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Detection of Pathogens in unknown fever cases using Nanopore Sequencer

Research Project

Project/Area Number 15K14417
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Genome biology
Research InstitutionThe University of Tokyo

Principal Investigator

Suzuki Yutaka  東京大学, 大学院新領域創成科学研究科, 教授 (40323646)

Co-Investigator(Kenkyū-buntansha) 山岸 潤也  北海道大学, 人獣共通感染症リサーチセンター, 准教授 (80535328)
Project Period (FY) 2015-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2017: ¥780,000 (Direct Cost: ¥600,000、Indirect Cost: ¥180,000)
Fiscal Year 2016: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2015: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Keywordsゲノム / 簡易型シークエンサー / 熱帯感染症 / 迅速診断
Outline of Final Research Achievements

In this study, we have attempted to develop a method to detect pathogens in patients having unknown fevers. Even though we were not able to develop the method based on the random-primer amplification due to the high-level noises, we successfully develop the method, by which representative viral, bacterial and parasite pathogens, such as dengue viruses, 16S rRNA sequencing for pan-bacterial detections, and malaria parasites, respectively, could be robustly detected. We actually applied the developed method to diagnose the feverish patients in Manado, Indonesia. We have reported the successful diagnosis from more than 50 cases regarding their infecting pathogens. Moreover, it was possible to identify the SNPs in their genomes. Especially, we found that the SNPs residing in the drug-resistance related genes should have particularly important clinical relevance, when the therapeutic strategy of the patients should be decided.

Report

(4 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Research-status Report
  • 2015 Research-status Report
  • Research Products

    (7 results)

All 2017 2016 Other

All Int'l Joint Research (2 results) Journal Article (1 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 1 results,  Open Access: 1 results) Presentation (3 results) (of which Int'l Joint Research: 3 results,  Invited: 2 results) Book (1 results)

  • [Int'l Joint Research] サムラトランギ大学(インドネシア)

    • Related Report
      2016 Research-status Report
  • [Int'l Joint Research] サムラトランギ大学(インドネシア)

    • Related Report
      2015 Research-status Report
  • [Journal Article] Serotyping dengue virus with isothermal amplification and a portable sequencer2017

    • Author(s)
      Yamagishi Junya、Runtuwene Lucky R.、Hayashida Kyoko、Mongan Arthur E.、Thi Lan Anh Nguyen、Thuy Linh Nguyen、Nhat Cam Nguyen、Limkittikul Kriengsak、Sirivichayakul Chukiat、Sathirapongsasuti Nuankanya、Frith Martin、Makalowski Wojciech、Eshita Yuki、Sugano Sumio、Suzuki Yutaka
    • Journal Title

      Scientific Reports

      Volume: 7 Issue: 1 Pages: 3510-3510

    • DOI

      10.1038/s41598-017-03734-5

    • NAID

      120006337766

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] On Site Sequencing for Genotyping Pathogens of Tropical Diseases2017

    • Author(s)
      Yutaka Suzuki
    • Organizer
      One Health International Seminar in Zoonoses and Wildlife
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] Nanopore sequencing for genotyping pathogens of tropical diseases2016

    • Author(s)
      鈴木穣
    • Organizer
      Joint International Tropical Medicine Meeting 2016
    • Place of Presentation
      バンコク、タイ
    • Year and Date
      2016-12-07
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] MinION sequencing of malaria parasites2016

    • Author(s)
      鈴木穣
    • Organizer
      London Calling 2016
    • Place of Presentation
      ロンドン、イギリス
    • Year and Date
      2016-05-26
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Book] ナノポアシークエンサーMinION(RNA-Seq実験ハンドブック)2016

    • Author(s)
      鈴木絢子、Lucky Runtuwene、阿部佳澄、鈴木穣
    • Total Pages
      280
    • Publisher
      羊土社
    • Related Report
      2016 Research-status Report

URL: 

Published: 2015-04-16   Modified: 2019-03-29  

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