High-quality draft genome sequences of five anaerobic oral bacteria and description of Peptoanaerobacter stomatis gen. nov., sp. nov., a new member of the family Peptostreptococcaceae.

Maria V Sizova,Paul A Muller,Manolito Torralba,A Scott Durkin,Karen E Nelson,Ashlee M Earl,Amanda Chilaka,Jamison M Mccorrison,Slava S Epstein,Sebastian N Doerfert

doi:10.1186/s40793-015-0027-8

Maria V Sizova, Paul A Muller + Show 8 more

Open Access

https://doi.org/10.1186/s40793-015-0027-8

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Abstract

Here we report a summary classification and the features of five anaerobic oral bacteria from the family Peptostreptococcaceae. Bacterial strains were isolated from human subgingival plaque. Strains ACC19a, CM2, CM5, and OBRC8 represent the first known cultivable members of “yet uncultured” human oral taxon 081; strain AS15 belongs to “cultivable” human oral taxon 377. Based on 16S rRNA gene sequence comparisons, strains ACC19a, CM2, CM5, and OBRC8 are distantly related to Eubacteriumyurii subs. yurii and Filifactor alocis, with 93.2 – 94.4 % and 85.5 % of sequence identity, respectively. The genomes of strains ACC19a, CM2, CM5, OBRC8 and AS15 are 2,541,543; 2,312,592; 2,594,242; 2,553,276; and 2,654,638 bp long. The genomes are comprised of 2277, 1973, 2325, 2277, and 2308 protein-coding genes and 54, 57, 54, 36, and 28 RNA genes, respectively. Based on the distinct characteristics presented here, we suggest that strains ACC19a, CM2, CM5, and OBRC8 represent a novel genus and species within the family Peptostreptococcaceae, for which we propose the name Peptoanaerobacter stomatis gen. nov., sp. nov. The type strain is strain ACC19aT (=HM-483T; =DSM 28705T; =ATCC BAA-2665T).Electronic supplementary materialThe online version of this article (doi:10.1186/s40793-015-0027-8) contains supplementary material, which is available to authorized users.

Highlights

The oral cavity is a major gateway to the human body [1] and one of the principle sites of interest to the Human Microbiome Project, which aims to characterize this microbiome and understand its role in health and disease.The 16S rRNA surveys and metagenomic analyses indicate that the typical oral community is comprised of over 700 bacterial species [2,3,4], approximately half of which have been isolated in culture and formally named
Classification and features Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that strains ACC19a, CM2, CM5, and OBRC8 were only distantly related to Eubacterium yurii subs. yurii, E. yurii subs. schtitka, E. yurii subsp. margaretiae and Filifactor alocis, and formed a separate branch within the Peptostreptococcaceae, while strain AS15 was closely related E. yurii subsp. margaretiae (Fig. 1)
Three and six Rapid Annotation Subsystem Technology (RAST)-annotated genes associated with diaminopimelic acid (DAP) synthesis were present in the genome of strains ACC19a, CM2, CM5, OBRC8, and AS15 and [E.] yurii subsp. margaretiae, respectively

Summary

Introduction

The oral cavity is a major gateway to the human body [1] and one of the principle sites of interest to the Human Microbiome Project, which aims to characterize this microbiome and understand its role in health and disease.The 16S rRNA surveys and metagenomic analyses indicate that the typical oral community is comprised of over 700 bacterial species [2,3,4], approximately half of which have been isolated in culture and formally named. We report a summary classification and the features of strains ACC19a, CM2, CM5, OBRC8, and AS15 together with their genome sequence and annotation. Classification and features Phylogenetic analysis based on 16S rRNA gene sequence comparisons showed that strains ACC19a, CM2, CM5, and OBRC8 were only distantly related to Eubacterium yurii subs.

Results

Conclusion