Assessment of two multilocus sequence typing (MLST) schemes available for Streptococcus mutans

Momeni, Stephanie S.; Whiddon, Jennifer; Cheon, Kyounga; Moser, Stephen A.; Childers, Noel K.

doi:10.1016/j.archoralbio.2015.09.012

Cited by 15 publications

(17 citation statements)

References 24 publications

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“…For instance, 2,110 isolates are reported for G18 and all of these isolates are uniform in their rep-PCR gel images. In addition the same ST (166) has been found for all isolates tested for G18 with MLST in other studies (Momeni et al, 2015). However, due to the allowance for up to 2 minor band differences, other genotypes, such as G12, demonstrate subtle genetic drift as more isolates are evaluated.…”

Section: Discussionsupporting

confidence: 70%

Genetic Diversity and Evidence for Transmission of Streptococcus mutans by DiversiLab rep-PCR

Momeni

Whiddon

Cheon

et al. 2016

Journal of Microbiological Methods

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This two-part study investigated the genetic diversity and transmission of Streptococcus mutans using the DiversiLab repetitive extragenic palindromic PCR (rep-PCR) approach. For children with S. mutans and participating household members, analysis for evidence of unrelated child-to-child as well as intra-familial transmission was evaluated based on commonality of genotypes. A total of 169 index children and 425 household family members from Uniontown, Alabama were evaluated for genetic diversity using rep-PCR. Thirty-four unique rep-PCR genotypes were observed for 13,906 S. mutans isolates. For transmission, 117 child and household isolates were evaluated for shared genotype (by child and by genotype cases, multiple matches possible for each child). Overall, children had 1–9 genotypes and those with multiple genotypes were 2.3 times more likely to have caries experience (decayed, missing and filled teeth/surfaces>0). Only 28% of children shared all genotypes within the household, while 72% had at least 1 genotype not shared with anyone in the household. Children had genotype(s) not shared with any household members in 155 cases. In 158 cases children and household members shared a genotype in which 55% (87/158 cases) were shared with more than one family member. Children most frequently shared genotypes with their mothers (54%; 85/158), siblings (46%; 72/158) and cousins (23%; 37/158). A reference library for S. mutans for epidemiological surveillance using the DiversiLab rep-PCR approach is detailed. The genetic diversity of S. mutans in this population demonstrated frequent commonality of genotypes. Evidence for both child-to-child and intra-familial transmission of S. mutans was observed by rep-PCR.

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Section: Discussionsupporting

confidence: 70%

Genetic Diversity and Evidence for Transmission of Streptococcus mutans by DiversiLab rep-PCR

Momeni

Whiddon

Cheon

et al. 2016

Journal of Microbiological Methods

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“… (range: 15–21 sites) but consistent with our previous study (range: 6–12 sites) (Table ). The number of variable nucleotide sites was highest in gltA in all three studies but lowest in gyrA in both Uniontown studies . In the present study, gyrA was found to have a dN/dS of >1, which indicates positive selection for this gene in the isolates evaluated in this study.…”

Section: Discussionsupporting

confidence: 46%

“…Forty isolates were classified into one of the 16 new STs found in this study. Sixty matched previously published STs (19 isolates matched STs from the PubMLST database for Japanese, Thai, or Finnish isolates, and the remaining 41 isolates matched STs previously reported from the Uniontown population) .…”

Section: Resultsmentioning

confidence: 99%

Assessment of clonality and serotypes of Streptococcus mutans among children by multilocus sequence typing

Momeni

Whiddon

Cheon

et al. 2015

European J Oral Sciences

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Studies using multilocus sequence typing (MLST) have demonstrated that Streptococcus mutans isolates are genetically diverse. Our laboratory previously demonstrated clonality of S. mutans using MLST but could not discount the possibility of sampling bias. In this study, the clonality of randomly selected S. mutans plaque isolates from African American children was examined using MLST. Serotype and presence of collagen-binding proteins (CBP) cnm/cbm were also assessed. One hundred S. mutans isolates were randomly selected for MLST analysis. Sequence analysis was performed and phylogenetic trees were generated using START2 and MEGA. Thirty-four sequence types (ST) were identified of which 27 were unique to this population. Seventy-five percent of the isolates clustered into 16 clonal groups. Serotypes observed were c (n=84), e (n=3), and k (n=11). The prevalence of S. mutans isolates serotype k was notably high at 17.5%. All isolates were cnm/cbm negative. The clonality of S. mutans demonstrated in this study illustrates the importance of localized populations studies and are consistent with transmission. The prevalence of serotype k, a recently proposed systemic pathogen, observed in this study is higher than reported in most populations and is the first report of S. mutans serotype k in a US population.

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“…Genomes were filtered based on the following criteria via blastall 2.2.26: genomes with a contig number of Ն200 and a scaffold of Ͻ500 bp, genomes not containing all MLST core genes, and/or genomes having a single gene copy number of Ͻ75% (30). Both Nakano's and Do's MLST approaches demonstrate similar discrimination for S. mutans (46). However, only two candidate genomes were preserved after data filtering based on Do's MLST scheme.…”

Section: Methodsmentioning

confidence: 99%

A Core Genome Multilocus Sequence Typing Scheme for Streptococcus mutans

Liu

Guo

et al. 2020

mSphere

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ABSTRACT Streptococcus mutans is one of the primary pathogens responsible for the development of dental caries. Recent whole-genome sequencing (WGS)-based core genome multilocus sequence typing (cgMLST) approaches have been employed in epidemiological studies of specific human pathogens. However, this approach has not been reported in studies of S. mutans. Here, we therefore developed a cgMLST scheme for S. mutans. We surveyed 199 available S. mutans genomes as a means of identifying cgMLST targets, developing a scheme that incorporated 594 targets from the S. mutans UA159 reference genome. Sixty-eight sequence types (STs) were identified in this cgMLST scheme (cgSTs) in 80 S. mutans isolates from 40 children that were sequenced in this study, compared to 35 STs identified by multilocus sequence typing (MLST). Fifty-six cgSTs (82.35%) were associated with a single isolate based on our cgMLST scheme, which is significantly higher than in the MLST scheme (11.43%). In addition, 58.06% of all MLST profiles with ≥2 isolates were further differentiated by our cgMLST scheme. Topological analyses of the maximum likelihood phylogenetic trees revealed that our cgMLST scheme was more reliable than the MLST scheme. A minimum spanning tree of 145 S. mutans isolates from 10 countries developed based upon the cgMLST scheme highlighted the diverse population structure of S. mutans. This cgMLST scheme thus offers a new molecular typing method suitable for evaluating the epidemiological distribution of this pathogen and has the potential to serve as a benchmark for future global studies of the epidemiological nature of dental caries. IMPORTANCE Streptococcus mutans is regarded as a major pathogen responsible for the onset of dental caries. S. mutans can transmit among people, especially within families. In this study, we established a new epidemiological approach to S. mutans classification. This approach can effectively differentiate among closely related isolates and offers superior reliability relative to that of the traditional MLST molecular typing method. As such, it has the potential to better support effective public health strategies centered around this bacterium that are aimed at preventing and treating dental caries.

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Assessment of two multilocus sequence typing (MLST) schemes available for Streptococcus mutans

Cited by 15 publications

References 24 publications

Genetic Diversity and Evidence for Transmission of Streptococcus mutans by DiversiLab rep-PCR

Genetic Diversity and Evidence for Transmission of Streptococcus mutans by DiversiLab rep-PCR

Assessment of clonality and serotypes of Streptococcus mutans among children by multilocus sequence typing

A Core Genome Multilocus Sequence Typing Scheme for Streptococcus mutans

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