P
Peter Houde
Researcher at New Mexico State University
Publications - 47
Citations - 4457
Peter Houde is an academic researcher from New Mexico State University. The author has contributed to research in topics: Genome & Genomics. The author has an hindex of 24, co-authored 45 publications receiving 3770 citations. Previous affiliations of Peter Houde include National Museum of Natural History & Beijing Institute of Genomics.
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Journal ArticleDOI
Whole-genome analyses resolve early branches in the tree of life of modern birds
Erich D. Jarvis,Siavash Mirarab,Andre J. Aberer,Bo Li,Bo Li,Bo Li,Peter Houde,Cai Li,Cai Li,Simon Y. W. Ho,Brant C. Faircloth,Benoit Nabholz,Jason T. Howard,Alexander Suh,Claudia C. Weber,Rute R. da Fonseca,Jianwen Li,Fang Zhang Zhang,Hui Li,Long Zhou,Nitish Narula,Nitish Narula,Liang Liu,Ganesh Ganapathy,Bastien Boussau,Shamsuzzoha Bayzid,Volodymyr Zavidovych,Sankar Subramanian,Toni Gabaldón,Salvador Capella-Gutierrez,Jaime Huerta-Cepas,Bhanu Rekepalli,Bhanu Rekepalli,Kasper Munch,Mikkel H. Schierup,Bent E. K. Lindow,Wesley C. Warren,David A. Ray,Richard E. Green,Michael William Bruford,Xiangjiang Zhan,Xiangjiang Zhan,Andrew Dixon,Shengbin Li,Ning Li,Yinhua Huang,Elizabeth P. Derryberry,Elizabeth P. Derryberry,Mads F. Bertelsen,Frederick H. Sheldon,Robb T. Brumfield,Claudio V. Mello,Claudio V. Mello,Peter V. Lovell,Morgan Wirthlin,Maria Paula Cruz Schneider,Francisco Prosdocimi,José Alfredo Samaniego,Amhed Missael Vargas Velazquez,Alonzo Alfaro-Núñez,Paula F. Campos,Bent O. Petersen,Thomas Sicheritz-Pontén,An Pas,Thomas L. Bailey,R. Paul Scofield,Michael Bunce,David M. Lambert,Qi Zhou,Polina L. Perelman,Amy C. Driskell,Beth Shapiro,Zijun Xiong,Yongli Zeng,Shiping Liu,Zhenyu Li,Binghang Liu,Kui Wu,Jin Xiao,Xiong Yinqi,Quiemei Zheng,Yong Zhang,Huanming Yang,Jian Wang,Linnéa Smeds,Frank E. Rheindt,Michael J. Braun,Jon Fjeldså,Ludovic Orlando,F. Keith Barker,Knud A. Jønsson,Warren E. Johnson,Klaus-Peter Koepfli,Stephen J. O'Brien,David Haussler,Oliver A. Ryder,Carsten Rahbek,Eske Willerslev,Gary R. Graves,Gary R. Graves,Travis C. Glenn,John E. McCormack,Dave Burt,Hans Ellegren,Per Alström,Scott V. Edwards,Alexandros Stamatakis,David P. Mindell,Joel Cracraft,Edward L. Braun,Tandy Warnow,Tandy Warnow,Wang Jun,M. Thomas P. Gilbert,M. Thomas P. Gilbert,Guojie Zhang,Guojie Zhang +116 more
TL;DR: A genome-scale phylogenetic analysis of 48 species representing all orders of Neoaves recovered a highly resolved tree that confirms previously controversial sister or close relationships and identifies the first divergence in Neoaves, two groups the authors named Passerea and Columbea.
Journal ArticleDOI
Comparative genomics reveals insights into avian genome evolution and adaptation.
Guojie Zhang,Guojie Zhang,Cai Li,Qiye Li,Bo Li,Denis M. Larkin,Chul Hee Lee,Jay F. Storz,Agostinho Antunes,Matthew J. Greenwold,Robert W. Meredith,Anders Ödeen,Jie Cui,Qi Zhou,Luohao Xu,Hailin Pan,Zongji Wang,Lijun Jin,Pei Zhang,Haofu Hu,Wei Yang,Jiang Hu,Jin Xiao,Zhikai Yang,Yang Liu,Qiaolin Xie,Hao Yu,Jinmin Lian,Ping Wen,Fang Zhang,Hui Li,Yongli Zeng,Zijun Xiong,Shiping Liu,Long Zhou,Zhiyong Huang,Na An,Jie Wang,Qiumei Zheng,Yingqi Xiong,Guangbiao Wang,Bo Wang,Jingjing Wang,Yu Fan,Rute R. da Fonseca,Alonzo Alfaro-Núñez,Mikkel Schubert,Ludovic Orlando,Tobias Mourier,Jason T. Howard,Ganeshkumar Ganapathy,Andreas R. Pfenning,Osceola Whitney,Miriam V. Rivas,Erina Hara,Julia Smith,Marta Farré,Jitendra Narayan,Gancho T. Slavov,Michael N Romanov,Rui Borges,João Paulo Machado,Imran Khan,Mark S. Springer,John Gatesy,Federico G. Hoffmann,Juan C. Opazo,Olle Håstad,Roger H. Sawyer,Heebal Kim,Kyu-Won Kim,Hyeon Jeong Kim,Seoae Cho,Ning Li,Yinhua Huang,Michael William Bruford,Xiangjiang Zhan,Andrew Dixon,Mads F. Bertelsen,Elizabeth P. Derryberry,Wesley C. Warren,Richard K. Wilson,Shengbin Li,David A. Ray,Richard E. Green,Stephen J. O'Brien,Darren K. Griffin,Warren E. Johnson,David Haussler,Oliver A. Ryder,Eske Willerslev,Gary R. Graves,Per Alström,Jon Fjeldså,David P. Mindell,Scott V. Edwards,Edward L. Braun,Carsten Rahbek,David W. Burt,Peter Houde,Yong Zhang,Huanming Yang,Jian Wang,Erich D. Jarvis,M. Thomas P. Gilbert,M. Thomas P. Gilbert,Jun Wang +106 more
TL;DR: This work explored bird macroevolution using full genomes from 48 avian species representing all major extant clades to reveal that pan-avian genomic diversity covaries with adaptations to different lifestyles and convergent evolution of traits.
Journal ArticleDOI
Parallel radiations in the primary clades of birds
Matthew G. Fain,Peter Houde +1 more
TL;DR: Examination of intron 7 of the β‐fibrinogen gene in the most taxonomically inclusive survey of DNA sequences of nonpasserine bird families and orders to date suggests that Neoaves consist of two sister clades with ecological parallelisms comparable to those found between marsupial and placental mammals.
Journal ArticleDOI
Dense sampling of bird diversity increases power of comparative genomics.
Shaohong Feng,Josefin Stiller,Yuan Deng,Joel Armstrong,Joel Armstrong,Qi Fang,Andrew Hart Reeve,Duo Xie,Guangji Chen,Chunxue Guo,Brant C. Faircloth,Bent O. Petersen,Zongji Wang,Qi Zhou,Qi Zhou,Mark Diekhans,Mark Diekhans,Wanjun Chen,Sergio Andreu-Sánchez,Ashot Margaryan,Ashot Margaryan,Jason T. Howard,Carole A. Parent,George Pacheco,Mikkel-Holger S. Sinding,Lara Puetz,Emily Cavill,Ângela M. Ribeiro,Leopold Eckhart,Jon Fjeldså,Peter A. Hosner,Robb T. Brumfield,Les Christidis,Mads F. Bertelsen,Thomas Sicheritz-Pontén,Dieter Thomas Tietze,Bruce C. Robertson,Gang Song,Gerald Borgia,Santiago Claramunt,Santiago Claramunt,Irby J. Lovette,Saul J. Cowen,Peter Njoroge,John P. Dumbacher,Oliver A. Ryder,Jérôme Fuchs,Michael Bunce,David W. Burt,Joel Cracraft,Guanliang Meng,Shannon J. Hackett,Peter G. Ryan,Knud A. Jønsson,Ian G. Jamieson,Rute R. da Fonseca,Edward L. Braun,Peter Houde,Siavash Mirarab,Alexander Suh,Alexander Suh,Bengt Hansson,Suvi Ponnikas,Hanna Sigeman,Martin Stervander,Martin Stervander,Paul B. Frandsen,Paul B. Frandsen,Henriette van der Zwan,Rencia van der Sluis,Carina Visser,Christopher N. Balakrishnan,Andrew G. Clark,John W. Fitzpatrick,Reed Bowman,Nancy F. Chen,Alison Cloutier,Timothy B. Sackton,Scott V. Edwards,Dustin J. Foote,Subir B. Shakya,Frederick H. Sheldon,Alain Vignal,André E. R. Soares,Beth Shapiro,Jacob González-Solís,Joan Ferrer-Obiol,Julio Rozas,Marta Riutort,Anna Tigano,Anna Tigano,Vicki L. Friesen,Love Dalén,Araxi O. Urrutia,Araxi O. Urrutia,Tamás Székely,Yang Liu,Michael G. Campana,André Corvelo,Robert C. Fleischer,Kim Rutherford,Neil J. Gemmell,Nicolas Dussex,Nicolas Dussex,Henrik Mouritsen,Nadine Thiele,Kira E. Delmore,Kira E. Delmore,Miriam Liedvogel,Andre Franke,Marc P. Hoeppner,Oliver Krone,Adam M. Fudickar,Borja Milá,Ellen D. Ketterson,Andrew E. Fidler,Guillermo Friis,Ángela M. Parody-Merino,Phil F. Battley,Murray P. Cox,Nicholas Costa Barroso Lima,Francisco Prosdocimi,Thomas L. Parchman,Barney A. Schlinger,Bette A. Loiselle,John G. Blake,Haw Chuan Lim,Haw Chuan Lim,Lainy B. Day,Matthew J. Fuxjager,Maude W. Baldwin,Michael J. Braun,Morgan Wirthlin,Rebecca B. Dikow,T. Brandt Ryder,Glauco Camenisch,Lukas F. Keller,Jeffrey M. DaCosta,Mark E. Hauber,Matthew I. M. Louder,Christopher C. Witt,Jimmy A. McGuire,Joann Mudge,Libby C. Megna,Matthew D. Carling,Biao Wang,Scott A. Taylor,Glaucia Del-Rio,Alexandre Aleixo,Ana Tereza Ribeiro de Vasconcelos,Claudio V. Mello,Jason T. Weir,Jason T. Weir,David Haussler,David Haussler,Qiye Li,Huanming Yang,Jian Wang,Fumin Lei,Carsten Rahbek,M. Thomas P. Gilbert,M. Thomas P. Gilbert,Gary R. Graves,Gary R. Graves,Erich D. Jarvis,Erich D. Jarvis,Erich D. Jarvis,Benedict Paten,Benedict Paten,Guojie Zhang +169 more
TL;DR: The densely sampled alignment provides a single-base-pair map of selection, has more than doubled the fraction of bases that are confidently predicted to be under conservation and reveals extensive patterns of weak selection in predominantly non-coding DNA.
Journal ArticleDOI
Critical evaluation of DNA hybridization studies in avian systematics
TL;DR: I demonstrated statistically significant differences in rates of DNA evolution for a few passerine birds that vitiate the role of DNA hybridization as the direct indicator of kinship.