Comparative genome analysis of three Group A Streptococcus dysgalactiae subsp. equisimilis strains isolated in Japan

Haruka Ishihara; Kohei Ogura; Van An Nguyen; Tohru Miyohi-Akiyama; Shigefumi Okamoto; Norihiko Takemoto

doi:10.1099/jmm.0.001322

Volume 70, Issue 3

Research Article

Free

Comparative genome analysis of three Group A Streptococcus dysgalactiae subsp. equisimilis strains isolated in Japan

Haruka Ishihara^1,2,†, Kohei Ogura^3,†, Van An Nguyen⁴, Tohru Miyohi-Akiyama⁵, Shigefumi Okamoto¹ and Norihiko Takemoto⁵
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Affiliations: ¹ Medical, Pharmaceutical and Health Sciences, Kanazawa University, 5-11-80 Kodatsuno, Kanazawa, Ishikawa 920-0942, Japan ² Clinical Laboratory, Dental Hospital, Tokyo Medical and Dental University, 1-5-45 Yushima, Bunkyo-ku, Tokyo 113-8549, Japan ³ Advanced Health Care Science Research Unit, Institute for Frontier Science Initiative, Kanazawa University, 5-11-80 Kodatsuno, Kanazawa, Ishikawa 920-0942, Japan ⁴ Department of Viral Infection and International Health, Graduate School of Medical Sciences, Kanazawa University, 13-1 Takaramachi, Kanazawa, Ishikawa 920-8640, Japan ⁵ Pathogenic Microbe Laboratory, Research Institute, National Center for Global Health and Medicine, 1-21-1 Toyama, Shinjuku-ku, Tokyo 162-8655, Japan
*Correspondence: Kohei Ogura, [email protected]

† These authors contributed equally to this work
Published: 03 February 2021 https://doi.org/10.1099/jmm.0.001322

Abstract

Introduction . Streptococcus dysgalactiae subsp. equisimilis (SDSE) is a β-hemolytic streptococcus that causes severe invasive streptococcal infections, especially in the elderly and people with underlying diseases. SDSE strains are primarily characterized by Lancefield group G or C antigens.

Hypothesis/Gap Statement. We have previously reported the prevalence of Lancefield group A SDSE (GA-SDSE) strains in Japan and have analysed the draft genome sequences of these strains. As GA-SDSE is a rare type of SDSE, only one complete genome has been sequenced to date.

Aim. The present study is focused on genetic characteristics of GA-SDSE strains. In order to examine molecular characteristics, we also tested growth inhibition of other streptococci by GA-SDSE.

Methodology. We determined the complete genome sequences of three GA-SDSE strains by two new generation sequencing systems (short-read and long-read sequencing data). Using the sequences, we also conducted a comparative analysis of GA-SDSE and group C/G SDSE strains. In addition, we tested multiplex and quantitative PCRs targeting the GA-SDSE, group G SDSE, and S. pyogenes .

Results. We found a group-specific conserved region in GA-SDSE strains that is composed of genes encoding predicted anti-bacteriocin and streptococcal lantibiotic (Sal) proteins. Multiplex and quantitative PCRs targeting the GA-SDSE-specific region were able to distinguish between GA-SDSE, other SDSE, and S. pyogenes strains. The growth of GA-SDSE was suppressed in the presence of group G SDSE, indicating a possible explanation for the low frequency of isolation of GA-SDSE.

Conclusion. The comparative genome analysis shows that the genome of GA-SDSE has a distinct arrangement, enabling the differentiation between S. pyogenes , GA-SDSE, and other SDSE strains using our PCR methods.

Received: 23/11/2020
Accepted: 15/01/2021
Published Online: 03/02/2021

Keyword(s): Co-culture system , Complete genome sequence , Lancefield Group A , Multiplex PCR , quantitative PCR , Streptococcus dysgalactiae subsp.equisimilis and β-hemolytic streptococci

Funding

This study was supported by the:

Takeda Science Foundation (Award 2018)
- Principle Award Recipient: KoheiOgura
Japan Society for the Promotion of Science (Award 18K07133)
- Principle Award Recipient: KoheiOgura

Erratum

An erratum has been published for this content:

Corrigendum: Comparative genome analysis of three Group A Streptococcus dysgalactiae subsp. equisimilis strains isolated in Japan

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Comparative genome analysis of three Group A Streptococcus dysgalactiae subsp. equisimilis strains isolated in Japan

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Volume 70, Issue 3

Research Article

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Comparative genome analysis of three Group A Streptococcus dysgalactiae subsp. equisimilis strains isolated in Japan

Abstract

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Erratum

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