Complex sputum microbial composition in patients with pulmonary tuberculosis

BMC Microbiology

Volumn 12, Issue , 2012, Pages

  Cui, Zelin ^a   Zhou, Yuhua ^a   Li, Hong ^b   Zhang, Yan ^a   Zhang, Shulin ^a   Tang, Shenjie ^b   Guo, Xiaokui ^a  

^a SHANGHAI JIAO TONG UNIVERSITY SCHOOL OF MEDICINE   (China)

^b TONGJI UNIVERSITY SCHOOL OF MEDICINE   (China)

Author keywords

Diversity; Microbiota; Pulmonary tuberculosis; Sputum

Indexed keywords

RNA 16S;

ADULT; AGED; ARTICLE; BACTERIUM; CLINICAL ARTICLE; COMAMONAS; CUPRIAVIDUS; DIAPHOROBACTER; DNA EXTRACTION; FEMALE; GENE AMPLIFICATION; GENETIC VARIABILITY; HUMAN; LUNG TUBERCULOSIS; MALE; METHYLOBACTERIUM; MICROBIAL COMMUNITY; MOBILICOCCUS; PSEUDOMONAS; PYROSEQUENCING; SEQUENCE ANALYSIS; SPHINGOMONAS; SPUTUM ANALYSIS; STENOTROPHOMONAS; THERMUS;

ADULT; AGED; BACTERIA; BIOTA; CLUSTER ANALYSIS; DNA, BACTERIAL; DNA, RIBOSOMAL; FEMALE; HUMANS; MALE; METAGENOME; MIDDLE AGED; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SPUTUM; TUBERCULOSIS, PULMONARY; YOUNG ADULT;

BACTERIA (MICROORGANISMS); COMAMONAS; CUPRIAVIDUS; DIAPHOROBACTER; METHYLOBACTERIUM; PSEUDOMONAS; SPHINGOMONAS; STENOTROPHOMONAS; THERMUS;

EID: 84869866892     PISSN: None     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/1471-2180-12-276     Document Type: Article

References (31)

1. Mixed infection with Beijing and non-Beijing strains and drug resistance pattern of Mycobacterium tuberculosis. Huang HY, Tsai YS, Lee JJ, Chiang MC, Chen YH, Chiang CY, Lin NT, Tsai PJ, J Clin Microbiol 2010 48 12 4474 4480 10.1128/JCM.00930-10 20980571
2. Mycobacterium Avium Complex (MAC) Lung Disease in Two Inner City Community Hospitals: Recognition, Prevalence, Co-Infection with Mycobacterium Tuberculosis (MTB) and Pulmonary Function (PF) Improvements After Treatment. Khan Z, Miller A, Bachan M, Donath J, Open Respir Med J 2010 4 76 81 10.2174/1874306401004010076 21258569
3. Systems biology of persistent infection: tuberculosis as a case study. Young D, Stark J, Kirschner D, Nat Rev Microbiol 2008 6 7 520 528 10.1038/nrmicro1919 18536727
4. What are the consequences of the disappearing human microbiota? Blaser MJ, Falkow S, Nat Rev Microbiol 2009 7 12 887 894 10.1038/nrmicro2245 19898491
5. Interspecies interactions within oral microbial communities. Kuramitsu HK, He X, Lux R, Anderson MH, Shi W, Microbiol Mol Biol Rev 2007 71 4 653 670 10.1128/MMBR.00024-07 18063722
6. Characteristic male urine microbiomes associate with asymptomatic sexually transmitted infection. Nelson DE, Van Der Pol B, Dong Q, Revanna KV, Fan B, Easwaran S, Sodergren E, Weinstock GM, Diao L, Fortenberry JD, PLoS One 2010 5 11 14116 10.1371/journal.pone.0014116 21124791
7. Interaction between obesity and the gut microbiota: relevance in nutrition. Delzenne NM, Cani PD, Annu Rev Nutr 2011 31 15 31 10.1146/annurev-nutr-072610-145146 21568707
8. Innate immunity and intestinal microbiota in the development of Type 1 diabetes. Wen L, Ley RE, Volchkov PY, Stranges PB, Avanesyan L, Stonebraker AC, Hu C, Wong FS, Szot GL, Bluestone JA, et al. Nature 2008 455 7216 1109 1113 10.1038/nature07336 18806780
9. Diversity of cervicovaginal microbiota associated with female lower genital tract infections. Ling Z, Liu X, Chen X, Zhu H, Nelson KE, Xia Y, Li L, Xiang C, Microb Ecol 2011 61 3 704 714 10.1007/s00248-011-9813-z 21287345
10. 16S rRNA gene-based analysis of fecal microbiota from preterm infants with and without necrotizing enterocolitis. Wang Y, Hoenig JD, Malin KJ, Qamar S, Petrof EO, Sun J, Antonopoulos DA, Chang EB, Claud EC, ISME J 2009 3 8 944 954 10.1038/ismej.2009.37 19369970
11. An obesity-associated gut microbiome with increased capacity for energy harvest. Turnbaugh PJ, Ley RE, Mahowald MA, Magrini V, Mardis ER, Gordon JI, Nature 2006 444 7122 1027 1031 10.1038/nature05414 17183312
12. Microbiota regulates immune defense against respiratory tract influenza A virus infection. Ichinohe T, Pang IK, Kumamoto Y, Peaper DR, Ho JH, Murray TS, Iwasaki A, Proc Natl Acad Sci U S A 2011 108 13 5354 5359 10.1073/pnas. 1019378108 21402903
13. Infection, inflammation, and chronic diseases: consequences of a modern lifestyle. Ehlers S, Kaufmann SH, Trends Immunol 2010 31 5 184 190 10.1016/j.it.2010.02.003 20399709
14. The airway microbiota in cystic fibrosis: a complex fungal and bacterial community-implications for therapeutic management. Delhaes L, Monchy S, Frealle E, Hubans C, Salleron J, Leroy S, Prevotat A, Wallet F, Wallaert B, Dei-Cas E, et al. PLoS One 2012 7 4 36313 10.1371/journal.pone.0036313 22558432
15. The emerging relationship between the airway microbiota and chronic respiratory disease: clinical implications. Huang YJ, Lynch SV, Expert Rev Respir Med 2011 5 6 809 821 10.1586/ers.11.76 22082166
16. From structure to function: the ecology of host-associated microbial communities. Robinson CJ, Bohannan BJ, Young VB, Microbiol Mol Biol Rev 2010 74 3 453 476 10.1128/MMBR.00014-10 20805407
17. Topographical continuity of bacterial populations in the healthy human respiratory tract. Charlson ES, Bittinger K, Haas AR, Fitzgerald AS, Frank I, Yadav A, Bushman FD, Collman RG, Am J Respir Crit Care Med 2011 184 8 957 963 10.1164/rccm.201104-0655OC 21680950
18. Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats. Staley JT, Konopka A, Annu Rev Microbiol 1985 39 321 346 10.1146/annurev.mi.39.100185.001541 3904603
19. Significance of the microbiome in obstructive lung disease. Han MK, Huang YJ, Lipuma JJ, Boushey HA, Boucher RC, Cookson WO, Curtis JL, Erb-Downward J, Lynch SV, Sethi S, et al. Thorax 2012 67 5 456 463 10.1136/thoraxjnl-2011-201183 22318161
20. Analysis of the microbiota of sputum samples from patients with lower respiratory tract infections. Zhou Y, Lin P, Li Q, Han L, Zheng H, Wei Y, Cui Z, Ni Y, Guo X, Acta Biochim Biophys Sin (Shanghai) 2010 42 10 754 761 10.1093/abbs/gmq081
21. A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria. Chakravorty S, Helb D, Burday M, Connell N, Alland D, J Microbiol Methods 2007 69 2 330 339 10.1016/j.mimet.2007.02.005 17391789
22. Characterization of unusual bacteria isolated from respiratory secretions of cystic fibrosis patients and description of Inquilinus limosus gen. nov., sp. nov. Coenye T, Goris J, Spilker T, Vandamme P, LiPuma JJ, J Clin Microbiol 2002 40 6 2062 2069 10.1128/JCM.40.6.2062-2069.2002 12037065
23. Community variability of bacteria in alpine snow (Mont Blanc) containing Saharan dust deposition and their snow colonisation potential. Chuvochina MS, Marie D, Chevaillier S, Petit JR, Normand P, Alekhina IA, Bulat SA, Microbes Environ 2011 26 3 237 247 10.1264/jsme2.ME11116 21666389
24. Cutaneous infectious granuloma caused by Phenylobacterium in an adult with myelodysplastic syndrome: a first case report. Zhu XH, Li F, Xu JH, Xiang LH, Kang KF, Am J Clin Dermatol 2010 11 5 363 366 10.2165/11533200-000000000- 00000 20394459
25. Phenylobacterium zucineum sp. nov., a facultative intracellular bacterium isolated from a human erythroleukemia cell line K562. Zhang K, Han W, Zhang R, Xu X, Pan Q, Hu X, Syst Appl Microbiol 2007 30 3 207 212 10.1016/j.syapm.2006. 07.002 16908113
26. Infections in immunocompromised hosts and organ transplant recipients: essentials. Fishman JA, Liver Transpl 2011 17 Suppl 3 34 37 21748845
27. Sphingomonas paucimobilis: a persistent Gram-negative nosocomial infectious organism. Ryan MP, Adley CC, J Hosp Infect 2010 75 3 153 157 10.1016/j.jhin.2010.03.007 20434794
28. To be or not to be a pathogen: that is the mucosally relevant question. Sansonetti PJ, Mucosal Immunol 2011 4 1 8 14 10.1038/mi.2010.77 21150896
29. Inflammation as cause for scar cancers of the lung. Ardies CM, Integr Cancer Ther 2003 2 3 238 246 10.1177/1534735403256332 15035887
30. The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Cole JR, Wang Q, Cardenas E, Fish J, Chai B, Farris RJ, Kulam-Syed-Mohideen AS, McGarrell DM, Marsh T, Garrity GM, et al. Nucleic Acids Res 2009 37 Database issue 141 145 19004872
31. Fast UniFrac: facilitating high-throughput phylogenetic analyses of microbial communities including analysis of pyrosequencing and PhyloChip data. Hamady M, Lozupone C, Knight R, ISME J 2010 4 1 17 27 10.1038/ismej.2009.97 19710709