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Phylogenetic trees displaying the position of Atopobium massiliense strain Marseille-P4126 T (a) and Butyricimonas vaginalis strain Marseille-P4593 T (b) relative to their phylogenetically closest species. The respective GenBank accession numbers for 16S rRNA genes are indicated in parenthesis.
Source publication
Two new bacterial strains, Marseille-P4126 (=CSURP4126) and Marseille-P4593 (=CSURP4593), were isolated from the vaginal sample of a French woman with vaginosis. These strains were identified and characterized using the taxonogenomics method. The findings from phylogenetic tree interpretation, phenotypic criteria and genomic analysis provided here...
Context in source publication
Context 1
... based on 16S rRNA gene sequences of Marseille-P4126 and Marseille-P4593 revealed nucleotide sequence similarities of 98.27% with Atopobium vaginae (accession number: NR_117757.1) and 96.34% with Butyricimonas virosa (accession number: NR_041691.1) as being, respectively, the phylogenetically closest species with a validly published name (Fig. 1). As these similarity percentages are far below the threshold value recommended (98.65%) by several authors [25] to delimit the species barrier between bacteria, strains Marseille-P4126 and Marseille-P4593 were both considered to be potentially new species belonging to the genera Atopobium and Bytiricimonas, ...
Citations
... As an opportunistic pathogen, Rothia could cause endocarditis, meningitis, and bacteremia in people with low immunity [24]. Atopobium was the causative agent of bacterial vaginitis, which could also cause bacteremia in people with low immunity [25,26]. Some other reports on the respiratory tract of PTB are different from our data, such as Zelin Cui [19] reported that Stenotrophomonas, Cupriavidus, Pseudomonas, Thermus, Sphingomonas and other foreign bacteria are unique to the airway of PTB; Yuhua Zhou reported [17]: the dominant genus of bacteria in the tuberculosis patient's lower respiratory tract is Cuprophyll rather than Streptococcus. ...
Background
Pulmonary tuberculosis is a chronic infectious disease of the respiratory system. It is still one of the leading causes of death from a single infectious disease, but it has been stuck in the study of a single pathogen. Recent studies have shown that many diseases are associated with disruption of the native microbiota. In this study we investigated the occurrence of tuberculosis and the correlation between drug resistance and respiratory flora. High-throughput 16 S rRNA gene sequencing was used to characterize the respiratory microbiota composition of 30 tuberculosis (TB) affected patients and compared with 30 healthy (H) controls. According to their Gene Xpert results, 30 pulmonary tuberculosis patients were divided into 12 persons in the drug-sensitive group (DS0) and 18 persons in the drug-resistant group (DR0). The microbial flora of the two were compared with the H group.
Results
The data generated by sequencing showed that Firmicutes, Proteus, Bacteroides, Actinomyces and Fusobacterium were the five main bacterial phyla detected, and they constituted more than 96% of the microbial community. The relative abundances of Fusobacterium, Haemophilus, Porphyromonas, Neisseria, TM7, Spirochetes, SR1, and Tenericutes in the TB group was lower than that of the H group, and Granulicatella was higher than the H group. The PcoA diagrams of the two groups had obvious clustering differences. The Alpha diversity of the TB group was lower than that of the H group, and the Beta diversity was higher than that of the H group (P < 0.05). The relative abundance of Streptococcus in the DS0 group was significantly higher than that in the DR0 group (P < 0.05).
Conclusion
Pulmonary tuberculosis can cause disorders of the respiratory tract microbial flora, in which the relative abundance of Streptococcus was significantly different between rifampicin-sensitive and rifampicin-resistant patients.
Five novel bacterial strains, Marseille-P1476 T (=CSURP1476 T =DSM 100642 T ), Marseille-P3256 T (=CSURP3256 T =CECT 9977 T ), Marseille-P2936 T (=CSURP2936 T =DSM 103159 T ), Marseille-P2912 T (=CSURP2912 T =DSM 103345 T ) and Marseille-P3197 T (=CSURP3197 T =CCUG 71847 T ), were isolated from various human specimens. These five strains were not identified at the species level by matrix-assisted laser desorption/ionization time of flight mass spectrometry. Following 16S rRNA gene sequence comparisons with the GenBank database, the highest nucleotide sequence similarities of all studied strains were obtained to members of the paraphyletic genus Olsenella . A polyphasic taxono-genomic strategy (16S rRNA gene-based and core genome-based phylogeny, genomic comparison, phenotypic and biochemical characteristics) enabled us to better classify these strains and reclassify Olsenella species. Among the studied strains, Marseille-P1476 T , Marseille-P2936 T and Marseille-P3197 T belonged to new species of the genus Olsenella for which we propose the names Olsenella massiliensis sp. nov., Olsenella phocaeensis sp. nov. and Olsenella urininfantis sp. nov., respectively. Strains Marseille-P2912 T and Marseille-P3256 T belonged to a new genus for which the names Thermophilibacter provencensis gen. nov., sp. nov. and Thermophilibacter mediterraneus gen. nov., sp. nov. are proposed, respectively. We also propose the creation of the genera Parafannyhessea gen. nov., Tractidigestivibacter gen. nov. and Paratractidigestivibacter gen. nov. and the reclassification of Olsenella umbonata as Parafannyhessea umbonata comb. nov., Olsenella scatoligenes as Tractidigestivibacter scatoligenes comb. nov., and Olsenella faecalis as Paratractidigestivibacter faecalis comb. nov.
