Culture Collections

Bacteria and Mycoplasmas detail

Conditions of Supply of Microbial Pathogens: Safety

Bacteria Collection: Mycobacterium nonchromogenicum

NCTC Number: NCTC 10424
Current Name: Mycobacterium nonchromogenicum
Original Strain Reference: 317
Other Collection No: ATCC 23067; ATCC 19530; CCUG 28009; CIP 106811; DSM 44164; JCM 6364; TMC 1481
Previous Catalogue Name: Mycobacterium nonchromogenicum
Type Strain: Yes
Family: Mycobacteriaceae
Hazard Group (ACDP): 2
Release Restrictions: Terms & Conditions of Supply of Microbial Pathogens: Safety
Conditions for growth on solid media: Lowenstein-Jensen slopes, 24-48 hours, 37°C, aerobic
Conditions for growth on liquid media: nutrient broth,37, aerobic
Isolated From: soil
Whole Genome Sequence:
16S rRNA Gene Sequence: >gb|AF547952|DSM 44164|Mycobacterium nonchromogenicum strain DSM 44164 16S ribosomal RNAgene, partial sequence.| gtgcttaacacatgc... >gb|DQ058406|ATCC 19530|Mycobacterium nonchromogenicum strain ATCC 19530 16S ribosomal RNAgene, partial sequence.| agagtttgatcmtgg...
23S rRNA Gene Sequence: >gb|U24536|ATCC 19530|Mycobacterium nonchromogenicum 23S rRNA, partial sequence.| tgtgcctacaatccg...
Extended Bibliography: showhide Show bibliography
Ref #: 60196
Author(s): Kim,B.J.;Lee,S.H.;Lyu,M.A.;Kim,S.J.;Bai,G.H.;Chae,G.T.;Kim,E.C.;Cha,C.Y.;Kook,Y.H.
Journal: J Clin Microbiol
Title: Identification of mycobacterial species by comparative sequence analysis of the RNA polymerase gene (rpoB)
Volume: 37
Page(s): 1714-20
Year: 1999
Keyword(s): GENBANK/AF057449 GENBANK/AF057450 GENBANK/AF057451 GENBANK/AF057452 GENBANK/AF057453 GENBANK/AF057454 GENBANK/AF057455 GENBANK/AF057456 GENBANK/AF057457 GENBANK/AF057458 GENBANK/AF057459 GENBANK/AF057460 GENBANK/AF057461 GENBANK/AF057462 GENBANK/AF057463 GENBANK/AF057464 GENBANK/AF057465 GENBANK/AF057466 GENBANK/AF057467 GENBANK/AF057468 GENBANK/AF057469 GENBANK/AF057470 GENBANK/AF057471 GENBANK/AF057472 GENBANK/AF057473 GENBANK/AF057474 GENBANK/AF057475 GENBANK/AF057476 GENBANK/AF057477 GENBANK/AF057478 etc. Amino Acid Sequence DNA-Directed RNA Polymerases/chemistry/*genetics Humans Molecular Sequence Data Mycobacterium/*classification/enzymology/genetics Mycobacterium Infections/microbiology Phylogeny Restriction Mapping Sequence Alignment Sequence Homology, Amino Acid
Remarks: For the differentiation and identification of mycobacterial species, the rpoB gene, encoding the beta subunit of RNA polymerase, was investigated. rpoB DNAs (342 bp) were amplified from 44 reference strains of mycobacteria and clinical isolates (107 strains) by PCR. The nucleotide sequences were directly determined (306 bp) and aligned by using the multiple alignment algorithm in the MegAlign package (DNASTAR) and the MEGA program. A phylogenetic tree was constructed by the neighbor-joining method. Comparative sequence analysis of rpoB DNAs provided the basis for species differentiation within the genus Mycobacterium. Slowly and rapidly growing groups of mycobacteria were clearly separated, and each mycobacterial species was differentiated as a distinct entity in the phylogenetic tree. Pathogenic Mycobacterium kansasii was easily differentiated from nonpathogenic M. gastri; this differentiation cannot be achieved by using 16S rRNA gene (rDNA) sequences. By being grouped into species-specific clusters with low-level sequence divergence among strains of the same species, all of the clinical isolates could be easily identified. These results suggest that comparative sequence analysis of amplified rpoB DNAs can be used efficiently to identify clinical isolates of mycobacteria in parallel with traditional culture methods and as a supplement to 16S rDNA gene analysis. Furthermore, in the case of M. tuberculosis, rifampin resistance can be simultaneously determined.
URL: 10325313
Ref #: 75210
Author(s): Stone,B.B.;Nietupski,R.M.;Breton,G.L.;Weisburg,W.G.
Journal: Int J Syst Bacteriol
Title: Comparison of Mycobacterium 23S rRNA sequences by high-temperature reverse transcription and PCR
Volume: 45
Page(s): 811-9
Year: 1995
Keyword(s): GENBANK/U24502 GENBANK/U24503 GENBANK/U24504 GENBANK/U24505 GENBANK/U24506 GENBANK/U24507 GENBANK/U24508 GENBANK/U24509 GENBANK/U24510 GENBANK/U24511 GENBANK/U24512 GENBANK/U24513 GENBANK/U24514 GENBANK/U24515 GENBANK/U24516 GENBANK/U24517 GENBANK/U24518 GENBANK/U24519 GENBANK/U24520 GENBANK/U24521 GENBANK/U24522 GENBANK/U24523 GENBANK/U24524 GENBANK/U24525 GENBANK/U24526 GENBANK/U24527 GENBANK/U24528 GENBANK/U24529 GENBANK/U24530 GENBANK/U24531 Base Sequence Molecular Sequence Data Mycobacterium/*genetics Phylogeny *Polymerase Chain Reaction RNA, Bacterial/*chemistry RNA, Ribosomal, 16S/chemistry RNA, Ribosomal, 23S/*chemistry Temperature Transcription, Genetic
Remarks: We describe a modified rRNA sequence analysis method which we used to determine the phylogenetic relationships among 58 species belonging to the genus Mycobacterium. We combined the sensitivity of the reverse transcriptase PCR for amplifying nanogram amounts of template rRNA material with the elevated extension temperatures used for the thermostable DNA polymerase from Thermus thermophilus. A 70 degrees C reverse transcription extension step permitted improved read-through of highly structured rRNA templates from members of the genus Mycobacterium, which have G+C contents of 66 to 71 mol%. The nucleic acid sequences of the amplified material were then determined by performing thermal cycle sequencing with alpha-33P-labeled primers, again with extension at 70 degrees C. Nonspecifically terminated bands were chased by using terminal deoxynucleotidyl transferase. Our method had a template requirement of nanogram amounts or less of purified RNA or 2,000 CFU of intact cells and had sufficient sensitivity so that lyophils obtained from the American Type Culture Collection could be used as source material. Sequences from a 250-nucleotide stretch of the 23S rRNA were aligned, and phylogenetic trees were evaluated by using the De Soete distance treeing algorithm and Rhodococcus bronchialis as the outgroup. Our 23S rRNA trees were compared with previously published 16S rRNA trees, including the comprehensive trees developed by the University of Illinois Ribosomal Database Project, and included 15 species not evaluated previously. Most of the groups were in general agreement and were consistent with relationships determined on the basis of biochemical characteristics, but some new relationships were also observed.
URL: 7547304
Ref #: 95455
Author(s): Devulder,G.;Perouse de Montclos,M.;Flandrois,J.P.
Journal: Int J Syst Evol Microbiol
Title: A multigene approach to phylogenetic analysis using the genus Mycobacterium as a model
Volume: 55
Page(s): 293-302
Year: 2005
Keyword(s): Animals Bacterial Proteins/*genetics *Bacterial Typing Techniques Chaperonins/genetics DNA, Bacterial/analysis DNA-Directed RNA Polymerases/genetics Genes, rRNA Humans Mycobacterium/*classification/*genetics *Phylogeny Polymerase Chain Reaction RNA, Ribosomal, 16S/genetics *Sequence Analysis, DNA Superoxide Dismutase/genetics
Remarks: Advances in DNA sequencing and the increasing number of sequences available in databases have greatly enhanced the bacterial identification process. Several species within the genus Mycobacterium cause serious human and animal diseases. In order to assess their relative positions in the evolutionary process, four gene fragments, from the 16S rRNA (564 bp), hsp65 (420 bp), rpoB (396 bp) and sod (408 bp) genes, were sequenced from 97 strains, including all available type strains of the genus Mycobacterium. The results demonstrate that, in this case, the concatenation of different genes allows significant increases in the power of discrimination and the robustness of the phylogenetic tree. The sequential and/or combined use of sequences of several genes makes it possible to refine the phylogenetic approach and provides a molecular basis for accurate species identification.
URL: 15653890
Ref #: 1300
Author(s): Skerman,V.B.D.;McGowan,V.;Sneath,P.H.A.(ed)
Journal: Int. J. Syst. Bacteriol.
Title: Approved Lists of Bacterial Names.
Volume: 30
Page(s): 225-420
Year: 1980
Ref #: 4498
Author(s): Tsukamura,M.
Journal: J. Gen. Microbiol.
Title: Adansonian classification of mycobacteria.
Volume: 45
Page(s): 253-273
Year: 1966
Ref #: 6102
Author(s): Meissner,G.etal.
Journal: J. Gen. Microbiol.
Volume: 83
Page(s): 207-235
Year: 1974
Ref #: 6109
Author(s): Tsukamura,M.;Mizuno,S.;Toyama,H.
Journal: Microbiol. Immunol.
Title: Differentiation from Mycobacterium terrae and Mycobacterium triviale by tests for susceptibility to ofloacin (DL 8280) and by the developing pattern of petroleum-ether soluble sulfolipids on TLC.
Volume: 29
Page(s): 365-370
Year: 1985
Data: (ATCC 19530, ATCC 23067) Type strain / M. Tsukamura, Obu, Chita, Aichi-ken, Japan in 1965 / Soil / Tsukamura, M. (1966) J. gen. Microbiol. 45, 253 / Tsukamura, M. & Mizuno, S. (1968) Jap. J. Microbiol. 12, 371
Accession Date: 01/01/1965
Authority: Tsukamura 1965 (AL)
Depositor: TSUKAMURA M
Taxonomy: TaxLink: S1967 (Mycobacterium nonchromogenicum Tsukamura 1965) - Date of change: 5/02/2003
Biosafety Responsibility: It is the responsibility of the customer to ensure that their facilities comply with biosafety regulations for their own country

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