The gene expression data of Mycobacterium tuberculosis based on Affymetrix gene chips provide insight into regulatory and hypothetical genes

BMC Microbiology

Volumn 7, Issue , 2007, Pages

  Fu, Li M ^a   Fu Liu, Casey S ^a  

^a Pacific Tuberculosis and Cancer Research Organization   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

REGULATOR PROTEIN; BACTERIAL RNA; MESSENGER RNA;

ARTICLE; CLUSTER ANALYSIS; DRUG TARGETING; ENERGY YIELD; GENE CLUSTER; GENE CONTROL; GENE EXPRESSION; GENE EXPRESSION PROFILING; IN VITRO STUDY; LIPID METABOLISM; MICROARRAY ANALYSIS; MYCOBACTERIUM TUBERCULOSIS; NONHUMAN; PREVENTION AND CONTROL; BACTERIAL GENE; DNA MICROARRAY; GENETICS; GROWTH, DEVELOPMENT AND AGING; HUMAN; REGULATOR GENE;

BACTERIA (MICROORGANISMS); MYCOBACTERIUM TUBERCULOSIS;

GENE EXPRESSION PROFILING; GENES, BACTERIAL; GENES, REGULATOR; HUMANS; MYCOBACTERIUM TUBERCULOSIS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; RNA, BACTERIAL; RNA, MESSENGER;

EID: 34249773992     PISSN: 14712180     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/1471-2180-7-37     Document Type: Article

References (27)

1. Comparative genomics of BCG vaccines by whole-genome DNA microarray. MA Behr MA Wilson WP Gill H Salamon GK Schoolnik S Rane PM Small, Science 1999 284 1520 1523 10.1126/science.284.5419.1520 10348738
2. Comparing genomes within the species Mycobacterium tuberculosis. M Kato-Maeda JT Rhee TR Gingeras H Salamon J Drenkow N Smittipat PM Small, Genome Res 2001 11 547 554 11282970 10.1101/gr.166401
3. Mycobacterium species identification and rifampin resistance testing with high-density DNA probe arrays. A Troesch H Nguyen CG Miyada S Desvarenne TR Gingeras PM Kaplan P Cros C Mabilat, J Clin Microbiol 1999 37 49 55 9854063
4. Simultaneous genotyping and species identification using hybridization pattern recognition analysis of generic Mycobacterium DNA arrays. TR Gingeras G Ghandour E Wang A Berno PM Small F Drobniewski D Alland E Desmond M Holodniy J Drenkow, Genome Res 1998 8 435 448 9582189
5. Exploring drug-induced alterations in gene expression in Mycobacterium tuberculosis by microarray hybridization. M Wilson J DeRisi HH Kristensen P Imboden S Rane PO Brown GK Schoolnik, Proc Natl Acad Sci U S A 1999 96 12833 12838 10536008 10.1073/pnas.96.22.12833
6. Regulation of the Mycobacterium tuberculosis hypoxic response gene encoding alpha -crystallin. DR Sherman M Voskuil D Schnappinger R Liao MI Harrell GK Schoolnik, Proc Natl Acad Sci U S A 2001 98 7534 7539 11416222 10.1073/pnas.121172498
7. Evaluation of a nutrient starvation model of Mycobacterium tuberculosis persistence by gene and protein expression profiling. JC Betts PT Lukey LC Robb RA McAdam K Duncan, Mol Microbiol 2002 43 717 731 10.1046/j.1365-2958.2002. 02779.x 11929527
8. Dissection of the heat-shock response in Mycobacterium tuberculosis using mutants and microarrays. GR Stewart L Wernisch R Stabler JA Mangan J Hinds KG Laing DB Young PD Butcher, Microbiology 2002 148 3129 3138 12368446
9. Unique transcriptome signature of Mycobacterium tuberculosis in pulmonary tuberculosis. H Rachman M Strong T Ulrichs L Grode J Schuchhardt H Mollenkopf GA Kosmiadi D Eisenberg SH Kaufmann, Infect Immun 2006 74 1233 1242 16428773 10.1128/IAI.74.2.1233-1242.2006
10. Genes required for mycobacterial growth defined by high density mutagenesis. CM Sassetti DH Boyd EJ Rubin, Mol Microbiol 2003 48 77 84 10.1046/j.1365-2958.2003.03425.x 12657046
11. Cluster analysis and display of genome-wide expression patterns. MB Eisen PT Spellman PO Brown D Botstein, Proc Natl Acad Sci U S A 1998 95 14863 14868 9843981 10.1073/pnas.95.25.14863
12. Changes in energy metabolism of Mycobacterium tuberculosis in mouse lung and under in vitro conditions affecting aerobic respiration. L Shi CD Sohaskey BD Kana S Dawes RJ North V Mizrahi ML Gennaro, Proc Natl Acad Sci U S A 2005 102 15629 15634 16227431 10.1073/pnas.0507850102
13. Growth-related expression of ribosomal protein genes in Saccharomyces cerevisiae. LS Kraakman G Griffioen S Zerp P Groeneveld JM Thevelein WH Mager RJ Planta, Mol Gen Genet 1993 239 196 204 8389977
14. Re-annotation of the genome sequence of Mycobacterium tuberculosis H37Rv. JC Camus MJ Pryor C Medigue ST Cole, Microbiology 2002 148 2967 2973 12368430
15. Molecular Medical Microbiology. M Sussman, San Diego, Academic Press 2002 1
16. Molecular genetic characterisation of whiB3, a mycobacterial homologue of a Streptomyces sporulation factor. B Hutter T Dick, Res Microbiol 1999 150 295 301 10.1016/S0923-2508(99)80055-2 10422690
17. The TetR family of transcriptional repressors. JL Ramos M Martinez-Bueno AJ Molina-Henares W Teran K Watanabe X Zhang MT Gallegos R Brennan R Tobes, Microbiol Mol Biol Rev 2005 69 326 356 15944459 10.1128/MMBR.69.2.326-356.2005
18. Dual control by regulators, GntH and GntR, of the GntII genes for gluconate metabolism in Escherichia coli. R Tsunedomi H Izu T Kawai M Yamada, J Mol Microbiol Biotechnol 2003 6 41 56 10.1159/000073407 14593252
19. The AraC family transcriptional regulator Rv1931c plays a role in the virulence of Mycobacterium tuberculosis. CC Frota KG Papavinasasundaram EO Davis MJ Colston, Infect Immun 2004 72 5483 5486 15322050 10.1128/IAI.72.9.5483-5486. 2004
20. Microarrays: biotechnology's discovery platform for functional genomics. M Schena RA Heller TP Theriault K Konrad E Lachenmeier RW Davis, Trends Biotechnol 1998 16 301 306 10.1016/S0167-7799(98)01219-0 9675914
21. Functional genomics: it's all how you read it. P Hieter M Boguski, Science 1997 278 601 602 10.1126/science.278.5338.601 9381168
22. Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. PT Spellman G Sherlock MQ Zhang VR Iyer K Anders MB Eisen PO Brown D Botstein B Futcher, Mol Biol Cell 1998 9 3273 3297 9843569
23. Mycobacterium tuberculosis gene expression during adaptation to stationary phase and low-oxygen dormancy. MI Voskuil KC Visconti GK Schoolnik, Tuberculosis (Edinb) 2004 84 218 227 10.1016/j.tube.2004.02.003 15207491
24. The temporal expression profile of Mycobacterium tuberculosis infection in mice. AM Talaat R Lyons ST Howard SA Johnston, Proc Natl Acad Sci U S A 2004 101 4602 4607 15070764 10.1073/pnas.0306023101
25. Persistence of Mycobacterium tuberculosis in macrophages and mice requires the glyoxylate shunt enzyme isocitrate lyase. JD McKinney K Honer zu Bentrup EJ Munoz-Elias A Miczak B Chen WT Chan D Swenson JC Sacchettini WR Jacobs Jr. DG Russell, Nature 2000 406 735 738 10.1038/35021074 10963599
26. Mycobacterium tuberculosis pathogenesis and molecular determinants of virulence. I Smith, Clin Microbiol Rev 2003 16 463 496 12857778 10.1128/CMR.16.3.463-496.2003
27. Microarray analysis of the Mycobacterium tuberculosis transcriptional response to the acidic conditions found in phagosomes. MA Fisher BB Plikaytis TM Shinnick, J Bacteriol 2002 184 4025 4032 12081975 10.1128/JB.184.14.4025-4032. 2002