, Didier, Vanhove, Maarten P. M., Vasudevan, Karthikeyan, Veerappan, Deepak, Velazco, Paúl M., Verdade, Vanessa K., Verheyen, Erik, Vieira, Leandro M., Victoriano, Pedro F., Vitt, Laurie J., Wagner, Philipp, Watkins Colwell, Gregory J., Weisse, Thoma, Werneck, Fernanda P., Wheeler, Ward C., Wilson, Don E., Valero, Katharina C. Wollenberg, Wood, Perry Lee, Woodman, Neal, Quetzalli, Hernández Díaz Yoalli, Yoshikawa, Natsuhiko, Zaher, Hussam, Ziegler, Thoma, Zima, Jan, Zink, Robert M., Zug, George, Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS), Technische Universität Berlin (TU), Università degli Studi di Camerino (UNICAM), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Universidade de Brasília, Institut de Systématique, Evolution, Biodiversité ( ISYEB ), Muséum National d'Histoire Naturelle ( MNHN ) -Université Pierre et Marie Curie - Paris 6 ( UPMC ) -Centre National de la Recherche Scientifique ( CNRS ) -École pratique des hautes études ( EPHE ), Ecole Pratique des Hautes Etudes ( EPHE ), Centre National de la Recherche Scientifique ( CNRS ), Universidad Nacional de Tucumán, Villanova University [Philadelphie], University of Salzburg, Museu Paraense Emilio Goeldi, Universidade Federal do Pará, Pontificia Universidade Catolica do Rio Grande do Sul ( PUCRS ), Universidade Federal do Rio Grande do Sul ( UFRGS ), Royal Museum for Central Africa, Universidad Nacional Autónoma de México ( UNAM ), Technical University of Berlin, Universidade Federal de Pernambuco ( UFPE ), Universidade Federal do Espírito Santo ( UFES ), Institut de Recherche pour le Développement ( IRD [Nouvelle-Calédonie] ), Universidade Estadual Paulista Julio de Mesquita Filho ( UNESP ), Russian Academy of Sciences [Moscow] ( RAS ), Senckenberg Museum, Université de Rennes 1 ( UR1 ), Université de Rennes ( UNIV-RENNES ), Museu de Zoologia ( MZ ), Universidade de São Paulo ( USP ), North Dakota State University ( NDSU ), Departamento de Polícia Técnico Científica ( DPTC ), Louisiana State University ( LSU ), University of Tennessee, Ohio State University [Columbus] ( OSU ), Universidade Luterana do Brasil ( ULBRA ), University of Mississippi, Royal Belgian Institute of Natural Sciences ( RBINS ), University of New Mexico, Instituto Nacional de Pesquisas da Amazônia, Centre de Biologie pour la Gestion des Populations ( CBGP ), Centre de Coopération Internationale en Recherche Agronomique pour le Développement ( CIRAD ) -Centre international d'études supérieures en sciences agronomiques ( Montpellier SupAgro ) -Institut national de la recherche agronomique [Montpellier] ( INRA Montpellier ) -Université de Montpellier ( UM ) -Institut de Recherche pour le Développement ( IRD [France-Sud] ) -Institut national d’études supérieures agronomiques de Montpellier ( Montpellier SupAgro ), Federal Agency for the Safety of the Food Chain, Ceríaco, Luis M., Gutiérrez, Eliécer, Dubois, Alan Alqarni, Abdulaziz, Buckup, Paulo, Simón Abdala, Cristian, Algarni, abdulaziz, A. Adriano, Edson, Erna, Aescht, Villanova Univ, Museu Nacl Hist Nat & Ciencia, Universidade de Brasília (UnB), Smithsonian Inst, Sorbonne Univ, Univ Nacl Tucuman, King Saud Univ, Cornell Univ, Universidade Federal de São Paulo (UNIFESP), Upper Austrian Museum, Univ Salzburg, Zool Forsch Museum A Koenig, Russian Acad Sci, Pontificia Univ Catolica Rio Grande do Sul, Museo Reg Sci Nat, Univ Fed Rio Grande do Sul, Royal Museum Cent Africa, Univ Nacl Autonoma Mexico, Univ Innsbruck, Hasselt Univ, Universidade Federal de Pernambuco (UFPE), Univ Nacl Misiones, Natl Museum, Senckenberg Nat Hist Sammlungen, Universidade Estadual Paulista (Unesp), Stephen F Austin State Univ, Landesmuseum, Univ Camerino, Universidade Federal do ABC (UFABC), Universidade Estadual de Londrina (UEL), Senckenberg Res Inst, Museo Civ Storia Nat, Polskiej Akad Nauk, Harvard Univ, North West Univ, Museu Nacl, Nat Hist Museum, Senckenberg Nat Kundemuseum, North Carolina Museum Nat Sci, Univ Rennes 1, Amer Museum Nat Hist, Univ Huddersfield, North Dakota State Univ, Fac Sci Sfax, DPTC PC, Louisiana State Univ, Zool Survey India, Univ Tennessee, Ohio State Univ, Univ Luterana Brasil, Univ Firenze, Univ Ovidius Constanta, Univ Mississippi, Royal Belgian Inst Nat Sci, Univ New Mexico, Inst Nacl de Pesquisas da Amazonia, Univ Stellenbosch, Universidade Federal de Minas Gerais (UFMG), CIBIO Ctr Invest Biodiversidade & Recursos Genet, Museum Hist Nat, Universidade Federal de Mato Grosso do Sul (UFMS), Univ Austral Chile, Univ Malaysia, Indian Inst Sci, Scottish Assoc Marine Sci, Sam Houston State Univ, Museo Nacl Ciencias Nat, Drexel Univ, Univ Richmond, Ctr Pesquisas Cacau, Univ Torino, Soc Hist Nat Alcide dOrbigny, Wolfden Sci Consulting, Universidade Federal do Rio de Janeiro (UFRJ), Inst Humboldt, Escuela Politec Nacl, Calif Acad Sci, Museum Dept Hist Nat Var, Nat Environm & Wildlife Soc, Univ Kansas, Kyoto Univ, Consejo Nacl Invest Cient & Tecn, Univ Fed Paraiba, Univ Fed Parana, Nat Hist Museum Narodini Museum, Nat Hist Museum Zimbabwe, Ateneo Manila Univ, Pontificia Univ Javeriana, RACINE, Univ Paris 06, Ocean Univ China, Museo Nacl Hist Nat Paraguay, Univ Carabobo, Natl Ctr Biol Sci, Univ Nebraska, CENAK Ctr Nat Kunde, Ohio Hist Connect, Univ Fed Amazonas, Univ Malaga, Chinese Acad Sci, Benemerita Univ Autonoma Puebla, Natl Polytech Inst, Field Museum Nat Hist, Univ Texas El Paso, Universidade Federal de Lavras (UFLA), La Sierra Univ, Univ San Francisco Quito, Univ Hong Kong, CUNY, CAS, Zool Staatssammlung Munchen, Univ Michigan, Helmholtz Ctr Environm Res, Santa Rosa Jr Coll, George Washington Univ, Inst Teknol Bandung, Earlham Coll, Senckenberg Forschungsinst & Nat Museum, Univ Koblenz Landau, Ditsong Natl Museum Nat Hist, Bombay Nat Hist Soc, Philipps Univ Marburg, Hess Landesmuseum, Smithsonian Conservat Biol Inst, Univ Pannonia, Staatliches Museum Nat Kunde, UFT, Museum Nat Kunde, Nat Hist Riksmuseet, Hikarigaoka, Inst Agr & Environm Sci, Univ Los Andes, Bat Jungle, Texas A&M Univ, Yale Univ, Museo Nacl Hist Nat, Roger Tory Peterson Inst Nat Hist, Univ Fed Reconcavo Bahia, South China Normal Univ, Museu Ciencias Tecnol PUCRS, Univ Fed Tocantins, Univ Toronto, Univ Nacl Colombia, Natl Museum Philippines, NOVA Univ Lisbon, Royal Saskatchewan Museum, Deutsch Zentrum Marine Biodiversitatsforsch, Ctr Invest Biol Noroeste, Naturalis Biodivers Ctr, Univ Douala, Vet & Farmaceut Univ Brno, Univ Swaziland, Fundacao Oswaldo Cruz, Univ Claude Bernard, Museum Vertebrate Zool, Nat Hist Museum & Inst, Senckenberg Biodiversitat & Klima Forschunsgzentr, Marquette Univ, Universidade Federal da Bahia (UFBA), Fed Univ ABC, Universidade Federal de Goiás (UFG), Univ Alaska Museum, Egerton Univ, Museo Hist Nat, IKIAM Univ Reg Amazon, Univ Hyogo, Inst Rech Dev, Niedersachs Landesbetrieb Wasserwirtschaft Kusten, Univ Complutense Madrid, Roosevelt Univ, Western Kentucky Univ, Univ Naples Federico II, Univ Fed Acre, Universidade Federal de Santa Catarina (UFSC), Inst Bio & Geociencias Noroeste Argentino, Inst Venezolano Invest Cient, Umweltbundesamt, Penclen, CNRS MNHN UPMC, Staatl Museum Nat Kunde, Ctr Biol Gest Populat INRA, Loyola Univ Chicago, Pontificia Univ Catolica Rio do Sul, Durban Museum Nat Sci, Univ Estado Amazonas, Brigham Young Univ, Museo Hist Nat La Salle, Univ Vet Med Hannover, Australian Museum, Texas Tech Univ, Francis Marion Univ, Univ Washington, Univ Connecticut, Universidade Federal de Uberlândia (UFU), Fed Univ Para, Yale Peabody Museum, Univ Texas Arlington, Senckenberg Deutsch Entomol Inst, CSIRO, Univ Venda, Univ Ulsan, Senckenberg Forsch Inst & Nat Museum, Univ Fed Para, UPMC, Tech Univ Kaiserslautern, Charles Univ Prague, Univ Nacl Expt los Llanos Occident Ezequiel Zamor, Long Isl Univ, Univ Ryukyus, Pontificia Univ Catolica Ecuador, Indiana Univ Penn, IRD, State Museum Nat Hist Karlsruhe, Univ Toulouse III Paul Sabatier, Univ Ghent, Univ Antwerp, Karlsruhe Inst Technol, Ctr Cellular & Mol Biol, Yale Peabody Museum Nat Hist, Bethune Cookman Univ, Natl Museum Nat & Sci, and Zool Garten Koln
- Subjects
0106 biological sciences ,[SDV]Life Sciences [q-bio] ,Rebuttal ,010607 zoology ,Biology ,[SDV.BID.SPT]Life Sciences [q-bio]/Biodiversity/Systematics, Phylogenetics and taxonomy ,Q1 ,010603 evolutionary biology ,01 natural sciences ,Biological Science Disciplines ,FOTOGRAFIA ,Photography ,Animals ,Animal species ,Biological sciences ,QH426 ,Ecology, Evolution, Behavior and Systematics ,ComputingMilieux_MISCELLANEOUS ,Taxonomy ,QL ,[ SDV ] Life Sciences [q-bio] ,Ecology ,[SDV.BA]Life Sciences [q-bio]/Animal biology ,Biodiversity ,Classification ,Ecology, Evolution, Behavior and Systematic ,Taxonomy (biology) ,Animal Science and Zoology ,Classics - Abstract
Made available in DSpace on 2021-06-25T12:17:32Z (GMT). No. of bitstreams: 0 Previous issue date: 2016-11-23 Villanova Univ, Dept Biol, Villanova, PA 19085 USA Museu Nacl Hist Nat & Ciencia, Lisbon, Portugal Univ Brasilia, Dept Zool, Inst Ciencias Biol, BR-70910900 Brasilia, DF, Brazil Smithsonian Inst, Natl Museum Nat Hist, Washington, DC 20560 USA Sorbonne Univ, Museum Natl Hist Nat, ISYEB, Paris, France Univ Nacl Tucuman, San Miguel De Tucuman, Argentina King Saud Univ, Riyadh, Saudi Arabia Cornell Univ, Ithaca, NY USA Univ Fed Sao Paulo, Diadema, Brazil Upper Austrian Museum, Ctr Biol, Linz, Austria Villanova Univ, Villanova, PA 19085 USA Univ Salzburg, Salzburg, Austria Plazi, Bern, Switzerland Univ Brasilia, Brasilia, DF, Brazil Univ Sao Paulo, Ribeirao Preto, Brazil Zool Forsch Museum A Koenig, Bonn, Germany Museu Paraense Emilio Goeldi, Belem, Para, Brazil Russian Acad Sci, St Petersburg, Russia Pontificia Univ Catolica Rio Grande do Sul, Porto Alegre, RS, Brazil Museo Reg Sci Nat, Turin, Italy Univ Fed Rio Grande do Sul, Porto Alegre, RS, Brazil Royal Museum Cent Africa, Tervuren, Belgium Univ Nacl Autonoma Mexico, Mexico City, DF, Mexico Univ Innsbruck, Inst Ecol, Innsbruck, Austria Hasselt Univ, Hasselt, Belgium Univ Fed Pernambuco, Recife, PE, Brazil Univ Fed Espirito Santo, Vitoria, ES, Brazil Univ Nacl Misiones, Felix De Azara, Argentina Albany Museum, Grahamstown, South Africa Natl Museum, Bloemfontein, South Africa Senckenberg Nat Hist Sammlungen, Dresden, Germany Univ Estadual Paulista, Botucatu, SP, Brazil Stephen F Austin State Univ, Nacogdoches, TX 75962 USA Landesmuseum, Leonding, Austria Univ Camerino, Camerino, Italy Univ Fed ABC, Sao Bernardo, Brazil Univ Estadual Londrina, Museu Zool, Londrina, Parana, Brazil Senckenberg Res Inst, Frankfurt, Germany Museo Civ Storia Nat, Carmagnola, Italy Polskiej Akad Nauk, Muzeum & Inst Zool, Warsaw, Poland Museo Civ Storia Nat, Genoa, Italy Russian Acad Sci, Inst Zool, St Petersburg, Russia Univ Estadual Paulista, Sao Vicente, Brazil Sorbonne Univ, ISYEB, Museum Natl Hist Nat, Paris, France Port Elizabeth Museum, Port Elizabeth, South Africa Sam Noble Museum, Norman, OK USA Harvard Univ, Museum Comparat Zool, Cambridge, MA 02138 USA North West Univ, Potchefstroom, South Africa Museu Nacl, Rio De Janeiro, Brazil Nat Hist Museum, Basel, Switzerland Senckenberg Nat Kundemuseum, Gorlitz, Germany North Carolina Museum Nat Sci, Raleigh, NC USA Univ Rennes 1, Rennes, France Univ Sao Paulo, Museu Zool, Sao Paulo, SP, Brazil Amer Museum Nat Hist, New York, NY 10024 USA Univ Huddersfield, Huddersfield, W Yorkshire, England North Dakota State Univ, Fargo, ND USA Univ Sao Paulo, Sao Paulo, SP, Brazil Fac Sci Sfax, Sfax, Tunisia DPTC PC, Manaus, Amazonas, Brazil Louisiana State Univ, Museum Nat Sci, Baton Rouge, LA 70803 USA Zool Survey India, Kolkata, India Univ Tennessee, Chattanooga, TN USA Ohio State Univ, Columbus, OH 43210 USA Univ Luterana Brasil, Museu Ciencias Nat, Canoas, Brazil Univ Firenze, Florence, Italy Univ Ovidius Constanta, Constanta, Romania Univ Mississippi, Oxford, MS USA Royal Belgian Inst Nat Sci, Brussels, Belgium Univ New Mexico, Albuquerque, NM 87131 USA Inst Nacl de Pesquisas da Amazonia, Manaus, Amazonas, Brazil Univ Stellenbosch, Matieland, South Africa Univ Fed Minas Gerais, Belo Horizonte, MG, Brazil CIBIO Ctr Invest Biodiversidade & Recursos Genet, Vairao, Portugal Museum Hist Nat, Geneva, Switzerland Univ Fed Mato Grosso, Cuiaba, Brazil Univ Austral Chile, Valdivia, Chile Univ Malaysia, Sarawak, Malaysia Indian Inst Sci, Bangalore, Karnataka, India Scottish Assoc Marine Sci, Oban, Argyll, Scotland Sam Houston State Univ, Huntsville, TX 77340 USA Museo Nacl Ciencias Nat, Madrid, Spain Sorbonne Univ, CR2P, Museum Natl Hist Nat, Paris, France Drexel Univ, Acad Nat Sci, Philadelphia, PA 19104 USA Univ Richmond, Richmond, VA 23173 USA Ctr Pesquisas Cacau, Itabuna, Brazil Univ Torino, Turin, Italy Soc Hist Nat Alcide dOrbigny, Aubiere, France Wolfden Sci Consulting, Murcia, Spain Univ Fed Rio de Janeiro, Macae, Brazil Univ Tennessee, Knoxville, TN USA Inst Humboldt, Villa De Leyva, Colombia Escuela Politec Nacl, Quito, Ecuador Calif Acad Sci, San Francisco, CA 94118 USA Museum Dept Hist Nat Var, Toulon, France Nat Environm & Wildlife Soc, Angul, India Univ Kansas, Lawrence, KS 66045 USA Kyoto Univ, Kyoto, Japan Consejo Nacl Invest Cient & Tecn, Museo Argentino Ciencias Nat Bernardino Rivadavia, Buenos Aires, DF, Argentina Univ Fed Paraiba, Joao Pessoa, Paraiba, Brazil Univ Fed Parana, Curitiba, Parana, Brazil Univ Fed Rio de Janeiro, Rio De Janeiro, Brazil Nat Hist Museum Narodini Museum, Prague, Czech Republic Nat Hist Museum Zimbabwe, Bulawayo, Zimbabwe Ateneo Manila Univ, Quezon City, Philippines Pontificia Univ Javeriana, Bogota, Colombia RACINE, St Maugan, France Univ Paris 06, Sorbonne Univ Paris, ISYEB, Paris, France Ocean Univ China, Qingdao, Peoples R China Museo Nacl Hist Nat Paraguay, San Lorenzo, Paraguay Univ Carabobo, Valencia, Venezuela Natl Ctr Biol Sci, Bengaluru, India Univ Nebraska, Lincoln, NE USA CENAK Ctr Nat Kunde, Hamburg, Germany Ohio Hist Connect, Columbus, OH USA Univ Fed Amazonas, Manaus, Amazonas, Brazil Univ Malaga, Malaga, Spain Chinese Acad Sci, Qingdao, Shandong, Peoples R China Benemerita Univ Autonoma Puebla, Puebla, Mexico Natl Polytech Inst, Ctr Res & Adv Studies, Irapuato, Mexico Field Museum Nat Hist, Chicago, IL 60605 USA Univ Texas El Paso, El Paso, TX 79968 USA Univ Fed Lavras, Lavras, Brazil Nat Hist Museum, Vienna, Austria La Sierra Univ, Riverside, CA USA Univ San Francisco Quito, Quito, Ecuador Univ Hong Kong, Hong Kong, Peoples R China CUNY, New York, NY 10021 USA CAS, Inst Vertebrate Biol, Brno, Czech Republic Sorbonne Univ, MECADEV, Museum Natl Hist Nat, Paris, France Univ Estadual Paulista, Rio Claro, Brazil Zool Staatssammlung Munchen, Munich, Germany Univ Michigan, Dearborn, MI 48128 USA Smithsonian Inst, Natl Museum Nat Hist, Washington, DC USA Helmholtz Ctr Environm Res, Leipzig, Germany Santa Rosa Jr Coll, Santa Rosa, CA USA George Washington Univ, Washington, DC 20037 USA Inst Teknol Bandung, Bandung, Indonesia Earlham Coll, Richmond, IN USA Senckenberg Forschungsinst & Nat Museum, Frankfurt, Germany Univ Estadual Londrina, Londrina, Parana, Brazil Univ Koblenz Landau, Koblenz, Germany Nat Hist Museum, London, England Ditsong Natl Museum Nat Hist, Pretoria, South Africa Bombay Nat Hist Soc, Bombay, Maharashtra, India Philipps Univ Marburg, Marburg, Germany Hess Landesmuseum, Darmstadt, Germany Smithsonian Conservat Biol Inst, Washington, DC USA Univ Pannonia, Keszthely, Hungary Staatliches Museum Nat Kunde, Stuttgart, Germany UFT, Tocantins, Portugal Museum Nat Kunde, Berlin, Germany Nat Hist Riksmuseet, Stockholm, Sweden Hikarigaoka, Munakata, Japan Inst Agr & Environm Sci, Tartu, Estonia Univ Los Andes, Merida, Venezuela Bat Jungle, Monteverde, Costa Rica Texas A&M Univ, College Stn, TX USA Yale Univ, New Haven, CT USA Univ Estadual Paulista, Sao Jose Do Rio Preto, Brazil Museo Nacl Hist Nat, Montevideo, Uruguay Consejo Nacl Invest Cient & Tecn, Fdn Miguel Lillo, San Miguel De Tucuman, Argentina Roger Tory Peterson Inst Nat Hist, Jamestown, VA USA Univ Fed Reconcavo Bahia, Cruz Das Almas, Brazil South China Normal Univ, Guangzhou 510631, Guangdong, Peoples R China Museu Ciencias Tecnol PUCRS, Porto Alegre, RS, Brazil Univ Fed Tocantins, Porto Nacl, Brazil Univ Toronto, Scarborough, ON, Canada Univ Nacl Colombia, Inst Ciencias Nat, Bogota, Colombia Natl Museum Philippines, Manila, Philippines NOVA Univ Lisbon, Caparica, Portugal Royal Saskatchewan Museum, Regina, SK, Canada Deutsch Zentrum Marine Biodiversitatsforsch, Hamburg, Germany Ctr Invest Biol Noroeste, La Paz, Mexico Naturalis Biodivers Ctr, Leiden, Netherlands Univ Douala, Douala, Cameroon Vet & Farmaceut Univ Brno, Brno, Czech Republic Univ Swaziland, Kwaluseni, Eswatini Fundacao Oswaldo Cruz, Rio De Janeiro, Brazil Univ Claude Bernard, Lyon, France Museum Vertebrate Zool, Berkeley, CA USA Smithsonian Inst, Washington, DC 20560 USA Nat Hist Museum & Inst, Chiba, Japan Senckenberg Biodiversitat & Klima Forschunsgzentr, Frankfurt, Germany Marquette Univ, Milwaukee, WI 53233 USA Univ Firenze, Museo Storia Nat, Florence, Italy Univ Fed Bahia, Salvador, BA, Brazil Fed Univ ABC, Sao Bernardo, Brazil Univ Fed Goias, Goiania, Go, Brazil Univ Alaska Museum, Fairbanks, AK USA Egerton Univ, Egerton, Kenya Museo Hist Nat, Lima, Peru IKIAM Univ Reg Amazon, Tena, Ecuador Univ Hyogo, Sanda, Japan Inst Rech Dev, Paris, France Univ Sao Paulo, Piracicaba, Brazil Niedersachs Landesbetrieb Wasserwirtschaft Kusten, Hannover, Germany Univ Complutense Madrid, Madrid, Spain Consejo Nacl Invest Cient & Tecn, Ctr Nacl Patagon, Puerto Madryn, Argentina Roosevelt Univ, Coll Profess Studies, Chicago, IL 60605 USA Western Kentucky Univ, Bowling Green, KY 42101 USA Univ Naples Federico II, Naples, Italy Univ Fed Acre, Rio Branco, Acre, Brazil Univ Fed Santa Catarina, Florianopolis, SC, Brazil Inst Bio & Geociencias Noroeste Argentino, Salta, Argentina Inst Venezolano Invest Cient, Caracas, Venezuela Umweltbundesamt, Vienna, Austria Penclen, Plumelec, France CNRS MNHN UPMC, Ctr Rech Paleobiodivers & Paleoenvironm, Paris, France Staatl Museum Nat Kunde, Stuttgart, Germany Consejo Nacl Invest Cient & Tecn, Museo Argentino Ciencias Nat Bernardino Rivada, Buenos Aires, DF, Argentina Ctr Biol Gest Populat INRA, Montferrier Sur Lez, France Loyola Univ Chicago, Chicago, IL USA Pontificia Univ Catolica Rio do Sul, Porto Alegre, RS, Brazil Durban Museum Nat Sci, Durban, South Africa Univ Estado Amazonas, Manaus, Amazonas, Brazil Brigham Young Univ, Provo, UT 84602 USA Museo Hist Nat La Salle, Caracas, Venezuela Univ Vet Med Hannover, Hannover, Germany Australian Museum, Sydney, NSW, Australia Texas Tech Univ, Lubbock, TX 79409 USA Francis Marion Univ, Florence, SC USA Univ Washington, Seattle, WA 98195 USA Univ Connecticut, Groton, CT USA Fed Univ ABC, Santo Andre, SP, Brazil Univ Fed Uberlandia, Uberlandia, MG, Brazil Fed Univ Para, Belem, Para, Brazil Yale Peabody Museum, New Haven, CT USA Univ Texas Arlington, Arlington, TX 76019 USA Senckenberg Deutsch Entomol Inst, Muncheberg, Germany CSIRO, Natl Res Collect, Canberra, ACT, Australia Univ Venda, Thohoyandou, South Africa Univ Ulsan, Ulsan, South Korea Univ Estadual Sao Paulo, Botucatu, SP, Brazil Senckenberg Forsch Inst & Nat Museum, Frankfurt, Germany Ocean Univ China, Inst Marine Biodivers & Evolut, Qingdao, Shandong, Peoples R China Univ Fed Para, Altamira, Brazil Univ Estadual Paulista, Assis, Brazil UPMC, Ctr Rech Paleobiodiversite & Paleoenvironm, CNRS, MNHN, Paris, France Tech Univ Kaiserslautern, Kaiserslautern, Germany Charles Univ Prague, Dept Zool, Prague, Czech Republic Univ Nacl Expt los Llanos Occident Ezequiel Zamor, Guanare, Venezuela Long Isl Univ, Brooklyn, NY USA Univ Ryukyus, Okinawa, Japan Pontificia Univ Catolica Ecuador, Museo Zool, Escuela Ciencias Biol, Quito, Ecuador Indiana Univ Penn, Indiana, PA USA IRD, Dakar, Senegal State Museum Nat Hist Karlsruhe, Karlsruhe, Germany Univ Toulouse III Paul Sabatier, Toulouse, France Univ Ghent, Ghent, Belgium Univ Antwerp, Antwerp, Belgium Karlsruhe Inst Technol, Karlsruhe, Germany Ctr Cellular & Mol Biol, Hyderabad, India Univ Fed ABC, Santo Andre, Brazil Yale Peabody Museum Nat Hist, New Haven, CT USA Univ Innsbruck, Mondsee, Austria Bethune Cookman Univ, Daytona Beach, FL USA Natl Museum Nat & Sci, Tokyo, Japan Zool Garten Koln, Cologne, Germany Univ Estadual Paulista, Botucatu, SP, Brazil Univ Estadual Paulista, Sao Vicente, Brazil Univ Estadual Paulista, Rio Claro, Brazil Univ Estadual Paulista, Sao Jose Do Rio Preto, Brazil Univ Estadual Paulista, Assis, Brazil
- Published
- 2016
209. Evolution: Genomes reveal the reticulated history of giraffes.
- Author
-
Koepfli KP
- Subjects
- Animals, Gene Flow, Phylogeny, Genome, Giraffes genetics, Biological Evolution
- Abstract
The diversification and taxonomy of modern giraffe lineages have been a riddle for more than 200 years. A new genomic study shows that divergence with gene flow has played a significant role in the history of this zoological icon., Competing Interests: Declaration of interests The author declares no competing interests., (Copyright © 2024 Elsevier Inc. All rights reserved.)
- Published
- 2024
- Full Text
- View/download PDF
210. The complete mitochondrial genome of Meller's mongoose ( Rhynchogale melleri ).
- Author
-
Sosale MS, Roelke-Parker M, Machange GA, Edwards CW, Figueiró HV, and Koepfli KP
- Abstract
Meller's mongoose ( Rhynchogale melleri ) is a member of the family Herpestidae (Mammalia: Carnivora) and the sole species in the genus Rhynchogale . It is primarily found in savannas and open woodlands of eastern sub-Saharan Africa. Here, we report the first complete mitochondrial genome for a female Meller's mongoose collected in Tanzania, generated using a genome-skimming approach. The mitogenome had a final length of 16,644 bp and a total of 37 annotated genes. Phylogenetic analysis validated the placement of this species in the herpestid subfamily Herpestinae. Ultimately, the outcomes of this research offer a genetic foundation for future studies of Meller's mongoose., Competing Interests: We declare no potential conflict of interest., (© 2024 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.)
- Published
- 2024
- Full Text
- View/download PDF
211. Vocal learning-associated convergent evolution in mammalian proteins and regulatory elements.
- Author
-
Wirthlin ME, Schmid TA, Elie JE, Zhang X, Kowalczyk A, Redlich R, Shvareva VA, Rakuljic A, Ji MB, Bhat NS, Kaplow IM, Schäffer DE, Lawler AJ, Wang AZ, Phan BN, Annaldasula S, Brown AR, Lu T, Lim BK, Azim E, Clark NL, Meyer WK, Pond SLK, Chikina M, Yartsev MM, Pfenning AR, Andrews G, Armstrong JC, Bianchi M, Birren BW, Bredemeyer KR, Breit AM, Christmas MJ, Clawson H, Damas J, Di Palma F, Diekhans M, Dong MX, Eizirik E, Fan K, Fanter C, Foley NM, Forsberg-Nilsson K, Garcia CJ, Gatesy J, Gazal S, Genereux DP, Goodman L, Grimshaw J, Halsey MK, Harris AJ, Hickey G, Hiller M, Hindle AG, Hubley RM, Hughes GM, Johnson J, Juan D, Kaplow IM, Karlsson EK, Keough KC, Kirilenko B, Koepfli KP, Korstian JM, Kowalczyk A, Kozyrev SV, Lawler AJ, Lawless C, Lehmann T, Levesque DL, Lewin HA, Li X, Lind A, Lindblad-Toh K, Mackay-Smith A, Marinescu VD, Marques-Bonet T, Mason VC, Meadows JRS, Meyer WK, Moore JE, Moreira LR, Moreno-Santillan DD, Morrill KM, Muntané G, Murphy WJ, Navarro A, Nweeia M, Ortmann S, Osmanski A, Paten B, Paulat NS, Pfenning AR, Phan BN, Pollard KS, Pratt HE, Ray DA, Reilly SK, Rosen JR, Ruf I, Ryan L, Ryder OA, Sabeti PC, Schäffer DE, Serres A, Shapiro B, Smit AFA, Springer M, Srinivasan C, Steiner C, Storer JM, Sullivan KAM, Sullivan PF, Sundström E, Supple MA, Swofford R, Talbot JE, Teeling E, Turner-Maier J, Valenzuela A, Wagner F, Wallerman O, Wang C, Wang J, Weng Z, Wilder AP, Wirthlin ME, Xue JR, and Zhang X
- Subjects
- Animals, Chiroptera genetics, Chiroptera physiology, Chromatin metabolism, Larynx physiology, Epigenesis, Genetic, Genome, Amino Acid Sequence, Machine Learning, Vocalization, Animal physiology, Motor Cortex cytology, Motor Cortex physiology, Enhancer Elements, Genetic, Motor Neurons physiology, Gene Expression Regulation, Evolution, Molecular, Proteins genetics, Proteins metabolism, Eutheria genetics, Eutheria physiology
- Abstract
Vocal production learning ("vocal learning") is a convergently evolved trait in vertebrates. To identify brain genomic elements associated with mammalian vocal learning, we integrated genomic, anatomical, and neurophysiological data from the Egyptian fruit bat ( Rousettus aegyptiacus ) with analyses of the genomes of 215 placental mammals. First, we identified a set of proteins evolving more slowly in vocal learners. Then, we discovered a vocal motor cortical region in the Egyptian fruit bat, an emergent vocal learner, and leveraged that knowledge to identify active cis-regulatory elements in the motor cortex of vocal learners. Machine learning methods applied to motor cortex open chromatin revealed 50 enhancers robustly associated with vocal learning whose activity tended to be lower in vocal learners. Our research implicates convergent losses of motor cortex regulatory elements in mammalian vocal learning evolution.
- Published
- 2024
- Full Text
- View/download PDF
212. Semen proteome and transcriptome of the endangered black-footed ferret (Mustela nigripes) show association with the environment and fertility outcome.
- Author
-
Ali N, Amelkina O, Santymire RM, Koepfli KP, Comizzoli P, and Vazquez JM
- Subjects
- Humans, Animals, Proteome genetics, Transcriptome, Fertility genetics, Semen, Ferrets
- Abstract
The ex situ population of the endangered black-footed ferret (Mustela nigripes) has been experiencing declines in reproductive success over the past 30 years of human-managed care. A potential cause may be environmental-dependent inbreeding depression with diet being one of the contributing factors since ferrets are not fed their natural diet of prairie dogs. Here, we generated and analyzed semen proteome and transcriptome data from both wild and ex situ ferrets maintained on various diets. We identified 1757 proteins across all samples, with 149 proteins unique to the semen of wild ferrets and forming a ribosomal predicted protein-protein interaction cluster. Wild ferrets also differed from ex situ ferrets in their transcriptomic profile, showing enrichment in ribosomal RNA processing and potassium ion transport. Successful fertility outcomes documented for ex situ ferrets showed the strongest association with the semen transcriptome, with enrichment in genes involved in translation initiation and focal adhesion. Fertility also synergized with the effect of diet on differentially expressed transcriptomes, mainly affecting genes enriched in mitochondrial function. Our data and functional networks are important for understanding the causes and mechanisms of declining fertility in the ex situ ferret population and can be used as a resource for future conservation efforts., (© 2024. The Author(s).)
- Published
- 2024
- Full Text
- View/download PDF
213. Comparative genomics and genome-wide SNPs of endangered Eld's deer provide breeder selection for inbreeding avoidance.
- Author
-
Pumpitakkul V, Chetruengchai W, Srichomthong C, Phokaew C, Pootakham W, Sonthirod C, Nawae W, Tongsima S, Wangkumhang P, Wilantho A, Utara Y, Thongpakdee A, Sanannu S, Maikaew U, Khuntawee S, Changpetch W, Phromwat P, Raschasin K, Sarnkhaeveerakul P, Supapannachart P, Buthasane W, Pukazhenthi BS, Koepfli KP, Suriyaphol P, Tangphatsornruang S, Suriyaphol G, and Shotelersuk V
- Subjects
- Humans, Animals, Male, Female, Inbreeding, Endangered Species, Genomics, Polymorphism, Single Nucleotide, Deer genetics
- Abstract
Eld's deer, a conserved wildlife species of Thailand, is facing inbreeding depression, particularly in the captive Siamese Eld's deer (SED) subspecies. In this study, we constructed genomes of a male SED and a male Burmese Eld's deer (BED), and used genome-wide single nucleotide polymorphisms to evaluate the genetic purity and the inbreeding status of 35 SED and 49 BED with limited pedigree information. The results show that these subspecies diverged approximately 1.26 million years ago. All SED were found to be purebred. A low proportion of admixed SED genetic material was observed in some BED individuals. Six potential breeders from male SED with no genetic relation to any female SED and three purebred male BED with no relation to more than 10 purebred female BED were identified. This study provides valuable insights about Eld's deer populations and appropriate breeder selection in efforts to repopulate this endangered species while avoiding inbreeding., (© 2023. The Author(s).)
- Published
- 2023
- Full Text
- View/download PDF
214. Genomics Reveals Complex Population History and Unexpected Diversity of Eurasian Otters (Lutra lutra) in Britain Relative to Genetic Methods.
- Author
-
du Plessis SJ, Blaxter M, Koepfli KP, Chadwick EA, and Hailer F
- Subjects
- Animals, United Kingdom, DNA, Mitochondrial genetics, Endangered Species, Genomics, Otters genetics
- Abstract
Conservation genetic analyses of many endangered species have been based on genotyping of microsatellite loci and sequencing of short fragments of mtDNA. The increase in power and resolution afforded by whole genome approaches may challenge conclusions made on limited numbers of loci and maternally inherited haploid markers. Here, we provide a matched comparison of whole genome sequencing versus microsatellite and control region (CR) genotyping for Eurasian otters (Lutra lutra). Previous work identified four genetically differentiated "stronghold" populations of otter in Britain, derived from regional populations that survived the population crash of the 1950s-1980s. Using whole genome resequencing data from 45 samples from across the British stronghold populations, we confirmed some aspects of population structure derived from previous marker-driven studies. Importantly, we showed that genomic signals of the population crash bottlenecks matched evidence from otter population surveys. Unexpectedly, two strongly divergent mitochondrial lineages were identified that were undetectable using CR fragments, and otters in the east of England were genetically distinct and surprisingly variable. We hypothesize that this previously unsuspected variability may derive from past releases of Eurasian otters from other, non-British source populations in England around the time of the population bottleneck. Our work highlights that even reasonably well-studied species may harbor genetic surprises, if studied using modern high-throughput sequencing methods., (© The Author(s) 2023. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution.)
- Published
- 2023
- Full Text
- View/download PDF
215. Chromosome-length genome assembly and karyotype of the endangered black-footed ferret (Mustela nigripes).
- Author
-
Kliver S, Houck ML, Perelman PL, Totikov A, Tomarovsky A, Dudchenko O, Omer AD, Colaric Z, Weisz D, Aiden EL, Chan S, Hastie A, Komissarov A, Ryder OA, Graphodatsky A, Johnson WE, Maldonado JE, Pukazhenthi BS, Marinari PE, Wildt DE, and Koepfli KP
- Subjects
- Animals, Male, Karyotype, Karyotyping, Fertility, Ferrets genetics, Endangered Species
- Abstract
The black-footed ferret (Mustela nigripes) narrowly avoided extinction to become an oft-cited example of the benefits of intensive management, research, and collaboration to save a species through ex situ conservation breeding and reintroduction into its former range. However, the species remains at risk due to possible inbreeding, disease susceptibility, and multiple fertility challenges. Here, we report the de novo genome assembly of a male black-footed ferret generated through a combination of linked-read sequencing, optical mapping, and Hi-C proximity ligation. In addition, we report the karyotype for this species, which was used to anchor and assign chromosome numbers to the chromosome-length scaffolds. The draft assembly was ~2.5 Gb in length, with 95.6% of it anchored to 19 chromosome-length scaffolds, corresponding to the 2n = 38 chromosomes revealed by the karyotype. The assembly has contig and scaffold N50 values of 148.8 kbp and 145.4 Mbp, respectively, and is up to 96% complete based on BUSCO analyses. Annotation of the assembly, including evidence from RNA-seq data, identified 21,406 protein-coding genes and a repeat content of 37.35%. Phylogenomic analyses indicated that the black-footed ferret diverged from the European polecat/domestic ferret lineage 1.6 million yr ago. This assembly will enable research on the conservation genomics of black-footed ferrets and thereby aid in the further restoration of this endangered species., (© The Author(s) 2023. Published by Oxford University Press on behalf of The American Genetic Association. All rights reserved. For permissions, please e-mail: journals.permissions@oup.com.)
- Published
- 2023
- Full Text
- View/download PDF
216. Evolutionary constraint and innovation across hundreds of placental mammals.
- Author
-
Christmas MJ, Kaplow IM, Genereux DP, Dong MX, Hughes GM, Li X, Sullivan PF, Hindle AG, Andrews G, Armstrong JC, Bianchi M, Breit AM, Diekhans M, Fanter C, Foley NM, Goodman DB, Goodman L, Keough KC, Kirilenko B, Kowalczyk A, Lawless C, Lind AL, Meadows JRS, Moreira LR, Redlich RW, Ryan L, Swofford R, Valenzuela A, Wagner F, Wallerman O, Brown AR, Damas J, Fan K, Gatesy J, Grimshaw J, Johnson J, Kozyrev SV, Lawler AJ, Marinescu VD, Morrill KM, Osmanski A, Paulat NS, Phan BN, Reilly SK, Schäffer DE, Steiner C, Supple MA, Wilder AP, Wirthlin ME, Xue JR, Birren BW, Gazal S, Hubley RM, Koepfli KP, Marques-Bonet T, Meyer WK, Nweeia M, Sabeti PC, Shapiro B, Smit AFA, Springer MS, Teeling EC, Weng Z, Hiller M, Levesque DL, Lewin HA, Murphy WJ, Navarro A, Paten B, Pollard KS, Ray DA, Ruf I, Ryder OA, Pfenning AR, Lindblad-Toh K, and Karlsson EK
- Subjects
- Animals, Female, Humans, Conserved Sequence genetics, Genome, Human, Eutheria genetics, Evolution, Molecular
- Abstract
Zoonomia is the largest comparative genomics resource for mammals produced to date. By aligning genomes for 240 species, we identify bases that, when mutated, are likely to affect fitness and alter disease risk. At least 332 million bases (~10.7%) in the human genome are unusually conserved across species (evolutionarily constrained) relative to neutrally evolving repeats, and 4552 ultraconserved elements are nearly perfectly conserved. Of 101 million significantly constrained single bases, 80% are outside protein-coding exons and half have no functional annotations in the Encyclopedia of DNA Elements (ENCODE) resource. Changes in genes and regulatory elements are associated with exceptional mammalian traits, such as hibernation, that could inform therapeutic development. Earth's vast and imperiled biodiversity offers distinctive power for identifying genetic variants that affect genome function and organismal phenotypes.
- Published
- 2023
- Full Text
- View/download PDF
217. Chromosome-length genome assemblies and cytogenomic analyses of pangolins reveal remarkable chromosome counts and plasticity.
- Author
-
Houck ML, Koepfli KP, Hains T, Khan R, Charter SJ, Fronczek JA, Misuraca AC, Kliver S, Perelman PL, Beklemisheva V, Graphodatsky A, Luo SJ, O'Brien SJ, Lim NT, Chin JSC, Guerra V, Tamazian G, Omer A, Weisz D, Kaemmerer K, Sturgeon G, Gaspard J, Hahn A, McDonough M, Garcia-Treviño I, Gentry J, Coke RL, Janecka JE, Harrigan RJ, Tinsman J, Smith TB, Aiden EL, and Dudchenko O
- Subjects
- Animals, Male, Female, Genome, Chromosomes genetics, Pangolins genetics, Mammals genetics
- Abstract
We report the first chromosome-length genome assemblies for three species in the mammalian order Pholidota: the white-bellied, Chinese, and Sunda pangolins. Surprisingly, we observe extraordinary karyotypic plasticity within this order and, in female white-bellied pangolins, the largest number of chromosomes reported in a Laurasiatherian mammal: 2n = 114. We perform the first karyotype analysis of an African pangolin and report a Y-autosome fusion in white-bellied pangolins, resulting in 2n = 113 for males. We employ a novel strategy to confirm the fusion and identify the autosome involved by finding the pseudoautosomal region (PAR) in the female genome assembly and analyzing the 3D contact frequency between PAR sequences and the rest of the genome in male and female white-bellied pangolins. Analyses of genetic variability show that white-bellied pangolins have intermediate levels of genome-wide heterozygosity relative to Chinese and Sunda pangolins, consistent with two moderate declines of historical effective population size. Our results reveal a remarkable feature of pangolin genome biology and highlight the need for further studies of these unique and endangered mammals., (© 2023. The Author(s), under exclusive licence to Springer Nature B.V.)
- Published
- 2023
- Full Text
- View/download PDF
218. Chromosome-Length Assembly of the Baikal Seal ( Pusa sibirica ) Genome Reveals a Historically Large Population Prior to Isolation in Lake Baikal.
- Author
-
Yakupova A, Tomarovsky A, Totikov A, Beklemisheva V, Logacheva M, Perelman PL, Komissarov A, Dobrynin P, Krasheninnikova K, Tamazian G, Serdyukova NA, Rayko M, Bulyonkova T, Cherkasov N, Pylev V, Peterfeld V, Penin A, Balanovska E, Lapidus A, Dna Zoo Consortium, OBrien SJ, Graphodatsky A, Koepfli KP, and Kliver S
- Subjects
- Animals, Karyotype, Lakes, Seals, Earless genetics
- Abstract
Pusa sibirica , the Baikal seal, is the only extant, exclusively freshwater, pinniped species. The pending issue is, how and when they reached their current habitat-the rift lake Baikal, more than three thousand kilometers away from the Arctic Ocean. To explore the demographic history and genetic diversity of this species, we generated a de novo chromosome-length assembly, and compared it with three closely related marine pinniped species. Multiple whole genome alignment of the four species compared with their karyotypes showed high conservation of chromosomal features, except for three large inversions on chromosome VI. We found the mean heterozygosity of the studied Baikal seal individuals was relatively low (0.61 SNPs/kbp), but comparable to other analyzed pinniped samples. Demographic reconstruction of seals revealed differing trajectories, yet remarkable variations in Ne occurred during approximately the same time periods. The Baikal seal showed a significantly more severe decline relative to other species. This could be due to the difference in environmental conditions encountered by the earlier populations of Baikal seals, as ice sheets changed during glacial-interglacial cycles. We connect this period to the time of migration to Lake Baikal, which occurred ~3-0.3 Mya, after which the population stabilized, indicating balanced habitat conditions.
- Published
- 2023
- Full Text
- View/download PDF
219. Whole genome analysis of clouded leopard species reveals an ancient divergence and distinct demographic histories.
- Author
-
Bursell MG, Dikow RB, Figueiró HV, Dudchenko O, Flanagan JP, Aiden EL, Goossens B, Nathan SKSS, Johnson WE, Koepfli KP, and Frandsen PB
- Abstract
Similar to other apex predator species, populations of mainland ( Neofelis nebulosa ) and Sunda ( Neofelis diardi ) clouded leopards are declining. Understanding their patterns of genetic variation can provide critical insights on past genetic erosion and a baseline for understanding their long-term conservation needs. As a step toward this goal, we present draft genome assemblies for the two clouded leopard species to quantify their phylogenetic divergence, genome-wide diversity, and historical population trends. We estimate that the two species diverged 5.1 Mya, much earlier than previous estimates of 1.41 Mya and 2.86 Mya, suggesting they separated when Sundaland was becoming increasingly isolated from mainland Southeast Asia. The Sunda clouded leopard displays a distinct and reduced effective population size trajectory, consistent with a lower genome-wide heterozygosity and SNP density, relative to the mainland clouded leopard. Our results provide new insights into the evolutionary history and genetic health of this unique lineage of felids., Competing Interests: The authors declare no competing interests., (© 2022 The Author(s).)
- Published
- 2022
- Full Text
- View/download PDF
220. Blue Turns to Gray: Paleogenomic Insights into the Evolutionary History and Extinction of the Blue Antelope (Hippotragus leucophaeus).
- Author
-
Hempel E, Bibi F, Faith JT, Koepfli KP, Klittich AM, Duchêne DA, Brink JS, Kalthoff DC, Dalén L, Hofreiter M, and Westbury MV
- Subjects
- Animals, Humans, Biological Evolution, Phylogeny, Genome, Antelopes genetics, Mustelidae genetics
- Abstract
The blue antelope (Hippotragus leucophaeus) is the only large African mammal species to have become extinct in historical times, yet no nuclear genomic information is available for this species. A recent study showed that many alleged blue antelope museum specimens are either roan (Hippotragus equinus) or sable (Hippotragus niger) antelopes, further reducing the possibilities for obtaining genomic information for this extinct species. While the blue antelope has a rich fossil record from South Africa, climatic conditions in the region are generally unfavorable to the preservation of ancient DNA. Nevertheless, we recovered two blue antelope draft genomes, one at 3.4× mean coverage from a historical specimen (∼200 years old) and one at 2.1× mean coverage from a fossil specimen dating to 9,800-9,300 cal years BP, making it currently the oldest paleogenome from Africa. Phylogenomic analyses show that blue and sable antelope are sister species, confirming previous mitogenomic results, and demonstrate ancient gene flow from roan into blue antelope. We show that blue antelope genomic diversity was much lower than in roan and sable antelope, indicative of a low population size since at least the early Holocene. This supports observations from the fossil record documenting major decreases in the abundance of blue antelope after the Pleistocene-Holocene transition. Finally, the persistence of this species throughout the Holocene despite low population size suggests that colonial-era human impact was likely the decisive factor in the blue antelope's extinction., (© The Author(s) 2022. Published by Oxford University Press on behalf of Society for Molecular Biology and Evolution.)
- Published
- 2022
- Full Text
- View/download PDF
221. First complete mitochondrial genome of the Saharan striped polecat ( Ictonyx libycus ).
- Author
-
Gray A, Brito JC, Edwards CW, Figueiró HV, and Koepfli KP
- Abstract
The Saharan striped polecat ( Ictonyx libycus) is endemic to Africa, inhabiting the edges of the Saharan Desert. Little is known about the biology or genetic status of this member of the weasel family (Mustelidae). We present the first complete mitochondrial genome of the Saharan striped polecat, assembled from data generated using a genome skimming approach. The assembled mitogenome is 16,549 bps in length and consists of 37 genes including 13 protein-coding genes, 2 rRNAs, 22 tRNAs, an origin of replication, and a control region. Phylogenetic analysis confirmed the placement of the Saharan striped polecat within the subfamily Ictonychinae., Competing Interests: No potential conflict of interest was reported by the author(s)., (© 2022 The Author(s). Published by Informa UK Limited, trading as Taylor & Francis Group.)
- Published
- 2022
- Full Text
- View/download PDF
222. Darwinian genomics and diversity in the tree of life.
- Author
-
Stephan T, Burgess SM, Cheng H, Danko CG, Gill CA, Jarvis ED, Koepfli KP, Koltes JE, Lyons E, Ronald P, Ryder OA, Schriml LM, Soltis P, VandeWoude S, Zhou H, Ostrander EA, and Karlsson EK
- Subjects
- Animals, Evolution, Molecular, Genetic Variation genetics, Genome genetics, Genomics trends, Humans, Phylogeny, Biodiversity, Biological Evolution, Genomics methods
- Abstract
Genomics encompasses the entire tree of life, both extinct and extant, and the evolutionary processes that shape this diversity. To date, genomic research has focused on humans, a small number of agricultural species, and established laboratory models. Fewer than 18,000 of ∼2,000,000 eukaryotic species (<1%) have a representative genome sequence in GenBank, and only a fraction of these have ancillary information on genome structure, genetic variation, gene expression, epigenetic modifications, and population diversity. This imbalance reflects a perception that human studies are paramount in disease research. Yet understanding how genomes work, and how genetic variation shapes phenotypes, requires a broad view that embraces the vast diversity of life. We have the technology to collect massive and exquisitely detailed datasets about the world, but expertise is siloed into distinct fields. A new approach, integrating comparative genomics with cell and evolutionary biology, ecology, archaeology, anthropology, and conservation biology, is essential for understanding and protecting ourselves and our world. Here, we describe potential for scientific discovery when comparative genomics works in close collaboration with a broad range of fields as well as the technical, scientific, and social constraints that must be addressed., Competing Interests: The authors declare no competing interest., (Copyright © 2022 the Author(s). Published by PNAS.)
- Published
- 2022
- Full Text
- View/download PDF
223. Towards complete and error-free genome assemblies of all vertebrate species.
- Author
-
Rhie A, McCarthy SA, Fedrigo O, Damas J, Formenti G, Koren S, Uliano-Silva M, Chow W, Fungtammasan A, Kim J, Lee C, Ko BJ, Chaisson M, Gedman GL, Cantin LJ, Thibaud-Nissen F, Haggerty L, Bista I, Smith M, Haase B, Mountcastle J, Winkler S, Paez S, Howard J, Vernes SC, Lama TM, Grutzner F, Warren WC, Balakrishnan CN, Burt D, George JM, Biegler MT, Iorns D, Digby A, Eason D, Robertson B, Edwards T, Wilkinson M, Turner G, Meyer A, Kautt AF, Franchini P, Detrich HW 3rd, Svardal H, Wagner M, Naylor GJP, Pippel M, Malinsky M, Mooney M, Simbirsky M, Hannigan BT, Pesout T, Houck M, Misuraca A, Kingan SB, Hall R, Kronenberg Z, Sović I, Dunn C, Ning Z, Hastie A, Lee J, Selvaraj S, Green RE, Putnam NH, Gut I, Ghurye J, Garrison E, Sims Y, Collins J, Pelan S, Torrance J, Tracey A, Wood J, Dagnew RE, Guan D, London SE, Clayton DF, Mello CV, Friedrich SR, Lovell PV, Osipova E, Al-Ajli FO, Secomandi S, Kim H, Theofanopoulou C, Hiller M, Zhou Y, Harris RS, Makova KD, Medvedev P, Hoffman J, Masterson P, Clark K, Martin F, Howe K, Flicek P, Walenz BP, Kwak W, Clawson H, Diekhans M, Nassar L, Paten B, Kraus RHS, Crawford AJ, Gilbert MTP, Zhang G, Venkatesh B, Murphy RW, Koepfli KP, Shapiro B, Johnson WE, Di Palma F, Marques-Bonet T, Teeling EC, Warnow T, Graves JM, Ryder OA, Haussler D, O'Brien SJ, Korlach J, Lewin HA, Howe K, Myers EW, Durbin R, Phillippy AM, and Jarvis ED
- Subjects
- Animals, Birds, Gene Library, Genome Size, Genome, Mitochondrial, Haplotypes, High-Throughput Nucleotide Sequencing, Molecular Sequence Annotation, Sequence Alignment, Sequence Analysis, DNA, Sex Chromosomes genetics, Genome, Genomics methods, Vertebrates genetics
- Abstract
High-quality and complete reference genome assemblies are fundamental for the application of genomics to biology, disease, and biodiversity conservation. However, such assemblies are available for only a few non-microbial species
1-4 . To address this issue, the international Genome 10K (G10K) consortium5,6 has worked over a five-year period to evaluate and develop cost-effective methods for assembling highly accurate and nearly complete reference genomes. Here we present lessons learned from generating assemblies for 16 species that represent six major vertebrate lineages. We confirm that long-read sequencing technologies are essential for maximizing genome quality, and that unresolved complex repeats and haplotype heterozygosity are major sources of assembly error when not handled correctly. Our assemblies correct substantial errors, add missing sequence in some of the best historical reference genomes, and reveal biological discoveries. These include the identification of many false gene duplications, increases in gene sizes, chromosome rearrangements that are specific to lineages, a repeated independent chromosome breakpoint in bat genomes, and a canonical GC-rich pattern in protein-coding genes and their regulatory regions. Adopting these lessons, we have embarked on the Vertebrate Genomes Project (VGP), an international effort to generate high-quality, complete reference genomes for all of the roughly 70,000 extant vertebrate species and to help to enable a new era of discovery across the life sciences.- Published
- 2021
- Full Text
- View/download PDF
224. A draft genome assembly of spotted hyena, Crocuta crocuta.
- Author
-
Yang C, Li F, Xiong Z, Koepfli KP, Ryder O, Perelman P, Li Q, and Zhang G
- Subjects
- Animals, Female, Male, Genome, Hyaenidae genetics
- Abstract
The spotted hyena (Crocuta crocuta), one of the largest terrestrial predators native to sub-Saharan Africa, is well known for its matriarchal social system and large-sized social group in which larger females dominate smaller males. Spotted hyenas are highly adaptable predators as they both actively hunt prey and scavenge kills by other predators, and possess an enhanced hypercarnivorous dentition that allows them to crack open bones and thereby feed on nearly all parts of a carcass. Here, we present a high-quality genome assembly of C. crocuta that was generated using a hybrid assembly strategy with Illumina multi-size libraries. A genome of about 2.3 Gb was generated with a scaffold N50 length of 7.2 Mb. More than 35.28% genome region was identified as repetitive elements, and 22,747 protein-coding genes were identified in the genome, with 97.45% of these annotated by databases. This high-quality genome will provide an opportunity to gain insight into the evolution of social behavior and social cognition in mammals, as well as for population genetics and metagenomics studies.
- Published
- 2020
- Full Text
- View/download PDF
225. Broad Host Range of SARS-CoV-2 Predicted by Comparative and Structural Analysis of ACE2 in Vertebrates.
- Author
-
Damas J, Hughes GM, Keough KC, Painter CA, Persky NS, Corbo M, Hiller M, Koepfli KP, Pfenning AR, Zhao H, Genereux DP, Swofford R, Pollard KS, Ryder OA, Nweeia MT, Lindblad-Toh K, Teeling EC, Karlsson EK, and Lewin HA
- Abstract
The novel coronavirus SARS-CoV-2 is the cause of Coronavirus Disease-2019 (COVID-19). The main receptor of SARS-CoV-2, angiotensin I converting enzyme 2 (ACE2), is now undergoing extensive scrutiny to understand the routes of transmission and sensitivity in different species. Here, we utilized a unique dataset of 410 vertebrates, including 252 mammals, to study cross-species conservation of ACE2 and its likelihood to function as a SARS-CoV-2 receptor. We designed a five-category ranking score based on the conservation properties of 25 amino acids important for the binding between receptor and virus, classifying all species from very high to very low . Only mammals fell into the medium to very high categories, and only catarrhine primates in the very high category, suggesting that they are at high risk for SARS-CoV-2 infection. We employed a protein structural analysis to qualitatively assess whether amino acid changes at variable residues would be likely to disrupt ACE2/SARS-CoV-2 binding, and found the number of predicted unfavorable changes significantly correlated with the binding score. Extending this analysis to human population data, we found only rare (<0.1%) variants in 10/25 binding sites. In addition, we observed evidence of positive selection in ACE2 in multiple species, including bats. Utilized appropriately, our results may lead to the identification of intermediate host species for SARS-CoV-2, justify the selection of animal models of COVID-19, and assist the conservation of animals both in native habitats and in human care.
- Published
- 2020
- Full Text
- View/download PDF
226. Comparative genomics provides new insights into the remarkable adaptations of the African wild dog (Lycaon pictus).
- Author
-
Chavez DE, Gronau I, Hains T, Kliver S, Koepfli KP, and Wayne RK
- Subjects
- Animals, Animals, Wild genetics, Body Patterning, Computational Biology, DNA analysis, Diet, Female, Genotype, Hedgehog Proteins genetics, Molar, Monte Carlo Method, Pigmentation, Predatory Behavior, Adaptation, Physiological, Biological Evolution, Canidae genetics, Genomics
- Abstract
Within the Canidae, the African wild dog (Lycaon pictus) is the most specialized with regards to cursorial adaptations (specialized for running), having only four digits on their forefeet. In addition, this species is one of the few canids considered to be an obligate meat-eater, possessing a robust dentition for taking down large prey, and displays one of the most variable coat colorations amongst mammals. Here, we used comparative genomic analysis to investigate the evolutionary history and genetic basis for adaptations associated with cursoriality, hypercanivory, and coat color variation in African wild dogs. Genome-wide scans revealed unique amino acid deletions that suggest a mode of evolutionary digit loss through expanded apoptosis in the developing first digit. African wild dog-specific signals of positive selection also uncovered a putative mechanism of molar cusp modification through changes in genes associated with the sonic hedgehog (SHH) signaling pathway, required for spatial patterning of teeth, and three genes associated with pigmentation. Divergence time analyses suggest the suite of genomic changes we identified evolved ~1.7 Mya, coinciding with the diversification of large-bodied ungulates. Our results show that comparative genomics is a powerful tool for identifying the genetic basis of evolutionary changes in Canidae.
- Published
- 2019
- Full Text
- View/download PDF
227. Red fox genome assembly identifies genomic regions associated with tame and aggressive behaviours.
- Author
-
Kukekova AV, Johnson JL, Xiang X, Feng S, Liu S, Rando HM, Kharlamova AV, Herbeck Y, Serdyukova NA, Xiong Z, Beklemischeva V, Koepfli KP, Gulevich RG, Vladimirova AV, Hekman JP, Perelman PL, Graphodatsky AS, O'Brien SJ, Wang X, Clark AG, Acland GM, Trut LN, and Zhang G
- Subjects
- Animals, Female, Male, Aggression, Behavior, Animal, Foxes physiology, Genome
- Abstract
Strains of red fox (Vulpes vulpes) with markedly different behavioural phenotypes have been developed in the famous long-term selective breeding programme known as the Russian farm-fox experiment. Here we sequenced and assembled the red fox genome and re-sequenced a subset of foxes from the tame, aggressive and conventional farm-bred populations to identify genomic regions associated with the response to selection for behaviour. Analysis of the re-sequenced genomes identified 103 regions with either significantly decreased heterozygosity in one of the three populations or increased divergence between the populations. A strong positional candidate gene for tame behaviour was highlighted: SorCS1, which encodes the main trafficking protein for AMPA glutamate receptors and neurexins and suggests a role for synaptic plasticity in fox domestication. Other regions identified as likely to have been under selection in foxes include genes implicated in human neurological disorders, mouse behaviour and dog domestication. The fox represents a powerful model for the genetic analysis of affiliative and aggressive behaviours that can benefit genetic studies of behaviour in dogs and other mammals, including humans.
- Published
- 2018
- Full Text
- View/download PDF
228. Genome-wide Evidence Reveals that African and Eurasian Golden Jackals Are Distinct Species.
- Author
-
Koepfli KP, Pollinger J, Godinho R, Robinson J, Lea A, Hendricks S, Schweizer RM, Thalmann O, Silva P, Fan Z, Yurchenko AA, Dobrynin P, Makunin A, Cahill JA, Shapiro B, Álvares F, Brito JC, Geffen E, Leonard JA, Helgen KM, Johnson WE, O'Brien SJ, Van Valkenburgh B, and Wayne RK
- Subjects
- Africa, Animals, Female, Jackals classification, Male, Molecular Sequence Data, Phylogeny, Sequence Analysis, DNA, Wolves classification, Biological Evolution, Genome, Jackals genetics, Wolves genetics
- Abstract
The golden jackal of Africa (Canis aureus) has long been considered a conspecific of jackals distributed throughout Eurasia, with the nearest source populations in the Middle East. However, two recent reports found that mitochondrial haplotypes of some African golden jackals aligned more closely to gray wolves (Canis lupus), which is surprising given the absence of gray wolves in Africa and the phenotypic divergence between the two species. Moreover, these results imply the existence of a previously unrecognized phylogenetically distinct species despite a long history of taxonomic work on African canids. To test the distinct-species hypothesis and understand the evolutionary history that would account for this puzzling result, we analyzed extensive genomic data including mitochondrial genome sequences, sequences from 20 autosomal loci (17 introns and 3 exon segments), microsatellite loci, X- and Y-linked zinc-finger protein gene (ZFX and ZFY) sequences, and whole-genome nuclear sequences in African and Eurasian golden jackals and gray wolves. Our results provide consistent and robust evidence that populations of golden jackals from Africa and Eurasia represent distinct monophyletic lineages separated for more than one million years, sufficient to merit formal recognition as different species: C. anthus (African golden wolf) and C. aureus (Eurasian golden jackal). Using morphologic data, we demonstrate a striking morphologic similarity between East African and Eurasian golden jackals, suggesting parallelism, which may have misled taxonomists and likely reflects uniquely intense interspecific competition in the East African carnivore guild. Our study shows how ecology can confound taxonomy if interspecific competition constrains size diversification., (Copyright © 2015 Elsevier Ltd. All rights reserved.)
- Published
- 2015
- Full Text
- View/download PDF
229. The Genome 10K Project: a way forward.
- Author
-
Koepfli KP, Paten B, and O'Brien SJ
- Subjects
- Animals, Computational Biology, Forecasting, Genomics methods, Genomics trends, Humans, Species Specificity, Genome, Vertebrates genetics
- Abstract
The Genome 10K Project was established in 2009 by a consortium of biologists and genome scientists determined to facilitate the sequencing and analysis of the complete genomes of 10,000 vertebrate species. Since then the number of selected and initiated species has risen from ∼26 to 277 sequenced or ongoing with funding, an approximately tenfold increase in five years. Here we summarize the advances and commitments that have occurred by mid-2014 and outline the achievements and present challenges of reaching the 10,000-species goal. We summarize the status of known vertebrate genome projects, recommend standards for pronouncing a genome as sequenced or completed, and provide our present and future vision of the landscape of Genome 10K. The endeavor is ambitious, bold, expensive, and uncertain, but together the Genome 10K Consortium of Scientists and the worldwide genomics community are moving toward their goal of delivering to the coming generation the gift of genome empowerment for many vertebrate species.
- Published
- 2015
- Full Text
- View/download PDF
230. Whole-genome analyses resolve early branches in the tree of life of modern birds.
- Author
-
Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SY, Faircloth BC, Nabholz B, Howard JT, Suh A, Weber CC, da Fonseca RR, Li J, Zhang F, Li H, Zhou L, Narula N, Liu L, Ganapathy G, Boussau B, Bayzid MS, Zavidovych V, Subramanian S, Gabaldón T, Capella-Gutiérrez S, Huerta-Cepas J, Rekepalli B, Munch K, Schierup M, Lindow B, Warren WC, Ray D, Green RE, Bruford MW, Zhan X, Dixon A, Li S, Li N, Huang Y, Derryberry EP, Bertelsen MF, Sheldon FH, Brumfield RT, Mello CV, Lovell PV, Wirthlin M, Schneider MP, Prosdocimi F, Samaniego JA, Vargas Velazquez AM, Alfaro-Núñez A, Campos PF, Petersen B, Sicheritz-Ponten T, Pas A, Bailey T, Scofield P, Bunce M, Lambert DM, Zhou Q, Perelman P, Driskell AC, Shapiro B, Xiong Z, Zeng Y, Liu S, Li Z, Liu B, Wu K, Xiao J, Yinqi X, Zheng Q, Zhang Y, Yang H, Wang J, Smeds L, Rheindt FE, Braun M, Fjeldsa J, Orlando L, Barker FK, Jønsson KA, Johnson W, Koepfli KP, O'Brien S, Haussler D, Ryder OA, Rahbek C, Willerslev E, Graves GR, Glenn TC, McCormack J, Burt D, Ellegren H, Alström P, Edwards SV, Stamatakis A, Mindell DP, Cracraft J, Braun EL, Warnow T, Jun W, Gilbert MT, and Zhang G
- Subjects
- Animals, Avian Proteins genetics, Base Sequence, Biological Evolution, Birds classification, DNA Transposable Elements, Genes, Genetic Speciation, INDEL Mutation, Introns, Sequence Analysis, DNA, Birds genetics, Genome, Phylogeny
- Abstract
To better determine the history of modern birds, we performed a genome-scale phylogenetic analysis of 48 species representing all orders of Neoaves using phylogenomic methods created to handle genome-scale data. We recovered a highly resolved tree that confirms previously controversial sister or close relationships. We identified the first divergence in Neoaves, two groups we named Passerea and Columbea, representing independent lineages of diverse and convergently evolved land and water bird species. Among Passerea, we infer the common ancestor of core landbirds to have been an apex predator and confirm independent gains of vocal learning. Among Columbea, we identify pigeons and flamingoes as belonging to sister clades. Even with whole genomes, some of the earliest branches in Neoaves proved challenging to resolve, which was best explained by massive protein-coding sequence convergence and high levels of incomplete lineage sorting that occurred during a rapid radiation after the Cretaceous-Paleogene mass extinction event about 66 million years ago., (Copyright © 2014, American Association for the Advancement of Science.)
- Published
- 2014
- Full Text
- View/download PDF
231. Type I STS markers are more informative than cytochrome B in phylogenetic reconstruction of the Mustelidae (Mammalia: Carnivora).
- Author
-
Koepfli KP and Wayne RK
- Subjects
- Animals, Base Sequence, Bayes Theorem, DNA Primers, Likelihood Functions, Molecular Sequence Data, Sequence Analysis, DNA, Species Specificity, Carnivora genetics, Cytochromes b genetics, Phylogeny, Sequence Tagged Sites
- Abstract
We compared the utility of five nuclear gene segments amplified with type I sequence-tagged site (STS) primers versus the complete mitochondrial cytochrome b (cyt b) gene in resolving phylogenetic relationships within the Mustelidae, a large and ecomorphologically diverse family of mammalian carnivores. Maximum parsimony and likelihood analyses of separate and combined data sets were used to address questions regarding the levels of homoplasy, incongruence, and information content within and among loci. All loci showed limited resolution in the separate analyses because of either a low amount of informative variation (nuclear genes) or high levels of homoplasy (cyt b). Individually or combined, the nuclear gene sequences had less homoplasy, retained more signal, and were more decisive, even though cyt b contained more potentially informative variation than all the nuclear sequences combined. We obtained a well-resolved and supported phylogeny when the nuclear sequences were combined. Maximum likelihood and Bayesian phylogenetic analyses of the total combined data (nuclear and mitochondrial DNA sequences) were able to better accommodate the high levels of homoplasy in the cyt b data than was an equally weighted maximum parsimony analysis. Furthermore, partition Bremer support analyses of the total combined tree showed that the relative support of the nuclear and mitochondrial genes differed according to whether or not the homoplasy in the cyt b gene was downweighted. Although the cyt b gene contributed phylogenetic signal for most major groupings, the nuclear gene sequences were more effective in reconstructing the deeper nodes of the combined tree in the equally weighted parsimony analysis, as judged by the variable-length bootstrap method. The total combined data supported the monophyly of the Lutrinae (otters), whereas the Melinae (badgers) and Mustelinae (weasels, martens) were both paraphyletic. The American badger, Taxidea taxus (Taxidiinae), was the most basal taxon. Because hundreds of type I STS primer sets spanning the complete genomes of the human and mouse have been published and thus represent many independently segregating loci, the potential utility of these markers for molecular systematics of mammals and other groups is enormous.
- Published
- 2003
- Full Text
- View/download PDF
Catalog
Books, media, physical & digital resources
Discovery Service for Jio Institute Digital Library
For full access to our library's resources, please sign in.