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Streptococcus koreensis sp. nov., Isolated from Human Subgingival Dental Plaque of Periodontitis Lesion

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Abstract

A novel facultative anaerobic, Gram-stain-positive coccus, strain JS71T, was isolated from the human subgingival dental plaque of a periodontitis lesion. Phylogenetic analysis based on the 16S ribosomal RNA gene (16S rDNA) revealed that the strain belonged to the genus Streptococcus. The 16S rDNA sequence had high similarity with Streptococcus rubneri DSM 26920T (98.6%), Streptococcus parasanguinis ATCC 15912T (98.5%), and Streptococcus australis CCUG 45919T (98.3%). The genome of strain JS71T was 2,009,592 bp in length. The DNA G+C content of the strain was 42.1 mol%. Average nucleotide identity values between strain JS71T and S. rubneri DSM 26920T, S. parasanguinis ATCC 15912T, and S. australis CCUG 45919T were 88.9%, 80.8%, and 92.4%, respectively. Genome-to-genome distance values between strain JS71TS. rubneri DSM 26920T, S. parasanguinis ATCC 15912T, and S. australis CCUG 45919T were 36.5% (34–39%), 26.3% (23.9–28.7%), and 48.0% (45.4–50.6%), respectively. The major fatty acids of the strain were C16:0 (39.7%), C18:1 ω6c/C18:1 ω7c (15.5%), and C18:0 (10.4%). Based on these results, strain JS71T (= KCOM 2890T = JCM 33454T) should be a novel species of the genus Streptococcus, for which the name Streptococcus koreensis sp. nov. is proposed.

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Acknowledgements

This research was supported by the Bio & Medical Technology Development Program of the National Research Foundation (NRF) funded by the Ministry of Science and ICT (2017M3A9B8065844), in part by the National Rssesearch Foundation of Korea (NRF) Grant funded by the Korea government (MSIT) (2018R1A2B5002239), and in part by the KRIBB Research Initiative Program funded by the Ministry of Science, ICT and Future Planning.

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Author notes

  1. Yun Kyoug Lim and Soon-Nang Park have contributed equally to this study.

Authors and Affiliations

  1. Korean Collection for Oral Microbiology and Department of Oral Biochemistry, School of Dentistry, Chosun University, Gwangju, Republic of Korea

    Yun Kyong Lim, Soon-Nang Park, Eojin Jo & Joong-Ki Kook

  2. Department of Laboratory Medicine, Inje University College of Medicine, Busan, Republic of Korea

    Jeong Hwan Shin

  3. Department of Periodontics, Institute of Oral Health Science, Ajou University School of Medicine, Suwon, Republic of Korea

    Suk Ji

  4. ABS Research Support Center, KRIBB, Daejeon, Republic of Korea

    Young-Hyo Chang, Yeseul Shin & Jayoung Paek

  5. Vitabio, Inc., Daejeon, Republic of Korea

    Hongik Kim

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Correspondence to Joong-Ki Kook.

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The authors declare that they have no conflicts of interest.

Ethical Approval

Strain JS71T was obtained with the approval of the Institutional Review Board for Human Subjects of the Ajou University Dental Hospital for the other study protocol (IRB No. AJIRB-MED-SMP-16-374).

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DPD number: TA00933.

GenBank accession number of 16S rRNA gene for strain JS71T: MK748164.

GenBank accession number of genome for strain JS71T: CP032620.

Electronic supplementary material

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284_2019_1778_MOESM1_ESM.docx

Supplementary Table S1 Similarity of the 16S ribosomal RNA genes (16S rDNAs), the RNA polymerase beta-subunit gene (rpoB), and the DNA gyrase subunit B gene (gyrB) between strain ChDC JS71T and each type strain of Streptococcus spp. Supplementary file1 (DOCX 37 kb)

284_2019_1778_MOESM2_ESM.pptx

Supplementary Fig S1. The maximum likelihood (A) and minimum evolution (B) phylogenetic trees based on the 16S ribosomal RNA genes of strain JS71T and type strains of closely related Streptococcus species. The GenBank accession number of the 16S rDNA of each type strain is written in parenthesis. Stability of the phylogenetic trees was assessed using bootstrap analysis of 1,000 replicates with MEGA version 6.06 [7, 23]. Bars indicate 0.005 (A) or 0.005 (B) changes per nucleotide position. Supplementary Fig S2. Neighbor-joining phylogenetic trees based on the RNA polymerase beta-subunit gene (rpoB) (A) and the DNA gyrase subunit B gene (gyrB) (B) of strain JS71T and type strains of closely related Streptococcus species. Stability of the trees was assessed using bootstrap analysis of 1000 replicates with MEGA version 6.06 [7, 23]. Bars indicate 0.02 (A) or 0.1 (B) changes per nucleotide position. Supplementary file2 (PPTX 74 kb)

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Lim, Y.K., Park, SN., Shin, J.H. et al. Streptococcus koreensis sp. nov., Isolated from Human Subgingival Dental Plaque of Periodontitis Lesion. Curr Microbiol 76, 1531–1536 (2019). https://doi.org/10.1007/s00284-019-01778-6

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