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Structure and functional potential of intracanal microbiome: Bioinformatics for endodontic therapy

Research Project

Project/Area Number 17K11698
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Conservative dentistry
Research InstitutionTohoku University

Principal Investigator

Yamaki Keiko  東北大学, 歯学研究科, 非常勤講師 (90182419)

Co-Investigator(Kenkyū-buntansha) 佐藤 拓一  新潟大学, 医歯学系, 教授 (10303132)
鷲尾 純平  東北大学, 歯学研究科, 准教授 (20400260)
Project Period (FY) 2017-04-01 – 2023-03-31
Project Status Completed (Fiscal Year 2022)
Budget Amount *help
¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2019: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2018: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2017: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Keywords根尖性歯周炎 / 根管内細菌叢 / 16S rRNA遺伝子 / メタ16S解析 / 根管内フローラ / 歯内疾患 / V3-V4領域 / パンゲノム / メタゲノム解析 / メタボローム解析
Outline of Final Research Achievements

Microbial composition of infected root canals varies consistently among reports. To determine the characteristics of the endodontic microbiome, the intracanal flora of apical periodontitis in 13 patients were profiled and compared with the profiles of their saliva and plaque. Infected root canal wall dentin was harvested from the involved teeth and their saliva and plaque were collected. Bacterial DNA was extracted from the samples and 16S rRNA gene analysis targeting the V3-V4 region was conducted on the Illumina MiSeq platform using QIIME2. The functional potential of the microbiomes was inferred using PICRUSt2. The endodontic microbiomes were more anaerobic, rich in Firmicutes, and scarce in Actinobacteriota and Proteobacteria, compared with saliva and plaque microbiomes. Despite their difference in structure and membership, the nine most abundant metabolic pathways were common among them. The intra-individual variance in endodontic microbiome was also found.

Academic Significance and Societal Importance of the Research Achievements

根尖性歯周炎は歯科臨床現場において高頻度で遭遇する歯内疾患であり、その原因は根管に侵入定着した口腔細菌である。約1000種とされるヒト口腔細菌のうち一人が保有するのは100-200種のため、感染根管から検出される細菌はレポートにより大きく異なる。現在、根尖性歯周炎の病因は特定の菌ではなく、細菌叢すなわち多種多様な細菌の集合体と考えられており、次世代シーケンサー(NGS)を利用した細菌叢の解析が進行中である。本研究を通じて明らかとなった感染根管内の細菌叢の特徴を踏まえ、従来の標準治療法より普遍的かつ効率的な根管治療法が開発され、国民の健康増進に資するることが期待される。

Report

(7 results)
  • 2022 Annual Research Report   Final Research Report ( PDF )
  • 2021 Research-status Report
  • 2020 Research-status Report
  • 2019 Research-status Report
  • 2018 Research-status Report
  • 2017 Research-status Report
  • Research Products

    (19 results)

All 2021 2020 2019 2018 2017

All Journal Article (4 results) (of which Peer Reviewed: 4 results,  Open Access: 4 results) Presentation (15 results) (of which Int'l Joint Research: 6 results)

  • [Journal Article] Bacterial amounts and compositions in liquid baby formula and a baby drink consumed with an artificial nipple.2021

    • Author(s)
      Wakui A, Sano H, Kawachi M, Aida A, Takenaka Y, Yonezawa A, Nakahata N, Moriyama S, Nishikata M, Washio J, Abiko Y, Mayanagi G, Yamaki K, Sakashita R, Tanaka K, Takahashi N, Sato T
    • Journal Title

      J Oral Biosci.

      Volume: 印刷中 Issue: 2 Pages: 161-168

    • DOI

      10.1016/j.job.2021.03.001

    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Profiling of microbiota at the mouth of bottles and in remaining tea after drinking directly from plastic bottles of tea2021

    • Author(s)
      Wakui A*, Sano H*, Hirabuki Y*, Kawachi M, Aida A, Washio J, Abiko Y, Mayanagi G, Yamaki K, Tanaka K, Takahashi N, Sato T
    • Journal Title

      Dentistry Journal

      Volume: 9 Issue: 6 Pages: 58-58

    • DOI

      10.3390/dj9060058

    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Profiling system of oral microbiota utilizing polymerase chain reaction-restriction fragment length polymorphism analysis2021

    • Author(s)
      Sano H, Wakui A, Kawachi M, Washio J, Abiko Y, Mayanagi G, Yamaki K, Tanaka K, Takahashi N, Sato T
    • Journal Title

      Journal of Oral Biosciences

      Volume: 63 Issue: 3 Pages: 292-297

    • DOI

      10.1016/j.job.2021.05.003

    • Related Report
      2021 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Profiling of microbiota in liquid baby formula consumed with an artificial nipple2019

    • Author(s)
      SANO Hiroto、WAKUI Anna、KAWACHI Miho、KATO Rito、MORIYAMA Sachie、NISHIKATA Mayumi、WASHIO Jumpei、ABIKO Yuki、MAYANAGI Gen、YAMAKI Keiko、SAKASHITA Reiko、TOMIDA Junko、KAWAMURA Yoshiaki、TANAKA Kaori、TAKAHASHI Nobuhiro、SATO Takuichi
    • Journal Title

      Biomedical Research

      Volume: 40 Issue: 4 Pages: 163-168

    • DOI

      10.2220/biomedres.40.163

    • NAID

      130007689885

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] The composition and structure of oral microbiome: 16S rRNA gene analysis on saliva, plaque, infected root canals obtained from a patient.2021

    • Author(s)
      Keiko Yamaki, Jumpei Washio, Toru Tamahara, Takuichi Sato
    • Organizer
      The 69th annual meeting of Japanese Association for Dental Research
    • Related Report
      2021 Research-status Report
  • [Presentation] Profiling of microbiota of baby-drinks after drinking with artificial nipples.2020

    • Author(s)
      Wakui A, Sano H, Kawachi M, Maruyama S, Masuda N, Washio J, Abiko Y, Mayanagi G, Yamaki K, Takahashi N, Okada Y, Sato T.
    • Organizer
      The Update Symposium 7 in the 62nd Anual Meeting of Japanese Association for Oral Biology
    • Related Report
      2020 Research-status Report
  • [Presentation] Oral microbiota analyzing system: Profiling by PCR-RFLP method.2020

    • Author(s)
      Kawachi M, Maruyama S, Masuda N, Sano H, Wakui A, Yamaki K, Washio J, Takahashi N, Sato T.
    • Organizer
      The 62nd Annual Meeting of Japanese Association for Oral Biology
    • Related Report
      2020 Research-status Report
  • [Presentation] Profiling system of oral microbiota utilizing PCR-RFLP analysis.2019

    • Author(s)
      Sano H, Wakui A, Washio J, Yamaki K, Takahashi N, Sato T.
    • Organizer
      The 4th Asia Pacific Regional Congress of the International Association for Dental Research
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Profiling of microbiota of liquid baby formula after drinking with artificial nipples.2019

    • Author(s)
      Wakui A, Sano H, Kawachi M, Kato R, Moriyama S, Nishikata M, Washio J, Yamaki K, Sakashita R, Takahashi N, Sato T.
    • Organizer
      The 4th Asia Pacific Regional Congress of the International Association for Dental Research
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Profiling of microbiota in baby-drinks and liquid baby formula consumed with an artificial nipple.2019

    • Author(s)
      Wakui A, Sano H, Kawachi M, Kato R, Washio J, Abiko Y, Mayanagi G, Yamaki K, Takahashi N, Sato T.
    • Organizer
      The Update Symposium 2 in the 61st Annual Meeting of Japanese Association for Oral Biology
    • Related Report
      2019 Research-status Report
  • [Presentation] Profiling system of oral microbiota using PCR-RFLP method.2019

    • Author(s)
      Sano H, Wakui A, Washio J, Yamaki K, Takahashi N, Sato T.
    • Organizer
      The 61st Annual Meeting of Japanese Association for Oral Biology
    • Related Report
      2019 Research-status Report
  • [Presentation] Profiling of microbiota of baby-drinks after drinking with artificial nipples.2018

    • Author(s)
      Wakui A, Sano H, Aihara H, Kawachi M, Takahashi A, Washio J, Abiko Y, Mayanagi G, Ishiguro K, Yamaki K, N. Takahashi N, Sato T.
    • Organizer
      第66回国際歯科研究学会日本部会(JADR)学術大会
    • Related Report
      2018 Research-status Report
  • [Presentation] Oral anaerobes in saliva and intraoperative bronchial fluids of elderly patients with pulmonary carcinoma.2018

    • Author(s)
      Wakui A, Sano H, Washio J, Yamaki K, Tomida J, Tanaka K, Kawamura Y, Sato T.
    • Organizer
      The Inaugural Forsyth Symposium-The Uncultivable Bacteria
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] ニプルを通して飲んだ際の、ベビー飲料内への口腔細菌の流入2018

    • Author(s)
      相原 瞳、涌井杏奈、佐野拓人、河内美帆、鷲尾純平、安彦友希、真柳 弦、八巻恵子、高橋信博、佐藤拓一.
    • Organizer
      第60回歯科基礎医学会学術大会
    • Related Report
      2018 Research-status Report
  • [Presentation] Profiling of microbiota in plastic bottles after drinking straight from bottles.2018

    • Author(s)
      Sano H, Wakui A, Aida A, Takenaka Y, Yonezawa A, Nakahata N, Aihara H, Kawachi M, Vidanapathirana GU, Washio J, Abiko Y, Mayanagi G, Ishiguro K, Yamaki K, Takahashi N, Sato T.
    • Organizer
      The 6th Conference on SLJCR (Sri Lanka-Japan Collaborative Research)
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] Profiling of microbiota at the mouth of plastic bottles.2018

    • Author(s)
      Sano H, Wakui A, Aida A, Takenaka Y, Yonezawa A, Nakahata N, Aihara H, Kawachi M, Washio J, Abiko Y, Mayanagi G, Ishiguro K, Yamaki K, Takahashi N, Sato T.
    • Organizer
      The 96th IADR
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] Microbiota profiling at the mouth of plastic bottles after drinking straight from bottles.2018

    • Author(s)
      Sano H, Aida A, Vidanapathirana GU, Wakui A, Hirabuki Y, Takenaka Y, Kawachi M, Aihara H, Washio J, Abiko Y, Mayanagi G, Ishiguro K, Yamaki K, Takahashi N, Sato T.
    • Organizer
      International Symposium for Multimodal Research and Education in IOHS-Liaison 2018
    • Related Report
      2017 Research-status Report
    • Int'l Joint Research
  • [Presentation] A microbiological study on bacteria in the PET bottles after drinking.2017

    • Author(s)
      Aida A, Sano H, Wakui A, Hirabuki Y, Takenaka Y, Kawachi M, Vidanapathirana GU, Washio J, Abiko Y, Mayanagi G, Ishiguro K, Yamaki K, Takahashi N, Sato T.
    • Organizer
      第65回JADR総会・学術大会
    • Related Report
      2017 Research-status Report
  • [Presentation] Quantification and composition of remaining bacteria in plastic bottles after drinking.2017

    • Author(s)
      Sano H, Hirabuki Y, Wakui A, Aida A, Abiko Y, Yamaki K, Mayanagi G, Washio J, Takahashi N, Sato T.
    • Organizer
      第59回歯科基礎医学会学術大会
    • Related Report
      2017 Research-status Report

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Published: 2017-04-28   Modified: 2024-01-30  

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