1
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Stiller J, Feng S, Chowdhury AA, Rivas-González I, Duchêne DA, Fang Q, Deng Y, Kozlov A, Stamatakis A, Claramunt S, Nguyen JMT, Ho SYW, Faircloth BC, Haag J, Houde P, Cracraft J, Balaban M, Mai U, Chen G, Gao R, Zhou C, Xie Y, Huang Z, Cao Z, Yan Z, Ogilvie HA, Nakhleh L, Lindow B, Morel B, Fjeldså J, Hosner PA, da Fonseca RR, Petersen B, Tobias JA, Székely T, Kennedy JD, Reeve AH, Liker A, Stervander M, Antunes A, Tietze DT, Bertelsen MF, Lei F, Rahbek C, Graves GR, Schierup MH, Warnow T, Braun EL, Gilbert MTP, Jarvis ED, Mirarab S, Zhang G. Complexity of avian evolution revealed by family-level genomes. Nature 2024:10.1038/s41586-024-07323-1. [PMID: 38560995 DOI: 10.1038/s41586-024-07323-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2023] [Accepted: 03/15/2024] [Indexed: 04/04/2024]
Abstract
Despite tremendous efforts in the past decades, relationships among main avian lineages remain heavily debated without a clear resolution. Discrepancies have been attributed to diversity of species sampled, phylogenetic method and the choice of genomic regions1-3. Here we address these issues by analysing the genomes of 363 bird species4 (218 taxonomic families, 92% of total). Using intergenic regions and coalescent methods, we present a well-supported tree but also a marked degree of discordance. The tree confirms that Neoaves experienced rapid radiation at or near the Cretaceous-Palaeogene boundary. Sufficient loci rather than extensive taxon sampling were more effective in resolving difficult nodes. Remaining recalcitrant nodes involve species that are a challenge to model due to either extreme DNA composition, variable substitution rates, incomplete lineage sorting or complex evolutionary events such as ancient hybridization. Assessment of the effects of different genomic partitions showed high heterogeneity across the genome. We discovered sharp increases in effective population size, substitution rates and relative brain size following the Cretaceous-Palaeogene extinction event, supporting the hypothesis that emerging ecological opportunities catalysed the diversification of modern birds. The resulting phylogenetic estimate offers fresh insights into the rapid radiation of modern birds and provides a taxon-rich backbone tree for future comparative studies.
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Affiliation(s)
- Josefin Stiller
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Copenhagen, Denmark.
| | - Shaohong Feng
- Center for Evolutionary & Organismal Biology, Liangzhu Laboratory & Women's Hospital, Zhejiang University School of Medicine, Hangzhou, China
- Department of General Surgery, Sir Run-Run Shaw Hospital, Zhejiang University School of Medicine, Hangzhou, China
- Innovation Center of Yangtze River Delta, Zhejiang University, Jiashan, China
| | - Al-Aabid Chowdhury
- School of Life and Environmental Sciences, University of Sydney, Sydney, New South Wales, Australia
| | | | - David A Duchêne
- Center for Evolutionary Hologenomics, The Globe Institute, University of Copenhagen, Copenhagen, Denmark
| | - Qi Fang
- BGI Research, Shenzhen, China
| | - Yuan Deng
- BGI Research, Shenzhen, China
- BGI Research, Wuhan, China
| | - Alexey Kozlov
- Computational Molecular Evolution Group, Heidelberg Institute for Theoretical Studies, Heidelberg, Germany
| | - Alexandros Stamatakis
- Computational Molecular Evolution Group, Heidelberg Institute for Theoretical Studies, Heidelberg, Germany
- Institute of Computer Science, Foundation for Research and Technology Hellas, Heraklion, Greece
- Institute for Theoretical Informatics, Karlsruhe Institute of Technology, Karlsruhe, Germany
| | - Santiago Claramunt
- Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
- Department of Natural History, Royal Ontario Museum, Toronto, Ontario, Canada
| | - Jacqueline M T Nguyen
- College of Science and Engineering, Flinders University, Adelaide, South Australia, Australia
- Australian Museum Research Institute, Sydney, New South Wales, Australia
| | - Simon Y W Ho
- School of Life and Environmental Sciences, University of Sydney, Sydney, New South Wales, Australia
| | - Brant C Faircloth
- Department of Biological Sciences and Museum of Natural Science, Louisiana State University, Baton Rouge, LA, USA
| | - Julia Haag
- Computational Molecular Evolution Group, Heidelberg Institute for Theoretical Studies, Heidelberg, Germany
| | - Peter Houde
- Department of Biology, New Mexico State University, Las Cruces, NM, USA
| | - Joel Cracraft
- Department of Ornithology, American Museum of Natural History, New York, NY, USA
| | - Metin Balaban
- Bioinformatics and Systems Biology Graduate Program, University of California San Diego, La Jolla, CA, USA
| | - Uyen Mai
- Computer Science and Engineering, University of California San Diego, La Jolla, CA, USA
| | - Guangji Chen
- BGI Research, Wuhan, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| | - Rongsheng Gao
- BGI Research, Wuhan, China
- College of Life Sciences, University of Chinese Academy of Sciences, Beijing, China
| | | | - Yulong Xie
- Center for Evolutionary & Organismal Biology, Liangzhu Laboratory & Women's Hospital, Zhejiang University School of Medicine, Hangzhou, China
| | - Zijian Huang
- Center for Evolutionary & Organismal Biology, Liangzhu Laboratory & Women's Hospital, Zhejiang University School of Medicine, Hangzhou, China
| | - Zhen Cao
- Department of Computer Science, Rice University, Houston, TX, USA
| | - Zhi Yan
- Department of Computer Science, Rice University, Houston, TX, USA
| | - Huw A Ogilvie
- Department of Computer Science, Rice University, Houston, TX, USA
| | - Luay Nakhleh
- Department of Computer Science, Rice University, Houston, TX, USA
| | - Bent Lindow
- Natural History Museum Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Benoit Morel
- Computational Molecular Evolution Group, Heidelberg Institute for Theoretical Studies, Heidelberg, Germany
- Institute of Computer Science, Foundation for Research and Technology Hellas, Heraklion, Greece
| | - Jon Fjeldså
- Natural History Museum Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Peter A Hosner
- Natural History Museum Denmark, University of Copenhagen, Copenhagen, Denmark
- Center for Global Mountain Biodiversity, Globe Institute, University of Copenhagen, Copenhagen, Denmark
| | - Rute R da Fonseca
- Center for Global Mountain Biodiversity, Globe Institute, University of Copenhagen, Copenhagen, Denmark
| | - Bent Petersen
- Center for Evolutionary Hologenomics, The Globe Institute, University of Copenhagen, Copenhagen, Denmark
- Centre of Excellence for Omics-Driven Computational Biodiscovery, Faculty of Applied Sciences, AIMST University, Bedong, Malaysia
| | - Joseph A Tobias
- Department of Life Sciences, Imperial College London, Silwood Park, Ascot, UK
| | - Tamás Székely
- Milner Centre for Evolution, University of Bath, Bath, UK
- ELKH-DE Reproductive Strategies Research Group, University of Debrecen, Debrecen, Hungary
| | - Jonathan David Kennedy
- Center for Macroecology, Evolution, and Climate, The Globe Institute, University of Copenhagen, Copenhagen, Denmark
| | - Andrew Hart Reeve
- Natural History Museum Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Andras Liker
- HUN-REN-PE Evolutionary Ecology Research Group, University of Pannonia, Veszprém, Hungary
- Behavioural Ecology Research Group, Center for Natural Sciences, University of Pannonia, Veszprém, Hungary
| | | | - Agostinho Antunes
- CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Porto, Portugal
- Department of Biology, Faculty of Sciences, University of Porto, Porto, Portugal
| | | | - Mads F Bertelsen
- Centre for Zoo and Wild Animal Health, Copenhagen Zoo, Frederiksberg, Denmark
| | - Fumin Lei
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
- College of Life Science, University of Chinese Academy of Sciences, Beijing, China
| | - Carsten Rahbek
- Center for Global Mountain Biodiversity, Globe Institute, University of Copenhagen, Copenhagen, Denmark
- Center for Macroecology, Evolution, and Climate, The Globe Institute, University of Copenhagen, Copenhagen, Denmark
- Institute of Ecology, Peking University, Beijing, China
- Danish Institute for Advanced Study, University of Southern Denmark, Odense, Denmark
| | - Gary R Graves
- Center for Macroecology, Evolution, and Climate, The Globe Institute, University of Copenhagen, Copenhagen, Denmark
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, USA
| | | | - Tandy Warnow
- University of Illinois Urbana-Champaign, Champaign, IL, USA
| | - Edward L Braun
- Department of Biology, University of Florida, Gainesville, FL, USA
| | - M Thomas P Gilbert
- Center for Evolutionary Hologenomics, The Globe Institute, University of Copenhagen, Copenhagen, Denmark
- University Museum, NTNU, Trondheim, Norway
| | - Erich D Jarvis
- Vertebrate Genome Lab, The Rockefeller University, New York, NY, USA
- Howard Hughes Medical Institute, Durham, NC, USA
| | | | - Guojie Zhang
- Center for Evolutionary & Organismal Biology, Liangzhu Laboratory & Women's Hospital, Zhejiang University School of Medicine, Hangzhou, China.
- Innovation Center of Yangtze River Delta, Zhejiang University, Jiashan, China.
- BGI Research, Wuhan, China.
- Villum Center for Biodiversity Genomics, Department of Biology, University of Copenhagen, Copenhagen, Denmark.
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2
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Reeve AH, Kennedy JD, Pujolar JM, Petersen B, Blom MPK, Alström P, Haryoko T, Ericson PGP, Irestedt M, Nylander JAA, Jønsson KA. The formation of the Indo-Pacific montane avifauna. Nat Commun 2023; 14:8215. [PMID: 38081809 PMCID: PMC10713610 DOI: 10.1038/s41467-023-43964-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Accepted: 11/24/2023] [Indexed: 12/18/2023] Open
Abstract
The processes generating the earth's montane biodiversity remain a matter of debate. Two contrasting hypotheses have been advanced to explain how montane populations form: via direct colonization from other mountains, or, alternatively, via upslope range shifts from adjacent lowland areas. We seek to reconcile these apparently conflicting hypotheses by asking whether a species' ancestral geographic origin determines its mode of mountain colonization. Island-dwelling passerine birds at the faunal crossroads between Eurasia and Australo-Papua provide an ideal study system. We recover the phylogenetic relationships of the region's montane species and reconstruct their ancestral geographic ranges, elevational ranges, and migratory behavior. We also perform genomic population studies of three super-dispersive montane species/clades with broad island distributions. Eurasian-origin species populated archipelagos via direct colonization between mountains. This mode of colonization appears related to ancestral adaptations to cold and seasonal climates, specifically short-distance migration. Australo-Papuan-origin mountain populations, by contrast, evolved from lowland ancestors, and highland distribution mostly precludes their further colonization of island mountains. Our study explains much of the distributional variation within a complex biological system, and provides a synthesis of two seemingly discordant hypotheses for montane community formation.
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Affiliation(s)
- Andrew Hart Reeve
- Natural History Museum of Denmark, University of Copenhagen, DK-2100, Copenhagen Ø, Denmark.
| | - Jonathan David Kennedy
- Natural History Museum of Denmark, University of Copenhagen, DK-2100, Copenhagen Ø, Denmark
| | - José Martín Pujolar
- Natural History Museum of Denmark, University of Copenhagen, DK-2100, Copenhagen Ø, Denmark
- Centre for Gelatinous Plankton Ecology and Evolution, DTU Aqua, Kemitorvet, Building 202, DK-2800, Kongens Lyngby, Denmark
| | - Bent Petersen
- Center for Evolutionary Hologenomics, Globe Institute, University of Copenhagen, DK-1353, Copenhagen, Denmark
- Centre of Excellence for Omics-Driven Computational Biodiscovery (COMBio), Faculty of Applied Sciences, AIMST University, Kedah, Malaysia
| | - Mozes P K Blom
- Museum für Naturkunde Berlin, Leibniz Institut für Evolutions- und Biodiversitätsforschung, 10115, Berlin, Germany
| | - Per Alström
- Animal Ecology, Department of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, Uppsala, Sweden
| | - Tri Haryoko
- Museum Zoologicum Bogoriense, Research Center for Biosystematics and Evolution, National Research and Innovation Agency (BRIN), Cibinong, 16911, Indonesia
| | - Per G P Ericson
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, P.O. Box 50007, SE-104 05, Stockholm, Sweden
| | - Martin Irestedt
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, P.O. Box 50007, SE-104 05, Stockholm, Sweden
| | - Johan A A Nylander
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, P.O. Box 50007, SE-104 05, Stockholm, Sweden
| | - Knud Andreas Jønsson
- Natural History Museum of Denmark, University of Copenhagen, DK-2100, Copenhagen Ø, Denmark
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, P.O. Box 50007, SE-104 05, Stockholm, Sweden
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3
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Reeve AH, Gower G, Pujolar JM, Smith BT, Petersen B, Olsson U, Haryoko T, Koane B, Maiah G, Blom MPK, Ericson PGP, Irestedt M, Racimo F, Jønsson KA. Population genomics of the island thrush elucidates one of earth's great archipelagic radiations. Evol Lett 2023; 7:24-36. [PMID: 37065434 PMCID: PMC10091502 DOI: 10.1093/evlett/qrac006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Revised: 11/10/2022] [Accepted: 12/29/2022] [Indexed: 04/18/2023] Open
Abstract
Tropical islands are renowned as natural laboratories for evolutionary study. Lineage radiations across tropical archipelagos are ideal systems for investigating how colonization, speciation, and extinction processes shape biodiversity patterns. The expansion of the island thrush across the Indo-Pacific represents one of the largest yet most perplexing island radiations of any songbird species. The island thrush exhibits a complex mosaic of pronounced plumage variation across its range and is arguably the world's most polytypic bird. It is a sedentary species largely restricted to mountain forests, yet it has colonized a vast island region spanning a quarter of the globe. We conducted a comprehensive sampling of island thrush populations and obtained genome-wide SNP data, which we used to reconstruct its phylogeny, population structure, gene flow, and demographic history. The island thrush evolved from migratory Palearctic ancestors and radiated explosively across the Indo-Pacific during the Pleistocene, with numerous instances of gene flow between populations. Its bewildering plumage variation masks a biogeographically intuitive stepping stone colonization path from the Philippines through the Greater Sundas, Wallacea, and New Guinea to Polynesia. The island thrush's success in colonizing Indo-Pacific mountains can be understood in light of its ancestral mobility and adaptation to cool climates; however, shifts in elevational range, degree of plumage variation and apparent dispersal rates in the eastern part of its range raise further intriguing questions about its biology.
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Affiliation(s)
- Andrew Hart Reeve
- Corresponding author: Universitetsparken 15, Office 345, Natural History Museum of Denmark, 2100 Copenhagen Ø, Denmark.
| | | | - José Martín Pujolar
- Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen Ø, Denmark
- Centre for Gelatinous Plankton Ecology and Evolution, National Institute of Aquatic Resources, Technical University of Denmark, DK-2800 Kgs. Lyngby, Denmark
| | - Brian Tilston Smith
- Department of Ornithology, American Museum of Natural History, New York, NY 10024, United States
| | - Bent Petersen
- Center for Evolutionary Hologenomics, Globe Institute, University of Copenhagen, DK-1353 Copenhagen K, Denmark
- Centre of Excellence for Omics-Driven Computational Biodiscovery (COMBio), Faculty of Applied Sciences, AIMST University, Kedah, Malaysia
| | - Urban Olsson
- Gothenburg Global Biodiversity Centre, SE-405 30 Gothenburg, Sweden
- Department of Biological and Environmental Sciences, University of Gothenburg, SE-405 30 Gothenburg, Sweden
| | - Tri Haryoko
- Museum Zoologicum Bogoriense, Research Center for Biosystematics and Evolution, National Research and Innovation Agency (BRIN), Cibinong 16911, Indonesia
| | - Bonny Koane
- New Guinea Binatang Research Centre, Madang, Papua New Guinea
- Mauberema Ecotourism, Nature Conservation, Education, Research and Training Center, Simbu Province, Papua New Guinea
| | - Gibson Maiah
- New Guinea Binatang Research Centre, Madang, Papua New Guinea
| | - Mozes P K Blom
- Museum für Naturkunde Berlin, Leibniz Institut für Evolutions- und Biodiversitätsforschung, 10115 Berlin, Germany
| | - Per G P Ericson
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, SE-104 05 Stockholm, Sweden
| | - Martin Irestedt
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, SE-104 05 Stockholm, Sweden
| | - Fernando Racimo
- Section for Molecular Ecology and Evolution, Globe Institute, University of Copenhagen, DK-1350 Copenhagen K, Denmark
| | - Knud Andreas Jønsson
- Natural History Museum of Denmark, University of Copenhagen, DK-2100 Copenhagen Ø, Denmark
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4
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Reeve AH, Willemoes M, Paul L, Nagombi E, Bodawatta KH, Ortvad TE, Maiah G, Jønsson KA. Satellite tracking resident songbirds in tropical forests. PLoS One 2022; 17:e0278641. [PMID: 36584181 PMCID: PMC9803307 DOI: 10.1371/journal.pone.0278641] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/13/2022] [Accepted: 11/20/2022] [Indexed: 01/01/2023] Open
Abstract
Advances in tracking technology have helped elucidate the movements of the planet's largest and most mobile species, but these animals do not represent faunal diversity as a whole. Tracking a more diverse array of animal species will enable testing of broad ecological and evolutionary hypotheses and aid conservation efforts. Small and sedentary species of the tropics make up a huge part of earth's animal diversity and are therefore key to this endeavor. Here, we investigated whether modern satellite tracking is a viable means for measuring the fine-scale movement patterns of such animals. We fitted five-gram solar-powered transmitters to resident songbirds in the rainforests of New Guinea, and analyzed transmission data collected over four years to evaluate movement detection and performance over time. Based upon the distribution of location fixes, and an observed home range shift by one individual, there is excellent potential to detect small movements of a few kilometers. The method also has clear limitations: total transmission periods were often short and punctuated by lapses; precision and accuracy of location fixes was limited and variable between study sites. However, impending reductions in transmitter size and price will alleviate many issues, further expanding options for tracking earth's faunal diversity.
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Affiliation(s)
- Andrew Hart Reeve
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
- * E-mail:
| | - Mikkel Willemoes
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Luda Paul
- New Guinea Binatang Research Centre, Madang, Papua New Guinea
| | - Elizah Nagombi
- New Guinea Binatang Research Centre, Madang, Papua New Guinea
| | - Kasun H. Bodawatta
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Troels Eske Ortvad
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Gibson Maiah
- New Guinea Binatang Research Centre, Madang, Papua New Guinea
| | - Knud Andreas Jønsson
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
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5
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Reeve AH, Blom MPK, Zahl Marki P, Batista R, Olsson U, Edmark VN, Irestedt M, Jønsson KA. The Sulawesi Thrush (
Cataponera turdoides
; Aves: Passeriformes) belongs to the genus
Turdus. ZOOL SCR 2021. [DOI: 10.1111/zsc.12518] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/01/2022]
Affiliation(s)
- Andrew Hart Reeve
- Natural History Museum of DenmarkUniversity of Copenhagen Copenhagen Ø Denmark
| | - Mozes P. K. Blom
- Museum für Naturkunde BerlinInstitut für Evolutions‐ und Biodiversitätsforschung Germany
| | - Petter Zahl Marki
- Division of Research Management University of Agder Kristiansand Norway
| | - Romina Batista
- Instituto Nacional de Pesquisas da Amazônia Campus II Petrópolis CEP Brazil
- Gothenburg Global Biodiversity Centre Gothenburg Sweden
| | - Urban Olsson
- Gothenburg Global Biodiversity Centre Gothenburg Sweden
- Department of Biological and Environmental Sciences University of Göteborg Göteborg Sweden
| | - Veronica Nyström Edmark
- Department of Bioinformatics and Genetics Swedish Museum of Natural History Stockholm Sweden
| | - Martin Irestedt
- Department of Bioinformatics and Genetics Swedish Museum of Natural History Stockholm Sweden
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6
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Feng S, Stiller J, Deng Y, Armstrong J, Fang Q, Reeve AH, Xie D, Chen G, Guo C, Faircloth BC, Petersen B, Wang Z, Zhou Q, Diekhans M, Chen W, Andreu-Sánchez S, Margaryan A, Howard JT, Parent C, Pacheco G, Sinding MHS, Puetz L, Cavill E, Ribeiro ÂM, Eckhart L, Fjeldså J, Hosner PA, Brumfield RT, Christidis L, Bertelsen MF, Sicheritz-Ponten T, Tietze DT, Robertson BC, Song G, Borgia G, Claramunt S, Lovette IJ, Cowen SJ, Njoroge P, Dumbacher JP, Ryder OA, Fuchs J, Bunce M, Burt DW, Cracraft J, Meng G, Hackett SJ, Ryan PG, Jønsson KA, Jamieson IG, da Fonseca RR, Braun EL, Houde P, Mirarab S, Suh A, Hansson B, Ponnikas S, Sigeman H, Stervander M, Frandsen PB, van der Zwan H, van der Sluis R, Visser C, Balakrishnan CN, Clark AG, Fitzpatrick JW, Bowman R, Chen N, Cloutier A, Sackton TB, Edwards SV, Foote DJ, Shakya SB, Sheldon FH, Vignal A, Soares AER, Shapiro B, González-Solís J, Ferrer-Obiol J, Rozas J, Riutort M, Tigano A, Friesen V, Dalén L, Urrutia AO, Székely T, Liu Y, Campana MG, Corvelo A, Fleischer RC, Rutherford KM, Gemmell NJ, Dussex N, Mouritsen H, Thiele N, Delmore K, Liedvogel M, Franke A, Hoeppner MP, Krone O, Fudickar AM, Milá B, Ketterson ED, Fidler AE, Friis G, Parody-Merino ÁM, Battley PF, Cox MP, Lima NCB, Prosdocimi F, Parchman TL, Schlinger BA, Loiselle BA, Blake JG, Lim HC, Day LB, Fuxjager MJ, Baldwin MW, Braun MJ, Wirthlin M, Dikow RB, Ryder TB, Camenisch G, Keller LF, DaCosta JM, Hauber ME, Louder MIM, Witt CC, McGuire JA, Mudge J, Megna LC, Carling MD, Wang B, Taylor SA, Del-Rio G, Aleixo A, Vasconcelos ATR, Mello CV, Weir JT, Haussler D, Li Q, Yang H, Wang J, Lei F, Rahbek C, Gilbert MTP, Graves GR, Jarvis ED, Paten B, Zhang G. Author Correction: Dense sampling of bird diversity increases power of comparative genomics. Nature 2021; 592:E24. [PMID: 33833441 PMCID: PMC8081657 DOI: 10.1038/s41586-021-03473-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Affiliation(s)
- Shaohong Feng
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.,BGI-Shenzhen, Shenzhen, China
| | - Josefin Stiller
- Villum Centre for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Yuan Deng
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,BGI-Shenzhen, Shenzhen, China.,Villum Centre for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Joel Armstrong
- UC Santa Cruz Genomics Institute, UC Santa Cruz, Santa Cruz, CA, USA
| | - Qi Fang
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,BGI-Shenzhen, Shenzhen, China.,Villum Centre for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Andrew Hart Reeve
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Duo Xie
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,BGI-Shenzhen, Shenzhen, China.,BGI Education Center, University of Chinese Academy of Sciences, Shenzhen, China
| | - Guangji Chen
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,BGI-Shenzhen, Shenzhen, China.,BGI Education Center, University of Chinese Academy of Sciences, Shenzhen, China
| | - Chunxue Guo
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,BGI-Shenzhen, Shenzhen, China
| | - Brant C Faircloth
- Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, USA.,Museum of Natural Science, Louisiana State University, Baton Rouge, LA, USA
| | - Bent Petersen
- Centre of Excellence for Omics-Driven Computational Biodiscovery (COMBio), Faculty of Applied Sciences, AIMST University, Kedah, Malaysia.,Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Zongji Wang
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,BGI-Shenzhen, Shenzhen, China.,MOE Laboratory of Biosystems Homeostasis and Protection, Life Sciences Institute, Zhejiang University, Hangzhou, China.,Department of Neuroscience and Developmental Biology, University of Vienna, Vienna, Austria
| | - Qi Zhou
- MOE Laboratory of Biosystems Homeostasis and Protection, Life Sciences Institute, Zhejiang University, Hangzhou, China.,Department of Neuroscience and Developmental Biology, University of Vienna, Vienna, Austria.,Center for Reproductive Medicine, The 2nd Affiliated Hospital, School of Medicine, Zhejiang University, Hangzhou, China
| | - Mark Diekhans
- UC Santa Cruz Genomics Institute, UC Santa Cruz, Santa Cruz, CA, USA
| | - Wanjun Chen
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,BGI-Shenzhen, Shenzhen, China
| | - Sergio Andreu-Sánchez
- Villum Centre for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Copenhagen, Denmark
| | - Ashot Margaryan
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.,Institute of Molecular Biology, National Academy of Sciences, Yerevan, Armenia
| | | | | | - George Pacheco
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Mikkel-Holger S Sinding
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Lara Puetz
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Emily Cavill
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | - Ângela M Ribeiro
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Leopold Eckhart
- Department of Dermatology, Medical University of Vienna, Vienna, Austria
| | - Jon Fjeldså
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark.,Center for Macroecology, Evolution, and Climate, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | - Peter A Hosner
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark.,Center for Macroecology, Evolution, and Climate, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | - Robb T Brumfield
- Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, USA.,Museum of Natural Science, Louisiana State University, Baton Rouge, LA, USA
| | - Les Christidis
- Southern Cross University, Coffs Harbour, New South Wales, Australia
| | - Mads F Bertelsen
- Centre for Zoo and Wild Animal Health, Copenhagen Zoo, Frederiksberg, Denmark
| | - Thomas Sicheritz-Ponten
- Centre of Excellence for Omics-Driven Computational Biodiscovery (COMBio), Faculty of Applied Sciences, AIMST University, Kedah, Malaysia.,Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark
| | | | | | - Gang Song
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.,Environmental Futures Research Institute, Griffith University, Nathan, Queensland, Australia
| | - Gerald Borgia
- Department of Biology, University of Maryland, College Park, MD, USA
| | - Santiago Claramunt
- Department of Natural History, Royal Ontario Museum, Toronto, Ontario, Canada.,Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
| | - Irby J Lovette
- Cornell Lab of Ornithology, Cornell University, Ithaca, NY, USA
| | - Saul J Cowen
- Biodiversity and Conservation Science, Department of Biodiversity Conservation and Attractions, Perth, Western Australia, Australia
| | - Peter Njoroge
- Ornithology Section, Zoology Department, National Museums of Kenya, Nairobi, Kenya
| | | | - Oliver A Ryder
- San Diego Zoo Institute for Conservation Research, Escondido, CA, USA.,Evolution, Behavior, and Ecology, Division of Biology, University of California San Diego, La Jolla, CA, USA
| | - Jérôme Fuchs
- Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum National d'Histoire Naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles, Paris, France
| | - Michael Bunce
- Trace and Environmental DNA (TrEnD) Laboratory, School of Molecular and Life Sciences, Curtin University, Western Australia, Perth, Australia
| | - David W Burt
- UQ Genomics, University of Queensland, Brisbane, Queensland, Australia
| | - Joel Cracraft
- Department of Ornithology, American Museum of Natural History, New York, NY, USA
| | | | - Shannon J Hackett
- Integrative Research Center, Field Museum of Natural History, Chicago, IL, USA
| | - Peter G Ryan
- FitzPatrick Institute of African Ornithology, University of Cape Town, Cape Town, South Africa
| | - Knud Andreas Jønsson
- Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Ian G Jamieson
- Department of Zoology, University of Otago, Dunedin, New Zealand
| | - Rute R da Fonseca
- Center for Macroecology, Evolution, and Climate, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark
| | - Edward L Braun
- Department of Biology, University of Florida, Gainesville, FL, USA
| | - Peter Houde
- Department of Biology, New Mexico State University, Las Cruces, NM, USA
| | - Siavash Mirarab
- Department of Electrical and Computer Engineering, University of California San Diego, La Jolla, CA, USA
| | - Alexander Suh
- Department of Ecology and Genetics - Evolutionary Biology, Evolutionary Biology Centre (EBC), Science for Life Laboratory, Uppsala University, Uppsala, Sweden.,Department of Organismal Biology - Systematic Biology, Evolutionary Biology Centre (EBC), Science for Life Laboratory, Uppsala University, Uppsala, Sweden.,School of Biological Sciences, University of East Anglia, Norwich, UK
| | - Bengt Hansson
- Department of Biology, Lund University, Lund, Sweden
| | - Suvi Ponnikas
- Department of Biology, Lund University, Lund, Sweden
| | - Hanna Sigeman
- Department of Biology, Lund University, Lund, Sweden
| | - Martin Stervander
- Department of Biology, Lund University, Lund, Sweden.,Institute of Ecology and Evolution, University of Oregon, Eugene, OR, USA
| | - Paul B Frandsen
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, UT, USA.,Data Science Lab, Office of the Chief Information Officer, Smithsonian Institution, Washington, DC, USA
| | | | - Rencia van der Sluis
- Focus Area for Human Metabolomics, North-West University, Potchefstroom, South Africa
| | - Carina Visser
- Department of Animal Sciences, University of Pretoria, Pretoria, South Africa
| | | | - Andrew G Clark
- Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY, USA
| | | | - Reed Bowman
- Avian Ecology Program, Archbold Biological Station, Venus, FL, USA
| | - Nancy Chen
- Department of Biology, University of Rochester, Rochester, NY, USA
| | - Alison Cloutier
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA.,Museum of Comparative Zoology, Harvard University, Cambridge, MA, USA
| | | | - Scott V Edwards
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA, USA.,Museum of Comparative Zoology, Harvard University, Cambridge, MA, USA
| | - Dustin J Foote
- Department of Biology, East Carolina University, Greenville, NC, USA.,Sylvan Heights Bird Park, Scotland Neck, NC, USA
| | - Subir B Shakya
- Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, USA.,Museum of Natural Science, Louisiana State University, Baton Rouge, LA, USA
| | - Frederick H Sheldon
- Department of Biological Sciences, Louisiana State University, Baton Rouge, LA, USA.,Museum of Natural Science, Louisiana State University, Baton Rouge, LA, USA
| | - Alain Vignal
- GenPhySE, INRA, INPT, INP-ENVT, Université de Toulouse, Castanet-Tolosan, France
| | - André E R Soares
- Laboratório Nacional de Computação Científica, Petrópolis, Brazil.,Department of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA, USA
| | - Beth Shapiro
- Department of Ecology and Evolutionary Biology, University of California Santa Cruz, Santa Cruz, CA, USA.,Howard Hughes Medical Institute, University of California Santa Cruz, Santa Cruz, CA, USA
| | - Jacob González-Solís
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona, Barcelona, Spain.,Departament de Biologia Evolutiva, Ecologia i Ciències Ambientals (BEECA), Universitat de Barcelona, Barcelona, Spain
| | - Joan Ferrer-Obiol
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona, Barcelona, Spain.,Departament de Genètica, Microbiologia i Estadística, Universitat de Barcelona, Barcelona, Spain
| | - Julio Rozas
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona, Barcelona, Spain.,Departament de Genètica, Microbiologia i Estadística, Universitat de Barcelona, Barcelona, Spain
| | - Marta Riutort
- Institut de Recerca de la Biodiversitat (IRBio), Universitat de Barcelona, Barcelona, Spain.,Departament de Genètica, Microbiologia i Estadística, Universitat de Barcelona, Barcelona, Spain
| | - Anna Tigano
- Department of Molecular, Cellular and Biomedical Sciences, University of New Hampshire, Durham, NH, USA.,Department of Biology, Queen's University, Kingston, Ontario, Canada
| | - Vicki Friesen
- Department of Biology, Queen's University, Kingston, Ontario, Canada
| | - Love Dalén
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, Stockholm, Sweden.,Centre for Palaeogenetics, Stockholm, Sweden
| | - Araxi O Urrutia
- Milner Centre for Evolution, University of Bath, Bath, UK.,Instituto de Ecologia, UNAM, Mexico City, Mexico
| | - Tamás Székely
- Milner Centre for Evolution, University of Bath, Bath, UK
| | - Yang Liu
- State Key Laboratory of Biocontrol, School of Ecology, Sun Yat-sen University, Guangzhou, China
| | - Michael G Campana
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, Smithsonian Institution, Washington, DC, USA
| | | | - Robert C Fleischer
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, Smithsonian Institution, Washington, DC, USA
| | - Kim M Rutherford
- Department of Anatomy, University of Otago, Dunedin, New Zealand
| | - Neil J Gemmell
- Department of Anatomy, University of Otago, Dunedin, New Zealand
| | - Nicolas Dussex
- Department of Bioinformatics and Genetics, Swedish Museum of Natural History, Stockholm, Sweden.,Centre for Palaeogenetics, Stockholm, Sweden.,Department of Anatomy, University of Otago, Dunedin, New Zealand
| | - Henrik Mouritsen
- AG Neurosensory Sciences, Institut für Biologie und Umweltwissenschaften, University of Oldenburg, Oldenburg, Germany
| | - Nadine Thiele
- AG Neurosensory Sciences, Institut für Biologie und Umweltwissenschaften, University of Oldenburg, Oldenburg, Germany
| | - Kira Delmore
- Biology Department, Texas A&M University, College Station, TX, USA.,MPRG Behavioural Genomics, Max Planck Institute for Evolutionary Biology, Plön, Germany
| | | | - Andre Franke
- Institute of Clinical Molecular Biology, Christian-Albrechts- University of Kiel, Kiel, Germany
| | - Marc P Hoeppner
- Institute of Clinical Molecular Biology, Christian-Albrechts- University of Kiel, Kiel, Germany
| | - Oliver Krone
- Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany
| | - Adam M Fudickar
- Environmental Resilience Institute, Indiana University, Bloomington, IN, USA
| | - Borja Milá
- National Museum of Natural Sciences, Spanish National Research Council (CSIC), Madrid, Spain
| | | | - Andrew Eric Fidler
- Institute of Marine Science, University of Auckland, Auckland, New Zealand
| | - Guillermo Friis
- Center for Genomics and Systems Biology, Department of Biology, New York University - Abu Dhabi, Abu Dhabi, UAE
| | | | - Phil F Battley
- Wildlife and Ecology Group, Massey University, Palmerston North, New Zealand
| | - Murray P Cox
- School of Fundamental Sciences, Massey University, Palmerston North, New Zealand
| | - Nicholas Costa Barroso Lima
- Laboratório Nacional de Computação Científica, Petrópolis, Brazil.,Departamento de Bioquímica e Biologia Molecular, Centro de Ciências, Universidade Federal do Ceará, Fortaleza, Brazil
| | - Francisco Prosdocimi
- Laboratório de Genômica e Biodiversidade, Instituto de Bioquímica Médica Leopoldo de Meis, Rio de Janeiro, Brazil
| | | | - Barney A Schlinger
- Department of Integrative Biology and Physiology, UCLA, Los Angeles, CA, USA.,Smithsonian Tropical Research Institute, Panama City, Panama
| | - Bette A Loiselle
- Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL, USA.,Center for Latin American Studies, University of Florida, Gainesville, FL, USA
| | - John G Blake
- Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL, USA
| | - Haw Chuan Lim
- Center for Conservation Genomics, Smithsonian Conservation Biology Institute, Smithsonian Institution, Washington, DC, USA.,Department of Biology, George Mason University, Fairfax, VA, USA
| | - Lainy B Day
- Department of Biology and Neuroscience Minor, University of Mississippi, University, MS, USA
| | - Matthew J Fuxjager
- Department of Ecology and Evolutionary Biology, Brown University, Providence, RI, USA
| | | | - Michael J Braun
- Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, USA.,Behavior, Ecology, Evolution and Systematics Program, University of Maryland, College Park, MD, USA
| | - Morgan Wirthlin
- Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA, USA
| | - Rebecca B Dikow
- Data Science Lab, Office of the Chief Information Officer, Smithsonian Institution, Washington, DC, USA
| | - T Brandt Ryder
- Migratory Bird Center, Smithsonian National Zoological Park and Conservation Biology Institute, Washington, DC, USA
| | - Glauco Camenisch
- Department of Evolutionary Biology and Environmental Studies, University of Zurich, Zurich, Switzerland
| | - Lukas F Keller
- Department of Evolutionary Biology and Environmental Studies, University of Zurich, Zurich, Switzerland
| | | | - Mark E Hauber
- Department of Evolution, Ecology, and Behavior, School of Integrative Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Matthew I M Louder
- Department of Biology, East Carolina University, Greenville, NC, USA.,Department of Evolution, Ecology, and Behavior, School of Integrative Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA.,International Research Center for Neurointelligence, University of Tokyo, Tokyo, Japan
| | - Christopher C Witt
- Museum of Southwestern Biology, Department of Biology, University of New Mexico, Albuquerque, NM, USA
| | - Jimmy A McGuire
- Museum of Vertebrate Zoology, Department of Integrative Biology, University of California, Berkeley, Berkeley, CA, USA
| | - Joann Mudge
- National Center for Genome Resources, Santa Fe, NM, USA
| | - Libby C Megna
- Department of Zoology and Physiology, University of Wyoming, Laramie, WY, USA
| | - Matthew D Carling
- Department of Zoology and Physiology, University of Wyoming, Laramie, WY, USA
| | - Biao Wang
- School of BioSciences, The University of Melbourne, Melbourne, Victoria, Australia
| | - Scott A Taylor
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, USA
| | - Glaucia Del-Rio
- Museum of Natural Science, Louisiana State University, Baton Rouge, LA, USA
| | - Alexandre Aleixo
- Finnish Museum of Natural History, University of Helsinki, Helsinki, Finland
| | | | - Claudio V Mello
- Department of Behavioral Neuroscience, Oregon Health and Science University, Portland, OR, USA
| | - Jason T Weir
- Department of Natural History, Royal Ontario Museum, Toronto, Ontario, Canada.,Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada.,Department of Biological Sciences, University of Toronto Scarborough, Toronto, Ontario, Canada
| | - David Haussler
- UC Santa Cruz Genomics Institute, UC Santa Cruz, Santa Cruz, CA, USA
| | - Qiye Li
- China National GeneBank, BGI-Shenzhen, Shenzhen, China.,BGI-Shenzhen, Shenzhen, China
| | - Huanming Yang
- BGI-Shenzhen, Shenzhen, China.,James D. Watson Institute of Genome Sciences, Hangzhou, China
| | | | - Fumin Lei
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.,Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, China
| | - Carsten Rahbek
- Center for Macroecology, Evolution, and Climate, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark.,Danish Institute for Advanced Study, University of Southern Denmark, Odense, Denmark.,Institute of Ecology, Peking University, Beijing, China.,Department of Life Sciences, Imperial College London, Ascot, UK
| | - M Thomas P Gilbert
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.,University Museum, Norwegian University of Science and Technology, Trondheim, Norway
| | - Gary R Graves
- Center for Macroecology, Evolution, and Climate, GLOBE Institute, University of Copenhagen, Copenhagen, Denmark.,Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution, Washington, DC, USA
| | - Erich D Jarvis
- Duke University Medical Center, Durham, NC, USA.,The Rockefeller University, New York, NY, USA.,Howard Hughes Medical Institute, Chevy Chase, MD, USA
| | - Benedict Paten
- UC Santa Cruz Genomics Institute, UC Santa Cruz, Santa Cruz, CA, USA.
| | - Guojie Zhang
- China National GeneBank, BGI-Shenzhen, Shenzhen, China. .,State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China. .,Villum Centre for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen, Copenhagen, Denmark. .,Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming, China.
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7
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Pan H, Cole TL, Bi X, Fang M, Zhou C, Yang Z, Ksepka DT, Hart T, Bouzat JL, Argilla LS, Bertelsen MF, Boersma PD, Bost CA, Cherel Y, Dann P, Fiddaman SR, Howard P, Labuschagne K, Mattern T, Miller G, Parker P, Phillips RA, Quillfeldt P, Ryan PG, Taylor H, Thompson DR, Young MJ, Ellegaard MR, Gilbert MTP, Sinding MHS, Pacheco G, Shepherd LD, Tennyson AJD, Grosser S, Kay E, Nupen LJ, Ellenberg U, Houston DM, Reeve AH, Johnson K, Masello JF, Stracke T, McKinlay B, Borboroglu PG, Zhang DX, Zhang G. High-coverage genomes to elucidate the evolution of penguins. Gigascience 2020; 8:5571031. [PMID: 31531675 PMCID: PMC6904868 DOI: 10.1093/gigascience/giz117] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/03/2019] [Revised: 08/29/2019] [Accepted: 08/29/2019] [Indexed: 12/20/2022] Open
Abstract
BACKGROUND Penguins (Sphenisciformes) are a remarkable order of flightless wing-propelled diving seabirds distributed widely across the southern hemisphere. They share a volant common ancestor with Procellariiformes close to the Cretaceous-Paleogene boundary (66 million years ago) and subsequently lost the ability to fly but enhanced their diving capabilities. With ∼20 species among 6 genera, penguins range from the tropical Galápagos Islands to the oceanic temperate forests of New Zealand, the rocky coastlines of the sub-Antarctic islands, and the sea ice around Antarctica. To inhabit such diverse and extreme environments, penguins evolved many physiological and morphological adaptations. However, they are also highly sensitive to climate change. Therefore, penguins provide an exciting target system for understanding the evolutionary processes of speciation, adaptation, and demography. Genomic data are an emerging resource for addressing questions about such processes. RESULTS Here we present a novel dataset of 19 high-coverage genomes that, together with 2 previously published genomes, encompass all extant penguin species. We also present a well-supported phylogeny to clarify the relationships among penguins. In contrast to recent studies, our results demonstrate that the genus Aptenodytes is basal and sister to all other extant penguin genera, providing intriguing new insights into the adaptation of penguins to Antarctica. As such, our dataset provides a novel resource for understanding the evolutionary history of penguins as a clade, as well as the fine-scale relationships of individual penguin lineages. Against this background, we introduce a major consortium of international scientists dedicated to studying these genomes. Moreover, we highlight emerging issues regarding ensuring legal and respectful indigenous consultation, particularly for genomic data originating from New Zealand Taonga species. CONCLUSIONS We believe that our dataset and project will be important for understanding evolution, increasing cultural heritage and guiding the conservation of this iconic southern hemisphere species assemblage.
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Affiliation(s)
- Hailin Pan
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China.,State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.,Section for Ecology and Evolution, Department of Biology, University of Copenhagen, DK-2100 Copenhagen, Denmark
| | - Theresa L Cole
- Manaaki Whenua Landcare Research, PO Box 69040, Lincoln, Canterbury 7640, New Zealand.,Department of Zoology, University of Otago, PO Box 56, Dunedin, Otago 9054, New Zealand
| | - Xupeng Bi
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China.,China National Genebank, BGI-Shenzhen, Shenzhen, Guangdong, China.,Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China
| | - Miaoquan Fang
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China.,China National Genebank, BGI-Shenzhen, Shenzhen, Guangdong, China.,Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China
| | - Chengran Zhou
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China.,China National Genebank, BGI-Shenzhen, Shenzhen, Guangdong, China
| | - Zhengtao Yang
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China.,China National Genebank, BGI-Shenzhen, Shenzhen, Guangdong, China
| | | | - Tom Hart
- Department of Zoology, University of Oxford, 11a Mansfield Road, Oxford OX1 3SZ, UK
| | - Juan L Bouzat
- Department of Biological Sciences, Bowling Green State University, Bowling Green, OH 43403, USA
| | - Lisa S Argilla
- The Wildlife Hospital Dunedin, School of Veterinary Nursing, Otago Polytechnic, Dunedin, Otago 9016, New Zealand
| | - Mads F Bertelsen
- Copenhagen Zoo, Roskildevej 38, DK-2000 Frederiksberg, Denmark.,Department of Veterinary and Animal Sciences, University of Copenhagen, Copenhagen, Denmark
| | - P Dee Boersma
- Center for Ecosystem Sentinels, Department of Biology, University of Washington, Seattle, WA 98195, USA
| | - Charles-André Bost
- Centre d'Etudes Biologiques de Chizé (CEBC), UMR 7372 du CNRS-La Rochelle Université, 79360 Villiers-en-Bois, France
| | - Yves Cherel
- Centre d'Etudes Biologiques de Chizé (CEBC), UMR 7372 du CNRS-La Rochelle Université, 79360 Villiers-en-Bois, France
| | - Peter Dann
- Research Department, Phillip Island Nature Parks, PO Box 97, Cowes, Phillip Island, Victoria, 3922, Australia
| | - Steven R Fiddaman
- Department of Zoology, University of Oxford, Peter Medawar Building for Pathogen Research, South Parks Road, Oxford OX1 3SY, UK
| | - Pauline Howard
- Hornby Veterinary Centre, 7 Tower Street, Hornby, Christchurch, Canterbury 8042, New Zealand.,South Island Wildlife Hospital, Christchurch, Canterbury, New Zealand
| | - Kim Labuschagne
- National Zoological Garden, South African National Biodiversity Institute, P.O. Box 754, Pretoria 0001, South Africa
| | - Thomas Mattern
- Department of Zoology, University of Otago, PO Box 56, Dunedin, Otago 9054, New Zealand
| | - Gary Miller
- Division of Pathology and Laboratory Medicine, University of Western Australia, Crawley, Western Australia 6009, Australia.,Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, Tasmania 7001, Australia
| | - Patricia Parker
- Department of Biology, University of Missouri St. Louis, St Louis, MO 63121, USA
| | - Richard A Phillips
- British Antarctic Survey, Natural Environment Research Council, High Cross, Cambridge, UK
| | - Petra Quillfeldt
- Justus-Liebig-Universität Giessen, Heinrich-Buff-Ring 26, 35392 Giessen, Germany
| | - Peter G Ryan
- FitzPatrick Institute of African Ornithology, University of Cape Town, Rondebosch 7701, South Africa
| | - Helen Taylor
- Vet Services Hawkes Bay Ltd, 801 Heretaunga Street, Hastings, New Zealand.,Wairoa Farm Vets, 77 Queen Street, Wairoa 4108, New Zealand
| | - David R Thompson
- National Institute of Water and Atmospheric Research Ltd., Private Bag 14901, Kilbirnie, Wellington 6241, New Zealand
| | - Melanie J Young
- Department of Zoology, University of Otago, PO Box 56, Dunedin, Otago 9054, New Zealand
| | - Martin R Ellegaard
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Øster Farimagsgade 5A, Copenhagen, Denmark
| | - M Thomas P Gilbert
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Øster Farimagsgade 5A, Copenhagen, Denmark.,NTNU University Museum, Trondheim, Norway
| | - Mikkel-Holger S Sinding
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Øster Farimagsgade 5A, Copenhagen, Denmark
| | - George Pacheco
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Øster Farimagsgade 5A, Copenhagen, Denmark
| | - Lara D Shepherd
- Museum of New Zealand Te Papa Tongarewa, PO Box 467, Wellington 6140, New Zealand
| | - Alan J D Tennyson
- Museum of New Zealand Te Papa Tongarewa, PO Box 467, Wellington 6140, New Zealand
| | - Stefanie Grosser
- Department of Zoology, University of Otago, PO Box 56, Dunedin, Otago 9054, New Zealand.,Division of Evolutionary Biology, Faculty of Biology, LMU Munich, Großhaderner Str. 2, 82152 Planegg-Martinsried, Germany
| | - Emily Kay
- Wildbase, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand.,Wellington Zoo, 200 Daniell St, Newtown, Wellington 6021, New Zealand
| | - Lisa J Nupen
- FitzPatrick Institute of African Ornithology, University of Cape Town, Rondebosch 7701, South Africa.,National Zoological Gardens of South Africa, Pretoria, South Africa
| | - Ursula Ellenberg
- Department of Ecology, Environment and Evolution, La Trobe University, Melbourne, Victoria, Australia.,Global Penguin Society, University of Washington, Seattle, WA, USA
| | - David M Houston
- Biodiversity Group, Department of Conservation, Auckland, New Zealand
| | - Andrew Hart Reeve
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, DK-2100 Copenhagen, Denmark.,Department of Biology, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Kathryn Johnson
- Wildbase, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand.,Wellington Zoo, 200 Daniell St, Newtown, Wellington 6021, New Zealand
| | - Juan F Masello
- Justus-Liebig-Universität Giessen, Heinrich-Buff-Ring 26, 35392 Giessen, Germany
| | - Thomas Stracke
- South Island Wildlife Hospital, Christchurch, Canterbury, New Zealand
| | - Bruce McKinlay
- Biodiversity Group, Department of Conservation, Dunedin, New Zealand
| | - Pablo García Borboroglu
- Center for Ecosystem Sentinels, Department of Biology, University of Washington, Seattle, WA 98195, USA.,Global Penguin Society, Puerto Madryn 9120, Argentina.,CESIMAR CCT Cenpat-CONICET, Puerto Madryn 9120, Chubut, Argentina
| | - De-Xing Zhang
- Center for Computational and Evolutionary Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Beijing 100101, China
| | - Guojie Zhang
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China.,State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.,Section for Ecology and Evolution, Department of Biology, University of Copenhagen, DK-2100 Copenhagen, Denmark.,Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China
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8
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DuBay SG, Wu Y, Scott GR, Qu Y, Liu Q, Smith JH, Xin C, Hart Reeve A, Juncheng C, Meyer D, Wang J, Johnson J, Cheviron ZA, Lei F, Bates J. Life history predicts flight muscle phenotype and function in birds. J Anim Ecol 2020; 89:1262-1276. [PMID: 32124424 DOI: 10.1111/1365-2656.13190] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/10/2019] [Accepted: 12/19/2019] [Indexed: 11/30/2022]
Abstract
Functional traits are the essential phenotypes that underlie an organism's life history and ecology. Although biologists have long recognized that intraspecific variation is consequential to an animals' ecology, studies of functional variation are often restricted to species-level comparisons, ignoring critical variation within species. In birds, interspecific comparisons have been foundational in connecting flight muscle phenotypes to species-level ecology, but intraspecific variation has remained largely unexplored. We asked how age- and sex-dependent demands on flight muscle function are reconciled in birds. The flight muscle is an essential multifunctional organ, mediating a large range of functions associated with powered flight and thermoregulation. These functions must be balanced over an individual's lifetime. We leveraged within- and between-species comparisons in a clade of small passerines (Tarsiger bush-robins) from the eastern edge of the Qinghai-Tibet Plateau. We integrated measurements of flight muscle physiology, morphology, behaviour, phenology and environmental data, analysing trait data within a context of three widespread, adaptive life-history strategies-sexual dichromatism, age and sex-structured migration, and delayed plumage maturation. This approach provides a framework of the selective forces that shape functional variation within and between species. We found more variation in flight muscle traits within species than has been previously described between species of birds under 20 g. This variation was associated with the discovery of mixed muscle fibre types (i.e. both fast glycolytic and fast oxidative fibres), which differ markedly in their physiological and functional attributes. This result is surprising given that the flight muscles of small birds are generally thought to contain only fast oxidative fibres, suggesting a novel ecological context for glycolytic muscle fibres in small birds. Within each species, flight muscle phenotypes varied by age and sex, reflecting the functional demands at different life-history stages and the pressures that individuals face as a result of their multi-class identity (i.e. species, age and sex). Our findings reveal new links between avian physiology, ecology, behaviour and life history, while demonstrating the importance of demographic-dependent selection in shaping functional phenotypic variation.
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Affiliation(s)
- Shane G DuBay
- Committee on Evolutionary Biology, University of Chicago, Chicago, IL, USA.,Integrative Research Center, Field Museum of Natural History, Chicago, IL, USA
| | - Yongjie Wu
- Key Laboratory of Bio-resources and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, China
| | - Graham R Scott
- Department of Biology, McMaster University, Hamilton, ON, Canada
| | - Yanhua Qu
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China
| | - Qiao Liu
- Institute of Mountain Hazards and Environment, Chinese Academy of Sciences, Chengdu, China
| | - Joel H Smith
- Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA
| | - Chao Xin
- Laboratory of Molecular Evolution and Molecular Phylogeny, College of Life Sciences, Shannxi Normal University, Xi'an, China
| | - Andrew Hart Reeve
- Biosystematics Section, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Chen Juncheng
- Key Laboratory of Bio-resources and Eco-environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, China
| | - Dylan Meyer
- Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA
| | - Jing Wang
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Jacob Johnson
- Department of Ecology and Evolution, University of Chicago, Chicago, IL, USA
| | - Zachary A Cheviron
- Division of Biological Sciences, University of Montana, Missoula, MT, USA
| | - Fumin Lei
- Key Laboratory of Zoological Systematics and Evolution, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.,University of Chinese Academy of Sciences, Beijing, China
| | - John Bates
- Integrative Research Center, Field Museum of Natural History, Chicago, IL, USA
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Pan H, Cole TL, Bi X, Fang M, Zhou C, Yang Z, Ksepka DT, Hart T, Bouzat JL, Argilla LS, Bertelsen MF, Boersma PD, Bost CA, Cherel Y, Dann P, Fiddaman SR, Howard P, Labuschagne K, Mattern T, Miller G, Parker P, Phillips RA, Quillfeldt P, Ryan PG, Taylor H, Thompson DR, Young MJ, Ellegaard MR, Gilbert MTP, Sinding MHS, Pacheco G, Shepherd LD, Tennyson AJD, Grosser S, Kay E, Nupen LJ, Ellenberg U, Houston DM, Reeve AH, Johnson K, Masello JF, Stracke T, McKinlay B, Garc Ia Borboroglu P, Zhang DX, Zhang G. Correction to: High-coverage genomes to elucidate the evolution of penguins. Gigascience 2020; 9:giaa031. [PMID: 32191810 PMCID: PMC7081963 DOI: 10.1093/gigascience/giaa031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/04/2022] Open
Affiliation(s)
- Hailin Pan
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, DK-2100 Copenhagen, Denmark
| | - Theresa L Cole
- Manaaki Whenua Landcare Research, PO Box 69040, Lincoln, Canterbury 7640, New Zealand
- Department of Zoology, University of Otago, PO Box 56, Dunedin, Otago 9054, New Zealand
| | - Xupeng Bi
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China
- China National Genebank, BGI-Shenzhen, Shenzhen, Guangdong, China
- Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China
| | - Miaoquan Fang
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China
- China National Genebank, BGI-Shenzhen, Shenzhen, Guangdong, China
- Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China
| | - Chengran Zhou
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China
- China National Genebank, BGI-Shenzhen, Shenzhen, Guangdong, China
| | - Zhengtao Yang
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China
- China National Genebank, BGI-Shenzhen, Shenzhen, Guangdong, China
| | | | - Tom Hart
- Department of Zoology, University of Oxford, 11a Mansfield Road, Oxford OX1 3SZ, UK
| | - Juan L Bouzat
- Department of Biological Sciences, Bowling Green State University, Bowling Green, OH 43403, USA
| | - Lisa S Argilla
- The Wildlife Hospital Dunedin, School of Veterinary Nursing, Otago Polytechnic, Dunedin, Otago 9016, New Zealand
| | - Mads F Bertelsen
- Copenhagen Zoo, Roskildevej 38, DK-2000 Frederiksberg, Denmark
- Department of Veterinary and Animal Sciences, University of Copenhagen, Copenhagen, Denmark
| | - P Dee Boersma
- Center for Ecosystem Sentinels, Department of Biology, University of Washington, Seattle, WA 98195, USA
| | - Charles-Andre Bost
- Centre d'Etudes Biologiques de Chize (CEBC), UMR 7372 du CNRS-La Rochelle Universite, 79360 Villiers-en-Bois, France
| | - Yves Cherel
- Centre d'Etudes Biologiques de Chize (CEBC), UMR 7372 du CNRS-La Rochelle Universite, 79360 Villiers-en-Bois, France
| | - Peter Dann
- Research Department, Phillip Island Nature Parks, PO Box 97, Cowes, Phillip Island, Victoria, 3922, Australia
| | - Steven R Fiddaman
- Department of Zoology, University of Oxford, Peter Medawar Building for Pathogen Research, South Parks Road, Oxford OX1 3SY, UK
| | - Pauline Howard
- Hornby Veterinary Centre, 7 Tower Street, Hornby, Christchurch, Canterbury 8042, New Zealand
- South Island Wildlife Hospital, Christchurch, Canterbury, New Zealand
| | - Kim Labuschagne
- National Zoological Garden, South African National Biodiversity Institute, P.O. Box 754, Pretoria 0001, South Africa
| | - Thomas Mattern
- Department of Zoology, University of Otago, PO Box 56, Dunedin, Otago 9054, New Zealand
| | - Gary Miller
- Division of Pathology and Laboratory Medicine, University of Western Australia, Crawley, Western Australia 6009, Australia
- Institute for Marine and Antarctic Studies, University of Tasmania, Hobart, Tasmania 7001, Australia
| | - Patricia Parker
- Department of Biology, University of Missouri St. Louis, St Louis, MO 63121, USA
| | - Richard A Phillips
- British Antarctic Survey, Natural Environment Research Council, High Cross, Cambridge, UK
| | - Petra Quillfeldt
- Justus-Liebig-Universitat Giessen, Heinrich-Buff-Ring 26, 35392 Giessen, Germany
| | - Peter G Ryan
- FitzPatrick Institute of African Ornithology, University of Cape Town, Rondebosch 7701, South Africa
| | - Helen Taylor
- Vet Services Hawkes Bay Ltd, 801 Heretaunga Street, Hastings, New Zealand
- Wairoa Farm Vets, 77 Queen Street, Wairoa 4108, New Zealand
| | - David R Thompson
- National Institute of Water and Atmospheric Research Ltd., Private Bag 14901, Kilbirnie, Wellington 6241, New Zealand
| | - Melanie J Young
- Department of Zoology, University of Otago, PO Box 56, Dunedin, Otago 9054, New Zealand
| | - Martin R Ellegaard
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Øster Farimagsgade 5A, Copenhagen, Denmark
| | - M Thomas P Gilbert
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Øster Farimagsgade 5A, Copenhagen, Denmark
- NTNU University Museum, Trondheim, Norway
| | - Mikkel-Holger S Sinding
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Øster Farimagsgade 5A, Copenhagen, Denmark
| | - George Pacheco
- Section for Evolutionary Genomics, The GLOBE Institute, Faculty of Health and Medical Sciences, University of Copenhagen, Øster Farimagsgade 5A, Copenhagen, Denmark
| | - Lara D Shepherd
- Museum of New Zealand Te Papa Tongarewa, PO Box 467, Wellington 6140, New Zealand
| | - Alan J D Tennyson
- Museum of New Zealand Te Papa Tongarewa, PO Box 467, Wellington 6140, New Zealand
| | - Stefanie Grosser
- Department of Zoology, University of Otago, PO Box 56, Dunedin, Otago 9054, New Zealand
- Division of Evolutionary Biology, Faculty of Biology, LMU Munich, Großhaderner Str. 2, 82152 Planegg-Martinsried, Germany
| | - Emily Kay
- Wildbase, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand
- Wellington Zoo, 200 Daniell St, Newtown, Wellington 6021, New Zealand
| | - Lisa J Nupen
- FitzPatrick Institute of African Ornithology, University of Cape Town, Rondebosch 7701, South Africa
- National Zoological Gardens of South Africa, Pretoria, South Africa
| | - Ursula Ellenberg
- Department of Ecology, Environment and Evolution, La Trobe University, Melbourne, Victoria, Australia
- Global Penguin Society, University of Washington, Seattle, WA, USA
| | - David M Houston
- Biodiversity Group, Department of Conservation, Auckland, New Zealand
| | - Andrew Hart Reeve
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, DK-2100 Copenhagen, Denmark
- Department of Biology, Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark
| | - Kathryn Johnson
- Wildbase, Massey University, Private Bag 11 222, Palmerston North 4442, New Zealand
- Wellington Zoo, 200 Daniell St, Newtown, Wellington 6021, New Zealand
| | - Juan F Masello
- Justus-Liebig-Universitat Giessen, Heinrich-Buff-Ring 26, 35392 Giessen, Germany
| | - Thomas Stracke
- South Island Wildlife Hospital, Christchurch, Canterbury, New Zealand
| | - Bruce McKinlay
- Biodiversity Group, Department of Conservation, Dunedin, New Zealand
| | - Pablo Garc Ia Borboroglu
- Center for Ecosystem Sentinels, Department of Biology, University of Washington, Seattle, WA 98195, USA
- Global Penguin Society, Puerto Madryn 9120, Argentina
- CESIMAR CCT Cenpat-CONICET, Puerto Madryn 9120, Chubut, Argentina
| | - De-Xing Zhang
- Center for Computational and Evolutionary Biology, Institute of Zoology, Chinese Academy of Sciences, 1 Beichen West Road, Beijing 100101, China
| | - Guojie Zhang
- BGI-Shenzhen, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China
- State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China
- Section for Ecology and Evolution, Department of Biology, University of Copenhagen, DK-2100 Copenhagen, Denmark
- Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650223, China
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Fabre PH, Reeve AH, Fitriana YS, Aplin KP, Helgen KM. A new species of Halmaheramys (Rodentia: Muridae) from Bisa and Obi Islands (North Maluku Province, Indonesia). J Mammal 2017. [DOI: 10.1093/jmammal/gyx160] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Abstract
We describe a new species of masked-owl from the lower montane forest of Seram, one of the largest islands in the Moluccas of eastern Indonesia, for which we propose the name Tyto almae (Seram Masked-Owl), sp. nov. Molecular (mitochondrial cyt-b) differences show that Tyto sororcula of Buru and Tanimbar is closely related to T novaehollandiae of Australia and New Guinea (-1% uncorrected pairwise distance), and that Tyto almae of Seram differs by -3% (uncorrected pairwise distance) from both of them. These differences are further corroborated by morphology and colouration. Although a photograph from Seram published in 1987 had already established the presence of a Tyto owl on the island, ours represents the first specimen of this species. The bird was mist-netted in wet, mossy lower montane forest at an elevation of 1,350 m. No further observations of the owl were made during four weeks of fieldwork in Seram.
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Affiliation(s)
- Knud Andreas Jønsson
- Center for Macroecology Evolution and Climate at the Natural History Museum of Denmark, University of Copenhagen, Universitetsparken 15, DK-2100 Copenhagen Ø, Denmark.
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