Draft Genome Sequence of Streptococcus halitosis sp. nov., Isolated from the Dorsal Surface of the Tongue of a Patient with Halitosis

Tetz, George; Vikina, Daria; Brown, Stuart M.; Zappile, Paul; Dolgalev, Igor; Tsirigos, Aristotelis; Heguy, Adriana; Tetz, Victor

doi:10.1128/mra.01704-18

Cited by 7 publications

(5 citation statements)

References 19 publications

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“…We used NCBI Reference Sequence Database (RefSeq) genomes from the named Streptococcus species and unnamed Streptococcus “human microbial taxa” (HMT) in the eHOMD (http://www.homd.org). We also included genomes sequenced from human isolates if there was evidence of their presence in the human oral cavity (Bernardi et al., 2020; Huch et al., 2013; Shen et al., 2002; Tetz et al., 2019;). The Genome Taxonomy Database (GTDB) groups RefSeq genomes into clusters sharing ≥95% ANI (Parks et al., 2020).…”

Section: Methodsmentioning

confidence: 99%

“…Streptococcus "human microbial taxa" (HMT) in the eHOMD (http:// www.homd.org). We also included genomes sequenced from human isolates if there was evidence of their presence in the human oral cavity (Bernardi et al, 2020;Huch et al, 2013;Shen et al, 2002;Tetz et al, 2019;). The Genome Taxonomy Database (GTDB) groups…”

Section: Seq) Genomes From the Named Streptococcus Species And Unnamedmentioning

confidence: 99%

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Site‐tropism of streptococci in the oral microbiome

McLean

Torres-Morales²,

Dewhirst

et al. 2022

Molecular Oral Microbiology

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A detailed understanding of where bacteria localize is necessary to advance microbial ecology and microbiome-based therapeutics. The site-specialist hypothesis predicts that most microbes in the human oral cavity have a primary habitat type within the mouth where they are most abundant. We asked whether this hypothesis accurately describes the distribution of the members of the genus Streptococcus, a clinically relevant taxon that dominates most oral sites. Prior analysis of 16S rRNA gene sequencing data indicated that some oral Streptococcus clades are site-specialists while others may be generalists. However, within complex microbial populations composed of numerous closely related species and strains, such as the oral streptococci, genome-scale analysis is necessary to provide the resolution to discriminate closely related taxa with distinct functional roles. Here, we assess whether individual species within this genus are specialists using publicly available genomic sequence data that provide specieslevel resolution. We chose a set of high-quality representative genomes for human oral Streptococcus species. Onto these genomes, we mapped shotgun metagenomic sequencing reads from supragingival plaque, tongue dorsum, and other sites in the oral cavity. We found that every abundant Streptococcus species in the healthy human oral cavity showed strong site-tropism and that even closely related species such as S. mitis, S. oralis, and S. infantis specialized in different sites. These findings indicate that closely related bacteria can have distinct habitat distributions in the absence of dispersal limitation and under similar environmental conditions and immune regimes. Substantial overlap between the core genes of these three species suggests that site-specialization is determined by subtle differences in genomic content.

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Section: Methodsmentioning

confidence: 99%

Section: Seq) Genomes From the Named Streptococcus Species And Unnamedmentioning

confidence: 99%

Site‐tropism of streptococci in the oral microbiome

McLean

Torres-Morales²,

Dewhirst

et al. 2022

Molecular Oral Microbiology

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show abstract

“…Some studies showed that the bacterial composition and diversity of the IOH group are different from those of the control group [8,9]. Previous studies have reported that bacteria to produce of volatile sulfur compounds (VSCs), such as Solobacterium moorei, Prophyromonas gingivalis, Treponema denticola, Prevotella intermedia, Streptococcus oralis, and Tannerella forsythia, are associated with IOH [10][11][12][13].…”

Section: Introductionmentioning

confidence: 99%

Identification of Salivary Microorganisms and Metabolites Associated with Halitosis

Seo²,

Park

et al. 2021

Metabolites

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Halitosis is mainly caused by the action of oral microbes. The purpose of this study was to investigate the differences in salivary microbes and metabolites between subjects with and without halitosis. Of the 52 participants, 22 were classified into the halitosis group by the volatile sulfur compound analysis on breath samples. The 16S rRNA gene amplicon sequencing and metabolomics approaches were used to investigate the difference in microbes and metabolites in saliva of the control and halitosis groups. The profiles of microbiota and metabolites were relatively different between the halitosis and control groups. The relative abundances of Prevotella, Alloprevotella, and Megasphaera were significantly higher in the halitosis group. In contrast, the relative abundances of Streptococcus, Rothia, and Haemophilus were considerably higher in the control group. The levels of 5-aminovaleric acid and n-acetylornithine were significantly higher in the halitosis group. The correlation between identified metabolites and microbiota reveals that Alloprevotella and Prevotella might be related to the cadaverine and putrescine pathways that cause halitosis. This study could provide insight into the mechanisms of halitosis.

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“…We used RefSeq genomes from the named Streptococcus species and unnamed Streptococcus “human microbial taxa” (HMT) in the eHOMD (http://www.homd.org). We also included genomes sequenced from human isolates if there was evidence of their presence in the human oral cavity (Tetz et al 2019, Shen et al 2002, Huch et al 2013, Bernardi et al 2020). The GTDB groups RefSeq genomes into clusters sharing ≥ 95% ANI (Parks et al 2020).…”

Section: Methodsmentioning

confidence: 99%

Site-specificity of streptococci in the oral microbiome

McLean

Torres-Morales²,

Borisy³

et al. 2021

Preprint

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Patterns of microbial distribution are determined by as-yet poorly understood rules governing where microbes can grow and thrive. Therefore, a detailed understanding of where bacteria localize is necessary to advance microbial ecology and microbiome-based therapeutics. The site-specialist hypothesis predicts that most microbes in the human oral cavity have a primary habitat within the mouth where they are most abundant. We asked whether this hypothesis accurately describes the distribution of the members of the genus Streptococcus, a clinically relevant taxon that dominates most oral sites. Prior analysis of 16S rRNA gene sequencing data indicated that some oral Streptococcus clades are site-specialists while others may be generalists. However, within complex microbial populations composed of numerous closely-related species and strains, such as the oral streptococci, genome-scale analysis is necessary to provide the resolution to discriminate closely related taxa with distinct functional roles. Here we assess whether individual species within this genus are generalists using publicly available genomic sequence data that provides species-level resolution. We chose a set of high-quality representative genomes for Streptococcus species from the human oral microbiome. Onto these genomes, we mapped short-read metagenomic sequences from supragingival plaque, tongue dorsum, and other sites in the oral cavity. We found that every reliably detectable Streptococcus species in the human oral cavity was a site-specialist and that even closely related species such as S. mitis, S. oralis, and S. infantis specialized in different sites. These findings indicate that closely related bacteria can have distinct habitat distributions in the absence of dispersal limitation and under similar environmental conditions and immune regimes. These three species also share substantially the same species-specific core genes indicating that neither taxonomy nor gene content are clear predictors of site-specialization. Site-specificity may instead be influenced by subtle characteristics such as nucleotide-level divergences within conserved genes.

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Draft Genome Sequence of Streptococcus halitosis sp. nov., Isolated from the Dorsal Surface of the Tongue of a Patient with Halitosis

Abstract: Here, we report the draft genome of Streptococcus halitosis sp. nov. strain VT-4, a novel bacterium isolated from the dorsal part of the tongue of a patient with halitosis. The genome comprised 1,880,608 bp with a GC content of 41.0%.

Cited by 7 publications

References 19 publications

Site‐tropism of streptococci in the oral microbiome

Site‐tropism of streptococci in the oral microbiome

Identification of Salivary Microorganisms and Metabolites Associated with Halitosis

Site-specificity of streptococci in the oral microbiome

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