1887

Abstract

Three strains of a hitherto unknown, Gram-negative, tiny, anaerobic coccus were collected from human clinical samples originating from skin and soft tissues. The three isolates displayed at least 99.9 % identity in their 16S rRNA gene sequences and more than 99.8 % identity in their gene sequences. The isolates were affiliated to the family , the coccobacillus being the most closely related species, but there was no more than 91.1 % identity in the 16S rRNA gene sequence between this species and the three isolates. Phylogeny based on the 16S rRNA gene confirmed that the three strains represent a novel and robust lineage within the current family . A similar genomic structure was demonstrated for the three isolates by PFGE-based analysis. Morphology and metabolic end products, as well as genotypic and phylogenetic data supported the proposal of the novel genus gen. nov., with the novel species sp. nov. [type strain ADV 07/08/06-B-1388 (=AIP 149.07=CIP 109806=DSM 21255=CCUG 56017) as type species]. Phylogenetic analyses based on the 16S rRNA gene sequences of members of the phylum and other phyla indicated that the family forms a robust lineage clearly separated from those of the classes ‘’, ‘’, and ‘’ in the phylum . Therefore, we propose that this family is a class-level taxon in the phylum , for which the name classis nov. is proposed, based on the Gram-negative type of cell wall of its members, with the type order ord. nov. In this order, a novel family, fam. nov., is proposed and description of the family is emended.

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2010-06-01
2020-01-27
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(Excel File) Composition of datasets A and B.

EXCEL

(PDF) PFGE migration of I- I-restricted DNAs. Lanes: 1, strain ADV 07/08/06-B-1388 ; 2, strain ADV 03/08/05-B-3158; 3, ADV 12/01/04-B-1195; 4, ATCC 33048 ; 5, ATCC 17745 . Sc and λc, chromosomes and concatemer of phage λ, respectively, used as molecular size markers (sizes are indicated in kb). PFGE conditions consisted of pulse ramps of 90-150 s for 24 h at 5.1 V cm and 5-35 s for 12 h at 5.1 V cm performed in a CHEF-DRII apparatus (Bio-Rad) on 0.8 % agarose gel in 0.5x Tris/Boric acid/EDTA buffer.

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(PDF) ML tree based on 227 partial 16S rRNA gene sequences (1200 nt), showing relationships between members of the family , other members of the phylum and other selected phyla. Numbers at nodes indicate percentage bootstrap support, based on analysis of 100 replicatesand are only indicated for the major nodes of interest. The root of the newly characterized ( classis nov., ord. nov. and fam. nov.) or emended taxa (family emend.) is indicated by bold line. *, Members of the proposed for reclassification in the phylum . Bar, 0.1 substitutions per site.

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