Cited by 928Evolution and Paleontology StudiesPaleontology and Evolutionary BiologyGenomics and Phylogenetic Studies

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A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing

Prum, Richard O., Berv, Jacob S., Dornburg, Alex, Field, Daniel J., Townsend, Jeffrey P., Lemmon, Emily Moriarty, Lemmon, Alan R.·2016·Nature

DOI 10.1038/nature19417

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The neighbor-joining method: a new method for reconstructing phylogenetic trees.
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Wang, Z., Zhang, J., Xu, X., Witt, C. C., Deng, Y., Chen, G., Meng, G., Feng, S., Székely, T., Zhang, G., et al. (2019) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/750109 · Cited by 5
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Booker, W. W., Gerhardt, H. C., Lemmon, A. R., Ptacek, M. B., Hassinger, A. T. B., Schul, J., & Lemmon, E. M. (2020) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2020.11.25.398461 · Cited by 5
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Nebreda, S. M., Fernández, M. H., & Marugán‐Lobón, J. (2021) · Journal of Iberian Geology · doi:10.1007/s41513-021-00170-3 · Cited by 4
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Probabilistic Species Tree Distances: Implementing the Multispecies Coalescent to Compare Species Trees Within the Same Model-Based Framework Used to Estimate Them
Adams, R. H. J., & Castoe, T. A. (2019) · Systematic Biology · doi:10.1093/sysbio/syz031 · Cited by 4
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“Introduction New World vultures (Cathartidae) are a monophyletic group that diverged from other bird species 55 million years ago [1].”
Background
Exploring potentialities of avian genomic research in Nepalese Himalayas
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Morphological phylogenetic conflict in the parasitic mite family Harpirhynchidae (Acariformes: Cheyletoidea) correlates with host associations
Bochkov, A. V., Klimov, P. B., & Skoracki, M. (2017) · Zoologischer Anzeiger · doi:10.1016/j.jcz.2017.11.007 · Cited by 4
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Result
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Growth Patterns and Developmental Strategy in the Black-Bellied SandgrousePterocles orientalis
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Background
Banding cytogenetics of the vulnerable species Houbara bustard (Otidiformes) and comparative analysis with the Domestic fowl
Mahiddine-Aoudjit, L., Boucekkine, O., & Ladjali-Mohammedi, K. (2019) · Comparative Cytogenetics · doi:10.3897/compcytogen.v13i1.30660 · Cited by 3
A Bird’s-eye View of Glycan Diversity
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Welte, S. C., & Miller, E. A. (2019) · doi:10.1002/9781119036708.ch16 · Cited by 3
Mitochondrial substitution rates estimation for molecular clock analyses in modern birds based on full mitochondrial genomesPreprint
Arcones, Á., Ponti, R., & Vieites, D. R. (2019) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/855833 · Cited by 3
“To minimize this problem, we constrained the tree topology by grouping species’ sequences into their corresponding orders, as well as the phylogenetic relationships between orders based on the results from Prum et al. (2015).”
Method
The Multispecies Coalescent Model Outperforms Concatenation across Diverse Phylogenomic Data SetsPreprint
Jian, X., Edwards, S. V., & Liu, L. (2019) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/860809 · Cited by 3
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Morris, J. G., & Parsons, J. J. (2023) · Animals · doi:10.3390/ani13233656 · Cited by 2
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Barino, G. T. M., Dias, R. J. P., & Graciolli, G. (2021) · Revista Brasileira de Parasitologia Veterinária/Brazilian Journal of Veterinary Parasitology · doi:10.1590/s1984-296120201082 · Cited by 2
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Nagy, J. (2017) · Ornis Hungarica · doi:10.1515/orhu-2017-0011 · Cited by 3
“This is fairly similar to previous (Ericson et al. 2003, Barker et al. 2004, Hackett et al. 2008) and more recent (Claramunt & Cracraft 2015, Prum et al. 2015, Moyle et al. 2016, Päckert et al. 2016) results indicating that true finches constitute one of the youngest evolutionary lineages in…”
Result
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Jing, M., Yang, H., Li, K., & Huang, L. (2020) · Genetics and Molecular Biology · doi:10.1590/1678-4685-gmb-2019-0392 · Cited by 2
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Phylogenetic and evolutionary revision of some pheasants of northern Pakistan
Ali, I., Khan, A. U., Rehman, T. U., Naseer, M., Khan, S. A., & Khan, H. (2020) · Acta Entomology and Zoology · doi:10.33545/27080013.2020.v1.i1a.4 · Cited by 2
“The cytochrome c oxidase gene I and cytochrome b gene of mitochondrial DNA have been extensively used for the phylogenetic and evolutionary analysis of species (Wink et al., 2009; Pacheco et al., 2011; Xiang et al., 2014; Prum et al., 2015) [35, 28, 36, 30].”
Background
Experimental tests of selection against heterospecific aggression as a driver of avian colour pattern divergence
Kenyon, H. L., & Martin, P. R. (2021) · Journal of Evolutionary Biology · doi:10.1111/jeb.13798 · Cited by 2
“…signal evolution; they have elaborate signals, including both diverse vocalizations and striking colour patterns, and relatively well- understood phylogenetic relationships (Jetz et al., 2012; Prum et al., 2015) and distributions (Billerman et al., 2020; BirdLife International & NatureServe, 2011).”
Background
A Bird’s-eye View of Glycan Diversity
Suzuki, N. (2020) · Trends in Glycoscience and Glycotechnology · doi:10.4052/tigg.1843.1j · Cited by 2
Bird Evolution: Convergence Fits the Bill
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Self-citation
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Skujina, I., Healey, A. J. E., de Becquevort, S., Shaw, P. W., McMahon, R., Morgan, C. M., Evans, C., Taylor, R. C., Hegarty, M., & McKeown, N. J. (2019) · Mitochondrial DNA Part B · doi:10.1080/23802359.2019.1644225 · Cited by 2
Mass estimation of extinct taxa and phylogenetic hypotheses both influence analyses of character evolution in a large clade of birds (Telluraves)
Crouch, N. M. A., & Mason‐Gamer, R. J. (2019) · Proceedings of the Royal Society B Biological Sciences · doi:10.1098/rspb.2019.1745 · Cited by 1
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Evolution of Endothermy and Torpor
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Whole genome duplication potentiates inter-specific hybridisation and niche shifts in Australian burrowing frogs NeobatrachusPreprint
Novikova, P. Y., Brennan, I. G., Booker, W. W., Mahony, M. J., Doughty, P., Lemmon, A. R., Lemmon, E. M., Yant, L. J., de Peer, Y. V., Keogh, J. S., et al. (2019) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/593699 · Cited by 2
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Protein evolution is structure dependent and non-homogeneous across the tree of lifePreprint
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“Empirical application to bird phylogeny There were numerous conflicts between the coalescent and concatenation topologies inferred for the bird dataset, which was concordant with conflict reported among studies (e.g., major conflicts between Jarvis et al. (2014) and Prum et al. (2015)).”
BackgroundMethodResult
Evolution of myoglobin in avian lineages: positive selection for aggregation resistance in penguins and high purifying selection in galliformsPreprint
Rizvi, S. M., Zheng, W. H., Zhang, C., & Zhang, Y. (2021) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2021.02.26.433090 · Cited by 1
“Evolutionary relationships between the bird orders in this study (figure 3) were extracted from an established comprehensive phylogeny construction of birds based on 259 nuclear loci and >390,000 bases of genomic sequence data from each of 198 avian species, highly supported by bayesian and maximum likelihood analyses…”
Method
Threatened Flamingos: Conservation to Keep the Firebird From Being Extinguished
Rose, P. E. (2021) · Elsevier eBooks · doi:10.1016/b978-0-12-821139-7.00051-9 · Cited by 1
El ordenamiento jurídico andaluz
Robledo, A. R. (1991) · Dialnet (Universidad de la Rioja) · Cited by 1
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What This Book Is About
Williams, D. M., & Ebach, M. C. (2020) · Cambridge University Press eBooks · doi:10.1017/9781139047678.004
Construction and Analysis of theAvian Phylogenetic Tree
张, 永. (2017) · Hans Journal of Computational Biology · doi:10.12677/hjcb.2017.71001
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The roles of diet, speciation and extinction on the diversification of birds, and on the assembly of frugivory networks
Ferreira, G. B. (2018) · Digital Library of Theses and Dissertations (Universidade de São Paulo) · doi:10.11606/t.41.2018.tde-22012018-105557
Peer Review #1 of "Population diversity and relatedness in Sugarbirds (Promeropidae: Promerops spp.) (v0.1)"
(2018) · PeerJ · doi:10.7287/peerj.5000v0.1/reviews/1
Peer Review #3 of "Cancellous bone and theropod dinosaur locomotion. Part I—an examination of cancellous bone architecture in the hindlimb bones of theropods (v0.1)"
(2018) · PeerJ · doi:10.7287/peerj.5778v0.1/reviews/3
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“A novidade em nosso trabalho está relacionada na distância filogenética entre doador e receptor, sendo espécies de diferentes famílias que divergiram a aproximadamente 40 milhões de anos (Prum et al., 2015).”
Background
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Authors: Prum, R. O., Berv, J. S., Dornburg, A., Field, D. J., Townsend, J. P., Lemmon, E. M., & Lemmon, A. R.
Affiliations: Yale University (US)
ORCID: Prum, Richard O.
Berv, Jacob S.
Dornburg, Alex
Field, Daniel J.
Townsend, Jeffrey P.
Lemmon, Emily Moriarty
Lemmon, Alan R.
Venue: Nature
Publisher: Springer Science and Business Media LLC
Published: 2016-06
Volume: 534
Issue: 7607
Pages: S7-S8
ISSN: 0028-0836 (ISSN-L)
1476-4687
DOI: 10.1038/nature19417
OpenAlex: W4231969088
Cited by: 928
References: 7
Citations by year: 2026: 1 · 2025: 4 · 2024: 6 · 2023: 13 · 2022: 10 · 2021: 152 · 2020: 170 · 2019: 159 · 2018: 147 · 2017: 164 · 2016: 94
FWCI: 156.34
Type: journal article
Language: en
Open access: closed
Licence: www.springer.com/tdm (tdm)
Locations: Nature (publishedVersion)
Topics: Physical Sciences › Earth and Planetary Sciences › Paleontology › Evolution and Paleontology Studies
Physical Sciences › Earth and Planetary Sciences › Paleontology › Paleontology and Evolutionary Biology
Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Keywords: avian phylogeny, Neoaves, anchored hybrid enrichment, nuclear loci, avian evolution, hoatzin, waterbirds, landbirds, divergence time estimation, dinosaur systematics

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A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing

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