Barker F.K. Barker F.K. 2014-08-22 Molecular Phylogenetics and Evolution mitogenome; Passeriformes; non-stationary; base composition; RY coding Mitogenomic data resolve basal relationships among passeriform and passeridan birds Barker F.K. 2014. Mitogenomic data resolve basal relationships among passeriform and passeridan birds. Molecular Phylogenetics and Evolution, . pythonVersion 2.7.9 pythonImplementation CPython false Birds false ^dc:contributor ^dc:creator ^dc:date ^dc:publisher ^dc:subject ^dc:title ^dcterms:bibliographicCitation ^ot:comment ^prism:creationDate ^prism:modificationDate ^prism:publicationDate ^prism:publicationName ^prism:section ^skos:changeNote ^skos:historyNote ^tb:identifier.study ^tb:title.study highestMintedElementIDs @label ^skos:historyNote ^skos:prefLabel ^skos:prefLabel ^skos:prefLabel @label Tl1586679 Tl1586725 Tl1586687 Tl1586709 Tl1586716 Tl1586718 ^skos:historyNote ^ot:isTaxonExemplar ^ot:isTaxonExemplar ^ot:isTaxonExemplar ^ot:isTaxonExemplar ^ot:nodeLabelMode ^ot:nodeLabelTimeUnit ^ot:reasonsToExcludeFromSynthesis ^tb:kind.tree ^tb:ntax.tree ^tb:quality.tree ^tb:type.tree ^ot:ottId Tr77157 Joseph W. Brown James Waterford Emily Jane McTavish 1041547 Passeriformes ot_412 Barker, F.K. 2014. Mitogenomic data resolve basal relationships among passeriform and passeridan birds. Molecular Phylogenetics and Evolution 79: 313-324. 2014 2014-05-30 2014-08-22 2014 Molecular Phylogenetics and Evolution Study Generated on Wed Sep 02 14:19:05 EDT 2015 Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlDocumentWriter@76919f87 $Rev: 1060 $ 15907 Mitogenomic data resolve basal relationships among passeriform and passeridan birds Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlOTUWriter@7e92915f $Rev: 1040 $ Cyanopica cyanus NC 015824 636378 Cyanopica cyanus Corvus frugilegus NC 002069 219955 Corvus frugilegus Sturnus nigricollis NC 020423 366471 Sturnus nigricollis Pycnonotus taivanus NC 013483 817372 Pycnonotus taivanus Notiomystis cincta 1097188 Notiomystis cincta Pycnonotus sinensis NC 013838 92679 Pycnonotus sinensis Gymnomystax mexicanus JX516075 264482 Gymnomystax mexicanus Chrysomus xanthophthalmus JX516059 125474 Chrysomus xanthophthalmus Oreomystis mana 298768 Oreomystis mana Hemignathus virens wilsoni 324561 Hemignathus virens wilsoni Molothrus badius JX516074 992776 Molothrus badius Bombycilla cedrorum 606625 Bombycilla cedrorum Chrysomus thilius JX516069 305330 Chrysomus thilius Chrysomus ruficapillus JX516056 994343 Chrysomus ruficapillus Hyliota flavigaster 3599747 Hyliota flavigaster Epthianura albifrons NC 019664 1053664 Epthianura albifrons Coccothraustes coccothraustes 1083711 Coccothraustes coccothraustes Emberiza chrysophrys NC 015233 846941 Emberiza chrysophrys Loxops caeruleirostris 1089641 Loxops caeruleirostris Cyanoptila cyanomelana NC 015232 92668 Cyanoptila cyanomelana Hemignathus stejnegeri 706153 Hemignathus stejnegeri Acridotheres cristatellus NC 015613 405018 Acridotheres cristatellus Icterus mesomelas JX516068 788027 Icterus mesomelas Oreopsar bolivianus JX516058 939939 Oreopsar bolivianus Acanthisitta chloris AY325307 1085740 Acanthisitta chloris Carpodacus cassinii 664801 Carpodacus cassinii Leiothrix argentauris NC 015114 451623 Leiothrix argentauris Menura novaehollandiae NC 007883 531206 Menura novaehollandiae Xanthopsar flavus JX516065 698643 Xanthopsar flavus Tachycineta euchrysea NC 020598 621794 Tachycineta euchrysea Eopsaltria australis NC 019665 465916 Eopsaltria australis Carduelis psaltria 957575 Carduelis psaltria Ficedula zanthopygia NC 015802 547548 Ficedula zanthopygia Cardinalis cardinalis 307364 Cardinalis cardinalis Malurus melanocephalus 959440 Malurus melanocephalus Passer domesticus 745175 Passer domesticus Gracula religiosa NC 015898 80418 Gracula religiosa Petroica goodenovii NC 019667 247355 Petroica goodenovii Vireo olivaceus 604019 Vireo olivaceus Pyrrhula pyrrhula 1083726 Pyrrhula pyrrhula Sturnus sericeus NC 014455 661325 Sturnus sericeus Oriolus chinensis NC 020424 1098618 Oriolus chinensis Serinus serinus 1083724 Serinus serinus Hemignathus flavus 324558 Hemignathus flavus Pica pica NC 015200 776471 Pica pica Pica pica Cnemotriccus fuscatus NC 007975 1044511 Cnemotriccus fuscatus Dives dives JX516061 388540 Dives dives Serinus albogularis 238143 Serinus albogularis Molothrus aeneus JX516067 213448 Molothrus aeneus Nucifraga columbiana KF509923 425442 Nucifraga columbiana Petroica phoenicea NC 019668 172677 Petroica phoenicea Oedistoma iliolophum 176464 Oedistoma iliolophum Sturnus tristis NC 015195 80701 Acridotheres tristis Luscinia calliope NC 015074 94170 Luscinia calliope Loxia curvirostra 298778 Loxia curvirostra Curaeus curaeus JX516070 858278 Curaeus curaeus Petroica boodang NC 019666 172679 Petroica boodang Uragus sibiricus 253382 Uragus sibiricus Turdus migratorius 96291 Turdus migratorius Lepidothrix coronata 49248 Lepidothrix coronata Paroreomyza montana 823298 Paroreomyza montana Scytalopus magellanicus 44861 Scytalopus magellanicus Serinus canaria 464865 Serinus canaria Podoces hendersoni NC 014879 1019681 Podoces hendersoni Sturnus cineraceus NC 015237 499641 Sturnus cineraceus Pseudoleistes guirahuro JX516071 939946 Pseudoleistes guirahuro Alauda arvensis NC 020425 312548 Alauda arvensis Leiothrix lutea NC 020427 965458 Leiothrix lutea Tachycineta leucorrhoa NC 020603 621803 Tachycineta leucorrhoa Leucosticte arctoa 178457 Leucosticte arctoa Urocissa erythrorhyncha NC 020426 662800 Urocissa erythrorhyncha Euphagus cyanocephalus JX516072 264500 Euphagus cyanocephalus Pinicola enucleator 341471 Pinicola enucleator Sylvia crassirostris NC 010229 274520 Sylvia crassirostris Vestiaria coccinea 823302 Vestiaria coccinea Really odd placement Poecile atricapilla Magumma parva 3597443 Magumma parva Lanius tephronotus JX486029 143573 Lanius tephronotus Chrysomus cyanopus JX516076 305322 Chrysomus cyanopus Macroagelaius imthurni JX516073 213445 Macroagelaius imthurni Chrysomus icterocephalus JX516060 608729 Chrysomus icterocephalus Pseudoleistes virescens JX516066 364339 Pseudoleistes virescens Garrulax canorus NC 020429 635111 Garrulax canorus Agelaius phoeniceus JX516062 226605 Agelaius phoeniceus Taeniopygia guttata NC 007897 708327 Taeniopygia guttata Acrocephalus scirpaceus NC 010227 726310 Acrocephalus scirpaceus Tachycineta bicolor NC 020596 136028 Tachycineta bicolor Gnorimopsar chopi JX516055 839100 Gnorimopsar chopi Sylvia atricapilla NC 010228 726312 Sylvia atricapilla Pseudonestor xanthophrys 823300 Pseudonestor xanthophrys Tachycineta albilinea NC 020601 621797 Tachycineta albilinea Picathartes gymnocephalus 699623 Picathartes gymnocephalus Nesopsar nigerrimus JX516054 213454 Nesopsar nigerrimus Campylorhynchus zonatus KF509924 720622 Campylorhynchus zonatus Fringilla coelebs 828694 Fringilla coelebs Vidua chalybeata NC 000880 622887 Vidua chalybeata Hemignathus virens 157610 Hemignathus virens Thamnophilus nigrocinereus 413004 Thamnophilus nigrocinereus Regulus calendula 3599890 Regulus calendula Himatione sanguinea 298780 Himatione sanguinea Smithornis sharpei NC 000879 50165 Smithornis sharpei Carpodacus mexicanus 711865 Carpodacus mexicanus Leucosticte brandti 995755 Leucosticte brandti Melamprosops phaeosoma 221515 Melamprosops phaeosoma Lampropsar tanagrinus JX516057 839106 Lampropsar tanagrinus Agelaius phoeniceus 226605 Agelaius phoeniceus Tregellasia leucops 699631 Tregellasia leucops Carduelis pinus 559264 Carduelis pinus Thraupis episcopus 817632 Thraupis episcopus Carpodacus roseus 815419 Carpodacus roseus Tachycineta albiventer NC 020602 621796 Tachycineta albiventer Sitta carolinensis 82247 Sitta carolinensis Carduelis sinica NC 015196 28346 Carduelis sinica Amblyramphus holosericeus JX516063 264487 Amblyramphus holosericeus Carduelis sinica 28346 Carduelis sinica Carpodacus erythrinus 815418 Carpodacus erythrinus Bucanetes mongolicus 235463 Eremopsaltria mongolica Eremopsaltria mongolica Tachycineta stolzmanni NC 020600 621798 Tachycineta stolzmanni Carduelis spinus NC 015198 167338 Carduelis spinus Emberiza tristrami NC 015234 441576 Emberiza tristrami Garrulus glandarius NC 015810 140432 Garrulus glandarius DO NOT MAP issues discussed in paper Pseudopodoces humilis NC 014341 Oreomystis bairdi 298769 Oreomystis bairdi Chlorophanes spiza 244603 Chlorophanes spiza Coccothraustes vespertinus 518149 Hesperiphona vespertina Hesperiphona vespertina Mapped from TreeBASE schema using org.cipres.treebase.domain.nexus.nexml.NexmlTreeBlockWriter@52aab9e $Rev: 1040 $ ot:substitutionCount Myr Maximum likelihood Tn12024378 Tn12024378 false Species Tree 125 Unrated Single true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true true false true true true true true true true true true true true true true true true true true true true true true true true true true true true false true true true true true true true true true true true true true true true true true true true true true true true true true true true true 0 0 32639 0 0 0 0 0 0