Environmental mycobacteria closely related to the pathogenic species evidenced in an acidic forest wetland

Soil Biology and Biochemistry

Volumn 43, Issue 3, 2011, Pages 697-700

  Kopecky, Jan ^a   Kyselkova, Martina ^b,c,d   Omelka, Marek ^e   Cermak, Ladislav ^a   Novotna, Jitka ^a   Grundmann, Geneviève ^b,c,d   Moënne Loccoz, Yvan ^b,c,d   Sagova Mareckova, Marketa ^a  

^a CROP RESEARCH INSTITUTE   (Czech Republic)

^b UNIVERSITÉ DE LYON   (France)

^c UNIVERSITÉ LYON 1   (France)

^d University of Lyon   (France)

^e CHARLES UNIVERSITY   (Czech Republic)

Author keywords

Diversity; Mycobacterium; Organic matter; Pathogenic strains; Seasons

Indexed keywords

DIVERSITY; MYCOBACTERIUM; ORGANIC MATTER; PATHOGENIC STRAINS; SEASONS;

BIOGEOCHEMISTRY; BIOLOGICAL MATERIALS; CLONING; ORGANIC COMPOUNDS; RESERVOIRS (WATER); RNA; WETLANDS;

SOILS;

ABUNDANCE; ACIDITY; ASSESSMENT METHOD; BACTERIUM; CLUSTER ANALYSIS; FOREST ECOSYSTEM; GENETIC ANALYSIS; IDENTIFICATION METHOD; ORGANIC MATTER; PATHOGENICITY; SEASONAL VARIATION; SOIL HORIZON; SOIL MICROORGANISM; SPECIES DIVERSITY; WETLAND;

CORYNEBACTERINEAE; MYCOBACTERIUM;

EID: 78751566582     PISSN: 00380717     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.soilbio.2010.11.033     Document Type: Article

References (27)

1. Bolster C.H., Cook K.L., Haznedaroglu B.Z., Walker S.L. The transport of Mycobacterium avium subsp. paratuberculosis through saturated aquifer materials. Letters in Applied Microbiology 2009, 48:307-312.
2. Cermak L., Kopecky J., Novotna J., Omelka M., Parkhomenko N., Plhackova K., Sagova- Mareckova M. Bacterial communities of two contrasting soils reacted differently to lincomycin treatment. Applied Soil Ecology 2008, 40:348-358.
3. Cheung P.Y., Kinkle B.K. Mycobacterium diversity and pyrene mineralization in petroleum-contaminated soils. Applied and Environmental Microbiology 2001, 67:2222-2229.
4. Chilima B.Z., Clark I.M., Floyd S., Fine P.E.M., Hirsch P.R. Distribution of environmental mycobacteria in Karonga district, Northern Malawi. Applied and Environmental Microbiology 2006, 72:2343-2350.
5. Cook G.M., Berney M., Gebhard S., Heinemann M., Cox R.A., Danilchanka O., Niederweis M. Physiology of mycobacteria. Advances in Microbial Physiology 2009, vol. 55:82-182. Elsevier, London. R.K. Poole (Ed.).
6. Dailloux M., Laurain C., Weber M., Hartemann P. Water and nontuberculous mycobacteria. Water Research 1999, 33:2219-2228.
7. Donoghue H.D., Overend E.J., Stanford L. A longitudinal study of environmental mycobacteria on a farm in south-west England. Journal of Applied Microbiology 1997, 82:57-67.
8. Durnez L., Eddyani M., Mgode G.F., Katakweba A., Katholi C.R., Machang'u R.R., Kazwala R.R., Portaels F., Leirs H. First detection of mycobacteria in African rodents and insectivores using stratified pool screening. Applied and Environmental Microbioogy 2008, 74:768-773.
9. Edgar R.C. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 2004, 32:1792-1797.
10. Iivanainen E.K., Martikainen P.J., Raisanen M.L., Katila M.L. Mycobacteria in boreal coniferous forest soils. FEMS Microbiology Ecology 1997, 23:325-332.
11. Jang J., Becq J., Gicquel B., Deschavanne P., Neyrolle S.O. Horizontally acquired genomic islands in the tubercle bacilli. Trends in Microbiology 2008, 16:303-308.
12. Jow H., Hudelot C., Rattray M., Higgs P. Bayesian phylogenetics using an RNA substitution model applied to early mammalian evolution. Molecular Biology and Evolution 2002, 19:1591-1601.
13. Kropf S., Heuer H., Grüning M., Smalla K. Significance test for comparing complex microbial community fingerprints using pairwise similarity measures. Journal of Microbiological Methods 2004, 57:187-195.
14. Legendre P., Legendre L. Numerical Ecology 1998, Elsevier Science B.V., Amsterdam, 560-563. second ed.
15. McVeigh H.P., Munro J., Embley T.M. Molecular evidence for the presence of novel actinomycete lineages in a temperate forest soil. Journal of Industrial Microbiology 1996, 17:197-204.
16. Mendum T.A., Chilima B.Z., Hirsch P.R. The PCR amplification of non-tuberculous mycobacterial 16S rRNA sequences from soil. FEMS Microbiology Letters 2000, 185:189-192.
17. Nieminen T., Pakarinen J., Tsitko I., Salkinoja-Salonen M., Breistenstein A., Ali-Vehmas T., Neubauer P. 16S rRNA targeted sandwich hybridization method for direct quantification of mycobacteria in soils. Journal of Microbiological Methods 2006, 67:44-55.
18. Niva M., Hernesmaa A., Haahtela K., Salkinoja-Salonen M., Sivonen K., Haukka K. Actinobacterial communities of boreal forest soil and lake water are rich in mycobacteria. Boreal Environmental Research 2006, 11:45-53.
19. Norby B., Fosgate G.T., Manning E.J.B., Collins M.T., Roussel A.J. Environmental mycobacteria in soil and water on beef ranches: association between presence of cultivable mycobacteria and soil and water physicochemical characteristics. Veterinary Microbiology 2007, 124:153-159.
20. Pakarinen J., Nieminen T., Tirkkonen T., Tsitko I., Ali-Vehmas T., Neubauer P., Salkinoja-Salonen M.S. Proliferation of mycobacteria in a piggery environment revealed by mycobacterium-specific real-time quantitative PCR and 16S rRNA sandwich hybridization. Veterinary Microbiology 2007, 120:105-112.
21. Parashar D., Ram D., Chauhan D.S., Sharma V.D., Lavania M., Yadav V.S., Chauhan S.V.S., Katoch V.M. Identification of environmental mycobacteria isolated from Agra north India by conventional and molecular approaches. Indian Journal of Medical Research 2009, 129:424-431.
22. Sagova-Mareckova M., Cermak L., Novotna J., Plhackova K., Forstova J., Kopecky J. Innovative methods for soil DNA purification tested in soils of widely differing characteristics. Applied and Environmental Microbiology 2008, 74:2902-2907.
23. Schloss P.D., Westcott S.L., Ryabin T., Hall J.R., Hartman M., Hollister E.B., Lesniewski R.A., Oakley B.B., Parks D.H., Robinson C.J., Sahl J.W., Stres B., Thallinger G.G., Van Horn D.J., Weber C.F. Introducing mothur: open source, platform-independent, community-supported software for describing and comparing microbial communities. Applied and Environmental Microbiology 2009, 75:7537-7541.
24. Tortoli E. Impact of genotypic studies on mycobacterial taxonomy: the new mycobacteria of the 1990s. Clinical Microbiology Reviews 2003, 16:319-354.
25. Tortoli E. Clinical manifestations of nontuberculous mycobacteria infections. Clinical Microbiological Infections 2009, 15:906-910.
26. Venables W.N., Ripley B.D. Modern Applied Statistics with S 2002, Springer, New York, NY.
27. Whittington R.J., Marsh I.B., Reddacliff L.A. Survival of Mycobacterium avium subsp. Paratuberculosis in dam water and sediment. Applied and Environmental Microbiology 2005, 71:5304-5308.