A genome-wide sequence-independent comparative analysis of insertion-deletion polymorphisms in multiple Mycobacterium tuberculosis strains

被引：6

作者：

Azhikina, T

Gvozdevsky, N

Botvinnik, A

Fushan, A

Shemyakin, I

Stepanshina, V

Lipin, M

Barry, CB

Sverdlov, E

机构：

[1] Russian Acad Sci, Shemyakin Ovchinnikov Inst Bioorgan Chem, Lab Struct & Funct Human Genes, Moscow 117997, Russia

[2] State Res Ctr Appl Microbiol, Obolensk 142279, Russia

[3] NIAID, TB Res Stn, NIH, Rockville, MD 20852 USA

来源：

RESEARCH IN MICROBIOLOGY | 2006年 / 157卷 / 03期

关键词：

Mycobacterium tuberculosis strains; subtractive hybridization; comparative genomics;

D O I：

10.1016/j.resmic.2005.08.002

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

We applied an enhanced version of subtractive hybridization for comparative analyses of indel differences between genomes of several Mycobacterium tuberculosis strains widespread in Russian regions, and the H37Rv reference strain. A number of differences were detected and partially analyzed, thus demonstrating the practicality of the approach. A majority of the insertions found were shared by all Russian strains, except for strain 1540 that revealed the highest virulence in animal tests. This strain possesses a number of genes absent from other clinical strains. Two of the differential genes were found to encode putative membrane proteins and are presumed to affect mycobacterial interaction with the host cell, thus enhancing virulent properties of the isolate. The method used is of general application, and enables the elaboration of a catalogue of indel polymorphic genomic differences between closely related strains. (c) 2005 Elsevier SAS. All rights reserved.

引用

页码：282 / 290

页数：9

共 47 条

[1] Sequence analysis corresponding to the PPE and PE proteins in Mycobacterium tuberculosis and other genomes [J].

Adindla, S ;

Guruprasad, L .

JOURNAL OF BIOSCIENCES, 2003, 28 (02) :169-179

[2] PCR-based subtractive hybridization and differences in gene content among strains of Helicobacter pylori [J].

Akopyants, NS ;

Fradkov, A ;

Diatchenko, L ;

Hill, JE ;

Siebert, PD ;

Lukyanov, SA ;

Sverdlov, ED ;

Berg, DE .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (22) :13108-13113

[3] Gapped BLAST and PSI-BLAST: a new generation of protein database search programs [J].

Altschul, SF ;

Madden, TL ;

Schaffer, AA ;

Zhang, JH ;

Zhang, Z ;

Miller, W ;

Lipman, DJ .

NUCLEIC ACIDS RESEARCH, 1997, 25 (17) :3389-3402

[4] Attenuation of virulence by disruption of the Mycobacterium tuberculosis erp gene [J].

Berthet, FX ;

Lagranderie, M ;

Gounon, P ;

Laurent-Winter, C ;

Ensergueix, D ;

Chavarot, P ;

Thouron, F ;

Maranghi, E ;

Pelicic, V ;

Portnoï, D ;

Marchal, G ;

Gicquel, B .

SCIENCE, 1998, 282 (5389) :759-762

[5] A new evolutionary scenario for the Mycobacterium tuberculosis complex [J].

Brosch, R ;

Gordon, SV ;

Marmiesse, M ;

Brodin, P ;

Buchrieser, C ;

Eiglmeier, K ;

Garnier, T ;

Gutierrez, C ;

Hewinson, G ;

Kremer, K ;

Parsons, LM ;

Pym, AS ;

Samper, S ;

van Soolingen, D ;

Cole, ST .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2002, 99 (06) :3684-3689

[6] Unique chromosomal regions associated with virulence of an avian pathogenic Escherichia coli strain [J].

Brown, PK ;

Curtiss, R .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1996, 93 (20) :11149-11154

[7] Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence [J].

Cole, ST ;

Brosch, R ;

Parkhill, J ;

Garnier, T ;

Churcher, C ;

Harris, D ;

Gordon, SV ;

Eiglmeier, K ;

Gas, S ;

Barry, CE ;

Tekaia, F ;

Badcock, K ;

Basham, D ;

Brown, D ;

Chillingworth, T ;

Connor, R ;

Davies, R ;

Devlin, K ;

Feltwell, T ;

Gentles, S ;

Hamlin, N ;

Holroyd, S ;

Hornby, T ;

Jagels, K ;

Krogh, A ;

McLean, J ;

Moule, S ;

Murphy, L ;

Oliver, K ;

Osborne, J ;

Quail, MA ;

Rajandream, MA ;

Rogers, J ;

Rutter, S ;

Seeger, K ;

Skelton, J ;

Squares, R ;

Squares, S ;

Sulston, JE ;

Taylor, K ;

Whitehead, S ;

Barrell, BG .

NATURE, 1998, 393 (6685) :537-+

[8] MUTATION OF THE PRINCIPAL SIGMA-FACTOR CAUSES LOSS OF VIRULENCE IN A STRAIN OF THE MYCOBACTERIUM-TUBERCULOSIS COMPLEX [J].

COLLINS, DM ;

KAWAKAMI, RP ;

DELISLE, GW ;

PASCOPELLA, L ;

BLOOM, BR ;

JACOBS, WR .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1995, 92 (17) :8036-8040

[9] MmpL8 is required for sulfolipid-1 biosynthesis and Mycobacterium tuberculosis virulence [J].

Converse, SE ;

Mougous, JD ;

Leavell, MD ;

Leary, JA ;

Bertozzi, CR ;

Cox, JS .

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 2003, 100 (10) :6121-6126

[10] Complex lipid determine tissue specific replication of Mycobacterium tuberculosis in mice [J].

Cox, JS ;

Chen, B ;

McNeil, M ;

Jacobs, WR .

NATURE, 1999, 402 (6757) :79-83

← 1 2 3 4 5 →