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improvement of the sensitivities of clinical metagenomics and microbial genomics

Research Project

Project/Area Number 18K08431
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 54030:Infectious disease medicine-related
Research InstitutionOsaka University

Principal Investigator

Motooka Daisuke  大阪大学, 微生物病研究所, 助教 (10636830)

Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥4,550,000 (Direct Cost: ¥3,500,000、Indirect Cost: ¥1,050,000)
Fiscal Year 2020: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
Fiscal Year 2019: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2018: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Keywordsメタゲノム
Outline of Final Research Achievements

The purpose of this study was to comprehensively and rapidly identify pathogens in clinical specimens obtained from patients with diseases of unknown etiology using metagenomic analysis. We also investigated the etiology of infectious diseases. However, the amount of pathogen-derived nucleic acids in clinical specimens is extremely low, and it is difficult to improve detection sensitivity, reduce costs, and shorten the time required for analysis. In this study, we developed novel techniques, such as a library preparation method for trace nucleic acids and a data analysis method to improve sensitivity for pathogen enrichment in clinical samples.

Academic Significance and Societal Importance of the Research Achievements

新興・再興感染症は、いつどこで発生するか予想することは難しく、発生した場合に早期に診断、治療を行う体制をいかに構築するかが重要である。その対策として、網羅的に病原体を探索できるメタゲノム解析法(クリニカルメタゲノミクス)は病原体に関する前情報が不要であり有用である。本研究では、ウイルス検出の効率化に取り組み1000倍以上の検出感度向上に成功し、網羅的な病原体探索法の臨床応用にとって有用な成果が得られた。

Report

(4 results)
  • 2020 Annual Research Report   Final Research Report ( PDF )
  • 2019 Research-status Report
  • 2018 Research-status Report
  • Research Products

    (14 results)

All 2021 2020 2019 2018 Other

All Int'l Joint Research (1 results) Journal Article (11 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 11 results,  Open Access: 6 results) Presentation (1 results) (of which Invited: 1 results) Remarks (1 results)

  • [Int'l Joint Research] NIH(タイ)

    • Related Report
      2020 Annual Research Report
  • [Journal Article] Whole-genome analyses of extended-spectrum or AmpC β-lactamase-producing Escherichia coli isolates from companion dogs in Japan2021

    • Author(s)
      Yasugi M, Hatoya S, Motooka D, Matsumoto Y, Shimamura S, Tani H, Furuya M, Mie K, Miyake M, Nakamura S, Shimada T
    • Journal Title

      Plos One

      Volume: 16 Issue: 2 Pages: e0246482-e0246482

    • DOI

      10.1371/journal.pone.0246482

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] A Metagenome-Wide Association Study of Gut Microbiome in Patients With Multiple Sclerosis Revealed Novel Disease Pathology2020

    • Author(s)
      Kishikawa Toshihiro、Ogawa Kotaro、Motooka Daisuke、Hosokawa Akiko、Kinoshita Makoto、Suzuki Ken、Yamamoto Kenichi、Masuda Tatsuo、Matsumoto Yuki、Nii Takuro、Maeda Yuichi、Nakamura Shota、Inohara Hidenori、Mochizuki Hideki、Okuno Tatsusada、Okada Yukinori
    • Journal Title

      Frontiers in Cellular and Infection Microbiology

      Volume: 10 Pages: 585973-585973

    • DOI

      10.3389/fcimb.2020.585973

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Fecal Gram staining of phagocytosed bacteria to differentiate methicillin-resistant Staphylococcus aureus: A case report2020

    • Author(s)
      Shimizu Kentaro、Takahashi Ayumi、Motooka Daisuke、Nakamura Shota、Tomono Kazunori、Ogura Hiroshi、Shimazu Takeshi
    • Journal Title

      Journal of Infection and Chemotherapy

      Volume: 26 Issue: 10 Pages: 1078-1081

    • DOI

      10.1016/j.jiac.2020.05.021

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed
  • [Journal Article] The impact of adjuvant surgical treatment of nontuberculous mycobacterial pulmonary disease on prognosis and outcome2020

    • Author(s)
      Fukushima Kiyoharu、Miki Mari、Matsumoto Yuki、Uda Emi、Yamamoto Yuji、Kogita Yuya、Kagawa Yuko、Matsuki Takanori、Kagawa Hiroyuki、Oshitani Yohei、Motooka Daisuke、Tsujino Kazuyuki、Yoshimura Kenji、Miki Keisuke、Hayashi Akio、Nakamura Shota、Kitada Seigo、Takeuchi Yukiyasu、Kida Hiroshi
    • Journal Title

      Respiratory Research

      Volume: 21 Issue: 1 Pages: 153-153

    • DOI

      10.1186/s12931-020-01420-1

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Host Immune Response and Novel Diagnostic Approach to NTM Infections2020

    • Author(s)
      Abe Yuko、Fukushima Kiyoharu、Hosono Yuki、Matsumoto Yuki、Motooka Daisuke、Ose Naoko、Nakamura Shota、Kitada Seigo、Kida Hiroshi、Kumanogoh Atsushi
    • Journal Title

      International Journal of Molecular Sciences

      Volume: 21 Issue: 12 Pages: 4351-4351

    • DOI

      10.3390/ijms21124351

    • Related Report
      2020 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] A Lassa Virus Live-Attenuated Vaccine Candidate Based on Rearrangement of the Intergenic Region2020

    • Author(s)
      Cai Yingyun、Iwasaki Masaharu、Motooka Daisuke、Liu David X.、Yu Shuiqing、Cooper Kurt、Hart Randy、Adams Ricky、Burdette Tracey、Postnikova Elena N.、Kurtz Jonathan、St. Claire Marisa、Ye Chengjin、Kuhn Jens H.、Mart?nez-Sobrido Luis、de la Torre Juan Carlos
    • Journal Title

      mBio

      Volume: 11 Issue: 2

    • DOI

      10.1128/mbio.00186-20

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Comprehensive subspecies identification of 175 nontuberculous mycobacteria species based on 7547 genomic profiles2019

    • Author(s)
      Matsumoto Yuki、Kinjo Takeshi、Motooka Daisuke、Nabeya Daijiro、Jung Nicolas、Uechi Kohei、Horii Toshihiro、Iida Tetsuya、Fujita Jiro、Nakamura Shota
    • Journal Title

      Emerging Microbes & Infections

      Volume: 8 Issue: 1 Pages: 1043-1053

    • DOI

      10.1080/22221751.2019.1637702

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] <p>Characterization of a carbapenem- and colistin-resistant<em> Enterobacter cloacae</em> carrying Tn<em>6901</em> in <em>bla</em><sub>NDM-1</sub> genomic context</p>2019

    • Author(s)
      Le-Ha Tam-Duong、Le Lien、Le-Vo Hong-Ngoc、Anda Mizue、Motooka Daisuke、Nakamura Shota、Tran Linh Khanh、Tran Phuong Thi-Bich、Iida Tetsuya、Cao Van
    • Journal Title

      Infection and Drug Resistance

      Volume: Volume 12 Pages: 733-739

    • DOI

      10.2147/idr.s194495

    • Related Report
      2019 Research-status Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Characterization of human pegivirus infection in liver transplantation recipients2019

    • Author(s)
      Izumi Takuma、Sakata Kazuhito、Okuzaki Daisuke、Inokuchi Shoichi、Tamura Tomokazu、Motooka Daisuke、Nakamura Shota、Ono Chikako、Shimokawa Masahiro、Matsuura Yoshiharu、Mori Masaki、Fukuhara Takasuke、Yoshizumi Tomoharu
    • Journal Title

      Journal of Medical Virology

      Volume: 91 Issue: 12 Pages: 2093-2100

    • DOI

      10.1002/jmv.25555

    • Related Report
      2019 Research-status Report
    • Peer Reviewed
  • [Journal Article] Urinary tract infection due to anaerobic bacteria in a two-month-old infant2019

    • Author(s)
      Tao Chiaki、Kinoshita Noriko、Shoji Kensuke、Motooka Daisuke、Nakamura Shota、Eura Rumiko、Ueoka Katsuhiko、Kubota Mitsuru、Ishiguro Akira、Miyairi Isao
    • Journal Title

      Journal of Infection and Chemotherapy

      Volume: 25 Issue: 5 Pages: 368-370

    • DOI

      10.1016/j.jiac.2018.11.016

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] WU polyomavirus detected in children with severe respiratory failure2018

    • Author(s)
      Uda Kazuhiro、Koyama-Wakai Chitose、Shoji Kensuke、Iwase Noriyasu、Motooka Daisuke、Nakamura Shota、Miyairi Isao
    • Journal Title

      Journal of Clinical Virology

      Volume: 107 Pages: 25-28

    • DOI

      10.1016/j.jcv.2018.08.003

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] 高分解能解析が明らかにする細菌叢のダイナミックな変化の観測と常在腸内真菌叢の解析2019

    • Author(s)
      元岡大祐
    • Organizer
      第42回分子生物学会
    • Related Report
      2019 Research-status Report
    • Invited
  • [Remarks] 遺伝情報実験センター

    • URL

      http://ngs-service.biken.osaka-u.ac.jp/index.php/ja/publications-2/

    • Related Report
      2019 Research-status Report

URL: 

Published: 2018-04-23   Modified: 2022-01-27  

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