Development of infection diagnosis using 3rd generation sequencing

2013 Fiscal Year Final Research Report

• Project/Area Number: 24890103
• Research Category: Grant-in-Aid for Research Activity Start-up
• Allocation Type: Single-year Grants
• Research Field: General medical chemistry
• Research Institution: Osaka University
• Principal Investigator: MOTOOKA Daisuke 大阪大学, 微生物病研究所, 特任研究員(常勤) (10636830)
• Project Period (FY): 2012-08-31 – 2014-03-31
• Keywords: メタゲノム / 次世代シークエンサー

Research Abstract

Metagenomic analysis using 2nd generation sequencers is now widely used for comprehensive detection of pathogens in infectious diseases. This method with a single common protocol in clinical specimens doesn't depend on the type of microorganisms, overcoming the limitations of traditional methods. However, because this method detects only a part of genome information of pathogen, we can't get enough information to prevent infection disease. Here, I developed the method of infection diagnosis using 3rd generation sequencing. Third generation sequencing easily achieves higher degree of accuracy, less biased depth of coverage and a smaller number of contigs than other sequencing. The highly accurate complete genome analysis would develop the future genome epidemiology of pathogens.

Research Products

• [Journal Article] Complete Genome Sequence of Ureaplasma parvum Serovar 3 Strain SV3F4 (2014)
  • Author(s): Wu HN, Nakura Y, Motooka D, Nakamura S, Nishiumi F, Ishino S, Kawai Y, Tanaka T, Takeuchi M, Nakayama M, Fujita T, Yanagihara I
  • Journal Title: Genome Announc Volume: 2 Pages: e00256-14
  • DOI: 10.1128/genomeA.00256-14
  • Peer Reviewed
• [Journal Article] Comprehensive metagenomic approach for detecting causative microorganisms in culture-negative infective endocarditis (2014)
  • Author(s): Imai A, Gotoh K, Asano Y, Yamada N, Motooka D, Fukushima M, Kanzaki M, Ohtani T, Sakata Y, Nishi H, Toda K, Sawa Y, Komuro I, Horii T, Iida T, Nakamura S, Takashima S
  • Journal Title: Int J Cardiol Volume: 172 Pages: e288-289
  • DOI: 10.1016/j.ijcard.2013.12.197
  • Peer Reviewed
• [Journal Article] Severe respiratory failure due to co-infection with human metapneumovirus and Streptococcus pneumonia (2014)
  • Author(s): Seki M., Yoshida H., Gotoh K., Hamada N., Motooka D., Nakamura S., Yamamoto N., Hamaguchi S., Akeda Y., Watanabe H., Iida T., Tomono K.
  • Journal Title: Respiratory Medicine Case Reports Volume: 12 Pages: 13-15
  • DOI: 10.1016/j.rmcr.2013.12.007
  • Peer Reviewed
• [Journal Article] (2014)
  • Author(s): Seki M., Ohno H., Gotoh K., Motooka D., Nakamura S., Iida T., Miyazaki Y., Tomono K.
  • Journal Title: IDCases Volume: 1 Pages: 5-8
  • DOI: 10.1016/j.idcr.2014.01.001
  • Peer Reviewed
• [Presentation] A Database for Rapid Detection of Pathogens in Infectious Diseases (2014)
  • Author(s): Daisuke Motooka
  • Organizer: Asian-African Research Forum on Emerging and Reemerging Infection 2014
  • Place of Presentation: 仙台国際センター
  • Year and Date: 20140120-22
• [Presentation] メタゲノミック診断法の高速解析パイプラインの構築 (2013)
  • Author(s): 元岡大祐
  • Organizer: NGS現場の会第三回研究会
  • Place of Presentation: 神戸国際会議場
  • Year and Date: 20130904-05
• [Presentation] 第2・第3世代シークエンスデータを使ったCLC Genomics WorkbenchによるDe Novoアセンブリ (2013)
  • Author(s): 宮本真理、元岡大祐
  • Organizer: NGS現場の会第三回研究会
  • Place of Presentation: 神戸国際会議場
  • Year and Date: 20130904-05
• [Presentation] 感染性心内膜炎におけるメタゲノム解析 (2013)
  • Author(s): 朝野仁裕、元岡大祐
  • Organizer: NGS現場の会第三回研究会
  • Place of Presentation: 神戸国際会議場
  • Year and Date: 20130904-05
• [Presentation] 原因不明食中毒のメタゲノミック診断 (2013)
  • Author(s): 後藤和義、元岡大祐
  • Organizer: NGS現場の会第三回研究会
  • Place of Presentation: 神戸国際会議場
  • Year and Date: 20130904-05
• [Remarks]
  • URL: http://imet.gen-info.osaka-u.ac.jp/