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Results: 1 to 20 of 113

1.

Inteins as indicators of gene flow in the halobacteria.

Soucy SM, Fullmer MS, Papke RT, Gogarten JP.

Front Microbiol. 2014 Jun 26;5:299. doi: 10.3389/fmicb.2014.00299. eCollection 2014.

PMID:
25018750
[PubMed]
Free PMC Article
2.

AST: an automated sequence-sampling method for improving the taxonomic diversity of gene phylogenetic trees.

Zhou C, Mao F, Yin Y, Huang J, Gogarten JP, Xu Y.

PLoS One. 2014 Jun 3;9(6):e98844. doi: 10.1371/journal.pone.0098844. eCollection 2014.

PMID:
24892935
[PubMed - in process]
Free PMC Article
3.

Evidence from phylogenetic and genome fingerprinting analyses suggests rapidly changing variation in Halorubrum and Haloarcula populations.

Ram Mohan N, Fullmer MS, Makkay AM, Wheeler R, Ventosa A, Naor A, Gogarten JP, Papke RT.

Front Microbiol. 2014 Apr 9;5:143. doi: 10.3389/fmicb.2014.00143. eCollection 2014.

PMID:
24782838
[PubMed]
Free PMC Article
4.

Population and genomic analysis of the genus Halorubrum.

Fullmer MS, Soucy SM, Swithers KS, Makkay AM, Wheeler R, Ventosa A, Gogarten JP, Papke RT.

Front Microbiol. 2014 Apr 11;5:140. doi: 10.3389/fmicb.2014.00140. eCollection 2014.

PMID:
24782836
[PubMed]
Free PMC Article
5.

Reconstructed ancestral Myo-inositol-3-phosphate synthases indicate that ancestors of the Thermococcales and Thermotoga species were more thermophilic than their descendants.

Butzin NC, Lapierre P, Green AG, Swithers KS, Gogarten JP, Noll KM.

PLoS One. 2013 Dec 31;8(12):e84300. doi: 10.1371/journal.pone.0084300. eCollection 2013.

PMID:
24391933
[PubMed - in process]
Free PMC Article
6.

Distribution and evolution of the mobile vma-1b intein.

Swithers KS, Soucy SM, Lasek-Nesselquist E, Lapierre P, Gogarten JP.

Mol Biol Evol. 2013 Dec;30(12):2676-87. doi: 10.1093/molbev/mst164. Epub 2013 Sep 18.

PMID:
24048585
[PubMed - indexed for MEDLINE]
7.

Thermotoga lettingae can salvage cobinamide to synthesize vitamin B12.

Butzin NC, Secinaro MA, Swithers KS, Gogarten JP, Noll KM.

Appl Environ Microbiol. 2013 Nov;79(22):7006-12. doi: 10.1128/AEM.01800-13. Epub 2013 Sep 6.

PMID:
24014541
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Reconstruction of ancestral 16S rRNA reveals mutation bias in the evolution of optimal growth temperature in the Thermotogae phylum.

Green AG, Swithers KS, Gogarten JF, Gogarten JP.

Mol Biol Evol. 2013 Nov;30(11):2463-74. doi: 10.1093/molbev/mst145. Epub 2013 Aug 21.

PMID:
23966548
[PubMed - indexed for MEDLINE]
9.

The effects of model choice and mitigating bias on the ribosomal tree of life.

Lasek-Nesselquist E, Gogarten JP.

Mol Phylogenet Evol. 2013 Oct;69(1):17-38. doi: 10.1016/j.ympev.2013.05.006. Epub 2013 May 22.

PMID:
23707703
[PubMed - indexed for MEDLINE]
10.

Systematic inference of highways of horizontal gene transfer in prokaryotes.

Bansal MS, Banay G, Harlow TJ, Gogarten JP, Shamir R.

Bioinformatics. 2013 Mar 1;29(5):571-9. doi: 10.1093/bioinformatics/btt021. Epub 2013 Jan 17.

PMID:
23335015
[PubMed - indexed for MEDLINE]
Free Article
11.

Pre-Posting and OLEB.

Schwartz AW, Cleaves HJ, Gogarten JP.

Orig Life Evol Biosph. 2012 Dec;42(6):517. doi: 10.1007/s11084-012-9317-y. No abstract available.

PMID:
23224850
[PubMed - indexed for MEDLINE]
12.

Quantifying homologous replacement of loci between haloarchaeal species.

Williams D, Gogarten JP, Papke RT.

Genome Biol Evol. 2012;4(12):1223-44. doi: 10.1093/gbe/evs098.

PMID:
23160063
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

The impact of HGT on phylogenomic reconstruction methods.

Lapierre P, Lasek-Nesselquist E, Gogarten JP.

Brief Bioinform. 2014 Jan;15(1):79-90. doi: 10.1093/bib/bbs050. Epub 2012 Aug 20.

PMID:
22908214
[PubMed - in process]
14.

The role of reticulate evolution in creating innovation and complexity.

Swithers KS, Soucy SM, Gogarten JP.

Int J Evol Biol. 2012;2012:418964. doi: 10.1155/2012/418964. Epub 2012 Jul 12.

PMID:
22844638
[PubMed]
Free PMC Article
15.

Vitamin B(12) synthesis and salvage pathways were acquired by horizontal gene transfer to the Thermotogales.

Swithers KS, Petrus AK, Secinaro MA, Nesbø CL, Gogarten JP, Noll KM, Butzin NC.

Genome Biol Evol. 2012;4(8):730-9. doi: 10.1093/gbe/evs057. Epub 2012 Jul 12.

PMID:
22798452
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

Genes for the major structural components of Thermotogales species' togas revealed by proteomic and evolutionary analyses of OmpA and OmpB homologs.

Petrus AK, Swithers KS, Ranjit C, Wu S, Brewer HM, Gogarten JP, Pasa-Tolic L, Noll KM.

PLoS One. 2012;7(6):e40236. doi: 10.1371/journal.pone.0040236. Epub 2012 Jun 29.

PMID:
22768259
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Ancient origin of the divergent forms of leucyl-tRNA synthetases in the Halobacteriales.

Andam CP, Harlow TJ, Papke RT, Gogarten JP.

BMC Evol Biol. 2012 Jun 13;12:85. doi: 10.1186/1471-2148-12-85.

PMID:
22694720
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Quartet decomposition server: a platform for analyzing phylogenetic trees.

Mao F, Williams D, Zhaxybayeva O, Poptsova M, Lapierre P, Gogarten JP, Xu Y.

BMC Bioinformatics. 2012 Jun 7;13:123.

PMID:
22676320
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

Ecology. How bacterial lineages emerge.

Papke RT, Gogarten JP.

Science. 2012 Apr 6;336(6077):45-6. doi: 10.1126/science.1219241. No abstract available.

PMID:
22491845
[PubMed - indexed for MEDLINE]
20.

Molecular evolution of aminoacyl tRNA synthetase proteins in the early history of life.

Fournier GP, Andam CP, Alm EJ, Gogarten JP.

Orig Life Evol Biosph. 2011 Dec;41(6):621-32. doi: 10.1007/s11084-011-9261-2. Epub 2011 Dec 27. Erratum in: Orig Life Evol Biosph. 2012 Aug;42(4):377.

PMID:
22200905
[PubMed - indexed for MEDLINE]

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