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Items: 1 to 20 of 118

1.

After the bottleneck: Genome-wide diversification of the Mycobacterium tuberculosis complex by mutation, recombination, and natural selection.

Namouchi A, Didelot X, Schöck U, Gicquel B, Rocha EP.

Genome Res. 2012 Apr;22(4):721-34. doi: 10.1101/gr.129544.111. Epub 2012 Feb 29.

2.

The role of selection in shaping diversity of natural M. tuberculosis populations.

Pepperell CS, Casto AM, Kitchen A, Granka JM, Cornejo OE, Holmes EC, Birren B, Galagan J, Feldman MW.

PLoS Pathog. 2013 Aug;9(8):e1003543. doi: 10.1371/journal.ppat.1003543. Epub 2013 Aug 15. Erratum in: PLoS Pathog. 2013 Aug;9(8). doi:10.1371/annotation/cff22061-44d5-4301-b853-41702d160203. Holmes, Eddie C [corrected to Holmes, Edward C].

3.

Evidence for a rapid rate of molecular evolution at the hypervariable and immunogenic Mycobacterium tuberculosis PPE38 gene region.

McEvoy CR, van Helden PD, Warren RM, Gey van Pittius NC.

BMC Evol Biol. 2009 Sep 21;9:237. doi: 10.1186/1471-2148-9-237.

4.

Genomic epidemiology of Lineage 4 Mycobacterium tuberculosis subpopulations in New York City and New Jersey, 1999-2009.

Brown TS, Narechania A, Walker JR, Planet PJ, Bifani PJ, Kolokotronis SO, Kreiswirth BN, Mathema B.

BMC Genomics. 2016 Nov 21;17(1):947.

5.

Evolution of smooth tubercle Bacilli PE and PE_PGRS genes: evidence for a prominent role of recombination and imprint of positive selection.

Namouchi A, Karboul A, Fabre M, Gutierrez MC, Mardassi H.

PLoS One. 2013 May 21;8(5):e64718. doi: 10.1371/journal.pone.0064718. Print 2013.

6.

Sequence diversity in the pe_pgrs genes of Mycobacterium tuberculosis is independent of human T cell recognition.

Copin R, Coscollá M, Seiffert SN, Bothamley G, Sutherland J, Mbayo G, Gagneux S, Ernst JD.

MBio. 2014 Jan 14;5(1):e00960-13. doi: 10.1128/mBio.00960-13.

7.

Genome-wide analysis of synonymous single nucleotide polymorphisms in Mycobacterium tuberculosis complex organisms: resolution of genetic relationships among closely related microbial strains.

Gutacker MM, Smoot JC, Migliaccio CA, Ricklefs SM, Hua S, Cousins DV, Graviss EA, Shashkina E, Kreiswirth BN, Musser JM.

Genetics. 2002 Dec;162(4):1533-43.

8.

Population genomics of Chlamydia trachomatis: insights on drift, selection, recombination, and population structure.

Joseph SJ, Didelot X, Rothschild J, de Vries HJ, Morré SA, Read TD, Dean D.

Mol Biol Evol. 2012 Dec;29(12):3933-46. doi: 10.1093/molbev/mss198. Epub 2012 Aug 13.

9.

Evolution and diversity of clonal bacteria: the paradigm of Mycobacterium tuberculosis.

Dos Vultos T, Mestre O, Rauzier J, Golec M, Rastogi N, Rasolofo V, Tonjum T, Sola C, Matic I, Gicquel B.

PLoS One. 2008 Feb 6;3(2):e1538. doi: 10.1371/journal.pone.0001538.

10.

Evidence for recombination in Mycobacterium tuberculosis.

Liu X, Gutacker MM, Musser JM, Fu YX.

J Bacteriol. 2006 Dec;188(23):8169-77. Epub 2006 Sep 22.

11.

Comparative analysis of Mycobacterium tuberculosis pe and ppe genes reveals high sequence variation and an apparent absence of selective constraints.

McEvoy CR, Cloete R, Müller B, Schürch AC, van Helden PD, Gagneux S, Warren RM, Gey van Pittius NC.

PLoS One. 2012;7(4):e30593. doi: 10.1371/journal.pone.0030593. Epub 2012 Apr 4.

12.

Deciphering the recent phylogenetic expansion of the originally deeply rooted Mycobacterium tuberculosis lineage 7.

Yimer SA, Namouchi A, Zegeye ED, Holm-Hansen C, Norheim G, Abebe M, Aseffa A, Tønjum T.

BMC Evol Biol. 2016 Jun 30;16(1):146. doi: 10.1186/s12862-016-0715-z.

13.

A new high-throughput AFLP approach for identification of new genetic polymorphism in the genome of the clonal microorganism Mycobacterium tuberculosis.

van den Braak N, Simons G, Gorkink R, Reijans M, Eadie K, Kremers K, van Soolingen D, Savelkoul P, Verbrugh H, van Belkum A.

J Microbiol Methods. 2004 Jan;56(1):49-62.

PMID:
14706750
14.

The evolutionary landscape of the Mycobacterium tuberculosis genome.

Wang TC, Chen FC.

Gene. 2013 Apr 10;518(1):187-93. doi: 10.1016/j.gene.2012.11.033. Epub 2012 Dec 7.

PMID:
23219994
15.

Interplay of recombination and selection in the genomes of Chlamydia trachomatis.

Joseph SJ, Didelot X, Gandhi K, Dean D, Read TD.

Biol Direct. 2011 May 26;6:28. doi: 10.1186/1745-6150-6-28.

16.

Evidence for diversifying selection in a set of Mycobacterium tuberculosis genes in response to antibiotic- and nonantibiotic-related pressure.

Osório NS, Rodrigues F, Gagneux S, Pedrosa J, Pinto-Carbó M, Castro AG, Young D, Comas I, Saraiva M.

Mol Biol Evol. 2013 Jun;30(6):1326-36. doi: 10.1093/molbev/mst038. Epub 2013 Feb 28.

PMID:
23449927
17.

Recombination in pe/ppe genes contributes to genetic variation in Mycobacterium tuberculosis lineages.

Phelan JE, Coll F, Bergval I, Anthony RM, Warren R, Sampson SL, Gey van Pittius NC, Glynn JR, Crampin AC, Alves A, Bessa TB, Campino S, Dheda K, Grandjean L, Hasan R, Hasan Z, Miranda A, Moore D, Panaiotov S, Perdigao J, Portugal I, Sheen P, de Oliveira Sousa E, Streicher EM, van Helden PD, Viveiros M, Hibberd ML, Pain A, McNerney R, Clark TG.

BMC Genomics. 2016 Feb 29;17:151. doi: 10.1186/s12864-016-2467-y.

18.

Genomic analysis of smooth tubercle bacilli provides insights into ancestry and pathoadaptation of Mycobacterium tuberculosis.

Supply P, Marceau M, Mangenot S, Roche D, Rouanet C, Khanna V, Majlessi L, Criscuolo A, Tap J, Pawlik A, Fiette L, Orgeur M, Fabre M, Parmentier C, Frigui W, Simeone R, Boritsch EC, Debrie AS, Willery E, Walker D, Quail MA, Ma L, Bouchier C, Salvignol G, Sayes F, Cascioferro A, Seemann T, Barbe V, Locht C, Gutierrez MC, Leclerc C, Bentley SD, Stinear TP, Brisse S, Médigue C, Parkhill J, Cruveiller S, Brosch R.

Nat Genet. 2013 Feb;45(2):172-9. doi: 10.1038/ng.2517. Epub 2013 Jan 6.

19.

[Population structure analysis of Mycobacterium tuberculosis Beijing family in Japan].

Iwamoto T.

Kekkaku. 2009 Dec;84(12):755-9. Japanese.

PMID:
20077859
20.

Comparative genomic analysis of Mycobacterium tuberculosis clinical isolates.

Liu F, Hu Y, Wang Q, Li HM, Gao GF, Liu CH, Zhu B.

BMC Genomics. 2014 Jun 13;15:469. doi: 10.1186/1471-2164-15-469.

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