Metagenomic research of virus infections in human clinical specimens by high-throughput DNA sequencing in Thailand

2013 Fiscal Year Final Research Report

• Project/Area Number: 23406033
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 海外学術
• Research Field: Infectious disease medicine
• Research Institution: Kyoto Prefectural University of Medicine
• Principal Investigator: NAKAYA Takaaki 京都府立医科大学, 医学(系)研究科(研究院), 教授 (80271633)
• Co-Investigator(Kenkyū-buntansha): DAIDOJI Tomo 京都府立医科大学, 大学院・医学研究科, 助教 (80432433) ; NAKAMURA Shota 大阪大学, 微生物病研究所, 助教 (90432434)
• Project Period (FY): 2011-04-01 – 2014-03-31
• Keywords: ウイルス / メタゲノム / 次世代シーケンサー / タイ

Research Abstract

Newly developed next-generation sequencing (NGS) technologies can be used to generate large amounts of unbiased data (gigabases) in a single round of operation. So far, we have conducted a direct metagenomic diagnosis of virus infections in human clinical specimens using NGS in Japan. In this study, we collaborated with Osaka University and the Ministry of Public Health, Thailand, to conduct metagenomic research in order to identify causative agents of 36 clinical infectious cases caused by unknown pathogens in Thailand. Several rounds of high-throughput sequencing identified human pathogenic viruses, such as Picornaviridae, Paramyxoviridae, Coronaviridae, Herpesviridae, and Parvoviridae, in 23 specimens.

Research Products

• [Journal Article] Human Monoclonal Antibodies Broadly Neutralizing against Influenza B Virus (2013)
  • Author(s): M. Yasugi, R. Kubota-Koketsu, A. Yamashita, N. Kawashita, A. Du, T. Sasaki, M. Nishimura, R. Misaki, M. Kuhara, N. Boonsathorn, K. Fujiyama, Y. Okuno, T. Nakaya, K. Ikuta
  • Journal Title: PLoS Pathog Volume: Vol.9(2) Pages: e1003150
  • DOI: 10.1371/journal.ppat.1003150
• [Journal Article] Tropism of Pandemic 2009 H1N1 Influenza A Virus (2012)
  • Author(s): R. Ramadhany, M. Yasugi, S. Nakamura, T. Daidoji, Y. Watanabe, K. Takahashi, K. Ikuta, T. Nakaya
  • Journal Title: Front Microbiol Volume: Vol.3 Pages: 128
  • DOI: 10.3389/fmicb.2012.00128
• [Journal Article] Frequency of D222G and Q223R hemagglutinin mutants of pandemic (H1N1) 2009 influenza virus in Japan between 2009 and 2010 (2012)
  • Author(s): M. Yasugi, S. Nakamura, T. Daidoji, N Kawashita, R Ramadhany, C.S. Yang, T. Yasunaga, T. Iida, T. Horii, K. Ikuta, T. Nakaya
  • Journal Title: PLoS ONE Volume: Vol.7(2) Pages: e30946
  • DOI: 10.1371/journal.pone.0030946
• [Journal Article] 次世代シークエンサーのウイルス性疾患同定への適用 (2012)
  • Author(s): 中屋隆明
  • Journal Title: 臨床とウイルス Volume: 40(4) Pages: 177-183
• [Journal Article] メタゲノム解析を応用した網羅的病原体検出法 (2012)
  • Author(s): 中村昇太, 中屋隆明, 飯田哲也
  • Journal Title: 最新医学 Volume: 67(No.9) Pages: 131-133
• [Presentation] 血液感染症の治療戦略 (2013)
  • Author(s): 中屋隆明
  • Organizer: 京滋血液感染症研究会2013
  • Place of Presentation: 京都市
  • Year and Date: 2013-09-13
• [Presentation] 新興・再興ウイルス感染症のダイナミクス (2012)
  • Author(s): 中屋隆明
  • Organizer: びわ湖国際医療フォーラム
  • Place of Presentation: 大津市
  • Year and Date: 2012-07-14
• [Presentation] 次世代シークエンサーが切り拓く感染症のメタゲノム学 (2012)
  • Author(s): 中屋隆明, 他
  • Organizer: 第11回京都産業大学・総合生命科学部・バイオフォーラム
  • Place of Presentation: 京都市
  • Year and Date: 2012-01-16
  • Invited
• [Book] "Direct metagenomic detection of viral pathogens in human specimens using an unbiased high-throughput sequencing approach", Handbook ofMolecular Microbial Ecology II, pp.73-82. Metagenomics in Different Habitats. Wiley-Blackwell (2011)
  • Author(s): *T. Nakaya, S. Nakamura, Y. Okamoto, Y. Nagai, J. Kawai, Y. Hayashizaki, T. Iida, T. Horii
  • Publisher: Hoboken, NJ, USA
• [Remarks]
  • URL: http://www.f.kpu-m.ac.jp/k/did/
• [Remarks]
  • URL: http://www.kpu-m.ac.jp/doc/classes/basicmedicine/221.html