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Items: 1 to 20 of 31

1.

Mobile DNA can drive lineage extinction in prokaryotic populations.

Rankin DJ, Bichsel M, Wagner A.

J Evol Biol. 2010 Nov;23(11):2422-31. doi: 10.1111/j.1420-9101.2010.02106.x. Epub 2010 Sep 21.

2.

Comparative genomics reveal extensive transposon-mediated genomic plasticity and diversity among potential effector proteins within the genus Coxiella.

Beare PA, Unsworth N, Andoh M, Voth DE, Omsland A, Gilk SD, Williams KP, Sobral BW, Kupko JJ 3rd, Porcella SF, Samuel JE, Heinzen RA.

Infect Immun. 2009 Feb;77(2):642-56. doi: 10.1128/IAI.01141-08. Epub 2008 Dec 1.

3.

Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A.

Salzberg SL, Sommer DD, Schatz MC, Phillippy AM, Rabinowicz PD, Tsuge S, Furutani A, Ochiai H, Delcher AL, Kelley D, Madupu R, Puiu D, Radune D, Shumway M, Trapnell C, Aparna G, Jha G, Pandey A, Patil PB, Ishihara H, Meyer DF, Szurek B, Verdier V, Koebnik R, Dow JM, Ryan RP, Hirata H, Tsuyumu S, Won Lee S, Seo YS, Sriariyanum M, Ronald PC, Sonti RV, Van Sluys MA, Leach JE, White FF, Bogdanove AJ.

BMC Genomics. 2008 May 1;9:204. doi: 10.1186/1471-2164-9-204. Erratum in: BMC Genomics. 2008;9:534.. Seo, Young-Su [added]; Sriariyanum, Malinee [added].

4.

IS1096-mediated DNA rearrangements play a key role in genome evolution of Mycobacterium smegmatis.

Wang XM, Galamba A, Warner DF, Soetaert K, Merkel JS, Kalai M, Bifani P, Lefèvre P, Mizrahi V, Content J.

Tuberculosis (Edinb). 2008 Sep;88(5):399-409. doi: 10.1016/j.tube.2008.02.003. Epub 2008 Apr 24.

PMID:
18439874
5.

MEGA: a biologist-centric software for evolutionary analysis of DNA and protein sequences.

Kumar S, Nei M, Dudley J, Tamura K.

Brief Bioinform. 2008 Jul;9(4):299-306. doi: 10.1093/bib/bbn017. Epub 2008 Apr 16.

6.

Population level functional diversity in a microbial community revealed by comparative genomic and metagenomic analyses.

Bhaya D, Grossman AR, Steunou AS, Khuri N, Cohan FM, Hamamura N, Melendrez MC, Bateson MM, Ward DM, Heidelberg JF.

ISME J. 2007 Dec;1(8):703-13. Epub 2007 Oct 25.

PMID:
18059494
7.

Database resources of the National Center for Biotechnology Information.

Wheeler DL, Barrett T, Benson DA, Bryant SH, Canese K, Chetvernin V, Church DM, Dicuccio M, Edgar R, Federhen S, Feolo M, Geer LY, Helmberg W, Kapustin Y, Khovayko O, Landsman D, Lipman DJ, Madden TL, Maglott DR, Miller V, Ostell J, Pruitt KD, Schuler GD, Shumway M, Sequeira E, Sherry ST, Sirotkin K, Souvorov A, Starchenko G, Tatusov RL, Tatusova TA, Wagner L, Yaschenko E.

Nucleic Acids Res. 2008 Jan;36(Database issue):D13-21. Epub 2007 Nov 27.

8.

The integrated microbial genomes (IMG) system in 2007: data content and analysis tool extensions.

Markowitz VM, Szeto E, Palaniappan K, Grechkin Y, Chu K, Chen IM, Dubchak I, Anderson I, Lykidis A, Mavromatis K, Ivanova NN, Kyrpides NC.

Nucleic Acids Res. 2008 Jan;36(Database issue):D528-33. Epub 2007 Oct 12.

9.

Interspecies spread of CTX-M-32 extended-spectrum beta-lactamase and the role of the insertion sequence IS1 in down-regulating bla CTX-M gene expression.

Fernández A, Gil E, Cartelle M, Pérez A, Beceiro A, Mallo S, Tomás MM, Pérez-Llarena FJ, Villanueva R, Bou G.

J Antimicrob Chemother. 2007 May;59(5):841-7. Epub 2007 Mar 1.

PMID:
17332005
10.

Causes of insertion sequences abundance in prokaryotic genomes.

Touchon M, Rocha EP.

Mol Biol Evol. 2007 Apr;24(4):969-81. Epub 2007 Jan 23.

PMID:
17251179
11.

ISfinder: the reference centre for bacterial insertion sequences.

Siguier P, Perochon J, Lestrade L, Mahillon J, Chandler M.

Nucleic Acids Res. 2006 Jan 1;34(Database issue):D32-6.

12.

Mobile genetic elements: the agents of open source evolution.

Frost LS, Leplae R, Summers AO, Toussaint A.

Nat Rev Microbiol. 2005 Sep;3(9):722-32. Review.

PMID:
16138100
13.

Genomic insights that advance the species definition for prokaryotes.

Konstantinidis KT, Tiedje JM.

Proc Natl Acad Sci U S A. 2005 Feb 15;102(7):2567-72. Epub 2005 Feb 8.

14.
15.

Dynamics of insertion sequence elements during experimental evolution of bacteria.

Schneider D, Lenski RE.

Res Microbiol. 2004 Jun;155(5):319-27. Review.

PMID:
15207863
16.

MUSCLE: multiple sequence alignment with high accuracy and high throughput.

Edgar RC.

Nucleic Acids Res. 2004 Mar 19;32(5):1792-7. Print 2004.

17.

Type IV pili-related natural transformation systems: DNA transport in mesophilic and thermophilic bacteria.

Averhoff B, Friedrich A.

Arch Microbiol. 2003 Dec;180(6):385-93. Epub 2003 Oct 31. Review.

PMID:
14593449
18.

Fast algorithms for large-scale genome alignment and comparison.

Delcher AL, Phillippy A, Carlton J, Salzberg SL.

Nucleic Acids Res. 2002 Jun 1;30(11):2478-83.

19.

Perspective: transposable elements, parasitic DNA, and genome evolution.

Kidwell MG, Lisch DR.

Evolution. 2001 Jan;55(1):1-24. Review.

PMID:
11263730
20.

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