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Bacteria and Mycoplasmas detail

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Bacteria Collection: Mycobacterium vaccae

NCTC Number: NCTC 10916
Current Name: Mycobacterium vaccae
Original Strain Reference: SN 920
Other Collection No: ATCC 15483; SN 920
Previous Catalogue Name: Mycobacterium vaccae
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: Nutrient agar, 48 hours, 37°C, aerobic
Conditions for growth on liquid media: dubos broth,37, aerobic
Isolated From: milk;bovine milk
Whole Genome Sequence: http://www.ebi.ac.uk/ena/data/view/ERS1497476
16S rRNA Gene Sequence: >gb|AF480591|ATCC 15483|Mycobacterium vaccae 16S ribosomal RNA gene, partial sequence.| gacgaacgctggcgg... >gb|X55601|ATCC 15483|M.vaccae 16S ribosomal RNA, part.| ttgtttggagagttt...
23S rRNA Gene Sequence: >gb|U24557|ATCC 15483|Mycobacterium vaccae 23S rRNA, partial sequence.| tgcgcttacaatccg...
Bibliography: BONICKE R & JUHASZ S E 1964 ZENTBL BAKT PARASIT- KDE I ABT ORIG 192 133
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 #: 95496
Author(s): Turenne,C.Y.;Tschetter,L.;Wolfe,J.;Kabani,A.
Journal: J Clin Microbiol
Title: Necessity of quality-controlled 16S rRNA gene sequence databases: identifying nontuberculous Mycobacterium species
Volume: 39
Page(s): 3637-48
Year: 2001
Keyword(s): *Databases, Nucleic Acid *Genes, rRNA Humans Internet Mycobacterium/*classification/genetics Mycobacterium Infections/*microbiology Phylogeny Quality Control RNA, Ribosomal, 16S/*genetics Reference Standards *Sequence Analysis, DNA Species Specificity
Remarks: The use of the 16S rRNA gene for identification of nontuberculous mycobacteria (NTM) provides a faster and better ability to accurately identify them in addition to contributing significantly in the discovery of new species. Despite their associated problems, many rely on the use of public sequence databases for sequence comparisons. To best evaluate the taxonomic status of NTM species submitted to our reference laboratory, we have created a 16S rRNA sequence database by sequencing 121 American Type Culture Collection strains encompassing 92 species of mycobacteria, and have also included chosen unique mycobacterial sequences from public sequence repositories. In addition, the Ribosomal Differentiation of Medical Microorganisms (RIDOM) service has made freely available on the Internet mycobacterial identification by 16S rRNA analysis. We have evaluated 122 clinical NTM species using our database, comparing >1,400 bp of the 16S gene, and the RIDOM database, comparing approximately 440 bp. The breakdown of analysis was as follows: 61 strains had a sequence with 100% similarity to the type strain of an established species, 19 strains showed a 1- to 5-bp divergence from an established species, 11 strains had sequences corresponding to uncharacterized strain sequences in public databases, and 31 strains represented unique sequences. Our experience with analysis of the 16S rRNA gene of patient strains has shown that clear-cut results are not the rule. As many clinical, research, and environmental laboratories currently employ 16S-based identification of bacteria, including mycobacteria, a freely available quality-controlled database such as that provided by RIDOM is essential to accurately identify species or detect true sequence variations leading to the discovery of new species.
URL: 11574585
Ref #: 59414
Author(s): Pitulle,C.;Dorsch,M.;Kazda,J.;Wolters,J.;Stackebrandt,E.
Journal: Int J Syst Bacteriol
Title: Phylogeny of rapidly growing members of the genus Mycobacterium
Volume: 42
Page(s): 337-43
Year: 1992
Keyword(s): GENBANK/X55593 GENBANK/X55594 GENBANK/X55595 GENBANK/X55596 GENBANK/X55597 GENBANK/X55598 GENBANK/X55599 GENBANK/X55600 GENBANK/X55601 GENBANK/X55602 Base Sequence Molecular Sequence Data Mycobacteria, Atypical/classification/*genetics Mycobacterium/classification/*genetics *Phylogeny RNA, Bacterial/genetics RNA, Ribosomal, 16S/genetics Sequence Homology, Nucleic Acid
Remarks: The 16S rRNAs from nine rapidly growing Mycobacterium species were partially sequenced by using the dideoxynucleotide-terminated, primer extension method with cDNA generated by reverse transcriptase. The sequences were aligned with 47 16S rRNA or DNA sequences that represented 30 previously described and 5 undescribed species of the genus Mycobacterium, and a dendrogram was constructed by using equally weighted distance values. Our results confirmed the phylogenetic separation of the rapidly and slowly growing mycobacteria and showed that the majority of the slowly growing members of the genus represent the most recently evolved organisms. The 24 strains which represented 21 rapidly growing species constituted several sublines, which were defined by the following taxa: (i) Mycobacterium neoaurum and M. diernhoferi, (ii) M. gadium, (iii) the M. chubuense cluster, (iv) the M. fortuitum cluster, (v) M. kommossense, (vi) M. sphagni, (vii) M. fallax and M. chitae, (viii) M. aurum and M. vaccae, (ix) the M. flavescens cluster, and (x) M. chelonae subsp. abscessus. Our phylogenetic analysis confirmed the validity of the phenotypically defined species mentioned above, but our conclusions disagree with most of the conclusions about intrageneric relationships derived from numerical phenetic analyses.
URL: 1380284
Ref #: 13155
Author(s): Pitulle,C.;Dorsch,M.;Kazda,J.;Wolters,J.;Stackebrandt,E.
Journal: Int J Syst Bacteriol
Title: Phylogeny of rapidly growing members of the genus Mycobacterium
Volume: 42
Page(s): 337-43
Year: 1992
Keyword(s): GENBANK/X55593 GENBANK/X55594 GENBANK/X55595 GENBANK/X55596 GENBANK/X55597 GENBANK/X55598 GENBANK/X55599 GENBANK/X55600 GENBANK/X55601 GENBANK/X55602 Base Sequence Molecular Sequence Data Mycobacteria, Atypical/classification/*genetics Mycobacterium/classification/*genetics *Phylogeny RNA, Bacterial/genetics RNA, Ribosomal, 16S/genetics Sequence Homology, Nucleic Acid Support, Non-U.S. Gov't
Remarks: The 16S rRNAs from nine rapidly growing Mycobacterium species were partially sequenced by using the dideoxynucleotide-terminated, primer extension method with cDNA generated by reverse transcriptase. The sequences were aligned with 47 16S rRNA or DNA sequences that represented 30 previously described and 5 undescribed species of the genus Mycobacterium, and a dendrogram was constructed by using equally weighted distance values. Our results confirmed the phylogenetic separation of the rapidly and slowly growing mycobacteria and showed that the majority of the slowly growing members of the genus represent the most recently evolved organisms. The 24 strains which represented 21 rapidly growing species constituted several sublines, which were defined by the following taxa: (i) Mycobacterium neoaurum and M. diernhoferi, (ii) M. gadium, (iii) the M. chubuense cluster, (iv) the M. fortuitum cluster, (v) M. kommossense, (vi) M. sphagni, (vii) M. fallax and M. chitae, (viii) M. aurum and M. vaccae, (ix) the M. flavescens cluster, and (x) M. chelonae subsp. abscessus. Our phylogenetic analysis confirmed the validity of the phenotypically defined species mentioned above, but our conclusions disagree with most of the conclusions about intrageneric relationships derived from numerical phenetic analyses.
URL: 92368931
Ref #: 13151
Author(s): Turenne,C.Y.;Tschetter,L.;Wolfe,J.;Kabani,A.
Journal: J Clin Microbiol
Title: Necessity of quality-controlled 16S rRNA gene sequence databases: identifying nontuberculous Mycobacterium species
Volume: 39
Page(s): 3637-48
Year: 2001
Keyword(s): *Databases, Nucleic Acid *Genes, rRNA Human Internet Mycobacterium/*classification/genetics Mycobacterium Infections/*microbiology Phylogeny Quality Control RNA, Ribosomal, 16S/*genetics Reference Standards *Sequence Analysis, DNA Species Specificity
Remarks: The use of the 16S rRNA gene for identification of nontuberculous mycobacteria (NTM) provides a faster and better ability to accurately identify them in addition to contributing significantly in the discovery of new species. Despite their associated problems, many rely on the use of public sequence databases for sequence comparisons. To best evaluate the taxonomic status of NTM species submitted to our reference laboratory, we have created a 16S rRNA sequence database by sequencing 121 American Type Culture Collection strains encompassing 92 species of mycobacteria, and have also included chosen unique mycobacterial sequences from public sequence repositories. In addition, the Ribosomal Differentiation of Medical Microorganisms (RIDOM) service has made freely available on the Internet mycobacterial identification by 16S rRNA analysis. We have evaluated 122 clinical NTM species using our database, comparing >1,400 bp of the 16S gene, and the RIDOM database, comparing approximately 440 bp. The breakdown of analysis was as follows: 61 strains had a sequence with 100% similarity to the type strain of an established species, 19 strains showed a 1- to 5-bp divergence from an established species, 11 strains had sequences corresponding to uncharacterized strain sequences in public databases, and 31 strains represented unique sequences. Our experience with analysis of the 16S rRNA gene of patient strains has shown that clear-cut results are not the rule. As many clinical, research, and environmental laboratories currently employ 16S-based identification of bacteria, including mycobacteria, a freely available quality-controlled database such as that provided by RIDOM is essential to accurately identify species or detect true sequence variations leading to the discovery of new species.
URL: 21458757
Data: (ATCC 15483, TMC 1526) Type strain / ATCC in 1973 / R. Bonicke / Bovine milk / Bonicke, R. & Juhasz, S. E. (1964) Zentbl. Bakt. ParasitKde, I. Abt. Orig. 192, 133
Accession Date: 01/01/1973
History: ISOLATED BY BONICKE R
Authority: Bönicke and Juhasz 1964 (AL)
Depositor: ATCC
Taxonomy: TaxLink: S1989 (Mycobacterium vaccae Bönicke and Juhasz 1964) - 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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