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Bacteria and Mycoplasmas detail

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Bacteria Collection: Mycobacterium flavescens

NCTC Number: NCTC 10271
Current Name: Mycobacterium flavescens
Original Strain Reference: D-25
Other Collection No: ATCC 14474; D-25; JCM 17637
Previous Catalogue Name: Mycobacterium flavescens
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: Columbia blood agar, 48-96 hours, 30°C, aerobic
Conditions for growth on liquid media: nutrient broth,30, aerobic
Isolated From: mammal, guinea-pig
Whole Genome Sequence: http://www.ebi.ac.uk/ena/data/view/ERS1247813
16S rRNA Gene Sequence: >gb|AY734991|ATCC 14474|Mycobacterium flavescens strain ATCC 14474 16S ribosomal RNA gene,partial sequence.| ggggtactcgagtgg... >gb|X52932|ATCC 14474|Mycobacterium flavescens 16S rRNA gene.| ggcggcgtgcttaac...
23S rRNA Gene Sequence: >gb|U24518|ATCC 14474|Mycobacterium flavescens 23S rRNA, partial sequence.| tgtgcctacaacccg...
Bibliography: BOJALIL L F ET AL 1962 J GEN MICROBIOL 28 333
Extended Bibliography: showhide Show bibliography
Ref #: 60086
Author(s): Rogall,T.;Wolters,J.;Flohr,T.;Bottger,E.C.
Journal: Int J Syst Bacteriol
Title: Towards a phylogeny and definition of species at the molecular level within the genus Mycobacterium
Volume: 40
Page(s): 323-30
Year: 1991
Keyword(s): GENBANK/X52917 GENBANK/X52918 GENBANK/X52919 GENBANK/X52920 GENBANK/X52921 GENBANK/X52922 GENBANK/X52923 GENBANK/X52924 GENBANK/X52925 GENBANK/X52926 GENBANK/X52927 GENBANK/X52928 GENBANK/X52929 GENBANK/X52930 GENBANK/X52931 GENBANK/X52932 GENBANK/X52933 GENBANK/X52934 Base Sequence Molecular Sequence Data Mycobacterium/*classification/genetics *Phylogeny RNA, Ribosomal, 16S/*chemistry Sequence Homology, Nucleic Acid Species Specificity
Remarks: 16S rRNA sequences from Mycobacterium tuberculosis, M. avium, M. gastri, M. kansasii, M. marinum, M. chelonae, M. smegmatis, M. terrae, M. gordonae, M. scrofulaceum, M. szulgai, M. intracellulare, M. nonchromogenicum, M. xenopi, M. malmoense, M. simiae, M. flavescens, M. fortuitum, and M. paratuberculosis were determined and compared. The sequence data were used to infer a phylogenetic tree, which provided the basis for a systematic phylogenetic analysis of the genus Mycobacterium. The groups of slow- and fast-growing mycobacteria could be differentiated as distinct entities. We found that M. simiae occupies phylogenetically an intermediate position between these two groups. The phylogenetic relatedness within the slow-growing species did not reflect the Runyon classification of photochromogenic, scotchromogenic, and nonchromogenic mycobacteria. In general, the phylogenetic units identified by using rRNA sequences confirmed the validity of phenotypically defined species; an exception was M. gastri, which was indistinguishable from M. kansasii when this kind of analysis was used.
URL: 2275850
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 #: 95470
Author(s): Zelazny,A.M.;Calhoun,L.B.;Li,L.;Shea,Y.R.;Fischer,S.H.
Journal: J Clin Microbiol
Title: Identification of Mycobacterium species by secA1 sequences
Volume: 43
Page(s): 1051-8
Year: 2005
Keyword(s): GENBANK/AY724701 GENBANK/AY724702 GENBANK/AY724703 GENBANK/AY724704 GENBANK/AY724705 GENBANK/AY724706 GENBANK/AY724707 GENBANK/AY724708 GENBANK/AY724709 GENBANK/AY724710 GENBANK/AY724711 GENBANK/AY724712 GENBANK/AY724713 GENBANK/AY724714 GENBANK/AY724715 GENBANK/AY724716 GENBANK/AY724717 GENBANK/AY724718 GENBANK/AY724719 GENBANK/AY724720 GENBANK/AY724721 GENBANK/AY724722 GENBANK/AY724723 GENBANK/AY724724 GENBANK/AY724725 GENBANK/AY724726 GENBANK/AY724727 GENBANK/AY724728 GENBANK/AY724729 GENBANK/AY724730 GENBANK/AY724731 GENBANK/AY724732 GENBANK/AY724733 GENBANK/AY724734 GENBANK/AY734991 GENBANK/AY734992 GENBANK/AY734993 GENBANK/AY734994 GENBANK/AY734995 GENBANK/AY734996 GENBANK/AY781799 GENBANK/AY781800 Adenosine Triphosphatases/chemistry/*genetics Amino Acid Sequence Bacterial Proteins/chemistry/*genetics Base Sequence Membrane Transport Proteins/chemistry/*genetics Molecular Sequence Data Mycobacterium/*classification Phylogeny
Remarks: We describe a novel molecular method for the differentiation and identification of 29 mycobacterial species. The target is the secA1 gene that codes for the essential protein SecA1, a key component of the major pathway of protein secretion across the cytoplasmic membrane. A 700-bp region of the secA1 gene was amplified and sequenced from 47 American Type Culture Collection strains of 29 Mycobacterium species as well as from 59 clinical isolates. Sequence variability in the amplified segment of the secA1 gene allowed the differentiation of all species except for the members of the Mycobacterium tuberculosis (MTB) complex, which had identical sequences. A range of 83.3 to 100% interspecies similarity was observed. All species could also be differentiated by their amino acid sequences as deduced from the sequenced region of the secA1 gene, with the exception of the MTB complex. Partial sequences of secA1 from clinical isolates belonging to nine frequently isolated species of mycobacteria revealed a very high intraspecies similarity at the DNA level (typically >99%; range, 96.0 to 100%); all clinical isolates were correctly identified. Comparison of the deduced 233-amino-acid sequences among clinical isolates of the same species showed between 99.6 and 100% similarity. To our knowledge, this is the first time a secretion-related gene has been used for the identification of the species within a bacterial genus.
URL: 15750059
Data: (ATCC 14474) Type strain / L. F. Bojalil, Mexico in 1961 / Guinea-pig / Bojalil, L. F. et al. (1962) J. gen. Microbiol. 28, 333
Accession Date: 01/01/1961
Authority: Bojalil et al. 1962 (AL)
Depositor: BOJALIL L F
Taxonomy: TaxLink: S1949 (Mycobacterium flavescens Bojalil et al. 1962) - 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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