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Items: 1 to 50 of 83

1.

Terrestrial species adapted to sea dispersal: Differences in propagule dispersal of two Caribbean mangroves.

Hodel RGJ, Knowles LL, McDaniel SF, Payton AC, Dunaway JF, Soltis PS, Soltis DE.

Mol Ecol. 2018 Oct 11. doi: 10.1111/mec.14894. [Epub ahead of print]

PMID:
30308703
2.

Microevolutionary processes impact macroevolutionary patterns.

Li J, Huang JP, Sukumaran J, Knowles LL.

BMC Evol Biol. 2018 Aug 10;18(1):123. doi: 10.1186/s12862-018-1236-8.

3.

A matter of phylogenetic scale: Distinguishing incomplete lineage sorting from lateral gene transfer as the cause of gene tree discord in recent versus deep diversification histories.

Knowles LL, Huang H, Sukumaran J, Smith SA.

Am J Bot. 2018 Mar;105(3):376-384. doi: 10.1002/ajb2.1064. Epub 2018 Apr 30.

PMID:
29710372
4.

Trait-Dependent Biogeography: (Re)Integrating Biology into Probabilistic Historical Biogeographical Models.

Sukumaran J, Knowles LL.

Trends Ecol Evol. 2018 Jun;33(6):390-398. doi: 10.1016/j.tree.2018.03.010. Epub 2018 Apr 21. Review.

PMID:
29685579
5.

Linking micro- and macroevolutionary perspectives to evaluate the role of Quaternary sea-level oscillations in island diversification.

Papadopoulou A, Knowles LL.

Evolution. 2017 Dec;71(12):2901-2917. doi: 10.1111/evo.13384. Epub 2017 Nov 16.

PMID:
29076151
6.
7.

Genomic signatures of paleodrainages in a freshwater fish along the southeastern coast of Brazil: genetic structure reflects past riverine properties.

Thomaz AT, Malabarba LR, Knowles LL.

Heredity (Edinb). 2017 Oct;119(4):287-294. doi: 10.1038/hdy.2017.46. Epub 2017 Aug 2.

8.

Multispecies coalescent delimits structure, not species.

Sukumaran J, Knowles LL.

Proc Natl Acad Sci U S A. 2017 Feb 14;114(7):1607-1612. doi: 10.1073/pnas.1607921114. Epub 2017 Jan 30.

9.

Mimics here and there, but not everywhere: Müllerian mimicry in Ceroglossus ground beetles?

Muñoz-Ramírez CP, Bitton PP, Doucet SM, Knowles LL.

Biol Lett. 2016 Sep;12(9). pii: 20160429.

10.

Breaking out of biogeographical modules: range expansion and taxon cycles in the hyperdiverse ant genus Pheidole.

Economo EP, Sarnat EM, Janda M, Clouse R, Klimov PB, Fischer G, Blanchard BD, Ramirez LN, Andersen AN, Berman M, Guénard B, Lucky A, Rabeling C, Wilson EO, Knowles LL.

J Biogeogr. 2015 Dec;42(12):2289-2301. Epub 2015 Sep 1.

12.

Toward a paradigm shift in comparative phylogeography driven by trait-based hypotheses.

Papadopoulou A, Knowles LL.

Proc Natl Acad Sci U S A. 2016 Jul 19;113(29):8018-24. doi: 10.1073/pnas.1601069113.

13.
14.

Glacial refugia, recolonization patterns and diversification forces in Alpine-endemic Megabunus harvestmen.

Wachter GA, Papadopoulou A, Muster C, Arthofer W, Knowles LL, Steiner FM, Schlick-Steiner BC.

Mol Ecol. 2016 Jun;25(12):2904-19. doi: 10.1111/mec.13634. Epub 2016 May 18.

PMID:
27037513
15.
16.

The architecture of river networks can drive the evolutionary dynamics of aquatic populations.

Thomaz AT, Christie MR, Knowles LL.

Evolution. 2016 Mar;70(3):731-9. doi: 10.1111/evo.12883. Epub 2016 Mar 3.

PMID:
26888211
17.

Utilizing RADseq data for phylogenetic analysis of challenging taxonomic groups: A case study in Carex sect. Racemosae.

Massatti R, Reznicek AA, Knowles LL.

Am J Bot. 2016 Feb;103(2):337-47. doi: 10.3732/ajb.1500315. Epub 2016 Feb 5.

18.

The Species versus Subspecies Conundrum: Quantitative Delimitation from Integrating Multiple Data Types within a Single Bayesian Approach in Hercules Beetles.

Huang JP, Knowles LL.

Syst Biol. 2016 Jul;65(4):685-99. doi: 10.1093/sysbio/syv119. Epub 2015 Dec 16.

PMID:
26681696
19.
20.
21.

Colonization from divergent ancestors: glaciation signatures on contemporary patterns of genomic variation in Collared Pikas (Ochotona collaris).

Lanier HC, Massatti R, He Q, Olson LE, Knowles LL.

Mol Ecol. 2015 Jul;24(14):3688-705. doi: 10.1111/mec.13270. Epub 2015 Jul 14.

22.

Habitat corridors facilitate genetic resilience irrespective of species dispersal abilities or population sizes.

Christie MR, Knowles LL.

Evol Appl. 2015 Jun;8(5):454-63. doi: 10.1111/eva.12255. Epub 2015 Mar 31.

23.
24.

Bayesian species delimitation combining multiple genes and traits in a unified framework.

Solís-Lemus C, Knowles LL, Ané C.

Evolution. 2015 Feb;69(2):492-507. doi: 10.1111/evo.12582. Epub 2015 Jan 16.

25.

Applying species-tree analyses to deep phylogenetic histories: challenges and potential suggested from a survey of empirical phylogenetic studies.

Lanier HC, Knowles LL.

Mol Phylogenet Evol. 2015 Feb;83:191-9. doi: 10.1016/j.ympev.2014.10.022. Epub 2014 Nov 4.

PMID:
25450097
26.

Global phylogenetic structure of the hyperdiverse ant genus Pheidole reveals the repeated evolution of macroecological patterns.

Economo EP, Klimov P, Sarnat EM, Guénard B, Weiser MD, Lecroq B, Knowles LL.

Proc Biol Sci. 2015 Jan 7;282(1798):20141416. doi: 10.1098/rspb.2014.1416.

27.
28.

Unforeseen Consequences of Excluding Missing Data from Next-Generation Sequences: Simulation Study of RAD Sequences.

Huang H, Knowles LL.

Syst Biol. 2016 May;65(3):357-65. doi: 10.1093/sysbio/syu046. Epub 2014 Jul 4.

PMID:
24996413
29.

Do estimated and actual species phylogenies match? Evaluation of East African cichlid radiations.

Huang H, Tran LA, Knowles LL.

Mol Phylogenet Evol. 2014 Sep;78:56-65. doi: 10.1016/j.ympev.2014.05.010. Epub 2014 May 15.

PMID:
24837624
30.

Species detection and individual assignment in species delimitation: can integrative data increase efficacy?

Edwards DL, Knowles LL.

Proc Biol Sci. 2014 Jan 8;281(1777):20132765. doi: 10.1098/rspb.2013.2765. Print 2014 Feb 22.

31.

Upstream analyses create problems with DNA-based species delimitation.

Olave M, Solà E, Knowles LL.

Syst Biol. 2014 Mar;63(2):263-71. doi: 10.1093/sysbio/syt106. Epub 2013 Dec 20. No abstract available.

PMID:
24361591
32.

Integrative testing of how environments from the past to the present shape genetic structure across landscapes.

He Q, Edwards DL, Knowles LL.

Evolution. 2013 Dec;67(12):3386-402. doi: 10.1111/evo.12159. Epub 2013 Jun 5.

33.

Ecological niche models in phylogeographic studies: applications, advances and precautions.

Alvarado-Serrano DF, Knowles LL.

Mol Ecol Resour. 2014 Mar;14(2):233-48. doi: 10.1111/1755-0998.12184. Epub 2013 Nov 16.

34.

How low can you go? The effects of mutation rate on the accuracy of species-tree estimation.

Lanier HC, Huang H, Knowles LL.

Mol Phylogenet Evol. 2014 Jan;70:112-9. doi: 10.1016/j.ympev.2013.09.006. Epub 2013 Sep 21.

PMID:
24060367
35.
36.

Effects of missing data on species tree estimation under the coalescent.

Hovmöller R, Knowles LL, Kubatko LS.

Mol Phylogenet Evol. 2013 Dec;69(3):1057-62. doi: 10.1016/j.ympev.2013.06.004. Epub 2013 Jun 13.

PMID:
23769751
37.

Ecological selection as the cause and sexual differentiation as the consequence of species divergence?

Oneal E, Knowles LL.

Proc Biol Sci. 2013 Jan 7;280(1750):20122236. doi: 10.1098/rspb.2012.2236.

38.

Full modeling versus summarizing gene-tree uncertainty: method choice and species-tree accuracy.

Knowles LL, Lanier HC, Klimov PB, He Q.

Mol Phylogenet Evol. 2012 Nov;65(2):501-9. doi: 10.1016/j.ympev.2012.07.004. Epub 2012 Jul 23.

PMID:
22835380
39.

Spatially explicit models of dynamic histories: examination of the genetic consequences of Pleistocene glaciation and recent climate change on the American Pika.

Brown JL, Knowles LL.

Mol Ecol. 2012 Aug;21(15):3757-75. doi: 10.1111/j.1365-294X.2012.05640.x. Epub 2012 Jun 15.

PMID:
22702844
40.

Effects of vicariant barriers, habitat stability, population isolation and environmental features on species divergence in the south-western Australian coastal reptile community.

Edwards DL, Keogh JS, Knowles LL.

Mol Ecol. 2012 Aug;21(15):3809-22. doi: 10.1111/j.1365-294X.2012.05637.x. Epub 2012 May 30.

PMID:
22646317
41.

Is recombination a problem for species-tree analyses?

Lanier HC, Knowles LL.

Syst Biol. 2012 Jul;61(4):691-701. doi: 10.1093/sysbio/syr128. Epub 2012 Jan 2. No abstract available.

PMID:
22215721
42.

Estimating phylogenetic relationships despite discordant gene trees across loci: the species tree of a diverse species group of feather mites (Acari: Proctophyllodidae).

Knowles LL, Klimov PB.

Parasitology. 2011 Nov;138(13):1750-9. doi: 10.1017/S003118201100031X. Epub 2011 Apr 20.

PMID:
21554840
43.

Repeated parallel evolution of minimal rRNAs revealed from detailed comparative analysis.

Klimov PB, Knowles LL.

J Hered. 2011 May-Jun;102(3):283-93. doi: 10.1093/jhered/esr005. Epub 2011 Mar 21.

PMID:
21422103
44.

Navigating the unknown: model selection in phylogeography. Models of population structure: tools for thinkers.

Carstens BC, Knowles LL.

Mol Ecol. 2010 Nov;19(21):4581-2. doi: 10.1111/j.1365-294X.2010.04851.x.

45.

Sources of error inherent in species-tree estimation: impact of mutational and coalescent effects on accuracy and implications for choosing among different methods.

Huang H, He Q, Kubatko LS, Knowles LL.

Syst Biol. 2010 Oct;59(5):573-83. doi: 10.1093/sysbio/syq047. Epub 2010 Sep 10.

PMID:
20833951
46.
47.

Calibrating divergence times on species trees versus gene trees: implications for speciation history of Aphelocoma jays.

McCormack JE, Heled J, Delaney KS, Peterson AT, Knowles LL.

Evolution. 2011 Jan;65(1):184-202. doi: 10.1111/j.1558-5646.2010.01097.x.

48.

What is the danger of the anomaly zone for empirical phylogenetics?

Huang H, Knowles LL.

Syst Biol. 2009 Oct;58(5):527-36. doi: 10.1093/sysbio/syp047. Epub 2009 Aug 26.

PMID:
20525606
49.

Maximum likelihood estimates of species trees: how accuracy of phylogenetic inference depends upon the divergence history and sampling design.

McCormack JE, Huang H, Knowles LL.

Syst Biol. 2009 Oct;58(5):501-8. doi: 10.1093/sysbio/syp045. Epub 2009 Aug 20.

PMID:
20525604
50.

Estimating species trees: methods of phylogenetic analysis when there is incongruence across genes.

Knowles LL.

Syst Biol. 2009 Oct;58(5):463-7. doi: 10.1093/sysbio/syp061. Epub 2009 Sep 17. No abstract available.

PMID:
20525600

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