Comparative Pan-Genome Analysis of Oral Veillonella Species

Mashima, Izumi; Liao, Yu-Chieh; Lin, Chih-Long; Nakazawa, Fumio; Haase, Elaine M.; Kiyoura, Yusuke; Scannapieco, Frank A.

doi:10.3390/microorganisms9081775

Cited by 7 publications

(6 citation statements)

References 50 publications

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“…The abundance of Bacteroides fragilis ( p = 0.0009) and Veillonella parvula ( p = 0.01) was markedly enriched in CRC patients. Notably, Veillonella parvula is a common and abundant member of the oral microbiome and possesses important metabolic pathways that utilize lactate as an energy source ( Mashima et al, 2021 ), but there have been no previous reports that this bacterium was enriched in CRC patients. Some bacteria with probiotic properties, such as Blautia , Eubacterium rectale ATCC33656, Lachnospiraceae , and Eubacterium hallii , were significantly enriched in NC controls ( Figure 2C ).…”

Section: Resultsmentioning

confidence: 99%

Alterations of the Gut Microbiome and Fecal Metabolome in Colorectal Cancer: Implication of Intestinal Metabolism for Tumorigenesis

Tang

et al. 2022

Front. Physiol.

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Objective: The gut microbiota and its metabolites are important for host physiological homeostasis, while dysbiosis is related to diseases including the development of cancers such as colorectal cancer (CRC). In this study, we characterized the relationship of an altered gut microbiome with the fecal metabolome in CRC patients in comparison with volunteers having a normal colorectal mucous membrane (NC).Methods: The richness and composition of the microbiota in fecal samples of 30 CRC patients and 36 NC controls were analyzed through 16S rRNA gene sequencing, and the metabolome was determined by ultra-performance liquid chromatography coupled to tandem mass spectrometry. Spearman correlation analysis was to determine the correlation between the gut microbiome and fecal metabolome in CRC patients.Results: There were significant alterations in the gut microbiome and fecal metabolome in CRC patients compared with NC controls. Bacteroidetes, Firmicutes, Actinobacteriota, and Proteobacteria dominated the gut microbial communities at the phylum level in both groups. Compared with NC controls, CRC patients had a lower frequency of Blautia and Lachnospiracaea but a higher abundance of Bacteroides fragilis and Prevotella. Regarding the fecal metabolome, twenty-nine metabolites were identified as having significantly changed, showing increased levels of adrenic acid, decanoic acid, arachidonic acid, and tryptophan but a reduction in various monosaccharides in the fecal samples of CRC patients. Moreover, increased abundance of Bacteroides fragilis was strongly associated with decreased levels of monosaccharides, while Blautia was positively associated with the production of monosaccharides in the fecal samples.Conclusion: These results highlight alterations of gut microbiota in association with certain metabolites in CRC progression, implying potential diagnostic and intervention potential for CRC.

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Section: Resultsmentioning

confidence: 99%

Alterations of the Gut Microbiome and Fecal Metabolome in Colorectal Cancer: Implication of Intestinal Metabolism for Tumorigenesis

Tang

et al. 2022

Front. Physiol.

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“…As for the possible classification of other enterotypes, Liang et al (2017) found that Enterobacteriaceae could be a new subtype of enterotypes in the Asian population. In a study based on a Chinese population, Lu et al (2021) identified four enterotypes in 2678 healthy Chinese people, three of which were enriched in Prevotella, Bacteroides and Escherichia coli, while the fourth was a mixed type with no dominant genus. In this study, the three enterotypes were consistent with those seen in previous studies.…”

Section: Discussionmentioning

confidence: 99%

Analysis of the relationship between the gut microbiota enterotypes and colorectal adenoma

Zhang

Deng

et al. 2023

Front. Microbiol.

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IntroductionThe essence of enterotypes is to stratify the entire human gut microbiota, and dysregulation of gut microbiota is closely related to the development of colorectal adenoma. Enterotypes may therefore be a useful target for the prevention of colorectal adenoma. However, the relationship between gut microbiota and colorectal adenoma has not been fully elucidated. In this study, we aimed to analyze the differences in gut microbiome composition between adenoma and control populations.MethodsWe recruited 31 patients with colorectal adenoma and 71 non-adenoma controls. Patient demographics, risk factors, fecal samples from each subject were collected and metagenomic sequencing was performed. LEfSe analysis was used to reveal differences in intestinal microbiome composition. Multiple logistic regression analysis was used to determine the association between enterotypes and colorectal adenoma.ResultsThe results showed that Prevotella enterotype (enterotype 4) is only present in adenoma group. Logistic regression analysis showed that Prevotella enterotype was an independent risk factor for colorectal adenoma.DiscussionThe Prevotella enterotype may increase the occurrence of colorectal adenoma through inflammatory association and interference with glucose and lipid metabolism in human body. In conclusion, the differences we observed between different enterotypes add a new potential factor to the development of colorectal adenoma.

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“…Veillonella spp. are considered commensal bacteria present in the oral cavity and the gastrointestinal tract of humans, due to being part of the core microbiome [ 49 , 50 ]. They are known to be involved in cross-feeding and co-aggregation with acidogenic species in other environments [ 51 ], using their metabolic intermediates, which suggest that they act as an acid sink.…”

Section: Discussionmentioning

confidence: 99%

“…We believe that the identification of these virulence factors and a more detailed molecular and functional characterisation of Veillonella in caries-associated biofilms, in combination with a more thorough characterisation of other microorganisms, could be the key for the development of strategies to modulate the microbiota by using pre or probiotics. A more recent molecular characterisation of oral Veillonella revealed that the genomes of oral Veillonella species were remarkably diverse, and that these Veillonella have conserved pathways that utilise carbohydrates other than lactate as an energy source [ 50 ], which might be an interesting finding of their potential pathogenic traits as oral species. Furthermore, RNA sequencing seems to show higher abundances of Veillonella than DNA sequencing.…”

Section: Discussionmentioning

confidence: 99%

Meta-Analysis Using NGS Data: The Veillonella Species in Dental Caries

Damé‐Teixeira

Lima

et al. 2021

Front. Oral. Health

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Objectives: In light of recent technological advances in Next-generation sequencing (NGS) and the accumulation of large, publicly available oral microbiome datasets, the need for meta-analysing data on caries microbiome is becoming feasible and essential. A consensus on the identification of enriched organisms in cariogenic dysbiotic biofilms would be reached. For example, members of the Veillonella genus have been detected in caries biofilms, and may have an underestimated contribution to the dysbiotic process. Hence, we aimed to determine the abundance of Veillonella species in dental caries in studies using NGS data.Materials and Methods: Analysis was performed according to the Preferred Reporting Items for Systematic Review and Meta-Analysis (registered at PROSPERO: CRD42020204150). Studies investigating microbial composition in saliva, dental biofilm, or carious dentin were included. Six databases and grey literature were searched. Two independent reviewers selected the papers and assessed the methodological quality.Results: Searches retrieved 1,323 titles, from which 38 studies were included in a qualitative synthesis, comprising a total of 1,374 caries and 745 caries-free individuals. Most studies analysed 16S rRNA amplicons, and only 5 studies used shotgun metagenomics and metatranscriptomics. A geographical bias was observed. The methodological quality was downrated in 81.5% of the studies due to the lack of criteria for defining cases and standard criteria used for measurement of the condition in a reliable way. Six studies on early childhood caries (ECC) were meta-analysed, confirming a significant enrichment of Veillonella spp. in caries-associated biofilms (but not saliva) when compared to caries-free controls [mean difference: 2.22 (0.54–3.90); p = 0.01].Conclusions:Veillonella spp. is more abundant in individuals suffering with ECC when compared to caries-free controls (very low evidence certainty), and should be considered for further studies to observe their metabolism in dental caries. There is an urgent need for a consensus in methodologies used to allow for more rigorous comparison between NGS studies, particularly including clinical data and details of caries diagnosis, as they are currently scarce. Inconsistent reporting on the NGS data affected the cross-study comparison and the biological connexions of the relative abundances on caries microbiome.

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Comparative Pan-Genome Analysis of Oral Veillonella Species

Cited by 7 publications

References 50 publications

Alterations of the Gut Microbiome and Fecal Metabolome in Colorectal Cancer: Implication of Intestinal Metabolism for Tumorigenesis

Alterations of the Gut Microbiome and Fecal Metabolome in Colorectal Cancer: Implication of Intestinal Metabolism for Tumorigenesis

Analysis of the relationship between the gut microbiota enterotypes and colorectal adenoma

Meta-Analysis Using NGS Data: The Veillonella Species in Dental Caries

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