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Items: 1 to 20 of 64

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.

A simple strategy for recovering ultraconserved elements, exons, and introns from low coverage shotgun sequencing of museum specimens: Placement of the partridge genus Tropicoperdix within the galliformes.

Chen, Braun EL, Forthman M, Kimball RT, Zhang Z.

Mol Phylogenet Evol. 2018 Dec;129:304-314. doi: 10.1016/j.ympev.2018.09.005. Epub 2018 Sep 7.

PMID:
30201427
4.

An evolutionary model motivated by physicochemical properties of amino acids reveals variation among proteins.

Braun EL.

Bioinformatics. 2018 Jul 1;34(13):i350-i356. doi: 10.1093/bioinformatics/bty261.

5.

Comparative Genomics Reveals a Burst of Homoplasy-Free Numt Insertions.

Liang B, Wang N, Li N, Kimball RT, Braun EL.

Mol Biol Evol. 2018 Aug 1;35(8):2060-2064. doi: 10.1093/molbev/msy112.

PMID:
29860531
6.

Mitochondrial genome diversity and population structure of two western honey bee subspecies in the Republic of South Africa.

Eimanifar A, Kimball RT, Braun EL, Ellis JD.

Sci Rep. 2018 Jan 22;8(1):1333. doi: 10.1038/s41598-018-19759-3.

7.

Phylogenomic analysis supports multiple instances of polyphyly in the oomycete peronosporalean lineage.

Ascunce MS, Huguet-Tapia JC, Ortiz-Urquiza A, Keyhani NO, Braun EL, Goss EM.

Mol Phylogenet Evol. 2017 Sep;114:199-211. doi: 10.1016/j.ympev.2017.06.013. Epub 2017 Jun 20.

PMID:
28645766
8.

How do seemingly non-vagile clades accomplish trans-marine dispersal? Trait and dispersal evolution in the landfowl (Aves: Galliformes).

Hosner PA, Tobias JA, Braun EL, Kimball RT.

Proc Biol Sci. 2017 May 17;284(1854). pii: 20170210. doi: 10.1098/rspb.2017.0210.

9.

Evolution of the 3R-MYB Gene Family in Plants.

Feng G, Burleigh JG, Braun EL, Mei W, Barbazuk WB.

Genome Biol Evol. 2017 Apr 20. doi: 10.1093/gbe/evx056. [Epub ahead of print]

10.

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
11.

Historical relationships of three enigmatic phasianid genera (Aves: Galliformes) inferred using phylogenomic and mitogenomic data.

Wang N, Hosner PA, Liang B, Braun EL, Kimball RT.

Mol Phylogenet Evol. 2017 Apr;109:217-225. doi: 10.1016/j.ympev.2017.01.006. Epub 2017 Jan 11.

PMID:
28088402
12.
13.

Expansion of Signal Transduction Pathways in Fungi by Extensive Genome Duplication.

Corrochano LM, Kuo A, Marcet-Houben M, Polaino S, Salamov A, Villalobos-Escobedo JM, Grimwood J, Álvarez MI, Avalos J, Bauer D, Benito EP, Benoit I, Burger G, Camino LP, Cánovas D, Cerdá-Olmedo E, Cheng JF, Domínguez A, Eliáš M, Eslava AP, Glaser F, Gutiérrez G, Heitman J, Henrissat B, Iturriaga EA, Lang BF, Lavín JL, Lee SC, Li W, Lindquist E, López-García S, Luque EM, Marcos AT, Martin J, McCluskey K, Medina HR, Miralles-Durán A, Miyazaki A, Muñoz-Torres E, Oguiza JA, Ohm RA, Olmedo M, Orejas M, Ortiz-Castellanos L, Pisabarro AG, Rodríguez-Romero J, Ruiz-Herrera J, Ruiz-Vázquez R, Sanz C, Schackwitz W, Shahriari M, Shelest E, Silva-Franco F, Soanes D, Syed K, Tagua VG, Talbot NJ, Thon MR, Tice H, de Vries RP, Wiebenga A, Yadav JS, Braun EL, Baker SE, Garre V, Schmutz J, Horwitz BA, Torres-Martínez S, Idnurm A, Herrera-Estrella A, Gabaldón T, Grigoriev IV.

Curr Biol. 2016 Jun 20;26(12):1577-1584. doi: 10.1016/j.cub.2016.04.038. Epub 2016 May 26.

14.

Whole genome sequence of the emerging oomycete pathogen Pythium insidiosum strain CDC-B5653 isolated from an infected human in the USA.

Ascunce MS, Huguet-Tapia JC, Braun EL, Ortiz-Urquiza A, Keyhani NO, Goss EM.

Genom Data. 2015 Nov 23;7:60-1. doi: 10.1016/j.gdata.2015.11.019. eCollection 2016 Mar.

15.

Sorting out relationships among the grouse and ptarmigan using intron, mitochondrial, and ultra-conserved element sequences.

Persons NW, Hosner PA, Meiklejohn KA, Braun EL, Kimball RT.

Mol Phylogenet Evol. 2016 May;98:123-32. doi: 10.1016/j.ympev.2016.02.003. Epub 2016 Feb 12.

PMID:
26879712
16.

Analysis of a Rapid Evolutionary Radiation Using Ultraconserved Elements: Evidence for a Bias in Some Multispecies Coalescent Methods.

Meiklejohn KA, Faircloth BC, Glenn TC, Kimball RT, Braun EL.

Syst Biol. 2016 Jul;65(4):612-27. doi: 10.1093/sysbio/syw014. Epub 2016 Feb 10.

PMID:
26865273
17.

Avoiding Missing Data Biases in Phylogenomic Inference: An Empirical Study in the Landfowl (Aves: Galliformes).

Hosner PA, Faircloth BC, Glenn TC, Braun EL, Kimball RT.

Mol Biol Evol. 2016 Apr;33(4):1110-25. doi: 10.1093/molbev/msv347. Epub 2015 Dec 29.

PMID:
26715628
18.

Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds".

Cracraft J, Houde P, Ho SY, Mindell DP, Fjeldså J, Lindow B, Edwards SV, Rahbek C, Mirarab S, Warnow T, Gilbert MT, Zhang G, Braun EL, Jarvis ED.

Science. 2015 Sep 25;349(6255):1460. doi: 10.1126/science.aab1578.

PMID:
26404820
19.

Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity.

Pope WH, Bowman CA, Russell DA, Jacobs-Sera D, Asai DJ, Cresawn SG, Jacobs WR, Hendrix RW, Lawrence JG, Hatfull GF; Science Education Alliance Phage Hunters Advancing Genomics and Evolutionary Science; Phage Hunters Integrating Research and Education; Mycobacterial Genetics Course.

Elife. 2015 Apr 28;4:e06416. doi: 10.7554/eLife.06416.

20.

Phylogenomic analyses data of the avian phylogenomics project.

Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SY, Faircloth BC, Nabholz B, Howard JT, Suh A, Weber CC, da Fonseca RR, Alfaro-Núñez A, Narula N, Liu L, Burt D, Ellegren H, Edwards SV, Stamatakis A, Mindell DP, Cracraft J, Braun EL, Warnow T, Jun W, Gilbert MT, Zhang G; Avian Phylogenomics Consortium.

Gigascience. 2015 Feb 12;4:4. doi: 10.1186/s13742-014-0038-1. eCollection 2015.

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