Publications

[ 論文 ]

2016年

  • 52. Wake N, Asahi Y, Noiri Y, Hayashi M, Motooka D, Nakamura S, Gotoh K, Miura J, Machi H, Iida T, Ebisu S. Temporal dynamics of bacterial microbiota in the human oral cavity determined using an in situ model of dental biofilms. Infect Chemother. 2016 Aug 20. pii: S1341-321X(16)30126-X. doi:10.1016/j.jiac.2016.07.011. PubMed PMID: 27553068.

 

  • 51. Hagiya H, Yoshida H, Shimizu M, Motooka D, Nakamura S, Iida T, Yamamoto N, Akeda Y, Tomono K. Herpes zoster laryngitis in a patient treated with fingolimod. J Infect Chemother. 2016 Aug 20. pii: S1341-321X(16)30126-X. doi:10.1016/j.jiac.2016.07.011. PubMed PMID: 27553068.

 

  • 50. Torigata K, Okuzaki D, Mukai S, Hatanaka A, Ohka F, Motooka D, Nakamura S, Ohkawa Y, Yabuta N, Kondo Y, Nojima H. LATS2 Positively Regulates Polycomb Repressive Complex 2. PLoS One. 2016 Jul 19;11(7):e0158562. doi:10.1371/journal.pone.0158562. PubMed PMID: 27434182.

 

  • 49. Bukowska-Ośko I, Perlejewski K, Nakamura S, Motooka D, Stokowy T, Kosińska J, Popiel M, Płoski R, Horban A, Lipowski D, Caraballo Cortés K, Pawełczyk A, Demkow U, Stępień A, Radkowski M, Laskus T. Sensitivity of Next-Generation Sequencing Metagenomic Analysis for Detection of RNA and DNA Viruses in Cerebrospinal Fluid: The Confounding Effect of Background Contamination. Adv Exp Med Biol. 2016 Jul 13. PubMed PMID: 27405447.

 

  • 48. Harada T, Dang VC, Nguyen DP, Nguyen TA, Sakamoto M, Ohkuma M, Motooka D, Nakamura S, Uchida K, Jinnai M, Yonogi S, Kawahara R, Kanki M, Kawai T, Kumeda Y, Yamamoto Y. Enterococcus saigonensis sp. nov., isolated from retail chicken meat and liver. Int J Syst Evol Microbiol. 2016 Jun 30. doi: 10.1099/ijsem.0.001264. PubMed PMID: 27374383.

 

  • 47. Maeda Y, Kurakawa T, Umemoto E, Motooka D, Ito Y, Gotoh K, Hirota K, Matsushita M, Furuta Y, Narazaki M, Sakaguchi N, Kayama H, Nakamura S, Iida T, Saeki Y, Kumanogoh A, Sakaguchi S, Takeda K. Dysbiosis contributes to arthritis development via activation of autoreactive T cells in the intestine. Arthritis Rheumatol. 2016 Jun 22. doi: 10.1002/art.39783. PubMed PMID: 27333153.

 

  • 46. Perlejewski K, Bukowska-Ośko I, Nakamura S, Motooka D, Stokowy T, Płoski R, Rydzanicz M, Zakrzewska-Pniewska B, Podlecka-Piętowska A, Nojszewska M, Gogol A, Caraballo Cortés K, Demkow U, Stępień A, Laskus T, Radkowski M. Metagenomic Analysis of Cerebrospinal Fluid from Patients with Multiple Sclerosis. Adv Exp Med Biol. 2016 935:89-981. doi: 10.1007/5584_2016_25. PubMed PMID: 27311319.

 

  • 45. Okumura R, Kurakawa T, Nakano T, Kayama H, Kinoshita M, Motooka D, Gotoh K, Kimura T, Kamiyama N, Kusu T, Ueda Y, Wu H, Iijima H, Barman S, Osawa H, Matsuno H, Nishimura J, Ohba Y, Nakamura S, Iida T, Yamamoto M, Umemoto E, Sano K, Takeda K. Lypd8 promotes the segregation of flagellated microbiota and colonic epithelia. Nature. 2016 Apr 7;532(7597):117-21. doi: 10.1038/nature17406. Epub2016 Mar 30. PubMed PMID: 27027293.

 

  • 44. Kawahara K, Oki H, Fukakusa S, Yoshida T, Imai T, Maruno T, Kobayashi Y, Motooka D, Iida T, Ohkubo T, Nakamura S. Homo-trimeric Structure of the Type IVb Minor Pilin CofB Suggests Mechanism of CFA/III Pilus Assembly in Human Enterotoxigenic Escherichia coli. J Mol Biol. 2016 Mar 27;428(6):1209-26. doi:10.1016/j.jmb.2016.02.003. Epub 2016 Feb 11. PubMed PMID: 26876601.

 

  • 43. Nakagawa T, Taniguchi-Ikeda M, Murakami Y, Nakamura S, Motooka D, Emoto T, Satake W, Nishiyama M, Toyoshima D, Morisada N, Takada S, Tairaku S, Okamoto N, Morioka I, Kurahashi H, Toda T, Kinoshita T, Iijima K. A novel PIGN mutation and prenatal diagnosis of inherited glycosylphosphatidylinositol deficiency. Am J Med Genet A. 2016 Jan;170(1):183-8. doi: 10.1002/ajmg.a.37397. Epub 2015 Sep 30. PubMed PMID: 26419326.

 

2015年

  • 42. Ojima M, Motooka D, Shimizu K, Gotoh K, Shintani A, Yoshiya K, Nakamura S, Ogura H, Iida T, Shimazu T. Metagenomic Analysis Reveals Dynamic Changes of Whole Gut Microbiota in the Acute Phase of Intensive Care Unit Patients. Dig Dis Sci. 2015 Dec 29. [Epub ahead of print] PubMed PMID: 26715502.

 

  • 41. Perlejewski K, Popiel M, Laskus T, Nakamura S, Motooka D, Stokowy T, Lipowski D, Pollak A, Lechowicz U, Caraballo Cortés K, Stępień A, Radkowski M, Bukowska-Ośko I. Next-generation sequencing (NGS) in the identification of encephalitis-causing viruses: Unexpected detection of human herpesvirus 1 while searching for RNA pathogens. J Virol Methods. 2015 Dec 15;226:1-6. doi:10.1016/j.jviromet.2015.09.010. Epub 2015 Sep 28. PubMed PMID: 26424618.

 

  • 40. Tsuru S, Ishizawa Y, Shibai A, Takahashi Y, Motooka D, Nakamura S, Yomo T. Genomic confirmation of nutrient-dependent mutability of mutators in Escherichia coli. Genes Cells. 2015 Dec;20(12):972-81. doi: 10.1111/gtc.12300. Epub 2015 Sep28. PubMed PMID: 26414389.

     

  • 39. Rong Y, Nakamura S, Hirata T, Motooka D, Liu YS, He ZA, Gao XD, Maeda Y, Kinoshita T, Fujita M. Genome-Wide Screening of Genes Required for Glycosylphosphatidylinositol Biosynthesis. PLoS One. 2015 Sep 18;10(9):e0138553. doi: 10.1371/journal.pone.0138553. eCollection 2015. PubMed PMID: 26383639; PubMed Central PMCID: PMC4575048.

 

  • 38. Yama K, Matsumoto Y, Murakami Y, Seno S, Matsuda H, Gotoh K, Motooka D, Nakamura S, Ying BW, Yomo T. Functional specialization in regulation and quality control in thermal adaptive evolution. Genes Cells. 2015 Nov;20(11):943-55. doi:10.1111/gtc.12298. Epub 2015 Sep 15. PubMed PMID: 26373241.

 

  • 37. Ichihashi N, Aita T, Motooka D, Nakamura S, Yomo T. Periodic Pattern of Genetic and Fitness Diversity during Evolution of an Artificial Cell-Like System. Mol Biol Evol. 2015 Dec;32(12):3205-14. doi: 10.1093/molbev/msv189. Epub 2015 Sep4. PubMed PMID: 26342111.

 

  • 36. Hirata T, Fujita M, Nakamura S, Gotoh K, Motooka D, Murakami Y, Maeda Y, Kinoshita T. Post-Golgi anterograde transport requires GARP-dependentendosome-to-TGN retrograde transport. Mol Biol Cell. 2015 Sep 1;26(17):3071-84.doi: 10.1091/mbc.E14-11-1568. Epub 2015 Jul 8. PubMed PMID: 26157166; PubMedCentral PMCID: PMC4551320.

 

  • 35. Kawahara K, Oki H, Fukakusa S, Maruno T, Kobayashi Y, Motooka D, Taniguchi T, Honda T, Iida T, Nakamura S, Ohkubo T. Cloning, expression, purification, crystallization and X-ray crystallographic analysis of CofB, the minor pilinsubunit of CFA/III from human enterotoxigenic Escherichia coli. Acta CrystallogrF Struct Biol Commun. 2015 Jun;71(Pt 6):663-7. doi: 10.1107/S2053230X15005890.Epub 2015 May 20. PubMed PMID: 26057791.

 

  • 34. Nishimura M, Fujii T, Hiyoshi H, Makino F, Inoue H, Motooka D, Kodama T, Ohkubo T, Kobayashi Y, Nakamura S, Namba K, Iida T. A repeat unit of Vibrio diarrheal T3S effector subverts cytoskeletal actin homeostasis via binding tointerstrand region of actin filaments. Sci Rep. 2015 Jun 3;5:10870. doi: 10.1038/srep10870. PubMed PMID: 26039684; PubMed Central PMCID: PMC4650670.

 

  • 33. Motooka D, Nakamura S, Hagiwara K, Nakaya T. Viral detection by high-throughput sequencing. Methods Mol Biol. 2015;1236:125-34. doi: 10.1007/978-1-4939-1743-3_11. PubMed PMID: 25287501.

 

2014 年

  • 32. Hosomi K, Sakaguchi Y, Kohda T, Gotoh K, Motooka D, Nakamura S, Umeda K, Iida T, Kozaki S, Mukamoto M. Complete nucleotide sequence of a plasmid containing the botulinum neurotoxin gene in Clostridium botulinum type B strain 111 isolated from an infant patient in Japan. Mol Genet Genomics. 2014 Aug 23. [Epub ahead of print] PubMed PMID: 25149145.

 

  • 31. Miyamoto M, Motooka D, Gotoh K, Imai T, Yoshitake K, Goto N, Iida T, Yasunaga T, Horii T, Arakawa K, Kasahara M, Nakamura S*. Performance comparison of second- and third-generation sequencers using a bacterial genome with two chromosomes. BMC Genomics. 2014 Aug 21;15:699. PubMed Central PMCID: PMC4159541.

 

  • 30. Wu HN, Nakura Y, Motooka D, Nakamura S, Nishiumi F, Ishino S, Kawai Y, Tanaka T, Takeuchi M, Nakayama M, Fujita T, Yanagihara I. Complete Genome Sequence of Ureaplasma parvum Serovar 3 Strain SV3F4, Isolated in Japan. Genome Announc. 2014 May 22;2(3). pii: e00256-14. PubMed Central PMCID: PMC4031331.

 

  • 29. Arimatsu K, Yamada H, Miyazawa H, Minagawa T, Nakajima M, Ryder MI, Gotoh K, Motooka D, Nakamura S, Iida T, Yamazaki K. Oral pathobiont induces systemic inflammation and metabolic changes associated with alteration of gut microbiota. Sci Rep. 2014 May 6;4:4828. PubMed Central PMCID: PMC4010932.

 

  • 28. Masahata K, Umemoto E, Kayama H, Kotani M, Nakamura S, Kurakawa T, Kikuta J, Gotoh K, Motooka D, Sato S, Higuchi T, Baba Y, Kurosaki T, Kinoshita M, Shimada Y, Kimura T, Okumura R, Takeda A, Tajima M, Yoshie O, Fukuzawa M, Kiyono H, Fagarasan S, Iida T, Ishii M, Takeda K. Generation of colonic IgA-secreting cells in the caecal patch. Nat Commun. 2014 Apr 10;5:3704. PubMed PMID: 24718324.

 

  • 27. Honma H, Hirai M, Nakamura S, Hakimi H, Kawazu S, Palacpac NM, Hisaeda H, Matsuoka H, Kawai S, Endo H, Yasunaga T, Ohashi J, Mita T, Horii T, Furusawa M, Tanabe K. Generation of rodent malaria parasites with a high mutation rate by destructing proofreading activity of DNA polymerase δ. DNA Res. 2014 Aug;21(4):439-46. PubMed Central PMCID: PMC4131837.

 

  • 26. Hiyama S, Iijima H, Shinzaki S, Inoue T, Shiraishi E, Kawai S, Araki M, Kato M, Hayashi Y, Nishida T, Fujii H, Mukai A, Shibata N, Sato S, Kiyono H, Gotoh K, Motooka D, Nakamura S, Iida T, Tsujii M, Takehara T. Peyer's patches play a protective role in nonsteroidal anti-inflammatory drug-induced enteropathy in mice. Inflamm Bowel Dis. 2014 May;20(5):790-9. PubMed PMID: 24651581.

 

  • 25. Chaitaveep N, Utachee P, Nakamura S, Chuenchitra T, Ekpo P, Takeda N, Pattanapanyasat K, Kameoka M. Characterization of human immunodeficiency virus type 1 CRF01_AE env genes derived from recently infected Thai individuals. Microbes Infect. 2014 Feb;16(2):142-52. PubMed PMID: 24513704.

 

  • 24. 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. Comprehensive metagenomic approach for detecting causative microorganisms in culture-negative infective endocarditis. Int J Cardiol. 2014 Mar 15;172(2):e288-9. PubMed PMID: 24485222.

 

  • 23. Ideno S, Sakai K, Yunoki M, Kubota-Koketsu R, Inoue Y, Nakamura S, Yasunaga T, Okuno Y, Ikuta K. Immunization of rabbits with synthetic peptides derived from a highly conserved β-sheet epitope region underneath the receptor binding site of influenza A virus. Biologics. 2013;7:233-41. PubMed Central PMCID: PMC3821756.

 

  • 22. Cavalcanti GS, Gregoracci GB, dos Santos EO, Silveira CB, Meirelles PM, Longo L, Gotoh K, Nakamura S, Iida T, Sawabe T, Rezende CE, Francini-Filho RB, Moura RL, Amado-Filho GM, Thompson FL. Physiologic and metagenomic attributes of the rhodoliths forming the largest CaCO3 bed in the South Atlantic Ocean. ISME J. 2014 Jan;8(1):52-62. PubMed Central PMCID: PMC3869012.

 

  • 21. Yonogi S, Matsuda S, Kawai T, Yoda T, Harada T, Kumeda Y, Gotoh K, Hiyoshi H, Nakamura S, Kodama T, Iida T*. BEC, a novel enterotoxin of Clostridium perfringens found in human clinical isolates from acute gastroenteritis outbreaks. Infect Immun. 2014 Jun;82(6):2390-9. PubMed Central PMCID: PMC4019177.

 

2013 年

  • 20. Cavalcanti GS, Gregoracci GB, Dos Santos EO, Silveira CB, Meirelles PM, Longo L, Gotoh K, Nakamura S, Iida T, Sawabe T, Rezende CE, Francini-Filho RB, Moura RL, Amado-Filho GM, Thompson FL. Physiologic and metagenomic attributes of the rhodoliths forming the largest CaCO(3) bed in the South Atlantic Ocean. ISME J. 2013 Aug 29. PubMed PMID:23985749.

 

  • 19. Kaihatsu K, Sawada S, Nakamura S, Nakaya T, Yasunaga T, Kato N. Sequence-specific and visual identification of the influenza virus NS gene by azobenzene-tethered bis-peptide nucleic acid. PLoS One. 2013 May 21;8(5):e64017. PubMed PMID: 23704970;

 

  • 18. Shiromoto Y, Kuramochi-Miyagawa S, Daiba A, Chuma S, Katanaya A, Katsumata A, Nishimura K, Ohtaka M, Nakanishi M, Nakamura T, Yoshinaga K, Asada N, Nakamura S, Yasunaga T, Kojima-Kita K, Itou D, Kimura T, Nakano T. GPAT2, a mitochondrial outer membrane protein, in piRNA biogenesis in germline stem cells. RNA. 2013 Jun;19(6):803-10. PubMed PMID:23611983.

 

  • 17. Morita M, Kuba K, Ichikawa A, Nakayama M, Katahira J, Iwamoto R, Watanebe T, Sakabe S, Daidoji T, Nakamura S, Kadowaki A, Ohto T, Nakanishi H, Taguchi R, Nakaya T, Murakami M, Yoneda Y, Arai H, Kawaoka Y, Penninger JM, Arita M, Imai Y. The lipid mediator protectin D1 inhibits influenza virus replication and improves severe influenza. Cell. 2013 Mar 28;153(1):112-25. PubMed PMID: 23477864.

 

  • 16. Seki M, Gotoh K, Nakamura S, Akeda Y, Yoshii T, Miyaguchi S, Inohara H, Horii T, Oishi K, Iida T, Tomono K. Fatal sepsis caused by an unusual Klebsiella species that was misidentified by an automated identification system. J Med Microbiol. 2013 May;62(Pt 5):801-3. PubMed PMID: 23449877.

 

  • 15. Monira S, Nakamura S, Gotoh K, Izutsu K, Watanabe H, Alam NH, Nakaya T, Horii T, Ali SI, Iida T, Alam M. (2013) Metagenomic profile of gut microbiota in children during cholera and recovery. Gut Pathog. 5(1):1. PubMed PMID: 23369162

 

  • 14. Garcia GD, Gregoracci GB, de O Santos E, Meirelles PM, Silva GG, Edwards R, Sawabe T, Gotoh K, Nakamura S, Iida T, de Moura RL, Thompson FL. (2013) Metagenomic Analysis of Healthy and White Plague-Affected Mussismilia braziliensis Corals. Microb Ecol. 2013 Jan 15. PubMed PMID: 23314124

 

2012 年

  • 13. Manríquez ME, Makino A, Tanaka M, Abe Y, Yoshida H, Morioka I, Arakawa S, Takeshima Y, Iwata K, Takasaki J, Manabe T, Nakaya T, Nakamura S, Iglesias AL, Rossales RM, Mirabal EP, Ito T, Kitazawa T, Oka T, Yamashita M, Kudo K, Shinya K. (2012) Emergence of HA mutants during influenza virus pneumonia. Int J Clin Exp Pathol. 5(8):787-95. PubMed PMID: 23071861

 

  • 12. de Silva UC, Tanaka H, Nakamura S, Goto N, Yasunaga T. (2012) A comprehensive analysis of reassortment in influenza A virus. Biol Open. 1(4):385-90.PubMed PMID:23213428

 

  • 11. Tachibana S, Sullivan SA, Kawai S, Nakamura S, Kim HR, Goto N, Arisue N, Palacpac NM, Honma H, Yagi M, Tougan T, Katakai Y, Kaneko O, Mita T, Kita K, Yasutomi Y, Sutton PL, Shakhbatyan R, Horii T, Yasunaga T, Barnwell JW, Escalante AA, Carlton JM, Tanabe K. (2012) Plasmodium cynomolgi genome sequences provide insight into Plasmodium vivax and the monkey malaria clade. Nat Genet. 44(9):1051-5. PubMed PMID: 22863735

 

 

  • 9. Yasugi M, Nakamura S, Daidoji T, Kawashita N, Ramadhany R, Yang CS, Yasunaga T, Iida T, Horii T, Ikuta K, Takahashi K, Nakaya T*. (2012) Frequency of D222G and Q223R hemagglutinin mutants of pandemic (H1N1) 2009 influenza virus in Japan between 2009 and 2010. PLoS One. 7(2):e30946. PubMed PMID: 22363521

 

  • 8. Tamaki H, Zhang R, Angly FE, Nakamura S, Hong PY, Yasunaga T, Kamagata Y, Liu WT. (2012) Metagenomic analysis of DNA viruses in a wastewater treatment plant in tropical climate. Environ Microbiol. 14(2):441-52. PubMed PMID: 22040222

 

2011 年

  • 7. Monira S, Nakamura S, Gotoh K, Izutsu K, Watanabe H, Alam NH, Endtz HP, Cravioto A, Ali SI, Nakaya T, Horii T, Iida T, Alam M. (2011) Gut Microbiota of Healthy and Malnourished Children in Bangladesh. Front. Microbiol. 2:228. PubMed PMID: 22125551

 

  • 6. Nakamura S, Nakaya T, Iida T. (2011) Metagenomic analysis of bacterial infections by means of high-throughput DNA sequencing. Exp. Biol. Med. 236: 968-971. PubMed PMID: 21737580

 

  • 5. Kerdsin A, Dejsirilert S, Puangpatra P, Sripakdee S, Chumla K, Boonkerd N, Polwichai P, Tanimura S, Takeuchi D, Nakayama T, Nakamura S, Akeda Y, Gottschalk M, Sawanpanyalert P, Oishi K. (2011) Genotypic profile of Streptococcus suis serotype 2 and clinical features of infection in humans, Thailand. Emerg Infect Dis. 17(5):835-42. PubMed PMID: 21529392

 

2010 年

  • 4. Kameoka M, Isarangkura-na-Ayuthaya P, Kameoka Y, Sapsutthipas S, Soonthornsata B, Nakamura S, Tokunaga K, Sawanpanyalert P, Ikuta K, Auwanit W. (2010) The role of lysine residue at amino acid position 165 of human immunodeficiency virus type 1 CRF01_AE Gag in reducing viral drug susceptibility to protease inhibitors. Virology. 405(1):129-38. PubMed PMID: 20573365

 

  • 3. Utachee P, Nakamura S, Isarangkura-Na-Ayuthaya P, Tokunaga K, Sawanpanyalert P, Ikuta K, Auwanit W, Kameoka M. (2010) TTwo N-linked glycosylation sites in the V2 and C2 regions of human immunodeficiency virus type 1 CRF01_AE envelope glycoprotein gp120 regulate viral neutralization susceptibility to the human monoclonal antibody specific for the CD4 binding domain. J Virol. 84(9):4311-20. PubMed PMID: 20164234

 

2009 年

  • 2. Nakamura S, Yang CS, Sakon N, Ueda M, Tougan T, Yamashita A, Goto N, Takahashi K, Yasunaga T, Ikuta K, Mizutani T, Okamoto Y, Tagami M, Morita R, Maeda N, Kawai J, Hayashizaki Y, Nagai Y, Horii T, Iida T, Nakaya T*. (2009) Direct metagenomic detection of viral pathogens in nasal and fecal specimens using an unbiased high-throughput sequencing approach. PLoS One. 4(1): e4219. PubMed PMID: 19156205

 

2008 年

  • 1. Nakamura S, Maeda N, Miron IM, Yoh M, Izutsu K, Kataoka C, Honda T, Yasunaga T, Nakaya T, Kawai J, Hayashizaki Y, Horii T, Iida T*. (2008) Metagenomic diagnosis of bacterial infections. Emerg Infect Dis. 14(11): 1784-6. PubMed PMID: 18976571

 

[ 著書 ]

2015 年

 

2014 年

 

2012 年

  • 中村昇太, 中屋隆明, 飯田哲也 (2012) メタゲノム解析を応用した網羅的病原体検出法 最新医学 67(No.9):131-133最新医学社

 

  • 中村昇太 (2012) 第2回NGS現場の会:次世代シークエンサーの現場にいる人たちの交流の場 細胞工学 Vol.31 No.9学研メディカル秀潤社

 

2011 年

 

 

 

 

2010 年

  • 飯田哲也 (2010) 次世代シーケンサを用いた細菌感染症のメタゲノミック診断 Medical Technology 38巻3号 : 医歯薬出版