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Results: 1 to 20 of 100

1.

Quorum-dependent mannopine-inducible conjugative transfer of an Agrobacterium opine-catabolic plasmid.

Wetzel ME, Kim KS, Miller M, Olsen GJ, Farrand SK.

J Bacteriol. 2014 Mar;196(5):1031-44. doi: 10.1128/JB.01365-13. Epub 2013 Dec 20.

PMID:
24363349
[PubMed - indexed for MEDLINE]
Free Article
2.

The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST).

Overbeek R, Olson R, Pusch GD, Olsen GJ, Davis JJ, Disz T, Edwards RA, Gerdes S, Parrello B, Shukla M, Vonstein V, Wattam AR, Xia F, Stevens R.

Nucleic Acids Res. 2014 Jan;42(Database issue):D206-14. doi: 10.1093/nar/gkt1226. Epub 2013 Nov 29.

PMID:
24293654
[PubMed - indexed for MEDLINE]
Free PMC Article
3.

Genomes of the class Erysipelotrichia clarify the firmicute origin of the class Mollicutes.

Davis JJ, Xia F, Overbeek RA, Olsen GJ.

Int J Syst Evol Microbiol. 2013 Jul;63(Pt 7):2727-41. doi: 10.1099/ijs.0.048983-0. Epub 2013 Apr 19.

PMID:
23606477
[PubMed - indexed for MEDLINE]
Free PMC Article
4.

SEED servers: high-performance access to the SEED genomes, annotations, and metabolic models.

Aziz RK, Devoid S, Disz T, Edwards RA, Henry CS, Olsen GJ, Olson R, Overbeek R, Parrello B, Pusch GD, Stevens RL, Vonstein V, Xia F.

PLoS One. 2012;7(10):e48053. doi: 10.1371/journal.pone.0048053. Epub 2012 Oct 24.

PMID:
23110173
[PubMed - indexed for MEDLINE]
Free PMC Article
5.

Similarity of genes horizontally acquired by Escherichia coli and Salmonella enterica is evidence of a supraspecies pangenome.

Karberg KA, Olsen GJ, Davis JJ.

Proc Natl Acad Sci U S A. 2011 Dec 13;108(50):20154-9. doi: 10.1073/pnas.1109451108. Epub 2011 Nov 29.

PMID:
22128332
[PubMed - indexed for MEDLINE]
Free PMC Article
6.

Differences between the normal vaginal bacterial community of baboons and that of humans.

Rivera AJ, Frank JA, Stumpf R, Salyers AA, Wilson BA, Olsen GJ, Leigh S.

Am J Primatol. 2011 Feb;73(2):119-26. doi: 10.1002/ajp.20851. Epub 2010 Sep 17.

PMID:
20853395
[PubMed - indexed for MEDLINE]
7.

Characterizing the native codon usages of a genome: an axis projection approach.

Davis JJ, Olsen GJ.

Mol Biol Evol. 2011 Jan;28(1):211-21. doi: 10.1093/molbev/msq185. Epub 2010 Aug 2.

PMID:
20679093
[PubMed - indexed for MEDLINE]
Free PMC Article
8.

Evolution of DNA replication protein complexes in eukaryotes and Archaea.

Chia N, Cann I, Olsen GJ.

PLoS One. 2010 Jun 2;5(6):e10866. doi: 10.1371/journal.pone.0010866.

PMID:
20532250
[PubMed - indexed for MEDLINE]
Free PMC Article
9.

Modal codon usage: assessing the typical codon usage of a genome.

Davis JJ, Olsen GJ.

Mol Biol Evol. 2010 Apr;27(4):800-10. doi: 10.1093/molbev/msp281. Epub 2009 Dec 17.

PMID:
20018979
[PubMed - indexed for MEDLINE]
Free PMC Article
10.

Messenger RNA processing in Methanocaldococcus (Methanococcus) jannaschii.

Zhang J, Olsen GJ.

RNA. 2009 Oct;15(10):1909-16. doi: 10.1261/rna.1715209. Epub 2009 Aug 28.

PMID:
19717546
[PubMed - indexed for MEDLINE]
Free PMC Article
11.

Protein-coding gene promoters in Methanocaldococcus (Methanococcus) jannaschii.

Zhang J, Li E, Olsen GJ.

Nucleic Acids Res. 2009 Jun;37(11):3588-601. doi: 10.1093/nar/gkp213. Epub 2009 Apr 9.

PMID:
19359364
[PubMed - indexed for MEDLINE]
Free PMC Article
12.

Heterogeneity of vaginal microbial communities within individuals.

Kim TK, Thomas SM, Ho M, Sharma S, Reich CI, Frank JA, Yeater KM, Biggs DR, Nakamura N, Stumpf R, Leigh SR, Tapping RI, Blanke SR, Slauch JM, Gaskins HR, Weisbaum JS, Olsen GJ, Hoyer LL, Wilson BA.

J Clin Microbiol. 2009 Apr;47(4):1181-9. doi: 10.1128/JCM.00854-08. Epub 2009 Jan 21.

PMID:
19158255
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

A whole-genome approach to identifying protein binding sites: promoters in Methanocaldococcus (Methanococcus) jannaschii.

Li E, Reich CI, Olsen GJ.

Nucleic Acids Res. 2008 Dec;36(22):6948-58. doi: 10.1093/nar/gkm499. Epub 2008 Nov 3.

PMID:
18981048
[PubMed - indexed for MEDLINE]
Free PMC Article
14.

Critical evaluation of two primers commonly used for amplification of bacterial 16S rRNA genes.

Frank JA, Reich CI, Sharma S, Weisbaum JS, Wilson BA, Olsen GJ.

Appl Environ Microbiol. 2008 Apr;74(8):2461-70. doi: 10.1128/AEM.02272-07. Epub 2008 Feb 22.

PMID:
18296538
[PubMed - indexed for MEDLINE]
Free PMC Article
15.

Genome sequence of Thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction.

Anderson I, Rodriguez J, Susanti D, Porat I, Reich C, Ulrich LE, Elkins JG, Mavromatis K, Lykidis A, Kim E, Thompson LS, Nolan M, Land M, Copeland A, Lapidus A, Lucas S, Detter C, Zhulin IB, Olsen GJ, Whitman W, Mukhopadhyay B, Bristow J, Kyrpides N.

J Bacteriol. 2008 Apr;190(8):2957-65. doi: 10.1128/JB.01949-07. Epub 2008 Feb 8.

PMID:
18263724
[PubMed - indexed for MEDLINE]
Free PMC Article
16.

The RAST Server: rapid annotations using subsystems technology.

Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M, Meyer F, Olsen GJ, Olson R, Osterman AL, Overbeek RA, McNeil LK, Paarmann D, Paczian T, Parrello B, Pusch GD, Reich C, Stevens R, Vassieva O, Vonstein V, Wilke A, Zagnitko O.

BMC Genomics. 2008 Feb 8;9:75. doi: 10.1186/1471-2164-9-75.

PMID:
18261238
[PubMed - indexed for MEDLINE]
Free PMC Article
17.

Genomic minimalism in the early diverging intestinal parasite Giardia lamblia.

Morrison HG, McArthur AG, Gillin FD, Aley SB, Adam RD, Olsen GJ, Best AA, Cande WZ, Chen F, Cipriano MJ, Davids BJ, Dawson SC, Elmendorf HG, Hehl AB, Holder ME, Huse SM, Kim UU, Lasek-Nesselquist E, Manning G, Nigam A, Nixon JE, Palm D, Passamaneck NE, Prabhu A, Reich CI, Reiner DS, Samuelson J, Svard SG, Sogin ML.

Science. 2007 Sep 28;317(5846):1921-6.

PMID:
17901334
[PubMed - indexed for MEDLINE]
Free Article
18.

The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation.

McNeil LK, Reich C, Aziz RK, Bartels D, Cohoon M, Disz T, Edwards RA, Gerdes S, Hwang K, Kubal M, Margaryan GR, Meyer F, Mihalo W, Olsen GJ, Olson R, Osterman A, Paarmann D, Paczian T, Parrello B, Pusch GD, Rodionov DA, Shi X, Vassieva O, Vonstein V, Zagnitko O, Xia F, Zinner J, Overbeek R, Stevens R.

Nucleic Acids Res. 2007 Jan;35(Database issue):D347-53. Epub 2006 Dec 1.

PMID:
17145713
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

A computer simulation analysis of the accuracy of partial genome sequencing and restriction fragment analysis in the reconstruction of phylogenetic relationships.

Qiao B, Goldberg TL, Olsen GJ, Weigel RM.

Infect Genet Evol. 2006 Jul;6(4):323-30. Epub 2006 Jan 6.

PMID:
16406823
[PubMed - indexed for MEDLINE]
20.

Evolution of eukaryotic transcription: insights from the genome of Giardia lamblia.

Best AA, Morrison HG, McArthur AG, Sogin ML, Olsen GJ.

Genome Res. 2004 Aug;14(8):1537-47.

PMID:
15289474
[PubMed - indexed for MEDLINE]
Free PMC Article

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