polyphasic classification
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A polyphasic taxonomic approach was applied to strains of the species Staphylococcus sciuri in order to clarify the taxonomic legitimacy of the delineation of S. sciuri into S. sciurisubsp.sciuri, S. sciurisubsp.carnaticus and S. sciurisubsp.rodentium. A group of 81 S. sciuri isolates obtained from human (n=62) and veterinary (n=17) clinical materials and foods (n=2) and ten reference and type strains obtained from the Czech Collection of Microorganisms were characterized by extensive biotyping using conventional tests and commercial identification kits (ID 32 Staph, STAPHYtest, Biolog Microbial ID System), matrix-assisted laser-desorption/ionization time-of-flight mass spectrometry, automated ribotyping with EcoRI restriction enzyme, 16S-23S rRNA gene intergenic transcribed spacer PCR fingerprinting and repetitive sequence-based PCR fingerprinting with the (GTG)5 primer. Selected strains representing different ribotypes were further characterized using sequencing of the β-subunit of RNA polymerase (rpoB) gene. Individual techniques revealed high heterogeneity within the analysed S. sciuri strains but differentiation of the investigated strains into groups corresponding to the aforementioned S. sciuri subspecies and supported by these techniques was not clearly revealed. Based on obtained results and data retrieved from literature we propose rejecting the separation of S. sciuri species into S. sciurisubsp.sciuri, S. sciurisubsp.carnaticus and S. sciurisubsp.rodentium and we suggest reclassification these subspecies as S. sciuri with the type strain W.E. Kloos SC 116T (=ATCC 29062T=BCRC 12927T=CCM 3473T=CCUG 15598T=CNCTC 5683T=DSM 20345T=JCM 2425T=NCTC 12103T).
A red-pigmented, bacteriochlorophyll (BChl) a-producing strain, AP64T, was isolated previously from the freshwater Swan Lake located in the western Gobi Desert. Based on its 16S rRNA gene sequence identity (96.1%) to the type strain Gemmatimonas aurantiaca T-27T, the new isolate was tentatively classified as a member of the bacterial phylum Gemmatimonadetes. Here, we report its formal description and polyphasic characterization. Strain AP64T grew best on agar media under 9.8-15.2% atmospheric oxygen. The cells were rods, dividing by symmetrical or asymmetrical binary fission. Budding structures were also observed. Its genomic DNA G+C content was 64.4% (from the draft genome sequence). Phylogenetic analysis based on the 16S rRNA gene sequence clearly separated AP64T from related species. Its genotypic differentiation from phylogenetically close relatives was further supported by performing in silico DNA-DNA hybridization and calculating average nucleotide identity, whereas the high percentage (67.3%) of shared conserved proteins between strain AP64T and Gemmatimonas aurantiaca T-27T supports the classification of the two strains into the same genus. Strain AP64T contained C16 : 1, C14 : 1 and C18 : 1ω9c as predominant fatty acids. The main respiratory quinone was menaquinone 8 (MK-8). The most distinctive feature of strain AP64T was the presence of fully functional purple bacterial photosynthetic reaction centres. The main CO2-fixation pathways were absent. Strain AP64T was capable of growth and BChl production in constant darkness. Thus, strain AP64T is a facultatively photoheterotrophic organism. It represents a novel species of the genus Gemmatimonas, for which the name Gemmatimonasphototrophica sp. nov. is proposed. The type strain is AP64T ( = DSM 29774T = MCCC 1K00454T). Emended descriptions of the genus Gemmatimonas and Gemmatimonas aurantiaca are also provided.
- MeSH
- Bacteria klasifikace genetika izolace a purifikace MeSH
- bakteriochlorofyl A chemie MeSH
- DNA bakterií genetika MeSH
- fylogeneze * MeSH
- hybridizace nukleových kyselin MeSH
- jezera mikrobiologie MeSH
- mastné kyseliny chemie MeSH
- molekulární sekvence - údaje MeSH
- pouštní klima MeSH
- RNA ribozomální 16S genetika MeSH
- sekvence nukleotidů MeSH
- sekvenční analýza DNA MeSH
- sladká voda mikrobiologie MeSH
- techniky typizace bakterií MeSH
- vitamin K 2 analogy a deriváty chemie MeSH
- zastoupení bazí MeSH
- Publikační typ
- časopisecké články MeSH
- práce podpořená grantem MeSH
- Geografické názvy
- Čína MeSH
... -- The History of Bergey’s Manual 1 -- On Using the Manual 15 -- Procaryotic Domains 21 -- Classification ... ... Concept of Bacterial -- Speciation 27 -- Identification of Procaryotes 33 -- Numerical Taxonomy 39 -- Polyphasic ...
2nd ed. 3 sv. (xxvi, 304 s.; xxviii, 1106 s.; xxi, 1388 s.) : il., tab., grafy ; 26 cm
- MeSH
- Bacteria klasifikace MeSH
- bakteriologie MeSH
- Proteobacteria MeSH
- Publikační typ
- příručky MeSH
- Konspekt
- Mikrobiologie
- NLK Obory
- bakteriologie
... -- The History of Bergey’s Manual 1 -- On Using the Manual 15 -- Procaryotic Domains 21 -- Classification ... ... Concept of Bacterial -- Speciation 27 -- Identification of Procaryotes 33 -- Numerical Taxonomy 39 -- Polyphasic ...
2nd ed. xxi, 721 s. : il., tab., grafy ; 28 cm
