Culture Collections

Bacteria and Mycoplasmas detail

Conditions of Supply of Microbial Pathogens: Safety





Bacteria Collection: Nocardia brasiliensis

NCTC Number: NCTC 11294
Current Name: Nocardia brasiliensis
Original Strain Reference: ATCC 19296
Other Collection No: ATCC 19296; CBS 330.54; DSM 43758; IFO 14402; IMRU 845; JCM 3374
Previous Catalogue Name: Nocardia brasiliensis
Type Strain: Yes
Family: Nocardiaceae
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,37, aerobic
Whole Genome Sequence: http://www.ebi.ac.uk/ena/data/view/ERS1247828
16S rRNA Gene Sequence: >gb|X80608|DSM43758T|N.brasiliensis 16S rDNA.| cgaacgctggcggcg... >gb|Z36935|M. GOODFELLOW N318/ATCC 19296(TYPE STRAIN)|N.brasiliensis gene for 16S ribosomal RNA.| gacgaacgctggcgg... >gb|DQ659902|ATCC 19296|Nocardia brasiliensis strain ATCC 19296 16S ribosomal RNA gene,partial sequence.| ccttcggggtacacg... >gb|AY756544|ATCC 19296|Nocardia brasiliensis strain ATCC 19296 16S ribosomal RNA gene,partial sequence.| gcttaacacatgcaa... >gb|AY262323|ATCC 19296|Nocardia brasiliensis clone A6 16S ribosomal RNA gene, partialsequence.| tggagagtttgatcc... >gb|AF536404|DSM 43758|Nocardia brasiliensis strain DSM 43758 16S-23S ribosomal RNAintergenic spacer, complete sequence.| aaggagcacttctcc... >gb|AF536403|DSM 43758|Nocardia brasiliensis strain DSM 43758 16S-23S ribosomal RNAintergenic spacer, complete sequence.| aaggagcacttctgc... >gb|AF536402|DSM 43758|Nocardia brasiliensis strain DSM 43758 16S-23S ribosomal RNAintergenic spacer, complete sequence.| aaggagcacttctcc... >gb|X80591|TYPE STRAIN: ATCC 19296|Nocardia brasiliensis 16S rRNA gene, strain ATCC 19296T.| acgaacgctggcggc... >gb|AF430038|DSM 43758|Nocardia brasiliensis strain DSM 43758 16S ribosomal RNA gene,complete sequence.| gacgaacgctggcgg...
23S rRNA Gene Sequence: >gb|AF536404|DSM 43758|Nocardia brasiliensis strain DSM 43758 16S-23S ribosomal RNAintergenic spacer, complete sequence.| aaggagcacttctcc... >gb|AF536403|DSM 43758|Nocardia brasiliensis strain DSM 43758 16S-23S ribosomal RNAintergenic spacer, complete sequence.| aaggagcacttctgc... >gb|AF536402|DSM 43758|Nocardia brasiliensis strain DSM 43758 16S-23S ribosomal RNAintergenic spacer, complete sequence.| aaggagcacttctcc...
Miscellaneous Sequence Data: >gb|AB014168|IFO 14402|Nocardia brasiliensis gyrB gene for DNA gyrase B subunit, partialcds, strain IFO 14402.| tccgactcctacgcg...
Extended Bibliography: showhide Show bibliography
Ref #: 65521
Author(s): Roth,A.;Andrees,S.;Kroppenstedt,R.M.;Harmsen,D.;Mauch,H.
Journal: J Clin Microbiol
Title: Phylogeny of the genus Nocardia based on reassessed 16S rRNA gene sequences reveals underspeciation and division of strains classified as Nocardia asteroides into three established species and two unnamed taxons
Volume: 41
Page(s): 851-6
Year: 2003
Keyword(s): DNA, Bacterial/analysis Humans Nocardia asteroides/*classification/genetics Phylogeny RNA, Ribosomal, 16S/*analysis/genetics
Remarks: Conventional identification of Nocardia in the routine laboratory remains problematic due to a paucity of reliable phenotypic tests and due to the yet-unresolved taxonomy of strains classified as belonging to the species Nocardia asteroides, which comprises the type strain and isolates with drug pattern types II and VI. The 16S rRNA gene of 74 representative strains of the genus Nocardia, encompassing 25 established species, was sequenced in order to provide a molecular basis for accurate species identification and with the aim of reassessing the phylogeny of taxons assigned to the species N. asteroides. The result of this phylogenetic analysis confirms that the interspecies heterogeneity of closely related nocardial species can be considerably low (a sequence divergence of only 0.5% was found between N. paucivorans and N. brevicatena). We observed a sequence microheterogeneity (sequence divergence of fewer than five bases) in 8 of 11 species of which more than one strain in the species was studied. At least 10 taxons were found that merit description as new species. Strains previously classified as N. asteroides fell into five distinct phylogenetic groups: the type strain cluster (N. asteroides sensu strictu), N. abscessus, N. cyriacigeorgica, and two clusters closely related to N. carnea or N. flavorosea. The strains within the latter two groups probably represent new species, pending further genetic and phenotypic evaluation. Restricted phenotypic data revealed that N. abscessus, N. cyriacigeorgica, and the two Nocardia species taxons are equivalent to drug patterns I, VI, and II, respectively. In the future, these data will help in finding species-specific markers after adoption of a more precise nomenclature for isolates closely related to N. asteroides and unravel confusing phenotypic data obtained in the past for unresolved groups of strains that definitely belong to separate taxons from a phylogenetic point of view.
URL: 12574299
Ref #: 65545
Author(s): Ruimy,R.;Boiron,P.;Boivin,V.;Christen,R.
Journal: FEMS Microbiol Lett
Title: A phylogeny of the genus Nocardia deduced from the analysis of small-subunit ribosomal DNA sequences, including transfer of Nocardia amarae to the genus Gordona as Gordona amarae comb. nov
Volume: 123
Page(s): 261-7
Year: 1995
Keyword(s): GENBANK/X80591 GENBANK/X80592 GENBANK/X80593 GENBANK/X80594 GENBANK/X80595 GENBANK/X80596 GENBANK/X80597 GENBANK/X80598 GENBANK/X80599 GENBANK/X80600 GENBANK/X80601 GENBANK/X80602 GENBANK/X80603 GENBANK/X80604 GENBANK/X80605 DNA, Bacterial/*genetics DNA, Ribosomal/*genetics Molecular Sequence Data Nocardia/classification/*genetics *Phylogeny Rhodococcus/classification Sequence Analysis, DNA
Remarks: According to phylogenetic analyses of nearly complete small-subunit ribosomal DNA sequences, the genus Nocardia should not comprise the two species Nocardia petroleophila and Nocardia amarae. N. amarae should be reassigned to the genus Gordona as Gordona amarae. All of the other Nocardia species form a monophyletic unit, closely related to species of the genus Rhodococcus. It is proposed to revive the name 'CMN' to comprise the genera Corynebacterium, Tsukamurella, Mycobacterium, Gordona, Rhodococcus and Nocardia that form a well identified and monophyletic unit. They are all characterized by a cell wall chemotype IV with mycolic acids.
URL: 7545965
Ref #: 65647
Author(s): Patel,J.B.;Wallace RJ,J.r.;Brown-Elliott,B.A.;Taylor,T.;Imperatrice,C.;Leonard,D.G.;Wilson,R.W.;Mann,L.;Jost,K.C.;Nachamkin,I.
Journal: J Clin Microbiol
Title: Sequence-based identification of aerobic actinomycetes
Volume: 42
Page(s): 2530-40
Year: 2004
Keyword(s): Actinobacteria/classification/genetics/*isolation & purification Aerobiosis DNA, Ribosomal/chemistry Nocardia/genetics/isolation & purification Phylogeny RNA, Ribosomal, 16S/genetics Sequence Analysis, DNA
Remarks: We investigated the utility of 500-bp 16S rRNA gene sequencing for identifying clinically significant species of aerobic actinomycetes. A total of 28 reference strains and 71 clinical isolates that included members of the genera Streptomyces, Gordonia, and Tsukamurella and 10 taxa of Nocardia were studied. Methods of nonsequencing analyses included growth and biochemical analysis, PCR-restriction enzyme analysis of the 439-bp Telenti fragment of the 65 hsp gene, susceptibility testing, and, for selected isolates, high-performance liquid chromatography. Many of the isolates were included in prior taxonomic studies. Sequencing of Nocardia species revealed that members of the group were generally most closely related to the American Type Culture Collection (ATCC) type strains. However, the sequences of Nocardia transvalensis, N. otitidiscaviarum, and N. nova isolates were highly variable; and it is likely that each of these species contains multiple species. We propose that these three species be designated complexes until they are more taxonomically defined. The sequences of several taxa did not match any recognized species. Among other aerobic actinomycetes, each group most closely resembled the associated reference strain, but with some divergence. The study demonstrates the ability of partial 16S rRNA gene sequencing to identify members of the aerobic actinomycetes, but the study also shows that a high degree of sequence divergence exists within many species and that many taxa within the Nocardia spp. are unnamed at present. A major unresolved issue is the type strain of N. asteroides, as the present one (ATCC 19247), chosen before the availability of molecular analysis, does not represent any of the common taxa associated with clinical nocardiosis.
URL: 15184431
Ref #: 95453
Author(s): Rodriguez-Nava,V.;Couble,A.;Devulder,G.;Flandrois,J.P.;Boiron,P.;Laurent,F.
Journal: J Clin Microbiol
Title: Use of PCR-restriction enzyme pattern analysis and sequencing database for hsp65 gene-based identification of Nocardia species
Volume: 44
Page(s): 536-46
Year: 2006
Keyword(s): Animals Bacterial Proteins/genetics *Bacterial Typing Techniques Databases, Genetic Genes, rRNA Heat-Shock Proteins/*genetics Humans Nocardia/*classification/genetics Phylogeny Polymerase Chain Reaction/*methods RNA, Ribosomal, 16S/genetics *Restriction Mapping Sequence Analysis, DNA Species Specificity
Remarks: Nocardia identification required laborious and time-consuming phenotypic and chemotaxonomic methods until molecular methods were developed in the mid-1990s. Here we reassessed the capacity of PCR-restriction enzyme pattern analysis (PRA) of the hsp65 gene to differentiate Nocardia species, including 36 new species. Our results confirm that hsp65 PRA must no longer be used for Nocardia species identification, as many species have the same restriction pattern. We then compared sequencing-based strategies using an hsp65 database and a 16S rRNA database and found that the hsp65 region contained sufficient polymorphisms for comprehensive Nocardia species identification.
URL: 16455910
Ref #: 65999
Author(s): Chun,J.;Goodfellow,M.
Journal: Int J Syst Bacteriol
Title: A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences
Volume: 45
Page(s): 240-5
Year: 1995
Keyword(s): GENBANK/Z36925 GENBANK/Z36926 GENBANK/Z36927 GENBANK/Z36928 GENBANK/Z36929 GENBANK/Z36930 GENBANK/Z36933 GENBANK/Z36934 GENBANK/Z36935 GENBANK/Z36936 Base Sequence DNA, Bacterial/+ACo-genetics Genes, Bacterial Molecular Sequence Data Nocardia/chemistry/+ACo-classification/genetics Phylogeny RNA, Bacterial/+ACo-genetics RNA, Ribosomal, 16S/+ACo-genetics Rhodococcus/classification/genetics Sequence Analysis Vitamin K/analysis
Remarks: Partial sequences of the 16S rRNA genes of the type strains of nine species of the genus Nocardia were determined following the isolation and cloning of the amplified genes. These sequences were aligned with the sequences of representatives of the genera Corynebacterium, Gordona, Mycobacterium, Rhodococcus, and Tsukamurella, and phylogenetic trees were inferred by using the Fitch-Margoliash and neighbor-joining methods. The genus Nocardia formed a distinct clade that was most closely associated with the genus Rhodococcus. The average level of sequence similarity found among the type strains of the Nocardia species was 97.2 0.7+ACU-. Two sublines were recognized within the Nocardia clade+ADs- one encompassed Nocardia asteroides and related species, and the other encompassed Nocardia otitidiscaviarum and allied taxa. Separation of the two sublines is based on differences in helix 37-1. The results of isoprenoid quinone analyses provided evidence that nocardiae can be distinguished from all other actinomycete taxa on the basis of their characteristic menaquinone profiles. Nocardiae typically contain hexahydrogenated menaquinones with eight isoprene units in which the two end units are cyclized.
URL: 7537058
Ref #: 95438
Author(s): Conville,P.S.;Zelazny,A.M.;Witebsky,F.G.
Journal: J Clin Microbiol
Title: Analysis of secA1 gene sequences for identification of Nocardia species
Volume: 44
Page(s): 2760-6
Year: 2006
Keyword(s): GENBANK/DQ360260 GENBANK/DQ360261 GENBANK/DQ360262 GENBANK/DQ360263 GENBANK/DQ360265 GENBANK/DQ360266 GENBANK/DQ360267 GENBANK/DQ360268 GENBANK/DQ360269 GENBANK/DQ360270 GENBANK/DQ360271 GENBANK/DQ360272 GENBANK/DQ360273 GENBANK/DQ360274 GENBANK/DQ360275 GENBANK/DQ360276 GENBANK/DQ360277 GENBANK/DQ360278 GENBANK/DQ360279 GENBANK/DQ360280 GENBANK/DQ360281 GENBANK/DQ360282 GENBANK/DQ360284 GENBANK/DQ360285 GENBANK/DQ360286 GENBANK/DQ360287 GENBANK/DQ360288 GENBANK/DQ360289 GENBANK/DQ360290 GENBANK/DQ366276 GENBANK/DQ659895 GENBANK/DQ659896 GENBANK/DQ659897 GENBANK/DQ659898 GENBANK/DQ659899 GENBANK/DQ659900 GENBANK/DQ659901 GENBANK/DQ659902 GENBANK/DQ659903 GENBANK/DQ659904 GENBANK/DQ659905 GENBANK/DQ659906 GENBANK/DQ659907 GENBANK/DQ659908 GENBANK/DQ659909 GENBANK/DQ659910 GENBANK/DQ659911 GENBANK/DQ659912 GENBANK/DQ659913 GENBANK/DQ659914 GENBANK/DQ659915 GENBANK/DQ659916 GENBANK/DQ659917 GENBANK/DQ659918 GENBANK/DQ659919 GENBANK/DQ659920 Adenosine Triphosphatases/*genetics Bacterial Proteins/*genetics Cluster Analysis DNA, Bacterial/chemistry/*genetics DNA, Ribosomal/genetics Humans Membrane Transport Proteins/*genetics Molecular Sequence Data Nocardia/*classification/*genetics Phylogeny RNA, Ribosomal, 16S/genetics *Sequence Analysis, DNA Sequence Homology
Remarks: Molecular methodologies, especially 16S rRNA gene sequence analysis, have allowed the recognition of many new species of Nocardia and to date have been the most precise methods for identifying isolates reliably to the species level. We describe here a novel method for identifying Nocardia isolates by using sequence analysis of a portion of the secA1 gene. A region of the secA1 gene of 30 type or reference strains of Nocardia species was amplified using secA1-specific primers. Sequence analysis of 468 bp allowed clear differentiation of all species, with a range of interspecies similarity of 85.0% to 98.7%. Corresponding 16S rRNA gene sequences of a 1,285-bp region for the same isolates showed a range of interspecies similarity of 94.4 to 99.8%. In addition to the type and reference strains, a 468-bp fragment of the secA1 gene was sequenced from 40 clinical isolates of 12 Nocardia species previously identified by 16S rRNA gene sequence analysis. The secA1 gene sequences of most isolates showed >99.0% similarity to the secA1 sequences of the type or reference strain to which their identification corresponded, with a range of 95.3 to 100%. Comparison of the deduced 156 amino acid sequences of the SecA1 proteins of the clinical isolates showed between zero and two amino acid residue differences compared to that of the corresponding type or reference strain. Sequencing of the secA1 gene, and using deduced amino acid sequences of the SecA1 protein, may provide a more discriminative and precise method for the identification of Nocardia isolates than 16S rRNA gene sequencing.
URL: 16891489
Ref #: 13292
Author(s): Chun,J.;Goodfellow,M.
Journal: Int J Syst Bacteriol
Title: A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences
Volume: 45
Page(s): 240-5
Year: 1995
Keyword(s): GENBANK/Z36925 GENBANK/Z36926 GENBANK/Z36927 GENBANK/Z36928 GENBANK/Z36929 GENBANK/Z36930 GENBANK/Z36933 GENBANK/Z36934 GENBANK/Z36935 GENBANK/Z36936 Base Sequence DNA, Bacterial/+ACo-genetics Genes, Bacterial Molecular Sequence Data Nocardia/chemistry/+ACo-classification/genetics Phylogeny RNA, Bacterial/+ACo-genetics RNA, Ribosomal, 16S/+ACo-genetics Rhodococcus/classification/genetics Sequence Analysis Vitamin K/analysis
Remarks: Partial sequences of the 16S rRNA genes of the type strains of nine species of the genus Nocardia were determined following the isolation and cloning of the amplified genes. These sequences were aligned with the sequences of representatives of the genera Corynebacterium, Gordona, Mycobacterium, Rhodococcus, and Tsukamurella, and phylogenetic trees were inferred by using the Fitch-Margoliash and neighbor-joining methods. The genus Nocardia formed a distinct clade that was most closely associated with the genus Rhodococcus. The average level of sequence similarity found among the type strains of the Nocardia species was 97.2 0.7+ACU-. Two sublines were recognized within the Nocardia clade+ADs- one encompassed Nocardia asteroides and related species, and the other encompassed Nocardia otitidiscaviarum and allied taxa. Separation of the two sublines is based on differences in helix 37-1. The results of isoprenoid quinone analyses provided evidence that nocardiae can be distinguished from all other actinomycete taxa on the basis of their characteristic menaquinone profiles. Nocardiae typically contain hexahydrogenated menaquinones with eight isoprene units in which the two end units are cyclized.
URL: 95244306
Ref #: 12521
Author(s): Ruimy,R.;Boiron,P.;Boivin,V.;Christen,R.
Journal: FEMS Microbiol Lett
Title: A phylogeny of the genus Nocardia deduced from the analysis of small-subunit ribosomal DNA sequences, including transfer of Nocardia amarae to the genus Gordona as Gordona amarae comb. nov
Volume: 123
Page(s): 261-7
Year: 1995
Keyword(s): GENBANK/X80591 GENBANK/X80592 GENBANK/X80593 GENBANK/X80594 GENBANK/X80595 GENBANK/X80596 GENBANK/X80597 GENBANK/X80598 GENBANK/X80599 GENBANK/X80600 GENBANK/X80601 GENBANK/X80602 GENBANK/X80603 GENBANK/X80604 GENBANK/X80605 DNA, Bacterial/*genetics DNA, Ribosomal/*genetics Molecular Sequence Data Nocardia/classification/*genetics *Phylogeny Rhodococcus/classification Sequence Analysis, DNA Support, Non-U.S. Gov't
Remarks: According to phylogenetic analyses of nearly complete small-subunit ribosomal DNA sequences, the genus Nocardia should not comprise the two species Nocardia petroleophila and Nocardia amarae. N. amarae should be reassigned to the genus Gordona as Gordona amarae. All of the other Nocardia species form a monophyletic unit, closely related to species of the genus Rhodococcus. It is proposed to revive the name 'CMN' to comprise the genera Corynebacterium, Tsukamurella, Mycobacterium, Gordona, Rhodococcus and Nocardia that form a well identified and monophyletic unit. They are all characterized by a cell wall chemotype IV with mycolic acids.
URL: 95080630
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 #: 2358
Author(s): Roberts,R.J.
Journal: Nucl. Acids Res.
Title: Restriction and modification enzymes and their recognition sequences.
Volume: 13,
Page(s): r165-r200
Year: 1985
Data: (IMRU 845) Type strain / ATCC in 1979 / R. E. Gordon
Accession Date: 01/01/1979
Authority: (Lindenberg 1909) Pinoy 1913 (AL)
Depositor: GHERNA R L, ATCC
Taxonomy: TaxLink: S2138 (Nocardia brasiliensis (Lindenberg 1909) Pinoy 1913) - 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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