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Items: 1 to 20 of 135

1.

Phylogenetic modeling of lateral gene transfer reconstructs the pattern and relative timing of speciations.

Szöllosi GJ, Boussau B, Abby SS, Tannier E, Daubin V.

Proc Natl Acad Sci U S A. 2012 Oct 23;109(43):17513-8. doi: 10.1073/pnas.1202997109. Epub 2012 Oct 4.

2.

Lateral gene transfer as a support for the tree of life.

Abby SS, Tannier E, Gouy M, Daubin V.

Proc Natl Acad Sci U S A. 2012 Mar 27;109(13):4962-7. doi: 10.1073/pnas.1116871109. Epub 2012 Mar 13.

3.

Lateral gene transfer from the dead.

Szöllosi GJ, Tannier E, Lartillot N, Daubin V.

Syst Biol. 2013 May 1;62(3):386-97. doi: 10.1093/sysbio/syt003. Epub 2013 Jan 25.

5.

Phylogenetics and the cohesion of bacterial genomes.

Daubin V, Moran NA, Ochman H.

Science. 2003 Aug 8;301(5634):829-32.

6.

Genome-scale coestimation of species and gene trees.

Boussau B, Szöllosi GJ, Duret L, Gouy M, Tannier E, Daubin V.

Genome Res. 2013 Feb;23(2):323-30. doi: 10.1101/gr.141978.112. Epub 2012 Nov 6.

7.

Models, algorithms and programs for phylogeny reconciliation.

Doyon JP, Ranwez V, Daubin V, Berry V.

Brief Bioinform. 2011 Sep;12(5):392-400. doi: 10.1093/bib/bbr045. Review.

PMID:
21949266
8.

Fossil calibrations and molecular divergence time estimates in centrarchid fishes (Teleostei: Centrarchidae).

Near TJ, Bolnick DI, Wainwright PC.

Evolution. 2005 Aug;59(8):1768-82.

PMID:
16329246
9.

Modeling gene family evolution and reconciling phylogenetic discord.

Szöllosi GJ, Daubin V.

Methods Mol Biol. 2012;856:29-51. doi: 10.1007/978-1-61779-585-5_2.

PMID:
22399454
10.
11.

[Reconstructing genes evolution along a species tree].

Gorbunov KIu, Liubetskiĭ VA.

Mol Biol (Mosk). 2009 Sep-Oct;43(5):946-58. Russian.

PMID:
19899641
12.

Reconciling gene and genome duplication events: using multiple nuclear gene families to infer the phylogeny of the aquatic plant family Pontederiaceae.

Ness RW, Graham SW, Barrett SC.

Mol Biol Evol. 2011 Nov;28(11):3009-18. doi: 10.1093/molbev/msr119. Epub 2011 Jun 1.

PMID:
21633114
13.

The impact of reticulate evolution on genome phylogeny.

Beiko RG, Doolittle WF, Charlebois RL.

Syst Biol. 2008 Dec;57(6):844-56. doi: 10.1080/10635150802559265.

PMID:
19085328
14.

Efficient exploration of the space of reconciled gene trees.

Szöllõsi GJ, Rosikiewicz W, Boussau B, Tannier E, Daubin V.

Syst Biol. 2013 Nov;62(6):901-12. doi: 10.1093/sysbio/syt054. Epub 2013 Aug 6.

15.

Ribosomal proteins: toward a next generation standard for prokaryotic systematics?

Ramulu HG, Groussin M, Talla E, Planel R, Daubin V, Brochier-Armanet C.

Mol Phylogenet Evol. 2014 Jun;75:103-17. doi: 10.1016/j.ympev.2014.02.013. Epub 2014 Feb 28.

PMID:
24583288
16.
17.

When can decreasing diversification rates be detected with molecular phylogenies and the fossil record?

Liow LH, Quental TB, Marshall CR.

Syst Biol. 2010 Dec;59(6):646-59. doi: 10.1093/sysbio/syq052. Epub 2010 Sep 22.

PMID:
20861283
18.

Phylogeny and temporal diversification of darters (Percidae: Etheostomatinae).

Near TJ, Bossu CM, Bradburd GS, Carlson RL, Harrington RC, Hollingsworth PR Jr, Keck BP, Etnier DA.

Syst Biol. 2011 Oct;60(5):565-95. doi: 10.1093/sysbio/syr052. Epub 2011 Jul 20.

PMID:
21775340
19.

The balance of driving forces during genome evolution in prokaryotes.

Kunin V, Ouzounis CA.

Genome Res. 2003 Jul;13(7):1589-94.

20.

Phylogenetic analysis of nitrite, nitric oxide, and nitrous oxide respiratory enzymes reveal a complex evolutionary history for denitrification.

Jones CM, Stres B, Rosenquist M, Hallin S.

Mol Biol Evol. 2008 Sep;25(9):1955-66. doi: 10.1093/molbev/msn146. Epub 2008 Jul 8.

PMID:
18614527

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