論文・書籍 Publications

2023

• Yasugi M, Hatoya S, Motooka D, Kondo D, Akiyoshi H, Horie M, Nakamura S, Shimada T.
  Genetic and phenotypic analyses of mcr-harboring extended-spectrum β-lactamase-producing Escherichia coli isolates from companion dogs and cats in Japan
  Vet Microbiol.  2023 Feb 16;280:109695. doi: 10.1016/j.vetmic.2023.109695. Online ahead of print.
  PMID: 36848815​​​​​​​
• Kami W, Kinjo T, Hashioka H, Arakaki W, Uechi K, Takahashi A, Oki H, Tanaka K, Motooka D, Nakamura S, Nakamatsu M, Maeda S, Yamamoto K, Fujita J.
  Impact of G29179T mutation on two commercial PCR assays for SARS-CoV-2 detection
  J Virol Methods. 2023 Apr;314:114692. doi: 10.1016/j.jviromet.2023.114692. Epub 2023 Feb 15.​​​​​​​​​​​​​​
  PMID: 36796678 ​​​​​​​
• Matsumoto Y, Nakamura S.
  Rapid and Comprehensive Identification of Nontuberculous Mycobacteria
  Methods Mol Biol. 2023;2632:247-255. doi: 10.1007/978-1-0716-2996-3_17.
  PMID: 36781733

2022

• Tomofuji Y, Kishikawa T, Maeda Y, Ogawa K, Otake-Kasamoto Y, Kawabata S, Nii T, Okuno T, Oguro-Igashira E, Kinoshita M, Takagaki M, Oyama N, Todo K, Yamamoto K, Sonehara K, Yagita M, Hosokawa A, Motooka D, Matsumoto Y, Matsuoka H, Yoshimura M, Ohshima S, Shinzaki S, Nakamura S, Iijima H, Inohara H, Kishima H, Takehara T, Mochizuki H, Takeda K, Kumanogoh A, Okada Y.
  Prokaryotic and viral genomes recovered from 787 Japanese gut metagenomes revealed microbial features linked to diets, populations, and diseases
  Cell Genom. 2022 Nov 30;2(12):100219. doi: 10.1016/j.xgen.2022.100219. eCollection 2022 Dec 14.
  PMID: 36778050
• Nii T, Maeda Y, Motooka D, Naito M, Matsumoto Y, Ogawa T, Oguro-Igashira E, Kishikawa T, Yamashita M, Koizumi S, Kurakawa T, Okumura R, Kayama H, Murakami M, Sakaguchi T, Das B, Nakamura S, Okada Y, Kumanogoh A, Takeda K.
  Genomic repertoires linked with pathogenic potency of arthritogenic Prevotella copri isolated from the gut of patients with rheumatoid arthritis
  Ann Rheum Dis. 2023 Jan 10:annrheumdis-2022-222881. doi: 10.1136/ard-2022-222881. Online ahead of print
  PMID: 36627170 
• Okada K, Takezawa K, Tsujimura G, Imanaka T, Kuribayashi S, Ueda N, Hatano K, Fukuhara S, Kiuchi H, Fujita K, Motooka D, Nakamura S, Koyama Y, Shimada S, Nonomura N.
  Localization and potential role of prostate microbiota
  Front Cell Infect Microbiol. 2022 Dec 7;12:1048319. doi: 10.3389/fcimb.2022.1048319. eCollection 2022.PMID: 36627170 
• Hino A, Fukushima K, Kusakabe S, Ueda T, Sudo T, Fujita J, Motooka D, Takeda AK, Shinozaki NO, Watanabe S, Yokota T, Shibayama H, Nakamura S, Hosen N.
  Prolonged gut microbial alterations in post-transplant survivors of allogeneic haematopoietic stem cell transplantation
  Br J Haematol. 2022 Dec 5. doi: 10.1111/bjh.18574. Online ahead of print
  PMID: 36468273 
• Takahashi E, Motooka D, Nakamura S, Miyoshi SI, Chowdhury G, Mukhopadhyay AK, Dutta S, Morita D, Iida T, Okamoto K.
  Metagenomic analysis of diarrheal stools in Kolkata, India, indicates the possibility of subclinical infection of Vibrio cholerae O1
  Sci Rep. 2022 Nov 14;12(1):19473. doi: 10.1038/s41598-022-24167-9.
  PMID: 36376441  
• Oki H, Kawahara K, Iimori M, Imoto Y, Nishiumi H, Maruno T, Uchiyama S, Muroga Y, Yoshida A, Yoshida T, Ohkubo T, Matsuda S, Iida T, Nakamura S.
  Structural basis for the toxin-coregulated pilus-dependent secretion of Vibrio cholerae colonization factor
  Sci Adv. 2022 Oct 14;8(41):eabo3013. doi: 10.1126/sciadv.abo3013. Epub 2022 Oct 14.
  PMID: 36240278 
• Shimizu K, Hirata H, Tokuhira N, Ueda A, Motooka D, Nakamura S, Ogura H
  A case of massive refractory diarrhea in a patient with COVID-19
  Acute Med Surg. 2022 Oct 5;9(1):e793. doi: 10.1002/ams2.793. eCollection 2022 Jan-Dec.
  PMID: 36225723 
• Yoshimura M, Shimizu K, Nakura Y, Kawahara K, Katano H, Motooka D, Takeuchi M, Nagamune K, Imamura Y, Nakamura S, Yasukawa K, Hasegawa H, Yoshida Y, Yanagihara I. 
  A fatal case of hemophagocytic lymphohistiocytosis associated with gestational psittacosis without symptoms of pneumonia
  J Obstet Gynaecol Res. 2022 Dec;48(12):3325-3330. doi: 10.1111/jog.15429. Epub 2022 Sep 12.
  PMID: 36097654
• Watanabe S, Minagawa M, Shinoda T, Motooka D, Tohya M, Kirikae T, Nakamura S, Saiura A.
  Bile Collected From the Normal Gallbladder of Patients During Surgery Has Simple Bacterial Flora
  Cureus. 2022 Jun 6;14(6):e25681. doi: 10.7759/cureus.25681. eCollection 2022 Jun.
  PMID:  35812645 
• Muratsu A, Ikeda M, Shimizu K, Kameoka S, Motooka D, Nakamura S, Matsumoto H, Ogura H, Shimazu T.
  Dynamic change of fecal microbiota and metabolomics in a polymicrobial murine sepsis model
  Acute Med Surg. 2022 Jun 28;9(1):e770. doi: 10.1002/ams2.770. eCollection 2022 Jan-Dec.
  PMID:  35782956 
• Maeda Y, Motooka D, Kawasaki T, Oki H, Noda Y, Adachi Y, Niitsu T, Okamoto S, Tanaka K, Fukushima K, Amiya S, Hara R, Oguro-Igashira E, Matsuki T, Hirata H, Takeda Y, Kida H, Kumanogoh A, Nakamura S, Takeda K.
  Longitudinal alterations of the gut mycobiota and microbiota on COVID-19 severity
  BMC Infect Dis. 2022 Jun 24;22(1):572. doi: 10.1186/s12879-022-07358-7.
  PMID: 35751044 
• Otake-Kasamoto Y, Kayama H, Kishikawa T, Shinzaki S, Tashiro T, Amano T, Tani M, Yoshihara T, Li B, Tani H, Liu L, Hayashi A, Okuzaki D, Motooka D, Nakamura S, Okada Y, Iijima H, Takeda K, Takehara T.
  Lysophosphatidylserines derived from microbiota in Crohn's disease elicit pathological Th1 response
  J Exp Med. 2022 Jul 4;219(7):e20211291. doi: 10.1084/jem.20211291. Epub 2022 May 24.​​​​​​​
  PMID: 35608941  
• Abe Y, Fukushima K, Matsumoto Y, Niitsu T, Nabeshima H, Nagahama Y, Akiba E, Haduki K, Saito H, Nitta T, Kawano A, Tanaka M, Matsuki T, Motooka D, Tsujino K, Miki K, Nakamura S, Iida T, Kida H.
  Mycobacterium senriense sp. nov., a slowly growing, non-scotochromogenic species, isolated from sputum of an elderly man
  Int J Syst Evol Microbiol. 2022 May;72(5). doi: 10.1099/ijsem.0.005378.​​​​​​​
  PMID: 35604945
• Ikemura N, Taminishi S, Inaba T, Arimori T, Motooka D, Katoh K, Kirita Y, Higuchi Y, Li S, Suzuki T, Itoh Y, Ozaki Y, Nakamura S, Matoba S, Standley DM, Okamoto T, Takagi J, Hoshino A.
  An engineered ACE2 decoy neutralizes the SARS-CoV-2 Omicron variant and confers protection against infection in vivo
  Sci Transl Med. 2022 Jun 22;14(650):eabn7737. doi: 10.1126/scitranslmed.abn7737. Epub 2022 Jun 22
  PMID: 35471044 
• Yamaguchi T, Iijima H, Yoshihara T, Tani M, Otake Y, Iwatani S, Amano T, Tashiro T, Kurahashi T, Inoue T, Tsujii Y, Hayashi Y, Inoue T, Motooka D, Nakamura S, Shinzaki S, Takehara T.
  Exacerbation of non-steroidal anti-inflammatory drug-induced enteropathy in C-C chemokine receptor type 7-deficient mice
  J Gastroenterol Hepatol. 2022 Aug;37(8):1561-1570. doi: 10.1111/jgh.15868. Epub 2022 Apr 28.​​​​​​​
  PMID: 35435994
• Yamamichi G, Tomiyama E, Koh Y, Kato T, Kawashima A, Uemura M, Nojima S, Imamura R, Mubeen A, Netto GJ, Tsujikawa K, Nakamura S, Takeda K, Morii E, Nonomura N.
  High-fat diet promotes prostate cancer growth through histamine signaling
  Int J Cancer. 2022 Aug 15;151(4):623-636. doi: 10.1002/ijc.34028. Epub 2022 Apr 26.​​​​​​​
  PMID: 35403732
• Ueda K, Kawahara K, Kimoto N, Yamaguchi Y, Yamada K, Oki H, Yoshida T, Matsuda S, Matsumoto Y, Motooka D, Kawatsu K, Iida T, Nakamura S, Ohkubo T, Yonogi S
  Analysis of the complete genome sequences of Clostridium perfringens strains harbouring the binary enterotoxin BEC gene and comparative genomics of pCP13-like family plasmids
  BMC Genomics. 2022 Mar 23;23(1):226. doi: 10.1186/s12864-022-08453-4.​​​​​​​
  PMID: 35321661
• Matsushita M, Fujita K, Motooka D, Hatano K, Hata J, Nishimoto M, Banno E, Takezawa K, Fukuhara S, Kiuchi H, Pan Y, Takao T, Tsujimura A, Yachida S, Nakamura S, Obara W, Uemura H, Nonomura N.
  Firmicutes in Gut Microbiota Correlate with Blood Testosterone Levels in Elderly Men
  World J Mens Health. 2022 Jul;40(3):517-525. doi: 10.5534/wjmh.210190. Epub 2022 Feb 24.​​​​​​​
  PMID: 35274505 
• Pareek S, Sanchenkova X, Sakaguchi T, Murakami M, Okumura R, Kayama H, Kawauchi S, Motooka D, Nakamura S, Okuzaki D, Kishimoto T, Takeda K.
  Epithelial miR-215 negatively modulates Th17-dominant inflammation by inhibiting CXCL12 production in the small intestine 
  Genes Cells. 2022 Apr;27(4):243-253. doi: 10.1111/gtc.12922. Epub 2022 Feb 6.​​​​​​​
  PMID:35075728 
•  Itoyama S, Noda E, Takamatsu S, Kondo J, Kawaguchi R, Shimosaka M, Fukuoka T, Motooka D, Nakamura S, Tanemura M, Mitsufuji S, Iwagami Y, Akita H, Tobe T, Kamada Y, Eguchi H, Miyoshi E.
  Enterococcus spp. have higher fitness for survival, in a pH-dependent manner, in pancreatic juice among duodenal bacterial flora
  JGH Open. 2022 Jan 5;6(1):85-90. doi: 10.1002/jgh3.12703. eCollection 2022 Jan.​​​​​​​
  PMID: 35071793 

2021

• Niitsu T, Kuge T, Fukushima K, Matsumoto Y, Abe Y, Okamoto M, Haduki K, Saito H, Nitta T, Kawano A, Matsuki T, Motooka D, Tsujino K, Miki K, Nakamura S, Kida H, Kumanogoh A.
  Pleural Effusion Caused by Mycolicibacterium mageritense in an Immunocompetent Host: A Case Report
  Front Med (Lausanne). 2021 Nov 24;8:797171. doi: 10.3389/fmed.2021.797171. eCollection 2021.
  PMID: 34901097
• Sotozono M, Kuriki N, Asahi Y, Noiri Y, Hayashi M, Motooka D, Nakamura S, Yamaguchi M, Iida T, Ebisu S
  Impact of sleep on the microbiome of oral biofilms
  PLoS One. 2021 Dec 9;16(12):e0259850. doi: 10.1371/journal.pone.0259850. eCollection 2021.
  PMID: 34882696 
• Tomofuji Y, Kishikawa T, Maeda Y, Ogawa K, Nii T, Okuno T, Oguro-Igashira E, Kinoshita M, Yamamoto K, Sonehara K, Yagita M, Hosokawa A, Motooka D, Matsumoto Y, Matsuoka H, Yoshimura M, Ohshima S, Nakamura S, Inohara H, Mochizuki H, Takeda K, Kumanogoh A, Okada Y
  Whole gut virome analysis of 476 Japanese revealed a link between phage and autoimmune disease
  Ann Rheum Dis. 2022 Feb;81(2):278-288. doi: 10.1136/annrheumdis-2021-221267. Epub 2021 Dec 8.
  PMID: 34880054
• Tsuji Y, Nonoguchi N, Okuzaki D, Wada Y, Motooka D, Hirota Y, Toho T, Yoshikawa N, Furuse M, Kawabata S, Miyatake SI, Nakamura H, Yamamoto R, Nakamura S, Kuroiwa T, Wanibuchi M.
  Chronic pathophysiological changes in the normal brain parenchyma caused by radiotherapy accelerate glioma progression
  Sci Rep. 2021 Nov 11;11(1):22110. doi: 10.1038/s41598-021-01475-0.
  PMID:  34764346
• Kawabata S, Takagaki M, Nakamura H, Oki H, Motooka D, Nakamura S, Nishida T, Terada E, Izutsu N, Takenaka T, Matsui Y, Yamada S, Asai K, Tateishi A, Umehara T, Yano Y, Bamba Y, Matsumoto K, Kishikawa T, Okada Y, Iida T, Kishima H
  Dysbiosis of Gut Microbiome Is Associated With Rupture of Cerebral Aneurysms
  Stroke. 2022 Mar;53(3):895-903. doi: 10.1161/STROKEAHA.121.034792. Epub 2021 Nov 3.
  PMID:  34727738
• Kitahara M, Shigeno Y, Shime M, Matsumoto Y, Nakamura S, Motooka D, Fukuoka S, Nishikawa H, Benno Y. 
  Vescimonas gen. nov., Vescimonas coprocola sp. nov., Vescimonas fastidiosa sp. nov., Pusillimonas gen. nov. and Pusillimonas faecalis sp. nov. isolated from human faeces
  Int J Syst Evol Microbiol. 2021 Nov;71(11). doi: 10.1099/ijsem.0.005066. PMID: 34726590
• Lu X, Hosono Y, Nagae M, Ishizuka S, Ishikawa E, Motooka D, Ozaki Y, Sax N, Maeda Y, Kato Y, Morita T, Shinnakasu R, Inoue T, Onodera T, Matsumura T, Shinkai M, Sato T, Nakamura S, Mori S, Kanda T, Nakayama EE, Shioda T, Kurosaki T, Takeda K, Kumanogoh A, Arase H, Nakagami H, Yamashita K, Takahashi Y, Yamasaki S
  Identification of conserved SARS-CoV-2 spike epitopes that expand public cTfh clonotypes in mild COVID-19 patients
  J Exp Med. 2021 Dec 6;218(12):e20211327. doi: 10.1084/jem.20211327. Epub 2021 Oct 14.
  PMID: 34647971 
• Tani H, Li B, Kusu T, Okumura R, Nishimura J, Okuzaki D, Motooka D, Arakawa S, Mori A, Yoshihara T, Ogino T, Tsai SH, Furuta Y, Muneta M, Nakamura S, Fukusaki E, Yamamoto K, Yagita H, Kayama H, Takeda K.
  The ATP-hydrolyzing ectoenzyme E-NTPD8 attenuates colitis through modulation of P2X4 receptor-dependent metabolism in myeloid cells
  Proc Natl Acad Sci U S A. 2021 Sep 28;118(39):e2100594118. doi: 10.1073/pnas.2100594118.​​​​​​​
  PMID: 34548395 
• Takezawa K, Fujita K, Matsushita M, Motooka D, Hatano K, Banno E, Shimizu N, Takao T, Takada S, Okada K, Fukuhara S, Kiuchi H, Uemura H, Nakamura S, Kojima Y, Nonomura N.
  The Firmicutes/Bacteroidetes ratio of the human gut microbiota is associated with prostate enlargement
  Prostate. 2021 Dec;81(16):1287-1293. doi: 10.1002/pros.24223. Epub 2021 Sep 13.​​​​​​​
  PMID: 34516694
• Fukushima K, Kitada S, Matsumoto Y, Komukai S, Kuge T, Kawasaki T, Matsuki T, Motooka D, Tsujino K, Miki M, Miki K, Nakamura S, Kida H.
  Serum GPL core antibody levels are associated with disease activity and treatment outcomes in Mycobacterium avium complex lung disease following first line antibiotic treatment
  Respir Med. 2021 Oct;187:106585. doi: 10.1016/j.rmed.2021.106585. Epub 2021 Aug 26.​​​​​​​P
  PMID: 34455309
• Umeda K, Ono HK, Wada T, Motooka D, Nakamura S, Nakamura H, Hu DL.
  High production of egc2-related staphylococcal enterotoxins caused a food poisoning outbreak
  Int J Food Microbiol. 2021 Nov 2;357:109366. doi: 10.1016/j.ijfoodmicro.2021.109366. Epub 2021 Aug 20.PMID: 34454396​​​​​​​
  PMID: 34454396
• Tomofuji Y, Maeda Y, Oguro-Igashira E, Kishikawa T, Yamamoto K, Sonehara K, Motooka D, Matsumoto Y, Matsuoka H, Yoshimura M, Yagita M, Nii T, Ohshima S, Nakamura S, Inohara H, Takeda K, Kumanogoh A, Okada Y.
  Metagenome-wide association study revealed disease-specific landscape of the gut microbiome of systemic lupus erythematosus in Japanese
  Ann Rheum Dis. 2021 Dec;80(12):1575-1583. doi: 10.1136/annrheumdis-2021-220687. Epub 2021 Aug​​​​​​​
  PMID: 34426398 
• Akazawa K, Kagara N, Sota Y, Motooka D, Nakamura S, Miyake T, Tanei T, Naoi Y, Shimoda M, Kim SJ, Noguchi S, Shimazu K.
  Comparison of the multigene panel test and OncoScan™ for the determination of HER2 amplification in breast cancer
  Oncol Rep. 2021 Oct;46(4):217. doi: 10.3892/or.2021.8168. Epub 2021 Aug 13.​​​​​​​
  PMID:  34396441
• Kami W, Kinjo T, Arakaki W, Oki H, Motooka D, Nakamura S, Fujita J
  Rapid and simultaneous identification of three mutations by the Novaplex™ SARS-CoV-2 variants I assay kit.
  J Clin Virol. 2021 Aug;141:104877. doi: 10.1016/j.jcv.2021.104877. Epub 2021 May 29.
  PMID: 34134034 Free PMC article
• Matsushita M, Fujita K, Hayashi T, Kayama H, Motooka D, Hase H, Jingushi K, Yamamichi G, Yumiba S, Tomiyama E, Koh Y, Hayashi Y, Nakano K, Wang C, Ishizuya Y, Kato T, Hatano K, Kawashima A, Ujike T, Uemura M, Imamura R, Rodriguez M, Gordetsky J, Netto G, Tsujikawa K, Nakamura S, Takeda K, Nonomura N
  Gut Microbiota-Derived Short-Chain Fatty Acids Promote Prostate Cancer Growth via IGF1 Signaling
  Cancer Res. 2021 Aug 1;81(15):4014-4026. doi: 10.1158/0008-5472.CAN-20-4090. Epub 2021 May 26.
  PMID: 34039634
• Kameoka S, Motooka D, Watanabe S, Kubo R, Jung N, Midorikawa Y, Shinozaki N, Sawai Y, Takeda A, Nakamura S
  Benchmark of 16S rRNA gene amplicon sequencing using Japanese gut microbiome data from the V1-V2 and V3-V4 primer sets
  BMC Genomics. 2021 Jul 10;22(1):527. doi: 10.1186/s12864-021-07746-4.
  PMID: 34246242 Free PMC article
• Izumi T, Morioka Y, Urayama S, Motooka D, Tamura T, Kawagishi T, Kanai Y, Kobayashi T, Ono C, Morinaga A, Tomiyama T, Iseda N, Kosai Y, Inokuchi S, Nakamura S, Tanaka T, Moriishi K, Kariwa H, Yoshizumi T, Mori M, Matsuura Y, Fukuhara T
  DsRNA Sequencing for RNA Virus Surveillance Using Human Clinical Samples​​​​​​​
  Viruses. 2021 Jul 6;13(7):1310. doi: 10.3390/v13071310.
  PMID: 34372516 Free PMC article
• Hsu CC, Okumura R, Motooka D, Sasaki R, Nakamura S, Iida T, Takeda K
  Alleviation of colonic inflammation by Lypd8 in a mouse model of inflammatory bowel disease
  Int Immunol. 2021 Jun 18;33(7):359-372. doi: 10.1093/intimm/dxab012.
  PMID: 33822948
• Higuchi Y, Suzuki T, Arimori T, Ikemura N, Mihara E, Kirita Y, Ohgitani E, Mazda O, Motooka D, Nakamura S, Sakai Y, Itoh Y, Sugihara F, Matsuura Y, Matoba S, Okamoto T, Takagi J, Hoshino A
  Engineered ACE2 receptor therapy overcomes mutational escape of SARS-CoV-2.
  Nat Commun. 2021 Jun 21;12(1):3802. doi: 10.1038/s41467-021-24013-y.
  PMID: 34155214 Free PMC article
• Matsushita M, Fujita K, Motooka D, Hatano K, Fukae S, Kawamura N, Tomiyama E, Hayashi Y, Banno E, Takao T, Takada S, Yachida S, Uemura H, Nakamura S, Nonomura N.
  The gut microbiota associated with high-Gleason prostate cancer.
  Cancer Sci. 2021 May 29. doi: 10.1111/cas.14998. Online ahead of print.
  PMID: 34051009 Free article
• Omori M, Kato-Kogoe N, Sakaguchi S, Fukui N, Yamamoto K, Nakajima Y, Inoue K, Nakano H, Motooka D, Nakano T, Nakamura S, Ueno T.
  Comparative evaluation of microbial profiles of oral samples obtained at different collection time points and using different methods.
  Clin Oral Investig. 2021 May;25(5):2779-2789. doi: 10.1007/s00784-020-03592-y. Epub 2020 Sep 25.
  PMID: 32975702
• Inamori K, Togashi Y, Fukuoka S, Akagi K, Ogasawara K, Irie T, Motooka D, Kobayashi Y, Sugiyama D, Kojima M, Shiiya N, Nakamura S, Maruyama S, Suzuki Y, Ito M, Nishikawa H.
  Importance of lymph node immune responses in MSI-H/dMMR colorectal cancer.
  JCI Insight. 2021 May 10;6(9):137365. doi: 10.1172/jci.insight.137365.
  PMID: 33755600 Free article.
• Ojima M, Shimizu K, Motooka D, Ishihara T, Nakamura S, Shintani A, Ogura H, Iida T, Yoshiya K, Shimazu T.
  Gut Dysbiosis Associated with Antibiotics and Disease Severity and Its Relation to Mortality in Critically Ill Patients.
  Dig Dis Sci. 2021 May 3:1-13. doi: 10.1007/s10620-021-07000-7. Online ahead of print.
  PMID: 33939152 Free PMC article.​​​​​​​
• Punpanich W, Sukharom R, Wichukchinda N, Kaihatsu K, Motooka D, Nakamura S
  Metagenomic profiling of potential pathogens isolated from blood samples and tracheal aspirates of critically ill children with persistent fever unresponsive to broad-spectrum antibiotics
  THE SOUTHEAST ASIAN JOURNAL OF TROPICAL MEDICINE AND PUBLIC HEALTH; 2021 Apr 15
• Umeda K, Nakamura H, Fukuda A, Matsumoto Y, Motooka D, Nakamura S, Yasui Y, Yoshida H, Kawahara R.
  Genomic characterization of clinical Enterobacter roggenkampii co-harbouring blaIMP-1- and blaGES-5-encoding IncP6 and mcr-9-encoding IncHI2 plasmids isolated in Japan.
  J Glob Antimicrob Resist. 2021 Mar;24:220-227. doi: 10.1016/j.jgar.2020.11.028. Epub 2020 Dec 29.
  PMID: 33385587 Free article.
• Konishi T, Kusakabe S, Hino A, Inamoto K, Yoshifuji K, Kiridoshi Y, Takeshita K, Sasajima S, Toya T, Igarashi A, Najima Y, Kobayashi T, Doki N, Motooka D, Nakamura S, Suyama M, Suda W, Shiota A, Atarashi K, Hattori M, Honda K, Yokota T, Ohashi K, Shibayama H, Fukushima K, Kakihana K.
  Low diversity of gut microbiota in the early phase of post-bone marrow transplantation increases the risk of chronic graft-versus-host disease.
  Bone Marrow Transplant. 2021 Mar 8. doi: 10.1038/s41409-021-01249-2. Online ahead of print.
  PMID: 33686248 DOI: 10.1038/s41409-021-01249-2
• Kato-Kogoe N, Sakaguchi S, Kamiya K, Omori M, Gu YH, Ito Y, Nakamura S, Nakano T, Tamaki J, Ueno T, Hoshiga M.K.
  Characterization of Salivary Microbiota in Patients with Atherosclerotic Cardiovascular Disease: A Case-Control Study.
  J Atheroscler Thromb. 2021 Feb 19. doi: 10.5551/jat.60608. Online ahead of print.
  PMID: 33612553 Free article.
• Yasugi M, Hatoya S, Motooka D, Matsumoto Y, Shimamura S, Tani H, Furuya M, Mie K, Miyake M, Nakamura S, Shimada T.
  Whole-genome analyses of extended-spectrum or AmpC β-lactamase-producing Escherichia coli isolates from companion dogs in Japan.
  PLoS One. 2021 Feb 5;16(2):e0246482. doi: 10.1371/journal.pone.0246482. eCollection 2021.
  PMID: 33544781 Free PMC article.
• Sotozono M, Kuriki N, Asahi Y, Noiri Y, Hayashi M, Motooka D, Nakamura S, Machi H, Iida T, Ebisu S.
  Impacts of sleep on the characteristics of dental biofilm.
  Sci Rep. 2021 Jan 8;11(1):138. doi: 10.1038/s41598-020-80541-5.
  PMID: 33420225 Free PMC article.
• Ogawa T, Okumura R, Nagano K, Minemura T, Izumi M, Motooka D, Nakamura S, Iida T, Maeda Y, Kumanogoh A, Tsutsumi Y, Takeda K.
  Oral intake of silica nanoparticles exacerbates intestinal inflammation.
  Biochem Biophys Res Commun. 2021 Jan 1;534:540-546. doi: 10.1016/j.bbrc.2020.11.047. Epub 2020 Nov 22.
  PMID: 33239174 Free article.
• Munakata S, Tohya M, Matsuzawa H, Tsuchiya Y, Amemiya K, Hagiwara T, Motooka D, Nakamura S, Sakamoto K, Watanabe S.
  Analysis of appendectomy samples identified dysbiosis in acute appendicitis. inflammation.
  Biosci Microbiota Food Health. 2021;40(2):92-97. doi: 10.12938/bmfh.2020-051. Epub 2020 Nov 14.
  PMID: 33996365 Free PMC article.

2020

• Kishikawa T, Ogawa K, Motooka D, Hosokawa A, Kinoshita M, Suzuki K, Yamamoto K, Masuda T, Matsumoto Y, Nii T, Maeda Y, Nakamura S, Inohara H, Mochizuki H, Okuno T, Okada Y.
  A Metagenome-Wide Association Study of Gut Microbiome in Patients With Multiple Sclerosis Revealed Novel Disease Pathology.
  Front Cell Infect Microbiol. 2020 Dec 11;10:585973. doi: 10.3389/fcimb.2020.585973. eCollection 2020. PMID: 33363050 Free PMC article.
• Harada T, Motooka D, Nakamura S, Yamamoto Y, Yamaguchi T, Kawahara R, Kawatsu K.
  Detection of Genetic Elements Carrying vanA in Vancomycin-Resistant Enterococcus saigonensis VE80T Isolated from Retail Chicken Meat.
  Foodborne Pathog Dis. 2020 Dec;17(12):772-774. doi: 10.1089/fpd.2020.2827. Epub 2020 Aug 14.PMID: 32799583
• Kuge T, Fukushima K, Matsumoto Y, Abe Y, Akiba E, Haduki K, Saito H, Nitta T, Kawano A, Kawasaki T, Matsuki T, Kagawa H, Motooka D, Tsujino K, Miki M, Miki K, Kitada S, Nakamura S, Iida T, Kida H.
  Pulmonary disease caused by a newly identified mycobacterium: Mycolicibacterium toneyamachuris: a case report

  BMC Infect Dis. 2020 Nov 25;20(1):888. doi: 10.1186/s12879-020-05626-y.PMID: 33238934 Free PMC article. 

• Kohama Y, Higo S, Masumura Y, Shiba M, Kondo T, Ishizu T, Higo T, Nakamura S, Kameda S, Tabata T, Inoue H, Motooka D, Okuzaki D, Takashima S, Miyagawa S, Sawa Y, Hikoso S, Sakata Y.
  Adeno-associated virus-mediated gene delivery promotes S-phase entry-independent precise targeted integration in cardiomyocytes.
  Sci Rep. 2020 Sep 18;10(1):15348. doi: 10.1038/s41598-020-72216-y.PMID: 32948788 Free PMC article.
• Shimizu K, Takahashi A, Motooka D, Nakamura S, Tomono K, Ogura H, Shimazu T.
  Fecal Gram staining of phagocytosed bacteria to differentiate methicillin-resistant Staphylococcus aureus: A case report.
  J Infect Chemother. 2020 Oct;26(10):1078-1081. doi: 10.1016/j.jiac.2020.05.021. Epub 2020 Jun 29
  PMID: 32611517
• Yoshinami T, Kagara N, Motooka D, Nakamura S, Miyake T, Tanei T, Naoi Y, Shimoda M, Shimazu K, Kim SJ, Noguchi S.
  Detection of ctDNA With Personalized Molecular Barcode NGS and Its Clinical Significance in Patients With Early Breast Cancer.
  Transl Oncol. 2020 Aug;13(8):100787. doi: 10.1016/j.tranon.2020.100787. Epub 2020 May 27.
  PMID: 32473569
• Furubayashi T, Ueda K, Bansho Y, Motooka D, Nakamura S, Mizuuchi R, Ichihashi N.
  Emergence and diversification of a host-parasite RNA ecosystem through Darwinian evolution.
  Elife. 2020 Jul 21;9:e56038. doi: 10.7554/eLife.56038.
  PMID: 32690137 Free PMC article.
• Al Kadi M, Jung N, Ito S, Kameoka S, Hishida T, Motooka D, Nakamura S, Iida T, Okuzaki D.
  UNAGI: An Automated Pipeline for Nanopore Full-Length cDNA Sequencing Uncovers Novel Transcripts and Isoforms in Yeast
  Funct Integr Genomics. 2020 Jul;20(4):523-536. doi: 10.1007/s10142-020-00732-1. Epub 2020 Jan 18.
  PMID: 31955296
• Abe Y, Fukushima K, Hosono Y, Matsumoto Y, Motooka D, Ose N, Nakamura S, Kitada S, Kida H, Kumanogoh A.
  Host Immune Response and Novel Diagnostic Approach to NTM Infections
  Int J Mol Sci. 2020 Jun 18;21(12):4351. doi: 10.3390/ijms21124351.
  PMID: 32570978 Free PMC article.
• Fukushima K, Miki M, Matsumoto Y, Uda E, Yamamoto Y, Kogita Y, Kagawa Y, Matsuki T, Kagawa H, Oshitani Y, Motooka D, Tsujino K, Yoshimura K, Miki K, Hayashi A, Nakamura S, Kitada S, Takeuchi Y, Kida H.
  The impact of adjuvant surgical treatment of nontuberculous mycobacterial pulmonary disease on prognosis and outcome.
  Respir Res. 2020 Jun 16;21(1):153. doi: 10.1186/s12931-020-01420-1.
  PMID: 32546152 Free PMC article.
• Hiramatsu Y, Suzuki K, Motooka D, Nakamura S, Horiguchi Y.
  Expression of Small RNAs of Bordetella Pertussis Colonizing Murine Tracheas. 
  Microbiol Immunol. 2020 Jun;64(6):469-475. doi: 10.1111/1348-0421.12791. Epub 2020 May 13.
  PMID: 32227523
• Kusakabe S, Fukushima K, Yokota T, Hino A, Fujita J, Motooka D, Nakamura S, Shibayama H, Kanakura Y.
  Enterococcus: A Predictor of Ravaged Microbiota and Poor Prognosis After Allogeneic Hematopoietic Stem Cell Transplantation.
  Biol Blood Marrow Transplant. 2020 May;26(5):1028-1033. doi: 10.1016/j.bbmt.2020.01.019. Epub 2020 Feb 1.
  PMID: 32018061
• Ohkura N, Yasumizu Y, Kitagawa Y, Tanaka A, Nakamura Y, Motooka D, Nakamura S, Okada Y, Sakaguchi S.
  Regulatory T Cell-Specific Epigenomic Region Variants Are a Key Determinant of Susceptibility to Common Autoimmune Diseases.
  Immunity. 2020 Apr 26:S1074-7613(20)30164-3. doi: 10.1016/j.immuni.2020.04.006. Online ahead of print.
  PMID: 32362325
• Mohsin M, Tanaka K, Kawahara R, Kondo S, Noguchi H, Motooka D, Nakamura S, Khong DT, Nguyen TN, Hoang TN, Yamamoto Y.
  Whole-genome Sequencing and Comparative Analysis of the Genomes of Bacteroides Thetaiotaomicron and Escherichia Coli Isolated From a Healthy Resident in Vietnam.
  J Glob Antimicrob Resist. 2020 Mar 19;21:65-67. doi: 10.1016/j.jgar.2020.02.034. Online.
  ahead of print. PMID: 32200128
• Teruya S, Hiramatsu Y, Nakamura K, Fukui-Miyazaki A, Tsukamoto K, Shinoda N, Motooka D, Nakamura S, Ishigaki K, Shinzawa N, Nishida T, Sugihara F, Maeda Y, Horiguchi Y.
  Bordetella dermonecrotic toxin is a neurotropic virulence factor that uses CaV3.1 as the cell surface receptor. N-Glyca
  mBio. 2020 Mar 24;11(2):e03146-19. doi: 10.1128/mBio.03146-19.
  PMID: 32209694 PMCID: PMC7157530 doi: 10.1128/mBio.03146-19
• Fukushima K, Satoh T, Sugihara F, Sato Y, Okamoto T, Mitsui Y, Yoshio S, Li S, Nojima S, Motooka D, Nakamura S, Kida H, Standley DM, Morii E, Kanto T, Yanagita M, Matsuura Y, Nagasawa T, Kumanogoh A, Akira S.
  Dysregulated Expression of the Nuclear Exosome Targeting Complex Component Rbm7 in Nonhematopoietic Cells Licenses the Development of Fibrosis.
  Immunity. 2020 Mar 17;52(3):542-556.e13. doi: 10.1016/j.immuni.2020.02.007. 10.1083/jcb.201706135. Epub 2017 Dec 18.
  PMID: 32187520
• Yamaguchi T, Kawahara R, Hamamoto K, Hirai I, Khong DT, Nguyen TN, Tran HT, Motooka D, Nakamura S, Yamamoto Y.
  High Prevalence of Colistin-Resistant Escherichia Coli With Chromosomally Carried mcr-1 in Healthy Residents in Vietnam.
  mSphere. 2020 Mar 4;5(2):e00117-20. doi: 10.1128/mSphere.00117-20.
  PMID: 32132160
• Masunaga N, Kagara N, Motooka D, Nakamura S, Miyake T, Tanei T, Naoi Y, Shimoda M, Shimazu K, Kim SJ, Noguchi S.
  Molecular Barcode Sequencing of the Whole Ligand Binding Domain of the ESR1 Gene in Cell-Free DNA From Patients With Metastatic Breast Cancer.
  Transl Oncol. 2020 Mar;13(3):100735. doi: 10.1016/j.tranon.2019.12.007. Epub 2020 Feb 24. PMID: 32105989
• Kusakabe S, Fukushima K, Maeda T, Motooka D, Nakamura S, Fujita J, Yokota T, Shibayama H, Oritani K, Kanakura Y.
  Pre- And Post-Serial Metagenomic Analysis of Gut Microbiota as a Prognostic Factor in Patients Undergoing Haematopoietic Stem Cell Transplantation.
  Br J Haematol. 2020 Feb;188(3):438-449. doi: 10.1111/bjh.16205. Epub 2019 Sep 30.
  PMID: 31566729
• Yasugi M, Motooka D, Nakamura S, Miyake M.
  Phosphorothioation of foreign DNA influences the transformation efficiency in Clostridium perfringens NCTC8239. 
  Anaerobe, 2020 Feb, 61:102085.doi: 10.1016/j.anaerobe.2019.102085. 
  PMID: 31401257
• Tachibana SI, Matsuzaki S, Tanaka M, Shiota M, Motooka D, Nakamura S, Goto SG.
  The Autophagy-Related Protein GABARAP Is Induced During Overwintering in the Bean Bug (Hemiptera: Alydidae).
  J Econ Entomol. 2020 Feb 8;113(1):427-434. doi: 10.1093/jee/toz287.
  PMID: 31693096
• Yamamoto SP, Motooka D, Egawa K, Kaida A, Hirai Y, Kubo H, Motomura K, Nakamura S, Iritani N. 
  Novel human reovirus isolated from children and its long-term circulation with reassortments. 
  Sci Rep. 2020 Jan 22, 10(1), 963. doi: 10.1038/s41598-020-58003-9
  PMID: 31969658  PMCID: PMC6976588.
• Umeda K, Nakamura H, Fukuda A, Yamaguchi T, Matsumoto Y, Motooka D, Nakamura S, Kawahara R. 
  Molecular characterization of blaKHM-1 encoding plasmid in an Enterobacter hormaechei subsp. hoffmannii isolate from blood culture. 
  PLoS One. 2020 Jan 13, 15(1), e0227605. doi: 10.1371/journal.pone.0227605. eCollection 2020.
  PMID: 31929575 PMCID: PMC6957179

2019

• Matsumoto Y, Kinjo T, Motooka D, Nabeya D.Jung N, Uechi K, Horii T, Iida T, Fujita  J, Nakamura S.
  Comprehensive subspecies identification of 175 nontuberculous mycobacteria species based on 7547 genomic profiles.
  Emerg Microbes Infect, 2019 , 8(1), 1043-1053, doi: 10.1080/22221751.2019.1637702..
  PMID: 31287781 PMC6691804
• Izumi T, Sakata K, Okuzaki D, Inokuchi S, Tamura T, Motooka D, Nakamura S, Ono C, Shimokawa M, Matsuura Y, Mori M, Fukuhara T, Yoshizumi T. Matsumo
  Characterization of human pegivirus infection in liver transplantation recipients.
  J Med Virol, 2019 Dec, 91(12), 2093-2100. doi: 10.1002/jmv.25555
  PMID: 31350911
• Pareek S, Kurakawa T, Das B, Motooka D, Nakaya S, Rongsen-Chandola T, Goyal N, Kayama H, Dodd D, Okumura R, Maeda Y, Fujimoto K, Nii T, Ogawa T, Iida T, Bhandari N, Kida T, Nakamura S, Nair GB, Takeda K.
  Comparison of Japanese and Indian Intestinal Microbiota Shows Diet-Dependent Interaction Between Bacteria and Fungi.
  NPJ Biofilms Microbiomes. 2019 Dec 20;5:37. doi: 10.1038/s41522-019-0110-9. eCollection 2019.
  PMID: 31885873
• Le L, Tran LK, Le-Ha TD, Tran BP, Le-Vo HN, Nguyen YN, Nguyen HL, Hoang-Ngoc KQ, Matsumoto Y, Motooka D, Nakamura S, Jones JW, Iida T, Cao V.
  Coexistence Of Plasmid-Mediated mcr-1 And bla NDM-4 Genes In A Klebsiella pneumoniae Clinical Strain In Vietnam.
  Infect Drug Resist. 2019 Nov 27;12:3703-3707. doi: 10.2147/IDR.S226612. eCollection 2019.
  PMID: 31819552
• Ichikawa-Seki M, Motooka D, Kinami A, Murakoshi F, Takahashi Y, Aita J, Hayashi K, Tashibu A, Nakamura S, Iida T, Horii T, Nishikawa Y. 
  Specific Increase of Fusobacterium in the Faecal Microbiota of Neonatal Calves Infected With Cryptosporidium Parvum. 
  Sci Rep. 2019 Aug 29;9(1):12517. doi: 10.1038/s41598-019-48969-6. 
  PMID: 31467354
• Asao K, Hashida N, Ando S, Motooka D, Kurakami H, Nakamura S, Yamashita D, Maruyama K, Kawasaki S, Yamada T, Iida T, Nishida K. Conjunctival Dysbiosis in Mucosa-Associated Lymphoid Tissue Lymphoma.
  Sci Rep. 2019 Jun 10;9(1):8424. doi: 10.1038/s41598-019-44861-5.
  PMID: 31182732
• Kayama H, Tani H, Kitada S, Opasawatchai A, Okumura R, Motooka D, Nakamura S, Takeda K.
  BATF2 Prevents T-cell-mediated Intestinal Inflammation Through Regulation of the IL-23/IL-17 Pathway.
  Int Immunol. 2019 May 21;31(6):371-383. doi: 10.1093/intimm/dxz014.
  PMID: 30753547
• Tao C, Kinoshita N, Shoji K, Motooka D, Nakamura S, Eura R, Ueoka K, Kubota M, Ishiguro A, Miyairi I. 
  Urinary tract infection due to anaerobic bacteria in a two-month-old infant. 
  J Infect Chemother, 2019 May, 25(5), 368-370. doi: 10.1016/j.jiac.2018.11.016
  PMID: 30686700 
• Le-Ha TD, Le L, Le-Vo HN, Anda M, Motooka D, Nakamura S, Tran LK, Tran PT, Iida T, Cao V.
  Characterization of a Carbapenem- And Colistin-Resistant Enterobacter cloacae Carrying Tn 6901 in bla NDM-1 Genomic Context.
  Infect Drug Resist. 2019 Apr 3;12:733-739. doi: 10.2147/IDR.S194495. eCollection 2019.
  PMID: 31118694
• Takeda K, Sakakibara S, Yamashita K, Motooka D, Nakamura S, El Hussien MA, Katayama J, Maeda Y, Nakata M, Hamada S, Standley DM, Hayama M, Shikina T, Inohara H, Kikutani H.
  Allergic Conversion of Protective Mucosal Immunity Against Nasal Bacteria in Patients With Chronic Rhinosinusitis With Nasal Polyposis.
  J Allergy Clin Immunol. 2019 Mar;143(3):1163-1175.e15. doi: 10.1016/j.jaci.2018.07.006. Epub 2018 Jul 25.
  PMID: 30053529

2018

• Oki H, Kawahara K, Maruno T, Imai T, Muroga Y, Fukakusa S, Iwashita T, Kobayashi Y, Matsuda S, Kodama T, Iida T, Yoshida T, Ohkubo T, Nakamura S.
  Interplay of a secreted protein with type IVb pilus for efficient enterotoxigenic Escherichia coli colonization.
  Proc Natl Acad Sci U S A. 2018 Jun 25. pii: 201805671. doi: 10.1073/pnas.1805671115.
  [Epub ahead of print]PMID: 29941571
• Bielinska K, Radkowski M, Grochowska M, Perlejewski K, Huc T, Jaworska K, Motooka D, Nakamura S, Ufnal M.
  High salt intake increases plasma trimethylamine N-oxide (TMAO) concentration and produces gut dysbiosis in rats.
  Nutrition. 2018 Mar 22;54:33-39. doi: 10.1016/j.nut.2018.03.004.
  [Epub ahead of print] PubMed PMID: 29705499.
• Yamaguchi T, Kawahara R, Harada K, Teruya S, Nakayama T, Motooka D, Nakamura S, Nguyen PD, Kumeda Y, Van Dang C, Hirata K, Yamamoto Y.
  The Presence of Colisitn resistance gene mcr-1 and -3 in ESBL producing Escherichia coli isolated from food in Ho Chi Minh City, Vietnam.
  FEMS Microbiol Lett. 2018 Apr 19. doi: 10.1093/femsle/fny100.
  [Epub ahead of print] PubMed PMID: 29684127.
• Katsimichas T, Ohtani T, Motooka D, Tsukamoto Y, Kioka H, Nakamoto K, Konishi S, Chimura M, Sengoku K, Miyawaki H, Sakaguchi T, Okumura R, Theofilis K, Iida T, Takeda K, Nakamura S, Sakata Y.
  Non-Ischemic Heart Failure With Reduced Ejection Fraction Is Associated With Altered Intestinal Microbiota. Circ J. 2018 Mar 30.
  doi: 10.1253/circj.CJ-17-1285.
  [Epub ahead of print] PubMed PMID: 29607983
• Yoshizawa H, Motooka D, Matsumoto Y, Katada R, Nakamura S, Morii E, Iida T, Matsumoto H.
  A case of severe soft tissue infection due to Streptococcus tigurinus diagnosed by necropsy in which genomic analysis was useful for clarifying its pathogenicity.
  Pathol Int. 2018 Mar 23. doi: 10.1111/pin.12656.
  [Epub ahead of print] PubMed PMID: 29570912.
• Hirata T, Mishra SK, Nakamura S, Saito K, Motooka D, Takada Y, Kanzawa N, Murakami Y, Maeda Y, Fujita M, Yamaguchi Y, Kinoshita T.
  Identification of a Golgi GPI-N-acetylgalactosamine transferase with tandem transmembrane regions in the catalytic domain.
  Nat Commun. 2018 Jan 26;9(1):405. doi: 10.1038/s41467-017-02799-0.
  PubMed PMID: 29374258; PubMed Central PMCID: PMC5785973.
• Aoki K, Harada S, Yahara K, Ishii Y, Motooka D, Nakamura S, Akeda Y, Iida T, Tomono K, Iwata S, Moriya K, Tateda K.
  Molecular Characterization of IMP-1-Producing Enterobacter cloacae Complex Isolates in Tokyo.
  Antimicrob Agents Chemother. 2018 Feb 23;62(3). pii: e02091-17. doi: 10.1128/AAC.02091-17. Print 2018 Mar.
  PubMed PMID: 29311089; PubMed Central PMCID: PMC5826111.
• Liu YS, Guo XY, Hirata T, Rong Y, Motooka D, Kitajima T, Murakami Y, Gao XD, Nakamura S, Kinoshita T, Fujita M.
  N-Glycan-dependent protein folding and endoplasmic reticulum retention regulate GPI-anchor processing.
  J Cell Biol. 2018 Feb 5;217(2):585-599. doi: 10.1083/jcb.201706135. Epub 2017 Dec 18.
  PubMed PMID: 29255114; PubMed Central PMCID: PMC5800811.
• Ikeda M, Shimizu K, Ogura H, Kurakawa T, Umemoto E, Motooka D, Nakamura S, Ichimaru N, Takeda K, Takahara S, Hirano SI, Shimazu T.
  Hydrogen-Rich Saline Regulates Intestinal Barrier Dysfunction, Dysbiosis, and Bacterial Translocation in a Murine Model of Sepsis. 
  Shock. 2018 Dec;50(6):640-647. doi: 10.1097/SHK.0000000000001098.
  PMID: 29293174
• Tanimoto Y, Tamai S, Matsuzaki T, Takeuchi N, Noju T, Yanagida S, Kage-Nakadai E, Yamaguchi Y, Kodama T, Nakamura S, Motooka D, Iida T, Nishikawa Y.
  Diffusely Adherent Escherichia coli Strains Isolated From Healthy Carriers Suppress Cytokine Secretions of Epithelial Cells Stimulated by Inflammatory Substances.
  Infect Immun. 2018 Dec 19;87(1):e00683-18. doi: 10.1128/IAI.00683-18. Print 2019 Jan.
  PMID: 30323026  PMCID: PMC6300626
• Uda K, Koyama-Wakai C, Shoji K, Iwase N, Motooka D, Nakamura S, Miyairi I. 
  WU polyomavirus detected in children with severe respiratory failure.
  J Clin Virol, 2018 Oct, 107, 25-28. doi: 10.1016/j.jcv.2018.08.003. Epub 2018 Aug 9.
  PMID: 30114678 PMCID: PMC7106500
• Nagahama Y, Shimoda M, Mao G, Singh SK, Kozakai Y, Sun X, Motooka D, Nakamura S, Tanaka H, Satoh T, Maeda K, Akira S.
  Regnase-1 Controls Colon Epithelial Regeneration via Regulation of mTOR and Purine Metabolism.
  Proc Natl Acad Sci U S A. 2018 Oct 23;115(43):11036-11041. doi: 10.1073/pnas.1809575115. Epub 2018 Oct 8.
  PMID: 30297433
• Kayama H, Kohyama M, Okuzaki D, Motooka D, Barman S, Okumura R, Muneta M, Hoshino K, Sasaki I, Ise W, Matsuno H, Nishimura J, Kurosaki T, Nakamura S, Arase H, Kaisho T, Takeda K.
  Heme Ameliorates Dextran Sodium Sulfate-Induced Colitis Through Providing Intestinal Macrophages With Noninflammatory Profiles.
  Proc Natl Acad Sci U S A. 2018 Aug 14;115(33):8418-8423. doi: 10.1073/pnas.1808426115. Epub 2018 Jul 30.
  PMID: 30061415
• Masunaga N, Kagara N, Motooka D, Nakamura S, Miyake T, Tanei T, Naoi Y, Shimoda M, Shimazu K, Kim SJ, Noguchi S.
  Highly Sensitive Detection of ESR1 Mutations in Cell-Free DNA From Patients With Metastatic Breast Cancer Using Molecular Barcode Sequencing.
  Breast Cancer Res Treat. 2018 Jan;167(1):49-58. doi: 10.1007/s10549-017-4487-y. Epub 2017 Sep 13.
  PMID: 28905136
• Theethakaew C, Nakamura S, Motooka D, Matsuda S, Kodama T, Chonsin K, Suthienkul O, Iida T.
  Corrigendum to "Plasmid Dynamics in Vibrio Parahaemolyticus Strains Related to Shrimp Acute Hepatopancreatic Necrosis Syndrome (AHPNS)" [Infect. Genet. Evol. (2017) 51: 211-218]
  Infect Genet Evol. 2018 Jan;57:185. doi: 10.1016/j.meegid.2017.10.012. Epub 2017 Oct 18.
  PMID: 29054533 No abstract available.
• Nakamura S, Suzuki S, Saito H, Nishiyama KI.
  Cholesterol blocks spontaneous insertion of membrane proteins into liposomes of phosphatidylcholine. 
  J Biochem. 2018 Apr 1;163(4):313-319. doi: 10.1093/jb/mvx083 .
  PMID: 29228210

2017

• Lipowski D, Popiel M, Perlejewski K, Nakamura S, Bukowska-Osko I, Rzadkiewicz E, Dzieciatkowski T, Milecka A, Wenski W, Ciszek M, Debska-Slizien A, Ignacak E, Cortes KC, Pawelczyk A, Horban A, Radkowski M, Laskus T
  A Cluster of Fatal Tick-borne Encephalitis Virus Infection in Organ Transplant Setting.
  J Infect Dis. 2017 Mar 15;215(6):896-901. doi: 10.1093/infdis/jix040.
  PMID: 28453842
• Ikeda M, Shimizu K, Ogura H, Kurakawa T, Umemoto E, Motooka D, Nakamura S, Ichimaru N, Takeda K, Takahara S, Hirano SI, Shimazu T.
  Hydrogen-Rich Saline Regulates Intestinal Barrier Dysfunction, Dysbiosis and Bacterial Translocation in a Murine Model of Sepsis.
  Shock. 2017 Dec 29. doi: 10.1097/SHK.0000000000001098.
  [Epub ahead of print] PubMed PMID: 29293174.
• Sakakibara S, Arimori T, Yamashita K, Jinzai H, Motooka D, Nakamura S, Li S, Takeda K, Katayama J, El Hussien MA, Narazaki M, Tanaka T, Standley DM, Takagi J, Kikutani H.
  Clonal evolution and antigen recognition of anti-nuclear antibodies in acute systemic lupus erythematosus.
  Sci Rep. 2017 Nov 27;7(1):16428. doi: 10.1038/s41598-017-16681-y.
  PubMed PMID: 29180749; PubMed Central PMCID: PMC5703881.
• Shibai A, Takahashi Y, Ishizawa Y, Motooka D, Nakamura S, Ying BW, Tsuru S.
  Mutation accumulation under UV radiation in Escherichia coli.
  Sci Rep. 2017 Nov 6;7(1):14531. doi: 10.1038/s41598-017-15008-1.
  PubMed PMID: 29109412; PubMed Central PMCID: PMC5674018.
• Sugawara Y, Akeda Y, Sakamoto N, Takeuchi D, Motooka D, Nakamura S, Hagiya H, Yamamoto N, Nishi I, Yoshida H, Okada K, Zin KN, Aye MM, Tomono K, Hamada S.
  Genetic characterization of blaNDM-harboring plasmids in carbapenem-resistant Escherichia coli from Myanmar.
  PLoS One. 2017 Sep 14;12(9):e0184720. doi: 10.1371/journal.pone.0184720. eCollection 2017. Erratum in: PLoS One. 2017 Dec 6;12 (12):e0189435.
  PubMed PMID: 28910381; PubMed Central PMCID: PMC5598989.
• Masunaga N, Kagara N, Motooka D, Nakamura S, Miyake T, Tanei T, Naoi Y, Shimoda M, Shimazu K, Kim SJ, Noguchi S.
  Highly sensitive detection of ESR1 mutations in cell-free DNA from patients with metastatic breast cancer using molecular barcode sequencing.
  Breast Cancer Res Treat. 2018 Jan;167(1):49-58. doi: 10.1007/s10549-017-4487-y.
  Epub 2017 Sep 13. PubMed PMID: 28905136.
• Yoshizawa H, Motooka D, Katada R, Matsumoto Y, Nakamura S, Morii E, Iida T, Matsumoto H.
  Whole-Genome Sequence of Streptococcus tigurinus Strain osk_001, Isolated from Postmortem Material.
  Genome Announc. 2017 Aug 31;5(35). pii: e00878-17. doi: 10.1128/genomeA.00878-17.
  PubMed PMID: 28860244; PubMed Central PMCID: PMC5578842.
• Rahlwes KC, Ha SA, Motooka D, Mayfield JA, Baumoel LR, Strickland JN, Torres-Ocampo AP, Nakamura S, Morita YS.
  The cell envelope-associated phospholipid-binding protein LmeA is required for mannan polymerization in mycobacteria.
  J Biol Chem. 2017 Oct 20;292(42):17407-17417. doi: 10.1074/jbc.M117.804377.
  Epub 2017 Aug 29. PubMed PMID: 28855252; PubMed Central PMCID: PMC5655517.
• Kurihara T, Fukuhara T, Ono C, Yamamoto S, Uemura K, Okamoto T, Sugiyama M, Motooka D, Nakamura S, Ikawa M, Mizokami M, Maehara Y, Matsuura Y.
  Suppression of HBV replication by the expression of nickase- and nuclease dead-Cas9.
  Sci Rep. 2017 Jul 21;7(1):6122. doi: 10.1038/s41598-017-05905-w.
  PubMed PMID: 28733609; PubMed Central PMCID: PMC5522428.
• 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.
  NPJ Biofilms Microbiomes. 2016 Aug 10;2:16018. doi: 10.1038/npjbiofilms.2016.18. eCollection 2016.
  PubMed PMID: 28721251; PubMed Central PMCID: PMC5515266.
• Honma H, Kawai S, Motooka D, Nakamura S, Tougan T, Horii T, Arisue N.
  Draft Genome Sequence of Plasmodium gonderi, a Malaria Parasite of African Old World Monkeys.
  Genome Announc. 2017 Jul 13;5(28). pii: e00612-17. doi: 10.1128/genomeA.00612-17.
  PubMed PMID: 28705975; PubMed Central PMCID: PMC5511914.
• Nakata J, Nakae Y, Kawakami M, Morimoto S, Motooka D, Hosen N, Fujiki F, Nakajima H, Hasegawa K, Nishida S, Tsuboi A, Oji Y, Oka Y, Kumanogoh A, Sugiyama H.
  Wilms tumour 1 peptide vaccine as a cure-oriented post-chemotherapy strategy for patients with acute myeloid leukaemia at high risk of relapse.
  Br J Haematol. 2017 May 23. doi: 10.1111/bjh.14768.
  [Epub ahead of print] PubMed PMID: 28542830.
• Ono C, Fukuhara T, Motooka D, Nakamura S, Okuzaki D, Yamamoto S, Tamura T, Mori H, Sato A, Uemura K, Fauzyah Y, Kurihara T, Suda T, Nishio A, Hmwe SS, Okamoto T, Tatsumi T, Takehara T, Chayama K, Wakita T, Koike K, Matsuura Y.
  Characterization of miR-122-independent propagation of HCV.
  PLoS Pathog. 2017 May 11;13(5):e1006374. doi: 10.1371/journal.ppat.1006374. eCollection 2017 May.
  PubMed PMID: 28494029; PubMed Central PMCID: PMC5441651.
• Tanaka A, Tumkosit U, Nakamura S, Motooka D, Kishishita N, Priengprom T, Sa-Ngasang A, Kinoshita T, Takeda N, Maeda Y.
  Genome-Wide Screening Uncovers the Significance of N-Sulfation of Heparan Sulfate as a Host Cell Factor for Chikungunya Virus Infection.
  J Virol. 2017 Jun 9;91(13). pii: e00432-17. doi: 10.1128/JVI.00432-17. Print 2017 Jul 1.
  PubMed PMID: 28404855; PubMed Central PMCID: PMC5469253.
• Theethakaew C, Nakamura S, Motooka D, Matsuda S, Kodama T, Chonsin K, Suthienkul O, Iida T.
  Plasmid dynamics in Vibrio parahaemolyticus strains related to shrimp Acute Hepatopancreatic Necrosis Syndrome (AHPNS).
  Infect Genet Evol. 2017 Jul;51:211-218. doi: 10.1016/j.meegid.2017.04.007.
  Epub 2017 Apr 9. Erratum in: Infect Genet Evol. 2018 Jan;57:185. PubMed PMID: 28404482.
• Tanigawa J, Mimatsu H, Mizuno S, Okamoto N, Fukushi D, Tominaga K, Kidokoro H, Muramatsu Y, Nishi E, Nakamura S, Motooka D, Nomura N, Hayasaka K, Niihori T, Aoki Y, Nabatame S, Hayakawa M, Natsume J, Ozono K, Kinoshita T, Wakamatsu N, Murakami Y.
  Phenotype-genotype correlations of PIGO deficiency with variable phenotypes from infantile lethality to mild learning difficulties.
  Hum Mutat. 2017 Jul;38(7):805-815. doi: 10.1002/humu.23219.
  Epub 2017 Apr 20. PubMed PMID: 28337824.
• Fukuhara T, Yamamoto S, Ono C, Nakamura S, Motooka D, Mori H, Kurihara T, Sato A, Tamura T, Motomura T, Okamoto T, Imamura M, Ikegami T, Yoshizumi T, Soejima Y, Maehara Y, Chayama K, Matsuura Y.
  Quasispecies of Hepatitis C Virus Participate in Cell-Specific Infectivity.
  Sci Rep. 2017 Mar 22;7:45228. doi: 10.1038/srep45228.
  PubMed PMID: 28327559; PubMed Central PMCID: PMC5361118.
• Motooka D, Fujimoto K, Tanaka R, Yaguchi T, Gotoh K, Maeda Y, Furuta Y, Kurakawa T, Goto N, Yasunaga T, Narazaki M, Kumanogoh A, Horii T, Iida T, Takeda K, Nakamura S.
  Fungal ITS1 Deep-Sequencing Strategies to Reconstruct the Composition of a 26-Species Community and Evaluation of the Gut Mycobiota of Healthy Japanese Individuals.
  Front Microbiol. 2017 Feb 15;8:238. doi: 10.3389/fmicb.2017.00238. eCollection 2017.
  PubMed PMID: 28261190; PubMed Central PMCID: PMC5309391.
• Nabeya D, Kinjo T, Parrott GL, Uehara A, Motooka D, Nakamura S, Nahar S, Nakachi S, Nakamatsu M, Maeshiro S, Haranaga S, Tateyama M, Tomoyose T, Masuzaki H, Horii T, Fujita J.
  The clinical and phylogenetic investigation for a nosocomial outbreak of respiratory syncytial virus infection in an adult hemato-oncology unit.
  J Med Virol. 2017 Aug;89(8):1364-1372. doi: 10.1002/jmv.24800.
  Epub 2017 Mar 22. PubMed PMID: 28240370.
• Takino T, Kato-Mori Y, Motooka D, Nakamura S, Iida T, Hagiwara K.
  Postnatal changes in the relative abundance of intestinal Lactobacillus spp. in newborn calves.
  J Vet Med Sci. 2017 Mar 18;79(3):452-455. doi: 10.1292/jvms.16-0406.
  Epub 2017 Jan 8. PubMed PMID: 28070087; PubMed Central PMCID: PMC5383160.
• Kitagawa Y, Ohkura N, Kidani Y, Vandenbon A, Hirota K, Kawakami R, Yasuda K, Motooka D, Nakamura S, Kondo M, Taniuchi I, Kohwi-Shigematsu T, Sakaguchi S.
  Guidance of regulatory T cell development by Satb1-dependent super-enhancer establishment.
  Nat Immunol. 2017 Feb;18(2):173-183. doi: 10.1038/ni.3646. Epub 2016 Dec 19. Erratum in: Nat Immunol. 2017 Oct 18;18(11):1270. Erratum in: Nat Immunol. 2017 Mar 22;18(4):474.
  PubMed PMID: 27992401; PubMed Central PMCID: PMC5582804.

2016

• Kawahara K, Yonogi S, Munetomo R, Oki H, Yoshida T, Kumeda Y, Matsuda S, Kodama T, Ohkubo T, Iida T, Nakamura S
  Crystal structure of the ADP-ribosylating component of BEC, the binary enterotoxin of Clostridium perfringens.
  Biochem Biophys Res Commun. 2016 Nov 11;480(2):261-267. doi: 10.1016/j.bbrc.2016.10.042. Epub 2016 Oct 15.
  PMID: 27751850
• Sunagawa S, Iha Y, Taira K, Okano S, Kinjo T, Higa F, Kuba K, Tateyama M, Nakamura K, Nakamura S, Motooka D, Horii T, Parrott GL, Fujita J.
  An Epidemiological Analysis of Summer Influenza Epidemics in Okinawa.
  Intern Med. 2016;55(24):3579-3584. Epub 2016 Dec 15. Review.
  PubMed PMID: 27980256; PubMed Central PMCID: PMC5283956.
• Kawai S, Iijima H, Shinzaki S, Hiyama S, Yamaguchi T, Araki M, Iwatani S, Shiraishi E, Mukai A, Inoue T, Hayashi Y, Tsujii M, Motooka D, Nakamura S, Iida T, Takehara T. Indigo
  Naturalis ameliorates murine dextran sodium sulfate-induced colitis via aryl hydrocarbon receptor activation.
  J Gastroenterol. 2017 Aug;52(8):904-919. doi: 10.1007/s00535-016-1292-z. Epub 2016 Nov 29.
  PubMed PMID: 27900483.
• 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 Nov;68(11):2646-2661. doi: 10.1002/art.39783.
  PubMed PMID: 27333153.
• 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 Dec;22(12):830-832. doi: 10.1016/j.jiac.2016.07.011.
  Epub 2016 Aug 21. PubMed PMID: 27553068.
• Torigata K, Daisuke O, 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. eCollection 2016.
  PubMed PMID: 27434182; PubMed Central PMCID: PMC4951031.
• 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. [Epub ahead of print]
  PubMed PMID: 27405447.
• 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 Oct;66(10):3779-3785. doi: 10.1099/ijsem.0.001264.
  Epub 2016 Jun 30. PubMed PMID: 27374383.
• 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;935:89-98. doi: 10.1007/5584_2016_25.
  PubMed PMID: 27311319.
• 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.
  Epub 2016 Mar 30. PubMed PMID: 27027293.
• 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):1209-1226. doi: 10.1016/j.jmb.2016.02.003.
  Epub 2016 Feb 11. PubMed PMID: 26876601.
• 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. 2016 Jun;61(6):1628-34. doi: 10.1007/s10620-015-4011-3.
  Epub 2015 Dec 29. PubMed PMID: 26715502; PubMed Central PMCID: PMC4875048.
• 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;170A(1):183-8. doi: 10.1002/ajmg.a.37397.
  Epub 2015 Sep 30. PMID: 26419326

2015

• Taniguchi T, Miyauchi E, Nakamura S, Hirai M, Suzue K, Imai T, Nomura T, Handa T, Okada H, Shimokawa C, Onishi R, Olia A, Hirata J, Tomita H, Ohno H, Horii T, Hisaeda H.
  Plasmodium berghei ANKA causes intestinal malaria associated with dysbiosis.
  Sci Rep. 2015 Oct 27;5:15699. doi: 10.1038/srep15699. Erratum in: Sci Rep. 2016;6:17248.
  PMID: 26503461
• Okamoto M, Miyazawa T, Morikawa S, Ono F, Nakamura S, Sato E, Yoshida T, Yoshikawa R, Sakai K, Mizutani T, Nagata N, Takano J, Okabayashi S, Hamano M, Fujimoto K, Nakaya T, Iida T, Horii T, Miyabe-Nishiwaki T, Watanabe A, Kaneko A, Saito A, Matsui A, Hayakawa T, Suzuki J, Akari H, Matsuzawa T, Hirai H.
  Emergence of infectious malignant thrombocytopenia in Japanese macaques (Macaca fuscata) by SRV-4 after transmission to a novel host.
  Sci Rep. 2015 Mar 6;5:8850. doi: 10.1038/srep08850.
  PMID: 25743183
• 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.
• 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. 2016 Jun;61(6):1628-34 [Epub ahead of print] PubMed PMID: 26715502.
• 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.
• 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.
• 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.
• 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.
• 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.
• 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.
• 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.
• 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.
• 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

• Fukuhara T, Wada M, Nakamura S, Ono C, Shiokawa M, Yamamoto S, Motomura T, Okamoto T, Okuzaki D, Yamamoto M, Saito I, Wakita T, Koike K, Matsuura Y.
  Amphipathic α-helices in apolipoproteins are crucial to the formation of infectious hepatitis C virus particles.
  PLoS Pathog. 2014 Dec 11;10(12):e1004534. doi: 10.1371/journal.ppat.1004534. eCollection 2014 Dec.
  PMID: 25502789
• Seki M, Ohno H, Gotoh K, Motooka D, Nakamura S, Iida T, Miyazaki Y, Tomono K
  Allergic bronchopulmonary mycosis due to co-infection with Aspergillus fumigatus and Schizophyllum commune.
  IDCases. 2014 Jan 24;1(1):5-8. doi: 10.1016/j.idcr.2014.01.001. eCollection 2014.
  PMID: 26839766
• Seki M, Yoshida H, Gotoh K, Hamada N, Motooka D, Nakamura S, Yamamoto N, Hamaguchi S, Akeda Y, Watanabe H, Iida T, Tomono K.
  Severe respiratory failure due to co-infection with human metapneumovirus and Streptococcus pneumoniae.
  Respir Med Case Rep. 2014 Mar 15;12:13-5. doi: 10.1016/j.rmcr.2013.12.007. eCollection 2014.
  PMID: 26029528
• 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.
• 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. doi: 10.1186/1471-2164-15-699. PMID: 25142801, PubMed Central PMCID: PMC4159541.
• 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). PMID: 24855292, PubMed Central PMCID: PMC4031331.
• 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. PMID: 24797416, PubMed Central PMCID: PMC4010932.
• 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.
• 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. PMID: 24670267, PubMed Central PMCID: PMC4131837.
• 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.
• 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.
• 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.
• 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. PMID: 23985749, PubMed Central PMCID: PMC3869012.
• 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.  PMID: 24664508, PubMed Central PMCID: PMC4019177.

2013

• 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. PMID: 24235814,  PubMed Central PMCID: PMC3821756.
• 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.
• 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;
• 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.
• 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.
• 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.
• 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
• 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. [Epub ahead of print] PubMed PMID: 23314124

2012

• Fukakusa S, Kawahara K, Nakamura S, Iwashita T, Baba S, Nishimura M, Kobayashi Y, Honda T, Iida T, Taniguchi T, Ohkubo T.
  Structure of the CFA/III major pilin subunit CofA from human enterotoxigenic Escherichia coli determined at 0.90 Å resolution by sulfur-SAD phasing.
  Acta Crystallogr D Biol Crystallogr. 2012 Oct;68(Pt 10):1418-29. Epub 2012 Sep 13.
  PMID: 22993096
• Motooka D, Kawahara K, Nakamura S, Doi M, Nishi Y, Nishiuchi Y, Kang YK, Nakazawa T, Uchiyama S, Yoshida T, Ohkubo T, Kobayashi Y.
  The triple helical structure and stability of collagen model peptide with 4(S)-hydroxyprolyl-Pro-Gly units.
  Biopolymers. 2012;98(2):111-21. doi: 10.1002/bip.21730. Epub 2011 Oct 24.
  PMID: 22020801
• 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
• 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
• 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
• Ramadhany R, Yasugi M, Nakamura S, Daidoji T, Watanabe Y, Takahashi K, Ikuta K, Nakaya T*. (2012) Tropism of Pandemic 2009 H1N1 Influenza a Virus. Front Microbiol. 3:128. PubMed PMID: 22493594
• 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
• 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

• 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
• 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
• 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

• Kawahara K, Nakamura S, Katsu Y, Motooka D, Hosokawa Y, Kojima Y, Matsukawa K, Takinowaki H, Uchiyama S, Kobayashi Y, Fukui K, Ohkubo T.
  Cloning, expression, crystallization and preliminary X-ray crystallographic analysis of a human condensin SMC2 hinge domain with short coiled coils.
  Acta Crystallogr Sect F Struct Biol Cryst Commun. 2010 Sep 1;66(Pt 9):1067-70. doi: 10.1107/S1744309110028721. Epub 2010 Aug 26.
  PMID: 20823528
• Taichi M, Yamazaki T, Kawahara K, Motooka D, Nakamura S, Harada S, Teshima T, Ohkubo T, Kobayashi Y, Nishiuchi Y.
  Structure-activity relationship of marinostatin, a serine protease inhibitor isolated from a marine organism.
  J Pept Sci. 2010 Jul;16(7):329-36. doi: 10.1002/psc.1244.
  PMID: 20552565
• 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
• 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

• 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

• 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