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Items: 40

1.

Molecular Biology and Evolution of Cancer: From Discovery to Action.

Somarelli JA, Gardner H, Cannataro VL, Gunady EF, Boddy AM, Johnson NA, Fisk JN, Gaffney SG, Chuang JH, Li S, Ciccarelli FD, Panchenko AR, Megquier K, Kumar S, Dornburg A, DeGregori J, Townsend JP.

Mol Biol Evol. 2020 Feb 1;37(2):320-326. doi: 10.1093/molbev/msz242.

2.

Expression of concern: Phylogenomic Analysis of a Putative Missing Link Sparks Reinterpretation of Leech Evolution.

Phillips AJ, Dornburg A, Zapfe KL, Anderson FE, James SW, Erséus C, Moriarty Lemmon E, Lemmon AR, Williams BW.

Genome Biol Evol. 2019 Jul 1;11(7):1882. doi: 10.1093/gbe/evz145. No abstract available.

3.

Phylogenomic Analysis of a Putative Missing Link Sparks Reinterpretation of Leech Evolution.

Phillips AJ, Dornburg A, Zapfe KL, Anderson FE, James SW, Erséus C, Moriarty Lemmon E, Lemmon AR, Williams BW.

Genome Biol Evol. 2019 Jul 1;11(11):3082-3093. doi: 10.1093/gbe/evz120.

4.

Historical contingency shapes adaptive radiation in Antarctic fishes.

Daane JM, Dornburg A, Smits P, MacGuigan DJ, Brent Hawkins M, Near TJ, William Detrich Iii H, Harris MP.

Nat Ecol Evol. 2019 Jul;3(7):1102-1109. doi: 10.1038/s41559-019-0914-2. Epub 2019 Jun 10.

PMID:
31182814
5.

Assessing phylogenetic information to reveal uncertainty in historical data: An example using Goodeinae (Teleostei: Cyprinodontiformes: Goodeidae).

Parker E, Dornburg A, Domínguez-Domínguez O, Piller KR.

Mol Phylogenet Evol. 2019 May;134:282-290. doi: 10.1016/j.ympev.2019.01.025. Epub 2019 Feb 4.

PMID:
30731119
6.

Phylogenetic analysis of Antarctic notothenioids illuminates the utility of RADseq for resolving Cenozoic adaptive radiations.

Near TJ, MacGuigan DJ, Parker E, Struthers CD, Jones CD, Dornburg A.

Mol Phylogenet Evol. 2018 Dec;129:268-279. doi: 10.1016/j.ympev.2018.09.001. Epub 2018 Sep 6.

PMID:
30195039
7.

Optimal Rates for Phylogenetic Inference and Experimental Design in the Era of Genome-Scale Data Sets.

Dornburg A, Su Z, Townsend JP.

Syst Biol. 2019 Jan 1;68(1):145-156. doi: 10.1093/sysbio/syy047.

PMID:
29939341
8.

Eyes Wide Shut: the impact of dim-light vision on neural investment in marine teleosts.

Iglesias TL, Dornburg A, Warren DL, Wainwright PC, Schmitz L, Economo EP.

J Evol Biol. 2018 Aug;31(8):1082-1092. doi: 10.1111/jeb.13299. Epub 2018 Jun 19.

PMID:
29808568
9.

Testing ontogenetic patterns of sexual size dimorphism against expectations of the expensive tissue hypothesis, an intraspecific example using oyster toadfish (Opsanus tau).

Dornburg A, Warren DL, Zapfe KL, Morris R, Iglesias TL, Lamb A, Hogue G, Lukas L, Wong R.

Ecol Evol. 2018 Mar 2;8(7):3609-3616. doi: 10.1002/ece3.3835. eCollection 2018 Apr.

10.

Maximizing Power in Phylogenetics and Phylogenomics: A Perspective Illuminated by Fungal Big Data.

Dornburg A, Townsend JP, Wang Z.

Adv Genet. 2017;100:1-47. doi: 10.1016/bs.adgen.2017.09.007. Epub 2017 Nov 6.

PMID:
29153398
11.

Cradles and museums of Antarctic teleost biodiversity.

Dornburg A, Federman S, Lamb AD, Jones CD, Near TJ.

Nat Ecol Evol. 2017 Sep;1(9):1379-1384. doi: 10.1038/s41559-017-0239-y. Epub 2017 Jul 24.

PMID:
29046532
12.

Phylogenomic Systematics of Ostariophysan Fishes: Ultraconserved Elements Support the Surprising Non-Monophyly of Characiformes.

Chakrabarty P, Faircloth BC, Alda F, Ludt WB, Mcmahan CD, Near TJ, Dornburg A, Albert JS, Arroyave J, Stiassny MLJ, Sorenson L, Alfaro ME.

Syst Biol. 2017 Nov 1;66(6):881-895. doi: 10.1093/sysbio/syx038.

PMID:
28334176
13.

New insights on the sister lineage of percomorph fishes with an anchored hybrid enrichment dataset.

Dornburg A, Townsend JP, Brooks W, Spriggs E, Eytan RI, Moore JA, Wainwright PC, Lemmon A, Lemmon EM, Near TJ.

Mol Phylogenet Evol. 2017 May;110:27-38. doi: 10.1016/j.ympev.2017.02.017. Epub 2017 Feb 27.

PMID:
28254474
14.

PhyInformR: phylogenetic experimental design and phylogenomic data exploration in R.

Dornburg A, Fisk JN, Tamagnan J, Townsend JP.

BMC Evol Biol. 2016 Dec 1;16(1):262.

15.

A comparison of blood gases, biochemistry, and hematology to ecomorphology in a health assessment of pinfish (Lagodon rhomboides).

Collins S, Dornburg A, Flores JM, Dombrowski DS, Lewbart GA.

PeerJ. 2016 Aug 9;4:e2262. doi: 10.7717/peerj.2262. eCollection 2016.

16.

Cryptic species diversity in sub-Antarctic islands: A case study of Lepidonotothen.

Dornburg A, Federman S, Eytan RI, Near TJ.

Mol Phylogenet Evol. 2016 Nov;104:32-43. doi: 10.1016/j.ympev.2016.07.013. Epub 2016 Jul 12.

PMID:
27421566
17.

Implications of lemuriform extinctions for the Malagasy flora.

Federman S, Dornburg A, Daly DC, Downie A, Perry GH, Yoder AD, Sargis EJ, Richard AF, Donoghue MJ, Baden AL.

Proc Natl Acad Sci U S A. 2016 May 3;113(18):5041-6. doi: 10.1073/pnas.1523825113. Epub 2016 Apr 11.

18.

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

Prum RO, Berv JS, Dornburg A, Field DJ, Townsend JP, Lemmon EM, Lemmon AR.

Nature. 2015 Oct 22;526(7574):569-73. doi: 10.1038/nature15697. Epub 2015 Oct 7.

PMID:
26444237
19.

The biogeographic origin of a radiation of trees in Madagascar: implications for the assembly of a tropical forest biome.

Federman S, Dornburg A, Downie A, Richard AF, Daly DC, Donoghue MJ.

BMC Evol Biol. 2015 Oct 5;15:216. doi: 10.1186/s12862-015-0483-1.

20.

Are 100 enough? Inferring acanthomorph teleost phylogeny using Anchored Hybrid Enrichment.

Eytan RI, Evans BR, Dornburg A, Lemmon AR, Lemmon EM, Wainwright PC, Near TJ.

BMC Evol Biol. 2015 Jun 14;15:113. doi: 10.1186/s12862-015-0415-0.

21.

Identification of the notothenioid sister lineage illuminates the biogeographic history of an Antarctic adaptive radiation.

Near TJ, Dornburg A, Harrington RC, Oliveira C, Pietsch TW, Thacker CE, Satoh TP, Katayama E, Wainwright PC, Eastman JT, Beaulieu JM.

BMC Evol Biol. 2015 Jun 11;15:109. doi: 10.1186/s12862-015-0362-9.

22.

Phylogenetic analysis of molecular and morphological data highlights uncertainty in the relationships of fossil and living species of Elopomorpha (Actinopterygii: Teleostei).

Dornburg A, Friedman M, Near TJ.

Mol Phylogenet Evol. 2015 Aug;89:205-18. doi: 10.1016/j.ympev.2015.04.004. Epub 2015 Apr 18.

PMID:
25899306
23.

Life in the unthinking depths: energetic constraints on encephalization in marine fishes.

Iglesias TL, Dornburg A, Brandley MC, Alfaro ME, Warren DL.

J Evol Biol. 2015 May;28(5):1080-90. doi: 10.1111/jeb.12631. Epub 2015 Apr 22.

24.

The impact of shifts in marine biodiversity hotspots on patterns of range evolution: Evidence from the Holocentridae (squirrelfishes and soldierfishes).

Dornburg A, Moore J, Beaulieu JM, Eytan RI, Near TJ.

Evolution. 2015 Jan;69(1):146-61. doi: 10.1111/evo.12562. Epub 2014 Dec 19.

PMID:
25407924
25.

Phylogenetic informativeness reconciles ray-finned fish molecular divergence times.

Dornburg A, Townsend JP, Friedman M, Near TJ.

BMC Evol Biol. 2014 Aug 8;14:169. doi: 10.1186/s12862-014-0169-0.

26.

Phylogenetic relationships and timing of diversification in gonorynchiform fishes inferred using nuclear gene DNA sequences (Teleostei: Ostariophysi).

Near TJ, Dornburg A, Friedman M.

Mol Phylogenet Evol. 2014 Nov;80:297-307. doi: 10.1016/j.ympev.2014.07.013. Epub 2014 Aug 1.

PMID:
25087656
27.

Two waves of colonization straddling the K-Pg boundary formed the modern reef fish fauna.

Price SA, Schmitz L, Oufiero CE, Eytan RI, Dornburg A, Smith WL, Friedman M, Near TJ, Wainwright PC.

Proc Biol Sci. 2014 Apr 2;281(1783):20140321. doi: 10.1098/rspb.2014.0321. Print 2014 May 22.

28.

Boom and bust: ancient and recent diversification in bichirs (Polypteridae: Actinopterygii), a relictual lineage of ray-finned fishes.

Near TJ, Dornburg A, Tokita M, Suzuki D, Brandley MC, Friedman M.

Evolution. 2014 Apr;68(4):1014-26. doi: 10.1111/evo.12323. Epub 2014 Jan 2.

PMID:
24274466
29.

Molecular and fossil evidence place the origin of cichlid fishes long after Gondwanan rifting.

Friedman M, Keck BP, Dornburg A, Eytan RI, Martin CH, Hulsey CD, Wainwright PC, Near TJ.

Proc Biol Sci. 2013 Sep 18;280(1770):20131733. doi: 10.1098/rspb.2013.1733. Print 2013 Nov 7.

30.

Phylogeny and tempo of diversification in the superradiation of spiny-rayed fishes.

Near TJ, Dornburg A, Eytan RI, Keck BP, Smith WL, Kuhn KL, Moore JA, Price SA, Burbrink FT, Friedman M, Wainwright PC.

Proc Natl Acad Sci U S A. 2013 Jul 30;110(31):12738-43. doi: 10.1073/pnas.1304661110. Epub 2013 Jul 15.

31.

Molecular phylogeny and historical biogeography of West Indian boid snakes (Chilabothrus).

Reynolds RG, Niemiller ML, Hedges SB, Dornburg A, Puente-Rolón AR, Revell LJ.

Mol Phylogenet Evol. 2013 Sep;68(3):461-70. doi: 10.1016/j.ympev.2013.04.029. Epub 2013 May 10.

PMID:
23669009
32.

A multilocus molecular phylogeny of boxfishes (Aracanidae, Ostraciidae; Tetraodontiformes).

Santini F, Sorenson L, Marcroft T, Dornburg A, Alfaro ME.

Mol Phylogenet Evol. 2013 Jan;66(1):153-60. doi: 10.1016/j.ympev.2012.09.022. Epub 2012 Oct 2.

PMID:
23036494
33.

Molecular phylogenetics of squirrelfishes and soldierfishes (Teleostei: Beryciformes: Holocentridae): reconciling more than 100 years of taxonomic confusion.

Dornburg A, Moore JA, Webster R, Warren DL, Brandley MC, Iglesias TL, Wainwright PC, Near TJ.

Mol Phylogenet Evol. 2012 Nov;65(2):727-38. doi: 10.1016/j.ympev.2012.07.020. Epub 2012 Aug 3.

PMID:
22884866
34.

Resolution of ray-finned fish phylogeny and timing of diversification.

Near TJ, Eytan RI, Dornburg A, Kuhn KL, Moore JA, Davis MP, Wainwright PC, Friedman M, Smith WL.

Proc Natl Acad Sci U S A. 2012 Aug 21;109(34):13698-703. doi: 10.1073/pnas.1206625109. Epub 2012 Aug 6.

35.

Ancient climate change, antifreeze, and the evolutionary diversification of Antarctic fishes.

Near TJ, Dornburg A, Kuhn KL, Eastman JT, Pennington JN, Patarnello T, Zane L, Fernández DA, Jones CD.

Proc Natl Acad Sci U S A. 2012 Feb 28;109(9):3434-9. doi: 10.1073/pnas.1115169109. Epub 2012 Feb 13.

36.

Relaxed clocks and inferences of heterogeneous patterns of nucleotide substitution and divergence time estimates across whales and dolphins (Mammalia: Cetacea).

Dornburg A, Brandley MC, McGowen MR, Near TJ.

Mol Biol Evol. 2012 Feb;29(2):721-36. doi: 10.1093/molbev/msr228. Epub 2011 Sep 15.

PMID:
21926070
37.

The influence of an innovative locomotor strategy on the phenotypic diversification of triggerfish (family: Balistidae).

Dornburg A, Sidlauskas B, Santini F, Sorenson L, Near TJ, Alfaro ME.

Evolution. 2011 Jul;65(7):1912-26. doi: 10.1111/j.1558-5646.2011.01275.x. Epub 2011 Mar 25.

PMID:
21729047
38.

Integrating fossil preservation biases in the selection of calibrations for molecular divergence time estimation.

Dornburg A, Beaulieu JM, Oliver JC, Near TJ.

Syst Biol. 2011 Jul;60(4):519-27. doi: 10.1093/sysbio/syr019. Epub 2011 Mar 23.

PMID:
21436104
39.

Nine exceptional radiations plus high turnover explain species diversity in jawed vertebrates.

Alfaro ME, Santini F, Brock C, Alamillo H, Dornburg A, Rabosky DL, Carnevale G, Harmon LJ.

Proc Natl Acad Sci U S A. 2009 Aug 11;106(32):13410-4. doi: 10.1073/pnas.0811087106. Epub 2009 Jul 24.

40.

The influence of model averaging on clade posteriors: an example using the triggerfishes (Family Balistidae).

Dornburg A, Santini F, Alfaro ME.

Syst Biol. 2008 Dec;57(6):905-19. doi: 10.1080/10635150802562392.

PMID:
19085332

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