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International Journal of Systematic... Oct 1995Because of similarities in the cellular fatty acid compositions of Hallella seregens and Mitsuokella dentalis, we determined the 16S rRNA gene sequences of the type...
16S rRNA gene similarities indicate that Hallella seregens (Moore and Moore) and Mitsuokella dentalis (Haapsalo et al.) are genealogically highly related and are members of the genus Prevotella: emended description of the genus Prevotella (Shah and Collins) and description of Prevotella dentalis...
Because of similarities in the cellular fatty acid compositions of Hallella seregens and Mitsuokella dentalis, we determined the 16S rRNA gene sequences of the type strains of these species to assess their relationship. A very high level of sequence relatedness (approximately 99.8%) was found between H. seregens and M. dentalis, indicating that these species are genealogically closely related. A comparative sequence analysis revealed that these two species are members of the genus Prevotella and are phylogenetically remote from Mitsuokella multiacidus (the type species of the genus Mitsuokella), which was found to be a member of the Sporomusa subbranch of the Clostridium subphylum of the gram-positive bacteria. On the basis of our phylogenetic findings, we propose that M. dentalis should be reclassified as Prevotella dentalis comb. nov.
Topics: Base Sequence; DNA, Bacterial; DNA, Ribosomal; Molecular Sequence Data; Prevotella; RNA, Ribosomal, 16S
PubMed: 7547307
DOI: 10.1099/00207713-45-4-832 -
Anaerobe Dec 2018Prevotella dentalis is a Gram-negative anaerobic rod involved in various human diseases, especially oral infections. We report a rare case of a pleural effusion due to...
Prevotella dentalis is a Gram-negative anaerobic rod involved in various human diseases, especially oral infections. We report a rare case of a pleural effusion due to this microorganism in an elderly patient. An 88-year-old man with chronic respiratory disease presented with a left pleural effusion for more than 1 month. Culture of drained pleural fluid resulted in isolation of P. dentalis. Resistance to penicillin and moxifloxacin was documented. Treatment with drainage and clindamycin was established, but the patient developed cognitive impairment and died after a worsening of his general condition.
Topics: Aged, 80 and over; Anti-Bacterial Agents; Bacteroidaceae Infections; Clindamycin; Humans; Male; Pleural Effusion; Prevotella
PubMed: 30244150
DOI: 10.1016/j.anaerobe.2018.09.004 -
Oncogene Feb 2023Appendectomy impacts the homeostasis of gut microbiome in patients. We aimed to study the role of appendectomy in colorectal cancer (CRC) risk through causing gut...
Appendectomy impacts the homeostasis of gut microbiome in patients. We aimed to study the role of appendectomy in colorectal cancer (CRC) risk through causing gut microbial dysbiosis. Population-based longitudinal study (cohort 1, n = 129,155) showed a 73.0% increase in CRC risk among appendectomy cases throughout 20 years follow-up (Adjusted sub-distribution hazard ratio (SHR) 1.73, 95% CI 1.49-2.01, P < 0.001). Shotgun metagenomic sequencing was performed on fecal samples from cohort 2 (n = 314). Gut microbial dysbiosis in appendectomy subjects was observed with significant enrichment of 7 CRC-promoting bacteria (Bacteroides vulgatus, Bacteroides fragilis, Veillonella dispar, Prevotella ruminicola, Prevotella fucsa, Prevotella dentalis, Prevotella denticola) and depletion of 5 beneficial commensals (Blautia sp YL58, Enterococcus hirae, Lachnospiraceae bacterium Choco86, Collinsella aerofaciens, Blautia sp SC05B48). Microbial network analysis showed increased correlation strengths among enriched bacteria and their enriched oncogenic pathways in appendectomy subjects compared to controls. Of which, B. fragilis was the centrality in the network of the enriched bacteria. We further confirmed that appendectomy promoted colorectal tumorigenesis in mice by causing gut microbial dysbiosis and impaired intestinal barrier function. Collectively, this study revealed appendectomy-induced microbial dysbiosis characterized by enriched CRC-promoting bacteria and depleted beneficial commensals, signifying that the gut microbiome may play a crucial role in CRC development induced by appendectomy.
Topics: Animals; Mice; Gastrointestinal Microbiome; Dysbiosis; Appendectomy; Longitudinal Studies; Colorectal Neoplasms
PubMed: 36539569
DOI: 10.1038/s41388-022-02569-3 -
International Journal of Systematic and... Mar 2006Eight strains of anaerobic Gram-negative bacilli isolated from infections of the skin and soft tissues were subjected to a comprehensive range of phenotypic and...
Eight strains of anaerobic Gram-negative bacilli isolated from infections of the skin and soft tissues were subjected to a comprehensive range of phenotypic and genotypic tests. 16S rRNA gene sequence analysis revealed the strains to constitute a homogeneous group, distinct from species with validly published names but related to a cluster including Prevotella buccae, Prevotella dentalis and Prevotella baroniae. A novel species, Prevotella bergensis sp. nov., is proposed to accommodate these strains. Prevotella bergensis is saccharolytic and produces acetic and succinic acids as end products of fermentation. The G + C content of the DNA of the type strain is 48 mol%. The type strain of Prevotella bergensis is 94067913T (= DSM 17361T = CCUG 51224T).
Topics: DNA, Ribosomal; Fatty Acids; Humans; Nucleic Acid Hybridization; Phenotype; Phylogeny; Prevotella; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Skin Diseases, Bacterial; Soft Tissue Infections
PubMed: 16514036
DOI: 10.1099/ijs.0.63888-0 -
International Journal of Molecular... Jan 2024The activation of inflammasomes is thought to induce the inflammatory process around dental implants. No information is available on the correlation between microbiota...
The activation of inflammasomes is thought to induce the inflammatory process around dental implants. No information is available on the correlation between microbiota and inflammasomes in clinical samples from patients suffering peri-implantitis. For this cross-sectional study, 30 biofilm samples were obtained from 19 patients undergoing surgical treatment for peri-implantitis because of the presence of bleeding on probing, probing depth higher than 6 mm, and radiographic bone loss higher than 3 mm. Then, soft tissue samples from around the implant were also collected. The relative abundance of bacteria and alpha-diversity indexes were calculated after analyzing the 16S rRNA gene using next-generation sequencing. The soft-tissue samples were processed for evaluation of the inflammasomes NLRP3 and AIM2 as well as caspase-1 and IL-1β. The relative abundance (mean (SD)) of specific species indicated that the most abundant species were (10.95 (14.17)%), (10.93 (13.18)%), (5.89 (7.23)%), (3.88 (4.94)%), (2.91 (3.19)%), and (2.84 (4.15)%). Several correlations were found between the species and the immunohistochemical detection of the inflammasomes NLRP3 and AIM2 as well as caspase-1 and IL-1β, both in the epithelium and the lamina propria. A network analysis found an important cluster of variables formed by NLRP3 in the lamina propria and AIM2, caspase-1, and IL-1β in the lamina propria and the epithelium with , , , or . Thus, it could be concluded that inflammasomes NLRP3 and AIM2 and their downstream effectors caspase-1 and interleukin-1β can be significantly associated with specific bacteria.
Topics: Humans; Inflammasomes; NLR Family, Pyrin Domain-Containing 3 Protein; Peri-Implantitis; Cross-Sectional Studies; RNA, Ribosomal, 16S; Microbiota; Caspase 1
PubMed: 38256037
DOI: 10.3390/ijms25020961 -
Frontiers in Microbiology 2016The bacterial phylum , characterized by a distinct gliding motility, occurs in a broad variety of ecosystems, habitats, life styles, and physiologies. Accordingly,...
The bacterial phylum , characterized by a distinct gliding motility, occurs in a broad variety of ecosystems, habitats, life styles, and physiologies. Accordingly, taxonomic classification of the phylum, based on a limited number of features, proved difficult and controversial in the past, for example, when decisions were based on unresolved phylogenetic trees of the 16S rRNA gene sequence. Here we use a large collection of type-strain genomes from and closely related phyla for assessing their taxonomy based on the principles of phylogenetic classification and trees inferred from genome-scale data. No significant conflict between 16S rRNA gene and whole-genome phylogenetic analysis is found, whereas many but not all of the involved taxa are supported as monophyletic groups, particularly in the genome-scale trees. Phenotypic and phylogenomic features support the separation of as new phylum from and of as new class from . is nested within the older genus and without significant phenotypic differences; thus merging the two genera is proposed. Similarly, is proposed to be included in . is confirmed as being heterogeneous and dissected, yielding six distinct genera. is a later heterotypic synonym of . Compared to values directly calculated from genome sequences, the G+C content mentioned in many species descriptions is too imprecise; moreover, corrected G+C content values have a significantly better fit to the phylogeny. Corresponding emendations of species descriptions are provided where necessary. Whereas most observed conflict with the current classification of is already visible in 16S rRNA gene trees, as expected whole-genome phylogenies are much better resolved.
PubMed: 28066339
DOI: 10.3389/fmicb.2016.02003 -
Journal of Clinical Medicine Feb 2022Different periodontal treatment methods (quadrant-wise debridement, scaling and root planing (Q-SRP), full-mouth scaling (FMS), full-mouth disinfection (FMD), and FMD...
BACKGROUND
Different periodontal treatment methods (quadrant-wise debridement, scaling and root planing (Q-SRP), full-mouth scaling (FMS), full-mouth disinfection (FMD), and FMD with adjuvant erythritol air-polishing (FMDAP)) were applied in periodontitis patients (stage III/IV). The study objective (substudy of ClinicalTrials.gov Identifier: NCT03509233) was to compare the impact of treatments on subgingival colonization.
METHODS
Forty patients were randomized to the treatment groups. Periodontal parameters and subgingival colonization were evaluated at baseline and 3 and 6 months after treatment.
RESULTS
Positive changes in clinical parameters were recorded in every treatment group during the 3-month follow-up period, but did not always continue. In three groups, specific bacteria decreased after 3 months; however, this was associated with a renewed increase after 6 months (FMS: ; FMD: , ; and FMDAP: uncultured sp.).
CONCLUSIONS
The benefit of all clinical treatments measured after 3 months was associated with a decrease in pathogenic bacteria in the FMS, FMD, and FMDAP groups. However, after 6 months, we observed further improvement or some stagnation in clinical outcomes accompanied by deterioration of the microbiological profile. Investigating the subgingival microbiota might help appraise successful periodontal treatment and implement individualized therapy.
PubMed: 35268280
DOI: 10.3390/jcm11051187 -
International Journal of Systematic and... Sep 2005Six bacterial strains isolated from the human oral cavity, PPPA16, PPPA20(T), PPPA24, PPPA31, EPPA6 and EPPA7, were characterized by determining phenotypic and...
Six bacterial strains isolated from the human oral cavity, PPPA16, PPPA20(T), PPPA24, PPPA31, EPPA6 and EPPA7, were characterized by determining phenotypic and biochemical features, cellular fatty acid profiles, menaquinone profiles and phylogenetic position based on 16S rRNA gene sequence analysis. 16S rRNA gene sequence analysis showed that the isolates represented the same species of the genus Prevotella. The strains were related to Prevotella dentalis with about 89% similarity. In addition, the isolates were related to Prevotella sp. oral clone IDR-CEC-0032, which is a representative of the numerically dominant cluster VI in carious dentine lesions [Nadkarni et al. (2004). J Clin Microbiol 42, 5238-5244], with about 99% similarity. The strains were obligately anaerobic, non-pigmenting, non-spore-forming, non-motile, Gram-negative rods. The isolates could be differentiated from other Prevotella species by D-mannitol, D-melezitose, D-sorbitol and D-trehalose fermentation in API 20A tests. The cellular fatty acid composition of strains PPPA16, PPPA20(T), PPPA24, PPPA31, EPPA6 and EPPA7 was significantly different from that of other Prevotella species. Compared with other Prevotella species, only these six strains contained dimethyl acetals. The major menaquinones of the clinical isolates were MK-12 and MK-13, whereas the major menaquinones of other Prevotella species were MK-10 and MK-11. On the basis of these data, a novel Prevotella species, Prevotella multisaccharivorax sp. nov., is proposed, with PPPA20(T) (=JCM 12954(T)=DSM 17128(T)) as the type strain.
Topics: Bacterial Typing Techniques; Bacteroidaceae Infections; DNA, Bacterial; Dental Plaque; Fatty Acids; Genes, rRNA; Gingiva; Humans; Molecular Sequence Data; Phenotype; Phylogeny; Prevotella; RNA, Ribosomal, 16S; Sequence Analysis, DNA; Vitamin K 2
PubMed: 16166675
DOI: 10.1099/ijs.0.63739-0 -
Frontiers in Cellular and Infection... 2021Familial hypercholesterolemia (FH) is an inherited rare disease leading to markedly elevated low-density lipoprotein cholesterol (LDL-C) levels and increased risk for...
Familial hypercholesterolemia (FH) is an inherited rare disease leading to markedly elevated low-density lipoprotein cholesterol (LDL-C) levels and increased risk for cardiovascular event. Gut microbiota has been implicated as a pivotal contributing factor in hyperlipidemia, however, its role in FH remains elusive. We performed whole-exome and metagenomics sequencing on a family with 22 members in which myocardial infarctions occurred at a young age with unclear etiology. We confirmed the missense mutation of c.1723C>T accounted for the abnormal cholesterol metabolism in the family through co-segregation analysis. In addition, was found elevated and strongly associated with LDL-C level in FH family members with mutation of c.1723C>T compared to unaffected members with hyperlipidemia. Overall, our work suggests that whole-exome sequencing can facilitate identification of disease-causing variants and enable preventive treatment of FH. Our metagenomics analysis provides early insights into potential contributions of host-microbe interactions in genetic and common hypercholesterolemia.
Topics: Genomics; Heterozygote; Humans; Hyperlipoproteinemia Type II; Metagenomics; Mutation; Phenotype; Prevotella; Receptors, LDL
PubMed: 33747976
DOI: 10.3389/fcimb.2021.605954 -
Animals : An Open Access Journal From... Nov 2018To identify differences in rumen function as a result of feeding monensin to beef cattle, rumen fluid metagenomics and metabolomics analyses were used to evaluate the...
To identify differences in rumen function as a result of feeding monensin to beef cattle, rumen fluid metagenomics and metabolomics analyses were used to evaluate the functional attributes and metabolites of rumen microbiota in beef steers fed no or 200 mg/d of monensin. Eight rumen-fistulated steers were used in the study for a period of 53 days. Rumen fluid samples were collected on the last day of the experiment. Monensin increased the relative abundance of sp. ND2010, , , , , and , but reduced the relative abundance of sp. KNHs210, , , , sp. LMG29324, and . Monensin increased the relative abundance of functional genes involved in amino acid metabolism and lipid metabolism. A total of 245 metabolites were identified. Thirty-one metabolites were found to be differentially expressed. Pathway analysis of the differentially expressed metabolites revealed upregulated metabolic pathways associated with metabolism of linoleic acid and some amino acids. These findings confirm that monensin affects rumen fermentation of forage-fed beef cattle by modulating the rumen microbiome, and by reducing amino acid degradation and biohydrogenation of linoleic acid in the rumen.
PubMed: 30453603
DOI: 10.3390/ani8110211