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Items: 1 to 20 of 21

1.

Earth history and the passerine superradiation.

Oliveros CH, Field DJ, Ksepka DT, Barker FK, Aleixo A, Andersen MJ, Alström P, Benz BW, Braun EL, Braun MJ, Bravo GA, Brumfield RT, Chesser RT, Claramunt S, Cracraft J, Cuervo AM, Derryberry EP, Glenn TC, Harvey MG, Hosner PA, Joseph L, Kimball RT, Mack AL, Miskelly CM, Peterson AT, Robbins MB, Sheldon FH, Silveira LF, Smith BT, White ND, Moyle RG, Faircloth BC.

Proc Natl Acad Sci U S A. 2019 Apr 16;116(16):7916-7925. doi: 10.1073/pnas.1813206116. Epub 2019 Apr 1.

2.

What are the roles of taxon sampling and model fit in tests of cyto-nuclear discordance using avian mitogenomic data?

Tamashiro RA, White ND, Braun MJ, Faircloth BC, Braun EL, Kimball RT.

Mol Phylogenet Evol. 2019 Jan;130:132-142. doi: 10.1016/j.ympev.2018.10.008. Epub 2018 Oct 12.

PMID:
30321694
3.

How to deal with ground truthing affected by human-induced habitat change?: Identifying high-quality habitats for the Critically Endangered Red Siskin.

Sánchez-Mercado A, Rodríguez-Clark KM, Miranda J, Ferrer-Paris JR, Coyle B, Toro S, Cardozo-Urdaneta A, Braun MJ.

Ecol Evol. 2017 Dec 10;8(2):841-851. doi: 10.1002/ece3.3628. eCollection 2018 Jan.

4.

Why Do Phylogenomic Data Sets Yield Conflicting Trees? Data Type Influences the Avian Tree of Life more than Taxon Sampling.

Reddy S, Kimball RT, Pandey A, Hosner PA, Braun MJ, Hackett SJ, Han KL, Harshman J, Huddleston CJ, Kingston S, Marks BD, Miglia KJ, Moore WS, Sheldon FH, Witt CC, Yuri T, Braun EL.

Syst Biol. 2017 Sep 1;66(5):857-879. doi: 10.1093/sysbio/syx041.

PMID:
28369655
5.

High-throughput SNP genotyping of historical and modern samples of five bird species via sequence capture of ultraconserved elements.

Lim HC, Braun MJ.

Mol Ecol Resour. 2016 Sep;16(5):1204-23. doi: 10.1111/1755-0998.12568. Epub 2016 Aug 8.

PMID:
27427784
6.

Parsimony and model-based analyses of indels in avian nuclear genes reveal congruent and incongruent phylogenetic signals.

Yuri T, Kimball RT, Harshman J, Bowie RC, Braun MJ, Chojnowski JL, Han KL, Hackett SJ, Huddleston CJ, Moore WS, Reddy S, Sheldon FH, Steadman DW, Witt CC, Braun EL.

Biology (Basel). 2013 Mar 13;2(1):419-44. doi: 10.3390/biology2010419.

7.

Genomic variation in cline shape across a hybrid zone.

Kingston SE, Jernigan RW, Fagan WF, Braun D, Braun MJ.

Ecol Evol. 2012 Nov;2(11):2737-48. doi: 10.1002/ece3.375. Epub 2012 Oct 1.

8.

Homoplastic microinversions and the avian tree of life.

Braun EL, Kimball RT, Han KL, Iuhasz-Velez NR, Bonilla AJ, Chojnowski JL, Smith JV, Bowie RC, Braun MJ, Hackett SJ, Harshman J, Huddleston CJ, Marks BD, Miglia KJ, Moore WS, Reddy S, Sheldon FH, Witt CC, Yuri T.

BMC Evol Biol. 2011 May 25;11:141. doi: 10.1186/1471-2148-11-141.

9.

Are transposable element insertions homoplasy free?: an examination using the avian tree of life.

Han KL, Braun EL, Kimball RT, Reddy S, Bowie RC, Braun MJ, Chojnowski JL, Hackett SJ, Harshman J, Huddleston CJ, Marks BD, Miglia KJ, Moore WS, Sheldon FH, Steadman DW, Witt CC, Yuri T.

Syst Biol. 2011 May;60(3):375-86. doi: 10.1093/sysbio/syq100. Epub 2011 Feb 8. No abstract available.

PMID:
21303823
10.

The relationship of metabolic performance and distribution in black-capped and Carolina chickadees.

Olson JR, Cooper SJ, Swanson DL, Braun MJ, Williams JB.

Physiol Biochem Zool. 2010 Mar-Apr;83(2):263-75. doi: 10.1086/648395.

PMID:
20151817
11.

A multi-gene estimate of phylogeny in the nightjars and nighthawks (Caprimulgidae).

Han KL, Robbins MB, Braun MJ.

Mol Phylogenet Evol. 2010 May;55(2):443-53. doi: 10.1016/j.ympev.2010.01.023. Epub 2010 Feb 1.

PMID:
20123032
12.

The effect of marker choice on estimated levels of introgression across an avian (Pipridae: Manacus) hybrid zone.

Yuri T, Jernigan RW, Brumfield RT, Bhagabati NK, Braun MJ.

Mol Ecol. 2009 Dec;18(23):4888-903. doi: 10.1111/j.1365-294X.2009.04381.x. Epub 2009 Oct 27.

PMID:
19863717
13.

A molecular phylogenetic survey of caprimulgiform nightbirds illustrates the utility of non-coding sequences.

Braun MJ, Huddleston CJ.

Mol Phylogenet Evol. 2009 Dec;53(3):948-60. doi: 10.1016/j.ympev.2009.08.025. Epub 2009 Aug 29.

PMID:
19720151
14.

Microsatellite loci characterized in three African crane species (Gruidae, Aves).

Meares K, Dawson DA, Horsburgh GJ, Glenn TC, Jones KL, Braun MJ, Perrin MR, Taylor TD.

Mol Ecol Resour. 2009 Jan;9(1):308-11. doi: 10.1111/j.1755-0998.2008.02440.x. Epub 2008 Nov 10.

PMID:
21564635
15.

A well-tested set of primers to amplify regions spread across the avian genome.

Kimball RT, Braun EL, Barker FK, Bowie RC, Braun MJ, Chojnowski JL, Hackett SJ, Han KL, Harshman J, Heimer-Torres V, Holznagel W, Huddleston CJ, Marks BD, Miglia KJ, Moore WS, Reddy S, Sheldon FH, Smith JV, Witt CC, Yuri T.

Mol Phylogenet Evol. 2009 Mar;50(3):654-60. doi: 10.1016/j.ympev.2008.11.018. Epub 2008 Dec 6. No abstract available.

PMID:
19084073
16.

Phylogenomic evidence for multiple losses of flight in ratite birds.

Harshman J, Braun EL, Braun MJ, Huddleston CJ, Bowie RC, Chojnowski JL, Hackett SJ, Han KL, Kimball RT, Marks BD, Miglia KJ, Moore WS, Reddy S, Sheldon FH, Steadman DW, Steppan SJ, Witt CC, Yuri T.

Proc Natl Acad Sci U S A. 2008 Sep 9;105(36):13462-7. doi: 10.1073/pnas.0803242105. Epub 2008 Sep 2.

17.

A phylogenomic study of birds reveals their evolutionary history.

Hackett SJ, Kimball RT, Reddy S, Bowie RC, Braun EL, Braun MJ, Chojnowski JL, Cox WA, Han KL, Harshman J, Huddleston CJ, Marks BD, Miglia KJ, Moore WS, Sheldon FH, Steadman DW, Witt CC, Yuri T.

Science. 2008 Jun 27;320(5884):1763-8. doi: 10.1126/science.1157704.

18.

Duplication of accelerated evolution and growth hormone gene in passerine birds.

Yuri T, Kimball RT, Braun EL, Braun MJ.

Mol Biol Evol. 2008 Feb;25(2):352-61. Epub 2007 Nov 28.

PMID:
18048401
19.

A multi-gene phylogeny of aquiline eagles (Aves: Accipitriformes) reveals extensive paraphyly at the genus level.

Helbig AJ, Kocum A, Seibold I, Braun MJ.

Mol Phylogenet Evol. 2005 Apr;35(1):147-64. Epub 2004 Dec 24.

PMID:
15737588
20.

True and false gharials: a nuclear gene phylogeny of crocodylia.

Harshman J, Huddleston CJ, Bollback JP, Parsons TJ, Braun MJ.

Syst Biol. 2003 Jun;52(3):386-402.

PMID:
12775527

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