Extended Bibliography: |
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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 #: |
95479 |
Author(s): |
Mitterer,G.;Huber,M.;Leidinger,E.;Kirisits,C.;Lubitz,W.;Mueller,M.W.;Schmidt,W.M. |
Journal: |
J Clin Microbiol |
Title: |
Microarray-based identification of bacteria in clinical samples by solid-phase PCR amplification of 23S ribosomal DNA sequences |
Volume: |
42 |
Page(s): |
1048-57 |
Year: |
2004 |
Keyword(s): |
Abortion, Veterinary/microbiology
Animals
Bacteria/*genetics/*isolation & purification
Base Sequence
DNA Primers
DNA, Bacterial/genetics/isolation & purification
DNA, Ribosomal/*genetics/isolation & purification
Female
Horses
*Oligonucleotide Array Sequence Analysis
Polymerase Chain Reaction/*methods
Pregnancy
Pregnancy Complications, Infectious/microbiology/veterinary
RNA, Bacterial/genetics/isolation & purification
RNA, Ribosomal, 23S/*genetics/isolation & purification
|
Remarks: |
The rapid identification of the bacteria in clinical samples is important for patient management and antimicrobial therapy. We describe a DNA microarray-based PCR approach for the quick detection and identification of bacteria from cervical swab specimens from mares. This on-chip PCR method combines the amplification of a variable region of bacterial 23S ribosomal DNA and the simultaneous sequence-specific detection on a solid phase. The solid phase contains bacterial species-specific primers covalently bound to a glass support. During the solid-phase amplification reaction the polymerase elongates perfectly matched primers and incorporates biotin-labeled nucleotides. The reaction products are visualized by streptavidin-cyanine 5 staining, followed by fluorescence scanning. This procedure successfully identified from pure cultures 22 bacteria that are common causes of abortion and sterility in mares. Using the on-chip PCR method, we also tested 21 cervical swab specimens from mares for the presence of pathogenic bacteria and compared the results with those of conventional bacteriological culture methods. Our method correctly identified the bacteria in 12 cervical swab samples, 8 of which contained more than one bacterial species. Due to the higher sensitivity of the on-chip PCR, this method identified bacteria in five cervical swab samples which were not detected by the conventional identification procedure. Our results show that this method will have great potential to be incorporated into the routine microbiology laboratory. |
URL: |
15004052 |
|
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 #: |
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 #: |
1303 |
Author(s): |
Collins,M.D.;Pirouz,T.;Goodfellow,M.;Minnikin,D.E. |
Journal: |
J. Gen. Microbiol. |
Title: |
Distribution of menaquinones in actinomycetes and corynebacteria. |
Volume: |
100 |
Page(s): |
221-230 |
Year: |
1977 |
|
Ref #: |
1304 |
Author(s): |
Yamada,Y.;Inouye,G.;Tahara,Y.;Kondo,K. |
Journal: |
J. Gen. Appl. Microbiol. |
Title: |
The menaquinone system in the classification of coryneform and nocardioform bacteria and related organisms. |
Volume: |
22 |
Page(s): |
203-214 |
Year: |
1976 |
|
Ref #: |
1305 |
Author(s): |
Suzuki,K.;Kaneko,T.;Komagata,K. |
Journal: |
Int. J. Syst. Bacteriol. |
Title: |
Deoxyribonucleic acid homologies among coryneform bacteria. |
Volume: |
31 |
Page(s): |
131-138 |
Year: |
1981 |
|
Ref #: |
419 |
Author(s): |
Yamada,K.;Komagata,K. |
Journal: |
J. Gen. Appl. Microbiol. |
Title: |
Taxonomic studies on coryneform bacteria. III. DNA base composition of coryneform bacteria. |
Volume: |
16 |
Page(s): |
215-244 |
Year: |
1970 |
|
Ref #: |
885 |
Author(s): |
Fiedler,F.;Schleifer,K.H.;Cziharz,B.;Interschick,E.;Kandler,O. |
Journal: |
Publ. Fac. Sci. Univ. J. E. Purkyñe, Brno |
Title: |
Murein types in arthrobacter, brevibacteria, corynebacteria and microbacteria. |
Volume: |
47 |
Page(s): |
111-122 |
Year: |
1970 |
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