Finding new biomarker in periodontitis using bioinformatics

• Project/Area Number: 25293424
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Partial Multi-year Fund
• Section: 一般
• Research Field: Periodontology
• Research Institution: Tokyo Medical and Dental University
• Principal Investigator: Izumi Yuichi 東京医科歯科大学, 医歯(薬)学総合研究科, 教授 (60159803)
• Co-Investigator(Kenkyū-buntansha): KOBAYASHI hiroaki 東京医科歯科大学, 医歯学総合研究科, 非常勤講師 (50396967) ; TAKEUCHI yasuo 東京医科歯科大学, 医歯学総合研究科, 助教 (60396968) ; NANBARA hiromi 東京医科歯科大学, 医歯学総合研究科, 助教 (00632168) ; TANAKA nobuhiro 東京医科歯科大学, 疾患バイオリソースセンター, 教授 (50292850)
• Project Period (FY): 2013-04-01 – 2016-03-31
• Project Status: Completed (Fiscal Year 2015)
• Budget Amount: ¥17,680,000 (Direct Cost: ¥13,600,000、Indirect Cost: ¥4,080,000); Fiscal Year 2015: ¥5,330,000 (Direct Cost: ¥4,100,000、Indirect Cost: ¥1,230,000); Fiscal Year 2014: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000); Fiscal Year 2013: ¥7,670,000 (Direct Cost: ¥5,900,000、Indirect Cost: ¥1,770,000)
• Keywords: エクソームシークエンス / 侵襲性歯周炎 / エクソーム解析 / 歯周炎

Outline of Final Research Achievements

Aggressive periodontitis(AgP) is a particularly severe type of periodontitis and diagnosed by three characteristics: rapid bone destruction, possible familial aggregation, and absence of other systemic disorders in the patient. Exome sequencing is increasingly utilized as tools in genetic research and has a potential to determine the genetic cause for both single gene and complex disorders. Of 119 patients who diagnosed as AgP, we found 3-generation consanguineous pedigree in which three of them are affected with AgP. We further performed whole-exome sequencing in those three AgP patients and one control. (Two of them are already sequenced. Lest of two will be sequenced near future.) After getting sequencing data, we plan to analyze them by using a bioinformatics pipeline.48889 and 45564 variants are found respectively, in two patients.

Research Products

• [Journal Article] Salivary pathogen and serum antibody to assess the progression of chronic periodontitis: a 24-mo prospective multicenter cohort study (2016)
  • Author(s): Morozumi T, Nakagawa T, Nomura Y, Sugaya T, Kawanami M, Suzuki F, Takahashi K, Abe Y, Sato S, Makino-Oi A, Saito A, Takano S, Minabe M, Nakayama Y, Ogata Y, Kobayashi H, Izumi Y, Sugano N, …., Yoshimura A, Hara Y, ….
  • Journal Title: Journal of Periodontal Research Volume: 印刷中 Issue: 6 Pages: 768-778
  • DOI: 10.1111/jre.12353
  • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
• [Journal Article] A Genome-wide Association Study of Periodontitis in a Japanese Population (2015)
  • Author(s): S. Shimizu, Y. Momozawa, A. Takahashi, T. Nagasawa, K. Ashikawa, Y. Terada, Y. Izumi, H. Kobayashi, M. Tsuji, M. Kubo, and Y. Furuichi
  • Journal Title: Journal of Dental Research Volume: 1 Issue: 4 Pages: 1-7
  • DOI: 10.1177/0022034515570315
  • Peer Reviewed
• [Journal Article] A candidate enhancer element responsible for high-level expression of the aggrecan gene in chondrocytes. (2014)
  • Author(s): Yuichi Ikeda, Kazuo Ito, Yuichi Izumi, Tamayuki Shinomura.
  • Journal Title: J. Biochem. Volume: 156 Issue: 1 Pages: 21-28
  • DOI: 10.1093/jb/mvu014
  • NAID: 40020124391
  • Peer Reviewed
• [Journal Article] Porphyromonas gingivalis promotes neointimal formation after arterial injury through toll-like receptor 2 signaling. (2014)
  • Author(s): Kobayashi N, Suzuki J, Ogawa M, Aoyama N, Komuro I, Izumi Y, Isobe M.
  • Journal Title: Heart Vessels Volume: 29 Issue: 4 Pages: 542-549
  • DOI: 10.1007/s00380-013-0405-3
  • Peer Reviewed
• [Journal Article] Intraindividual variation in core microbiota in peri-implantitis and periodontitis. (2014)
  • Author(s): N. Maruyama, F. Maruyama, Y. Takeuchi, C. Aikawa, Y. Izumi, I. Nakagawa.
  • Journal Title: Scientific Reports Volume: 13 Issue: 1 Pages: 6602-6602
  • DOI: 10.1038/srep06602
  • Peer Reviewed / Open Access
• [Journal Article] Thrombospondin-1 production is enhanced by Porphyromonas gingivalis lipopolysaccharide in THP-1 cells (2014)
  • Author(s): Gokyu M, Kobayashi H, Nanbara H, Sudo T, Ikeda Y, Suda T, Izumi Y
  • Journal Title: PLoS One Volume: 12 Issue: 12 Pages: 115107-115107
  • DOI: 10.1371/journal.pone.0115107
  • Peer Reviewed / Open Access
• [Journal Article] Application of quantitative proteomic analysis using tandem mass tags for discovery and identification of novel biomarkers in periodontal disease. (2013)
  • Author(s): Tsuchida S, Satoh M, Kawashima Y, Sogawa K, Kado S, Sawai S, Nishimura M, Ogita M, Takeuchi Y, Kobyashi H, Aoki A, Kodera Y, Matsushita K. Izumi Y. Nomura F
  • Journal Title: Proteomics Volume: Vol.13 Issue: 15 Pages: 2339-2350
  • DOI: 10.1002/pmic.201200510
  • Peer Reviewed
• [Journal Article] An effective technique for the processing of saliva for the analysis of leptin and adiponectin. (2013)
  • Author(s): Thanakun S, Watanabe H, Thaweboon S, Izumi Y
  • Journal Title: Peptides Volume: 47 Pages: 60-65
  • DOI: 10.1016/j.peptides.2013.06.010
  • Peer Reviewed
• [Journal Article] Osteoblastic differentiation enhances expression of TRPV4 that is required for calcium oscillation induced by mechanical force (2013)
  • Author(s): Takafumi Suzuki
  • Journal Title: Bone Volume: 54(1) Issue: 1 Pages: 172-8
  • DOI: 10.1016/j.bone.2013.01.001
  • Peer Reviewed
• [Presentation] 大規模並列シークエンサーを用いた侵襲性歯周炎のゲノム解析. (2015)
  • Author(s): 須藤毅顕, 岡田随象, 小林宏明, 御給美沙, 田中敏博, 和泉雄一.
  • Organizer: 第143回日本歯科保存学会
  • Place of Presentation: 文教シビックホール（東京都文京区）
  • Year and Date: 2015-11-13
• [Presentation] 侵襲性歯周炎の全エクソーム解析による候補遺伝子の同定 (2015)
  • Author(s): 須藤毅顕, 岡田随象, 小林宏明, 御給美沙, 和泉雄一, 田中敏博.
  • Organizer: 第60回日本人類遺伝学会
  • Place of Presentation: 京王プラザホテル（東京都新宿区）
  • Year and Date: 2015-10-16
• [Presentation] Bacterial evaluation in Periodontal-Endodontic lesion. (2015)
  • Author(s): Misa Gokyu, Hiroaki Kobayashi, Nobuyuki Kawashima, Yuichi Ikeda, Hiromi Nanbara, Takeaki Sudo, Tomonari Suda, Yuichi Izumi.
  • Organizer: The International Association for Dental Research
  • Place of Presentation: Boston, USA
  • Year and Date: 2015-03-14
• [Presentation] Quantitative evaluation for counting bacterial cells using synthesis gene. (2014)
  • Author(s): Misa Gokyu, Yuichi Ikeda, Hiroaki Kobayashi, Yuichi Izumi.
  • Organizer: The 62nd Annual Meeting of Japanese Association for Dental Research
  • Place of Presentation: 大阪、KKRホテル大阪
  • Year and Date: 2014-12-05
• [Presentation] Point of care system for detecting salivary porphyromonas gingivalis. (2013)
  • Author(s): Hiroaki Kobayashi,Miho Machigashira,Reiko Suda,Toshiyuki Nagasawa,Yoshie Tanaka, Toshiaki Yoshino,Matsuo Yamamoto,Kazuyuki Noguchi,Yasushi Furuichi,Yuichi lzumi.
  • Organizer: 10th Asian Pacific Society of Periodontology meeting.
  • Place of Presentation: Nara Prefectural New Public Hall, Nara, Japan.