Comparative Genomics Uncovers the Genetic Diversity and Characters of Veillonella atypica and Provides Insights Into Its Potential Applications

Han, Maozhen; Liu, Gang; Chen, Yajun; Wang, Dong; Zhang, Yan

doi:10.3389/fmicb.2020.01219

Cited by 12 publications

(11 citation statements)

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“…In general, ethnicity and lifestyle have no effect on DAR profiles. These results also suggested that the structure of the dominant species in the Chinese gut microbiome might be stable and not affected by ethnicities or lifestyles, possibly because these species (i.e., Eubacterium rectale , Faecalibacterium prausnitzii , and Veillonella atypical ) are related to important functions (i.e., metabolism) ( Sokol et al, 2008 ; Berni Canani et al, 2012 ; Han et al, 2020 ). Moreover, there were significant differences only at the species level and none at higher taxonomy levels.…”

Section: Conclusion and Discussionmentioning

confidence: 84%

Diversity Scaling Analysis of Chinese Gut Microbiomes Across Ethnicities and Lifestyles

et al. 2021

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Diversity scaling (changes) of human gut microbiome is important because it measures the inter-individual heterogeneity of diversity and other important parameters of population-level diversity. Understanding the heterogeneity of microbial diversity can be used as a reference for the personalized medicine of microbiome-associated diseases. Similar to diversity per se, diversity scaling may also be influenced by host factors, especially lifestyles and ethnicities. Nevertheless, this important topic regarding Chinese populations has not been addressed, to our best knowledge. Here, we fill the gap by applying a recent extension to the classic species–area relationship (SAR), i.e., diversity–area relationship (DAR), to reanalyze a large dataset of Chinese gut microbiomes covering the seven biggest Chinese ethnic groups (covering > 95% Chinese) living rural and urban lifestyles. Four DAR profiles were constructed to investigate the diversity scaling, diversity overlap, potential maximal diversity, and the ratio of local to global diversity of Chinese gut microbiomes. We discovered the following: (i) The diversity scaling parameters (z) at various taxon levels are little affected by either ethnicity or lifestyles, as exhibited by less than 0.5% differences in pairwise comparisons. (ii) The maximal accrual diversity (potential diversity) exhibited difference in only about 5% of pairwise comparisons, and all of the differences occurred in ethnicity comparisons (i.e., lifestyles had no effects). (iii) Ethnicity seems to have stronger effects than lifestyles across all taxon levels, and this may reflect the reality that China has been experiencing rapid urbanization in the last few decades, while the ethnic-related genetic background may change relatively little during the same period.

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Section: Conclusion and Discussionmentioning

confidence: 84%

Diversity Scaling Analysis of Chinese Gut Microbiomes Across Ethnicities and Lifestyles

et al. 2021

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“…Prevotella melaninogenica is commonly cultured as the sole infectious agent in extraoral abscesses such as spondylitis, osteomyelitis, pyomyositis, peritoneal abscesses and vaginal mesh infections ( 33 ). Veillonella members are frequently associated with mixed infections and are recovered mixed with mouth and bowel flora ( 34 ). Consistent with this report, we found that Veillonellaceae and Veillonella were positively correlated with serum ALP and GGT, adding to evidence of harmful effects of these bacteria on PBC.…”

Section: Discussionmentioning

confidence: 99%

The Salivary Microbiota of Patients With Primary Biliary Cholangitis Is Distinctive and Pathogenic

Jiang

Chen

et al. 2021

Front. Immunol.

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The role of host-microbiota interactions in primary biliary cholangitis (PBC) has received increased attention. However, the impact of PBC on the oral microbiota and contribution of the oral microbiota to PBC are unclear. In this study, thirty-nine PBC patients without other diseases and 37 healthy controls (HCs) were enrolled and tested for liver functions and haematological variables. Saliva specimens were collected before and after brushing, microbiota was determined using 16S rDNA sequencing, metabolomics was profiled using Gas Chromatography-Mass Spectrometer (GC-MS), 80 cytokines were assayed using biochips, and inflammation inducibility was evaluated using OKF6 keratinocytes and THP-1 macrophages. Finally, the effect of ultrasonic scaling on PBC was estimated. Compared with HCs, PBC saliva had enriched taxa such as Bacteroidetes, Campylobacter, Prevotella and Veillonella and depleted taxa such as Enterococcaceae, Granulicatella, Rothia and Streptococcus. PBC saliva also had enriched sCD163, enriched metabolites such as 2-aminomalonic acid and 1-dodecanol, and depleted metabolites such as dodecanoic acid and propylene glycol. sCD163, 4-hydroxybenzeneacetic acid and 2-aminomalonic acid were significantly correlated with salivary cytokines, bacteria and metabolites. Salivary Veillonellaceae members, 2-aminomalonic acid, and sCD163 were positively correlated with liver function indicators such as serum alkaline phosphatase (ALP), aspartate aminotransferase (AST) and alanine aminotransferase (ALT). PBC salivary microbes induced more soluble interleukin (IL)-6 receptor α (sIL-6Rα), sIL-6Rβ and tumour necrosis factor ligand superfamily (TNFSF)13B from OKF6 keratinocytes, and PBC salivary supernatant induced more IL-6, IL-10, granulocyte-macrophage colony-stimulating factor (GM-CSF), chemokine (C-C motif) ligand (CCL)13, C-X-C motif chemokine (CXC)L1 and CXCL16 from THP-1 macrophages. Toothbrushing significantly reduced the expression of inflammatory cytokines such as IL-1β, IL-8 and TNF-α and harmful metabolites such as cadaverine and putrescine in PBC but not HC saliva after P‐value correction. The levels of ALP and bilirubin in PBC serum were decreased after ultrasonic scaling. Together, PBC patients show significant alterations in their salivary microbiota, likely representing one cause and treatment target of oral inflammation and worsening liver functions.

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“…Veillonella are anaerobic, gram negative cocci commonly found in the oral cavity, gut and vaginal tract that play diverse roles in different niches 42 . The pathogenic role of Veillonella is uncertain and they are currently considered to be of low virulence 43,44 . While Veillonella species have been associated with more diverse microbial communities, including the formation of biofilms leading to dental plaques in the oral cavity and serious infections such as endocarditis 45 , they have also been found to be more abundant in HPV negative women compared to HPV positive women 13,46 , as well as in the oral microbiota of HPV negative infants compared to the oral microbiota of HPV positive infants 46 .…”

Section: Discussionmentioning

confidence: 99%

Vaginal microbiota diversity and paucity of Lactobacillus species are associated with persistent hrHPV infection in HIV negative but not in HIV positive women

Dareng

Adebamowo

et al. 2020

Sci Rep

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The vaginal microbiota is thought to play a role in modulating risk of high-risk human papillomavirus (hrHPV) infection. We examined the relationship between the vaginal microbiota and persistent hrHPV infection in HIV-negative and HIV-positive women. We used 16S-rRNA sequencing to characterize the vaginal microbiota of two serial samples taken six months apart from 211 Nigerian women (67%, 142/211 HIV-positive and 33%, 69/211 HIV-negative) and evaluated the association between the vaginal microbiota and persistent hrHPV infection using generalized estimating equation logistic regression models and linear discriminant analysis effect size (LEfSe) algorithm to identify phylotypic biomarkers of persistent hrHPV infection. The high diversity microbiota, Community State Type IV-B, was the most prevalent in both HIV-negative (38% at baseline, 30% at the follow-up visit) and HIV-positive (27% at baseline, 35% at the follow-up visit) women. The relationship between the vaginal microbiota and persistent hrHPV was modified by HIV status. In HIV-negative women, women with Lactobacillus dominant microbiota had lower odds (OR: 0.35, 95% CI 0.14–0.89, p = 0.03) of persistent hrHPV compared to women with Lactobacillus deficient microbiota. While among HIV-positive women, the odds of being persistently infected with hrHPV was higher in women with Lactobacillus dominant microbiota (OR: 1.25, 95% CI 0.73–2.14 p = 0.41). This difference in effect estimates by HIV was statistically significant (p = 0.02). A high diversity vaginal microbial community with paucity of Lactobacillus species was associated with persistent hrHPV infection in HIV-negative women but not in HIV-positive women.

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Comparative Genomics Uncovers the Genetic Diversity and Characters of Veillonella atypica and Provides Insights Into Its Potential Applications

Cited by 12 publications

References 50 publications

Diversity Scaling Analysis of Chinese Gut Microbiomes Across Ethnicities and Lifestyles

Diversity Scaling Analysis of Chinese Gut Microbiomes Across Ethnicities and Lifestyles

The Salivary Microbiota of Patients With Primary Biliary Cholangitis Is Distinctive and Pathogenic

Vaginal microbiota diversity and paucity of Lactobacillus species are associated with persistent hrHPV infection in HIV negative but not in HIV positive women

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