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Items: 1 to 20 of 104

1.

Stable tRNA-based phylogenies using only 76 nucleotides.

Widmann J, Harris JK, Lozupone C, Wolfson A, Knight R.

RNA. 2010 Aug;16(8):1469-77. doi: 10.1261/rna.726010. Epub 2010 Jun 17.

2.

Orthologs, turn-over, and remolding of tRNAs in primates and fruit flies.

Velandia-Huerto CA, Berkemer SJ, Hoffmann A, Retzlaff N, Romero Marroquín LC, Hernández-Rosales M, Stadler PF, Bermúdez-Santana CI.

BMC Genomics. 2016 Aug 11;17(1):617. doi: 10.1186/s12864-016-2927-4.

3.

A database of phylogenetically atypical genes in archaeal and bacterial genomes, identified using the DarkHorse algorithm.

Podell S, Gaasterland T, Allen EE.

BMC Bioinformatics. 2008 Oct 7;9:419. doi: 10.1186/1471-2105-9-419.

4.

dnaJ is a useful phylogenetic marker for alphaproteobacteria.

Alexandre A, Laranjo M, Young JP, Oliveira S.

Int J Syst Evol Microbiol. 2008 Dec;58(Pt 12):2839-49. doi: 10.1099/ijs.0.2008/001636-0.

PMID:
19060069
5.

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
6.
7.

Universal trees based on large combined protein sequence data sets.

Brown JR, Douady CJ, Italia MJ, Marshall WE, Stanhope MJ.

Nat Genet. 2001 Jul;28(3):281-5.

PMID:
11431701
8.

The rooting of the universal tree of life is not reliable.

Philippe H, Forterre P.

J Mol Evol. 1999 Oct;49(4):509-23.

PMID:
10486008
11.

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
12.

Assessing the performance of single-copy genes for recovering robust phylogenies.

Aguileta G, Marthey S, Chiapello H, Lebrun MH, Rodolphe F, Fournier E, Gendrault-Jacquemard A, Giraud T.

Syst Biol. 2008 Aug;57(4):613-27. doi: 10.1080/10635150802306527.

PMID:
18709599
13.

Genome phylogeny based on gene content.

Snel B, Bork P, Huynen MA.

Nat Genet. 1999 Jan;21(1):108-10.

PMID:
9916801
14.

Phylogenetic evidence for extensive horizontal gene transfer of type III secretion system genes among enterobacterial plant pathogens.

Naum M, Brown EW, Mason-Gamer RJ.

Microbiology. 2009 Oct;155(Pt 10):3187-99. doi: 10.1099/mic.0.029892-0. Epub 2009 Jul 30.

PMID:
19643761
16.

Root of the universal tree of life based on ancient aminoacyl-tRNA synthetase gene duplications.

Brown JR, Doolittle WF.

Proc Natl Acad Sci U S A. 1995 Mar 28;92(7):2441-5.

17.

Evolution of mercuric reductase (merA) gene: a case of horizontal gene transfer.

Lal D, Lal R.

Mikrobiologiia. 2010 Jul-Aug;79(4):524-31.

PMID:
21058506
18.

Distant horizontal gene transfer is rare for multiple families of prokaryotic insertion sequences.

Wagner A, de la Chaux N.

Mol Genet Genomics. 2008 Nov;280(5):397-408. doi: 10.1007/s00438-008-0373-y. Epub 2008 Aug 28.

PMID:
18751731
19.

Evolution of genes and organisms: the tree/web of life in light of horizontal gene transfer.

Olendzenski L, Gogarten JP.

Ann N Y Acad Sci. 2009 Oct;1178:137-45. doi: 10.1111/j.1749-6632.2009.04998.x.

PMID:
19845634
20.

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