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Items: 32

1.

Hidden state models improve state-dependent diversification approaches, including biogeographical models.

Caetano DS, O'Meara BC, Beaulieu JM.

Evolution. 2018 Sep 18. doi: 10.1111/evo.13602. [Epub ahead of print]

PMID:
30226270
2.

AnnotationBustR: an R package to extract subsequences from GenBank annotations.

Borstein SR, O'Meara BC.

PeerJ. 2018 Jul 3;6:e5179. doi: 10.7717/peerj.5179. eCollection 2018.

3.

Can we build it? Yes we can, but should we use it? Assessing the quality and value of a very large phylogeny of campanulid angiosperms.

Beaulieu JM, O'Meara BC.

Am J Bot. 2018 Mar;105(3):417-432. doi: 10.1002/ajb2.1020. Epub 2018 Mar 5.

PMID:
29746717
4.

Objective choice of phylogeographic models.

Carstens BC, Morales AE, Jackson ND, O'Meara BC.

Mol Phylogenet Evol. 2017 Nov;116:136-140. doi: 10.1016/j.ympev.2017.08.018. Epub 2017 Sep 5.

PMID:
28887148
5.

PHRAPL: Phylogeographic Inference Using Approximate Likelihoods.

Jackson ND, Morales AE, Carstens BC, O'Meara BC.

Syst Biol. 2017 Nov 1;66(6):1045-1053. doi: 10.1093/sysbio/syx001.

PMID:
28204782
6.

Species Delimitation with Gene Flow.

Jackson ND, Carstens BC, Morales AE, O'Meara BC.

Syst Biol. 2017 Sep 1;66(5):799-812. doi: 10.1093/sysbio/syw117.

PMID:
28003535
7.

Speciation with Gene Flow in North American Myotis Bats.

Morales AE, Jackson ND, Dewey TA, O'Meara BC, Carstens BC.

Syst Biol. 2017 May 1;66(3):440-452. doi: 10.1093/sysbio/syw100.

PMID:
27821704
8.

Past, future, and present of state-dependent models of diversification.

O'Meara BC, Beaulieu JM.

Am J Bot. 2016 May;103(5):792-5. doi: 10.3732/ajb.1600012. Epub 2016 May 3. No abstract available.

9.

Non-equilibrium dynamics and floral trait interactions shape extant angiosperm diversity.

O'Meara BC, Smith SD, Armbruster WS, Harder LD, Hardy CR, Hileman LC, Hufford L, Litt A, Magallón S, Smith SA, Stevens PF, Fenster CB, Diggle PK.

Proc Biol Sci. 2016 May 11;283(1830). pii: 20152304. doi: 10.1098/rspb.2015.2304.

10.

Detecting Hidden Diversification Shifts in Models of Trait-Dependent Speciation and Extinction.

Beaulieu JM, O'Meara BC.

Syst Biol. 2016 Jul;65(4):583-601. doi: 10.1093/sysbio/syw022. Epub 2016 Mar 25.

PMID:
27016728
11.

Zanne et al. reply.

Zanne AE, Tank DC, Cornwell WK, Eastman JM, Smith SA, FitzJohn RG, McGlinn DJ, O'Meara BC, Moles AT, Reich PB, Royer DL, Soltis DE, Stevens PF, Westoby M, Wright IJ, Aarssen L, Bertin RI, Calaminus A, Govaerts R, Hemmings F, Leishman MR, Oleksyn J, Soltis PS, Swenson NG, Warman L, Beaulieu JM.

Nature. 2015 May 21;521(7552):E6-7. doi: 10.1038/nature14394. No abstract available.

PMID:
25993971
12.

Corrigendum: Three keys to the radiation of angiosperms into freezing environments.

Zanne AE, Tank DC, Cornwell WK, Eastman JM, Smith SA, FitzJohn RG, McGlinn DJ, O'Meara BC, Moles AT, Reich PB, Royer DL, Soltis DE, Stevens PF, Westoby M, Wright IJ, Aarssen L, Bertin RI, Calaminus A, Govaerts R, Hemmings F, Leishman MR, Oleksyn J, Soltis PS, Swenson NG, Warman L, Beaulieu JM.

Nature. 2015 May 21;521(7552):380. doi: 10.1038/nature14371. No abstract available.

PMID:
25993966
13.

Heterogeneous Rates of Molecular Evolution and Diversification Could Explain the Triassic Age Estimate for Angiosperms.

Beaulieu JM, O'Meara BC, Crane P, Donoghue MJ.

Syst Biol. 2015 Sep;64(5):869-78. doi: 10.1093/sysbio/syv027. Epub 2015 May 4.

PMID:
25944476
14.

Extinction can be estimated from moderately sized molecular phylogenies.

Beaulieu JM, O'Meara BC.

Evolution. 2015 Apr;69(4):1036-43. doi: 10.1111/evo.12614. Epub 2015 Feb 27.

PMID:
25639334
15.

Reol: R interface to the Encyclopedia of Life.

Banbury BL, O'Meara BC.

Ecol Evol. 2014 Jun;4(12):2577-83. doi: 10.1002/ece3.1109. Epub 2014 May 26.

16.

Investigating the performance of AIC in selecting phylogenetic models.

Jhwueng DC, Huzurbazar S, O'Meara BC, Liu L.

Stat Appl Genet Mol Biol. 2014 Aug;13(4):459-75. doi: 10.1515/sagmb-2013-0048.

PMID:
24867284
17.

Repeated evolution of tricellular (and bicellular) pollen.

Williams JH, Taylor ML, O'Meara BC.

Am J Bot. 2014 Apr;101(4):559-71. doi: 10.3732/ajb.1300423. Epub 2014 Mar 24.

18.

Three keys to the radiation of angiosperms into freezing environments.

Zanne AE, Tank DC, Cornwell WK, Eastman JM, Smith SA, FitzJohn RG, McGlinn DJ, O'Meara BC, Moles AT, Reich PB, Royer DL, Soltis DE, Stevens PF, Westoby M, Wright IJ, Aarssen L, Bertin RI, Calaminus A, Govaerts R, Hemmings F, Leishman MR, Oleksyn J, Soltis PS, Swenson NG, Warman L, Beaulieu JM.

Nature. 2014 Feb 6;506(7486):89-92. doi: 10.1038/nature12872. Epub 2013 Dec 22. Erratum in: Nature. 2014 Oct 16;514(7522):394. Nature. 2015 May 21;521(7552):380.

PMID:
24362564
19.

Identifying hidden rate changes in the evolution of a binary morphological character: the evolution of plant habit in campanulid angiosperms.

Beaulieu JM, O'Meara BC, Donoghue MJ.

Syst Biol. 2013 Sep;62(5):725-37. doi: 10.1093/sysbio/syt034. Epub 2013 May 14.

PMID:
23676760
20.

Phylogenetic relationships and character evolution analysis of Saxifragales using a supermatrix approach.

Soltis DE, Mort ME, Latvis M, Mavrodiev EV, O'Meara BC, Soltis PS, Burleigh JG, Rubio de Casas R.

Am J Bot. 2013 May;100(5):916-29. doi: 10.3732/ajb.1300044. Epub 2013 Apr 29.

21.

Mitochondrial genome primers for Lake Malawi cichlids.

Darrin Hulsey C, Keck BP, Alamillo H, O'Meara BC.

Mol Ecol Resour. 2013 May;13(3):347-53. doi: 10.1111/1755-0998.12066. Epub 2013 Jan 25.

PMID:
23347464
22.

treePL: divergence time estimation using penalized likelihood for large phylogenies.

Smith SA, O'Meara BC.

Bioinformatics. 2012 Oct 15;28(20):2689-90. doi: 10.1093/bioinformatics/bts492. Epub 2012 Aug 20.

PMID:
22908216
23.

Modeling stabilizing selection: expanding the Ornstein-Uhlenbeck model of adaptive evolution.

Beaulieu JM, Jhwueng DC, Boettiger C, O'Meara BC.

Evolution. 2012 Aug;66(8):2369-83. doi: 10.1111/j.1558-5646.2012.01619.x. Epub 2012 Apr 9.

PMID:
22834738
24.

Developmental evolution of flowering plant pollen tube cell walls: callose synthase (CalS) gene expression patterns.

Abercrombie JM, O'Meara BC, Moffatt AR, Williams JH.

Evodevo. 2011 Jul 1;2(1):14. doi: 10.1186/2041-9139-2-14.

25.

New heuristic methods for joint species delimitation and species tree inference.

O'Meara BC.

Syst Biol. 2010 Jan;59(1):59-73. doi: 10.1093/sysbio/syp077. Epub 2009 Nov 10.

26.

Habitat use affects morphological diversification in dragon lizards.

Collar DC, Schulte JA 2nd, O'Meara BC, Losos JB.

J Evol Biol. 2010 May;23(5):1033-49. doi: 10.1111/j.1420-9101.2010.01971.x. Epub 2010 Mar 24.

27.

Morphogenera, monophyly, and macroevolution.

Smith SA, O'Meara BC.

Proc Natl Acad Sci U S A. 2009 Sep 8;106(36):E97-8; author reply E99-100. doi: 10.1073/pnas.0906918106. Epub 2009 Sep 1. No abstract available.

28.

Piscivory limits diversification of feeding morphology in centrarchid fishes.

Collar DC, O'Meara BC, Wainwright PC, Near TJ.

Evolution. 2009 Jun;63(6):1557-73. doi: 10.1111/j.1558-5646.2009.00626.x. Epub 2009 Jan 14.

PMID:
19154390
29.

Five Drosophila genomes reveal nonneutral evolution and the signature of host specialization in the chemoreceptor superfamily.

McBride CS, Arguello JR, O'Meara BC.

Genetics. 2007 Nov;177(3):1395-416. Erratum in: Genetics. 2009 Oct;183(2):755.

30.

Testing for different rates of continuous trait evolution using likelihood.

O'Meara BC, Ané C, Sanderson MJ, Wainwright PC.

Evolution. 2006 May;60(5):922-33.

PMID:
16817533
31.

Prospects for building the tree of life from large sequence databases.

Driskell AC, Ané C, Burleigh JG, McMahon MM, O'meara BC, Sanderson MJ.

Science. 2004 Nov 12;306(5699):1172-4.

32.

The evolution of agriculture in beetles (Curculionidae: Scolytinae and Platypodinae).

Farrell BD, Sequeira AS, O'Meara BC, Normark BB, Chung JH, Jordal BH.

Evolution. 2001 Oct;55(10):2011-27.

PMID:
11761062

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