Times Cited:　: >100,　: >300,　: >500,　: >1000,　: >5000
List of times cited

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Nanki K, Mizuno S, Matsuoka K, Ono K, Sugimoto S, Kiyohara H, Arai M, Nakashima M, Takeshita K, Saigusa K, Senoh M, Fukuda T, Naganuma M, Kato H, Suda W, Hattori M, Kanai T.
Fecal microbiota transplantation for recurrent Clostridium difficile infection in a patient with ulcerative colitis.
Intest. Res. (2018) 16:142-146. doi:10.5217/ir.2018.16.1.142. Pubmed

Kumagai Y, Yoshizawa S, Nakajima Y, Watanabe M, Fukunaga T, Ogura Y, Hayashi T, Oshima K, Hattori M, Ikeuchi M, Kogure K, DeLong EF, Iwasaki W.
Solar-panel and parasol strategies shape the proteorhodopsin distribution pattern in marine Flavobacteriia.
ISME J. (2018) in press. doi:10.1038/s41396-018-0058-4. Pubmed

Chiou TY, Suda W, Oshima K, Hattori M, Matsuzaki C, Yamamoto K, Takahashi T.
Lactobacillus kosoi sp. nov., a fructophilic species isolated from kôso, a Japanese sugar-vegetable fermented beverage.
Antonie Van Leeuwenhoek (2018) in press. doi:10.1007/s10482-018-1019-7. Pubmed

Koizumi T, Hattori M, Nara K.
Ectomycorrhizal fungal communities in alpine relict forests of Pinus pumila on Mt. Norikura, Japan.
Mycorrhiza (2018) 28:129-145. doi:10.1007/s00572-017-0817-5. Pubmed

Costea PI, Hildebrand F, Manimozhiyan A, Bäckhed F, Blaser MJ, Bushman FD, de Vos WM, Ehrlich SD, Fraser CM, Hattori M, Huttenhower C, Jeffery IB, Knights D, Lewis JD, Ley RE, Ochman H, O'Toole PW, Quince C, Relman DA, Shanahan F, Sunagawa S, Wang J, Weinstock GM, Wu GD, Zeller G, Zhao L, Raes J, Knight R, Bork P.
Enterotypes in the landscape of gut microbial community composition.
Nat. Microbiol. (2018) 3:8-16. doi:10.1038/s41564-017-0072-8. Pubmed

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Naganuma M, Sugimoto S, Mitsuyama K, Kobayashi T, Yoshimura N, Ohi H, Tanaka S, Andoh A, Ohmiya N, Saigusa K, Yamamoto T, Morohoshi Y, Ichikawa H, Matsuoka K, Hisamatsu T, Watanabe K, Mizuno S, Suda W, Hattori M, Fukuda S, Hirayama A, Abe T, Watanabe M, Hibi T, Suzuki Y, Kanai T; INDIGO Study Group.
Efficacy of Indigo naturalis in a Multicenter Randomized Controlled Trial of Patients with Ulcerative Colitis.
Gastroenterology (2017) in press. doi:10.1053/j.gastro.2017.11.024. Pubmed

Otsubo T, Yamada K, Hagiwara T, Oshima K, Iida K, Nishikata K, Toyoda T, Igari T, Nohara K, Yamashita S, Hattori M, Dohi T, Kawamura YI.
DNA hypermethyation and silencing of PITX1 correlated with advanced stage and poor postoperative prognosis of esophageal squamous cell carcinoma.
Oncotarget. (2017) 8:84434-84448. doi:10.18632/oncotarget.21375. Pubmed

Nakamoto N, Amiya T, Aoki R, Taniki N, Koda Y, Miyamoto K, Teratani T, Suzuki T, Chiba S, Chu PS, Hayashi A, Yamaguchi A, Shiba S, Miyake R, Katayama T, Suda W, Mikami Y, Kamada N, Ebinuma H, Saito H, Hattori M, Kanai T.
Commensal Lactobacillus Controls Immune Tolerance during Acute Liver Injury in Mice.
Cell Rep. (2017) 21:1215-1226. doi:10.1016/j.celrep.2017.10.022. Pubmed

Hashimoto S, Tabuchi Y, Yurino H, Hirohashi Y, Deshimaru S, Asano T, Mariya T, Oshima K, Takamura Y, Ukita Y, Ametani A, Kondo N, Monma N, Takeda T, Misu S, Okayama T, Ikeo K, Saito T, Kaneko S, Suzuki Y, Hattori M, Matsushima K, Torigoe T.
Comprehensive single-cell transcriptome analysis reveals heterogeneity in endometrioid adenocarcinoma tissues.
Sci. Rep. (2017) 7:14225. doi:10.1038/s41598-017-14676-3. Pubmed

Kamiya T, Tang C, Kadoki M, Oshima K, Hattori M, Saijo S, Adachi Y, Ohno N, Iwakura Y.
β-Glucans in food modify colonic microflora by inducing antimicrobial protein, calprotectin, in a Dectin-1-induced-IL-17F-dependent manner.
Mucosal Immunol. (2017) in press. doi:10.1038/mi.2017.86. Pubmed

Atarashi K, Suda W, Luo C, Kawaguchi T, Motoo I, Narushima S, Kiguchi Y, Yasuma K, Watanabe E, Tanoue T, Thaiss CA, Sato M, Toyooka K, Said HS, Yamagami H, Rice SA, Gevers D, Johnson RC, Segre JA, Chen K, Kolls JK, Elinav E, Morita H, Xavier RJ, Hattori M, Honda K.
Ectopic colonization of oral bacteria in the intestine drives TH1 cell induction and inflammation.
Science (2017) 358:359-365. doi:10.1126/science.aan4526. Pubmed

Costea PI, Zeller G, Sunagawa S, Pelletier E, Alberti A, Levenez F, Tramontano M, Driessen M, Hercog R, Jung FE, Kultima JR, Hayward MR, Coelho LP, Allen-Vercoe E, Bertrand L, Blaut M, Brown JRM, Carton T, Cools-Portier S, Daigneault M, Derrien M, Druesne A, de Vos WM, Finlay BB, Flint HJ, Guarner F, Hattori M, Heilig H, Luna RA, van Hylckama Vlieg J, Junick J, Klymiuk I, Langella P, Le Chatelier E, Mai V, Manichanh C, Martin JC, Mery C, Morita H, O'Toole PW, Orvain C, Patil KR, Penders J, Persson S, Pons N, Popova M, Salonen A, Saulnier D, Scott KP, Singh B, Slezak K, Veiga P, Versalovic J, Zhao L, Zoetendal EG, Ehrlich SD, Dore J, Bork P.
Towards standards for human fecal sample processing in metagenomic studies.
Nat. Biotechnol. (2017) in press. doi:10.1038/nbt.3960. Pubmed

Urushiyama D, Suda W, Ohnishi E, Araki R, Kiyoshima C, Kurakazu M, Sanui A, Yotsumoto F, Murata M, Nabeshima K, Yasunaga S, Saito S, Nomiyama M, Hattori M, Miyamoto S, Hata K.
Microbiome profile of the amniotic fluid as a predictive biomarker of perinatal outcome.
Sci. Rep. (2017) 7:12171. doi:10.1038/s41598-017-11699-8. Pubmed

Anbutsu H, Moriyama M, Nikoh N, Hosokawa T, Futahashi R, Tanahashi M, Meng XY, Kuriwada T, Mori N, Oshima K, Hattori M, Fujie M, Satoh N, Maeda T, Shigenobu S, Koga R, Fukatsu T.
Small genome symbiont underlies cuticle hardness in beetles.
Proc. Natl. Acad. Sci. USA (2017) in press. doi:10.1073/pnas.1712857114. Pubmed

Yamazaki T, Ichihara K, Suzuki R, Oshima K, Miyamura S, Kuwano K, Toyoda A, Suzuki Y, Sugano S, Hattori M, Kawano S.
Genomic structure and evolution of the mating type locus in the green seaweed Ulva partita.
Sci. Rep. (2017) 7:11679. doi:10.1038/s41598-017-11677-0. Pubmed

Sarashina-Kida H, Negishi H, Nishio J, Suda W, Nakajima Y, Yasui-Kato M, Iwaisako K, Kang S, Endo N, Yanai H, Asagiri M, Kida H, Hattori M, Kumanogoh A, Taniguchi T.
Gallbladder-derived surfactant protein D regulates gut commensal bacteria for maintaining intestinal homeostasis.
Proc. Natl. Acad. Sci. USA. (2017) in press. doi:10.1073/pnas.1712837114. Pubmed

Shibagaki N, Suda W, Clavaud C, Bastien P, Takayasu L, Iioka E, Kurokawa R, Yamashita N, Hattori Y, Shindo C, Breton L, Hattori M.
Aging-related changes in the diversity of women's skin microbiomes associated with oral bacteria.
Sci. Rep. (2017) 7:10567. doi:10.1038/s41598-017-10834-9. Pubmed

Hayashi A, Mikami Y, Miyamoto K, Kamada N, Sato T, Mizuno S, Naganuma M, Teratani T, Aoki R, Fukuda S, Suda W, Hattori M, Amagai M, Ohyama M, Kanai T.
Intestinal Dysbiosis and Biotin Deprivation Induce Alopecia through Overgrowth of Lactobacillus murinus in Mice.
Cell Rep. (2017) 20:1513-1524. doi:10.1016/j.celrep.2017.07.057. Pubmed

Takayasu L, Suda W, Watanabe E, Fukuda S, Takanashi K, Ohno H, Takayasu M, Takayasu H, Hattori M.
A 3-dimensional mathematical model of microbial proliferation that generates the characteristic cumulative relative abundance distributions in gut micro biomes.
PLoS One (2017) 12:e0180863. doi:10.1371/journal.pone.0180863. Pubmed

Doki N, Suyama M, Sasajima S, Ota J, Igarashi A, Mimura I, Morita H, Fujioka Y, Sugiyama D, Nishikawa H, Shimazu Y, Suda W, Takeshita K, Atarashi K, Hattori M, Sato E, Watakabe-Inamoto K, Yoshioka K, Najima Y, Kobayashi T, Kakihana K, Takahashi N, Sakamaki H, Honda K, Ohashi K.
Clinical impact of pre-transplant gut microbial diversity on outcomes of allogeneic hematopoietic stem cell transplantation.
Ann. Hematol. (2017) 96:1517-1523. doi:10.1007/s00277-017-3069-8. Pubmed

Jia S, Nakano T, Hattori M, Nara K.
Root-associated fungal communities in three Pyroleae species and their mycobiont sharing with surrounding trees in subalpine coniferous forests on Mount Fuji, Japan.
Mycorrhiza. (2017) in press. doi:10.1007/s00572-017-0788-6. Pubmed

Tanaka M, Endo S, Kotake F, Al-Saari N, Amin AKMR, Feng G, Mino S, Doi H, Ogura Y, Hayashi T, Suda W, Hattori M, Yumoto I, Sawabe T, Sawabe T, Araki T.
Vibrio aphrogenes sp. nov., in the Rumoiensis clade isolated from a seaweed.
PLoS One (2017) 12:e0180053. doi:10.1371/journal.pone.0180053. Pubmed

Mizuno S, Masaoka T, Naganuma M, Kishimoto T, Kitazawa M, Kurokawa S, Nakashima M, Takeshita K, Suda W, Mimura M, Hattori M, Kanai T.
Bifidobacterium-Rich Fecal Donor May Be a Positive Predictor for Successful Fecal Microbiota Transplantation in Patients with Irritable Bowel Syndrome.
Digestion (2017) 96:29-38. doi:10.1159/000471919. Pubmed

Takayasu L, Suda W, Takanashi K, Iioka E, Kurokawa R, Shindo C, Hattori Y, Yamashita N, Nishijima S, Oshima K, Hattori M.
Circadian oscillations of microbial and functional composition in the human salivary microbiome.
DNA Res. (2017) 24:261-270. doi:10.1093/dnares/dsx001. Pubmed

Kamo T, Akazawa H, Suda W, Saga-Kamo A, Shimizu Y, Yagi H, Liu Q, Nomura S, Naito AT, Takeda N, Harada M, Toko H, Kumagai H, Ikeda Y, Takimoto E, Suzuki JI, Honda K, Morita H, Hattori M, Komuro I.
Dysbiosis and compositional alterations with aging in the gut microbiota of patients with heart failure.
PLoS One (2017) 12:e0174099. doi:10.1371/journal.pone.0174099. Pubmed

Aoki R, Kamikado K, Suda W, Takii H, Mikami Y, Suganuma N, Hattori M, Koga Y.
A proliferative probiotic Bifidobacterium strain in the gut ameliorates progression of metabolic disorders via microbiota modulation and acetate elevation.
Sci. Rep. (2017) 7:43522. doi:10.1038/srep43522. Pubmed

Mizuno S, Nanki K, Matsuoka K, Saigusa K, Ono K, Arai M, Sugimoto S, Kiyohara H, Nakashima M, Takeshita K, Naganuma M, Suda W, Hattori M, Kanai T.
Single fecal microbiota transplantation failed to change intestinal microbiota and had limited effectiveness against ulcerative colitis in Japanese patients.
Intest. Res. (2017) 15:68-74. doi:10.5217/ir.2017.15.1.68. Pubmed

Sato A, Matsushima K, Oshima K, Hattori M, Koyama Y.
Draft Genome Sequencing of the Highly Halotolerant and Allopolyploid Yeast Zygosaccharomyces rouxii NBRC 1876.
Genome Announce. (2017) 5:e01610-16. doi:10.1128/genomeA.01610-16. Pubmed

Nakagome S, Chinen H, Iraha A, Hokama A, Takeyama Y, Sakisaka S, Matsui T, Kidd JR, Kidd KK, Said HS, Suda W, Morita H, Hattori M, Hanihara T, Kimura R, Ishida H, Fujita J, Kinjo F1, Mano S, Oota H.
Confounding effects of microbiome on the susceptibility of TNFSF15 to Crohn's disease in the Ryukyu Islands.
Hum. Genet. (2017) 136:387-397. doi:10.1007/s00439-017-1764-0. Pubmed

Chiou TY, Suda W, Oshima K, Hattori M, Takahashi T.
Changes in the bacterial community in the fermentation process of kôso, a Japanese sugar-vegetable fermented beverage.
Biosci. Biotechnol. Biochem. (2017) 81:403-410. doi:10.1080/09168451.2016.1249449. Pubmed

Kikuchi M, Ueno M, Itoh Y, Suda W, Hattori M.
Uremic Toxin-Producing Gut Microbiota in Rats with Chronic Kidney Disease.
Nephron (2017) 135:51-60. doi:10.1159/000450619.Pubmed

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Trubitsyn D, Abreu F, Ward FB, Taylor T, Hattori M, Kondo S, Trivedi U, Staniland S, Lins U, Bazylinski DA.
Draft Genome Sequence of Magnetovibrio blakemorei Strain MV-1, a Marine Vibrioid Magnetotactic Bacterium.
Genome Announce. (2016) 4:e01330-16. doi:10.1128/genomeA.01330-16.Pubmed

Iwasawa K, Suda W, Tsunoda T, Oikawa-Kawamoto M, Umetsu S, Inui A, Fujisawa T, Morita H, Sogo T, Hattori M.
Characterisation of the faecal microbiota in Japanese patients with paediatric-onset primary sclerosing cholangitis.
Gut (2016) in press. doi:10.1136/gutjnl-2016-312533.Pubmed

Igai K, Itakura M, Nishijima S, Tsurumaru H, Suda W, Tsutaya T, Tomitsuka E, Tadokoro K, Baba J, Odani S, Natsuhara K, Morita A, Yoneda M, Greenhill AR, Horwood PF, Inoue J, Ohkuma M, Hongoh Y, Yamamoto T, Siba PM, Hattori M, Minamisawa K, Umezaki M.
Nitrogen fixation and nifH diversity in human gut microbiota.
Sci. Rep. (2016) 6:31942. doi:10.1038/srep31942.Pubmed

Takikita S, Muro R, Takai T, Otsubo T, Kawamura YI, Dohi T, Oda H, Kitajima M, Oshima K, Hattori M, Endo TA, Toyoda T, Weis J, Shinkai Y, Suzuki H.
A Histone Methyltransferase ESET Is Critical for T Cell Development.
J. Immune. (2016) 197:2269-2279. doi:10.4049/jimmunol.1502486.Pubmed

Kakihana K, Fujioka Y, Suda W, Najima Y, Kuwata G, Sasajima S, Mimura I, Morita H, Sugiyama D, Nishikawa H, Hattori M, Hino Y, Ikegawa S, Yamamoto K, Toya T, Doki N, Koizumi K, Honda K, Shashi K.
Fecal microbiota transplantation for patients with steroid-resistant/dependent acute graft-versus-host disease of the gut.
Blood (2016) 128:2083-2088. doi:10.1182/blood-2016-05-717652. Pubmed

Tsuruya A, Kuwahara A, Saito Y, Yamaguchi H, Tsubo T, Suga S, Inai M, Aoki Y, Takahashi S, Tsutsumi E, Suwa Y, Morita H, Kinoshita K, Totsuka Y, Suda W, Oshima K, Hattori M, Mizukami T, Yokoyama A, Shimoyama T, Nakayama T.
Ecophysiological consequences of alcoholism on human gut microbiota: implications for ethanol-related pathogenesis of colon cancer.
Sci. Rep. (2016) 6:27923. doi:10.1038/srep27923.Pubmed

Gao F, Al-Saari N, Rohul Amin AK, Sato K, Mino S, Suda W, Oshima K, Hattori M, Ohkuma M, Hargreaves PI, Meirelles PM, Thompson FL, Thompson C, Gomez-Gil B, Sawabe T, Sawabe T.
Vibrio ishigakensis sp. nov., in Halioticoli clade isolated from seawater in Okinawa coral reef area, Japan.
Syst. Apple. Microbiol. (2016) 39:330-335. doi:10.1016/j.syapm.2016.04.002.Pubmed

Ota S, Yoshihara M, Yamazaki T, Takeshita T, Hirata A, Konomi M, Oshima K, Hattori M, Bišová K, Zachleder V, Kawano S.
Deciphering the relationship among phosphate dynamics, electron-dense body and lipid accumulation in the green alga Parachlorella kessleri.
Sci. Rep. (2016) 6:25731. doi:10.1038/srep25731.Pubmed

Saito T, Nishikawa H, Wada H, Nagano Y, Sugiyama D, Atarashi K, Maeda Y, Hamaguchi M, Ohkura N, Sato E, Nagase H, Nishimura J, Yamamoto H, Takiguchi S, Tanoue T, Suda W, Morita H, Hattori M, Honda K, Mori M, Doki Y, Sakaguchi S.
Two FOXP3+CD4+ T cell subpopulations distinctly control the prognosis of colorectal cancers.
Nat. Med. (2016) 22:679-684. doi:10.1038/nm.4086.Pubmed

Morita H, Toh H, Oshima K, Nakano A, Hano C, Yoshida S, Bolormaa T, Burenjargal S, Nguyen CT, Tashiro K, Arakawa K, Miyamoto T.
Draft Genome Sequence of Leuconostoc mesenteroides 213M0, Isolated from Traditional Fermented Mare Milk Airag in Bulgan Aimag, Mongolia.
Genome Announce. (2016) 4:e00178-16. doi:10.1128/genomeA.00178-16.Pubmed

Morita H, Toh H, Oshima K, Nakano A, Hano C, Yoshida S, Nguyen TT, Wulijideligen, Tashiro K, Arakawa K, Miyamoto T.
Draft Genome Sequence of Leuconostoc mesenteroides 406 Isolated from the Traditional Fermented Mare Milk Airag in Tuv Aimag, Mongolia.
Genome Announce. (2016) 4:e00166-16. doi: 10.1128/genomeA.00166-16.Pubmed

Nishijima S, Suda W, Oshima K, Kim SW, Hirose Y, Morita H, Hattori M.
The gut microbiome of healthy Japanese and its microbial and functional uniqueness.
DNA Res. (2016) 23:125-133. doi:10.1093/dnares/dsw002.Pubmed記事1記事2

Yamazaki Y, Meirelles PM, Mino S, Suda W, Oshima K, Hattori M, Thompson FL, Sakai Y, Sawabe T, Sawabe T.
Individual Apostichopus japonicus fecal microbiome reveals a link with polyhydroxybutyrate producers in host growth gaps.
Sci. Rep. (2016) 6:21631. doi:10.1038/srep21631.Pubmed

Ota S, Oshima K, Yamazaki T, Kim S, Yu Z, Yoshihara M, Takeda K, Takeshita T, Hirata A, Bišová K, Zachleder V, Hattori M, Kawano S.
Highly efficient lipid production in the green alga Parachlorella kessleri: draft genome and transcriptome endorsed by whole-cell 3D ultrastructure.
Biotechnol. Biofuels (2016) 9:13. doi:10.1186/s13068-016-0424-2.Pubmed

Fujimura R, Kim SW, Sato Y, Oshima K, Hattori M, Kamijo T, Ohta H.
Unique pioneer microbial communities exposed to volcanic sulfur dioxide.
Sci. Rep. (2016) 6:19687. doi:10.1038/srep19687.Pubmed

Takagi M, Nakano A, Toh H, Oshima K, Arakawa K, Nakajima F, Tashiro K, Kikusui T, Yanagida F, Morita H.
Draft Genome Sequence of Streptococcus orisasini SH06, Isolated from a Healthy Thoroughbred Gastrointestinal Tract.
Genome Announce. (2016) 4:e01566-15. doi:10.1128/genomeA.01566-15.Pubmed

Chiou TY, Oshima K, Suda W, Hattori M, Takahashi T.
Draft Genome Sequence of Lactobacillus farciminis NBRC 111452, Isolated from Kôso, a Japanese Sugar-Vegetable Fermented Beverage.
Genome Announce. (2016) 4:e01514-15. doi: 10.1128/genomeA.01514-15.Pubmed

Hiraoka S, Machiyama A, Ijichi M, Inoue K, Oshima K, Hattori M, Yoshizawa S, Kogure K, Iwasaki W.
Genomic and metagenomic analysis of microbes in a soil environment affected by the 2011 Great East Japan Earthquake tsunami.
BMC Genomics. (2016) 17:53. doi:10.1186/s12864-016-2380-4.Pubmed

Tsuruya A, Kuwahara A, Saito Y, Yamaguchi H, Tenma N, Inai M, Takahashi S, Tsutsumi E, Suwa Y, Totsuka Y, Suda W, Oshima K, Hattori M, Mizukami T, Yokoyama A, Shimoyama T, Nakayama T.
Major Anaerobic Bacteria Responsible for the Production of Carcinogenic Acetaldehyde from Ethanol in the Colon and Rectum.
Alcohol Alcohol. (2016) 51:395-401. doi:10.1093/alcalc/agv135. Pubmed

Yoneda N, Yoneda S, Niimi H, Ueno T, Hayashi S, Ito M, Shiozaki A, Urushiyama D, Hata K, Suda W, Hattori M, Kigawa M, Kitajima I, Saito S.
Polymicrobial Amniotic Fluid Infection with Mycoplasma/Ureaplasma and Other Bacteria Induces Severe Intra-Amniotic Inflammation Associated with Poor Perinatal Prognosis in Preterm Labor.
Am. J. Retrod. Immune. (2016) 75:112-125. doi:10.1111/aji.12456. Pubmed

Kudo F, Ikutani M, Seki Y, Otsubo T, Kawamura YI, Dohi T, Oshima K, Hattori M, Nakae S, Takatsu K, Takaki S.
Interferon-γ Constrains Cytokine Production of Group 2 Innate Lymphoid Cells.
Immunology (2016) 147:21-29. doi:10.1111/imm.12537. Pubmed

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Sawabe T, Suda W, Ohshima K, Hattori M, Sawabe T.
First microbiota assessments of children's paddling pool waters evaluated using 16S rRNA gene-based metagenome analysis.
J. Infect. Public Health (2015) in press. doi:10.1016/j.jiph.2015.11.008. Pubmed

Toh H, Yamazaki Y, Tashiro K, Kawarai S, Oshima K, Nakano A, Kim CN, Mimura I, Arakawa K, Iriki A, Kikusui T, Morita H.
Draft Genome Sequence of Bifidobacterium aesculapii DSM 26737T, Isolated from Feces of Baby Common Marmoset.
Genome Announce. (2015) 3:e01463-15. doi:10.1128/genomeA.01463-15.Pubmed

Dekio I, Culak R, Misra R, Gaulton T, Fang M, Sakamoto M, Ohkuma M, Oshima K, Hattori M, Klenk HP, Rajendram D, Gharbia SE, Shah HN.
Dissecting out the taxonomic heterogeneity within Propionibacterium acnes; proposal of Propionibacterium acnes subsp. acnes subsp. nov. and Propionibacterium acnes subsp. elongatum subsp. nov.
Int. J. Syst. Erol. Microbiol. (2015) 65:4776-4787. doi:10.1099/ijsem.0.000648.Pubmed

Kato H, Mori H, Maruyama F, Toyoda A, Oshima K, Endo R, Fuchu G, Miyakoshi M, Dozono A, Ohtsubo Y, Nagata Y, Hattori M, Fujiyama A, Kurokawa K, Tsuda M.
Time-series metagenomic analysis reveals robustness of soil microbiome against chemical disturbance.
DNA Res. (2015) 22:413-24. doi:10.1093/dnares/dsv023.Pubmed

Atarashi K, Tanoue T, Ando M, Kamada N, Nagano Y, Narushima S, Suda W, Imaoka A, Setoyama H, Nagamori T, Ishikawa E, Shima T, Hara T, Kado S, Jinnohara T, Ohno H, Kondo T, Toyooka K, Watanabe E, Yokoyama SI, Tokoro S, Mori H, Noguchi Y, Morita H, Ivanov II, Sugiyama T, Nuñez G, Camp JG, Hattori M, Umesaki Y, Honda K.
Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells.
Cell (2015) 163:367-380. doi:10.1016/j.cell.2015.08.058. Pubmed

Murayama MA, Kakuta S, Inoue A, Umeda N, Yonezawa T, Maruhashi T, Tateishi K, Ishigame H, Yabe R, Ikeda S, Seno A, Chi HH, Hashiguchi Y, Kurata R, Tada T, Kubo S, Sato N, Liu Y, Hattori M, Saijo S, Matsushita M, Fujita T, Sumida T, Iwakura Y.
CTRP6 is an endogenous complement regulator that can effectively treat induced arthritis.
Nat Commun. (2015) 6:8483. doi:10.1038/ncomms9483. Pubmed

Miyake S, Kim S, Suda W, Oshima K, Nakamura M, Matsuoka T, Chihara N, Tomita A, Sato W, Kim SW, Morita H, Hattori M, Yamamura T.
Dysbiosis in the Gut Microbiota of Patients with Multiple Sclerosis, with a Striking Depletion of Species Belonging to Clostridia XIVa and IV Clusters.
PLoS One (2015) 10:e0137429. doi:10.1371/journal.pone.0137429. Pubmed

Al-Saari N, Gao F, A K M Rohul A, Sato K, Sato K, Mino S, Suda W, Oshima K, Hattori M, Ohkuma M, Meirelles PM, Thompson FL, Thompson C, A Filho GM, Gomez-Gil B, Sawabe T, Sawabe T.
Advanced Microbial Taxonomy Combined with Genome-Based-Approaches Reveals that Vibrio astriarenae sp. nov., an Agarolytic Marine Bacterium, Forms a New Clade in Vibrionaceae.
PLoS One (2015) 10:e0136279. doi:10.1371/journal.pone.0136279. Pubmed

Tang C, Kamiya T, Liu Y, Kadoki M, Kakuta S, Oshima K, Hattori M, Takeshita K, Kanai T, Saijo S, Ohno N, Iwakura Y.
Inhibition of Dectin-1 Signaling Ameliorates Colitis by Inducing Lactobacillus-Mediated Regulatory T Cell Expansion in the Intestine.
Cell Host Microbe. (2015) 18:183-197. doi:10.1016/j.chom.2015.07.003.Pubmed

Kato H, Ogawa N, Ohtsubo Y, Oshima K, Toyoda A, Mori H, Nagata Y, Kurokawa K, Hattori M, Fujiyama , Tsuda M.
Complete Genome Sequence of a Phenanthrene Degrader, Mycobacterium sp. Strain EPa45 (NBRC 110737), Isolated from a Phenanthrene-Degrading Consortium.
Genome Announc. (2015) 3:e00782-15. doi:10.1128/genomeA.00782-15.Pubmed

Oshima K, Hattori M, Shimizu H, Fukuda K, Nemoto M, Inagaki K, Tamura T.
Draft Genome Sequence of Streptomyces incarnatus NRRL8089, which Produces the Nucleoside Antibiotic Sinefungin.
Genome Announc. (2015) 3:e00715-15. doi:10.1128/genomeA.00715-15.Pubmed

Morita H, Toh H, Oshima K, Nakano A, Omori E, Hattori Y, Arakawa K, Suda W, Honda K, Hattori M.
Complete genome sequence of Bifidobacterium breve JCM 1192T isolated from infant feces.
J Biotechnol. (2015) 210:81-82. doi:10.1016/j.jbiotec.2015.06.414.Pubmed

Morita H, Toh H, Oshima K, Nakano A, Kiuchi M, Kuroyanagi H, Arakawa K, Suda W, Honda K, Hattori M.
Complete genome sequence of Bifidobacterium angulatum JCM 7096T isolated from human feces.
J Biotechnol. (2015) 211:10-11. doi:10.1016/j.jbiotec.2015.06.412.Pubmed

Morita H, Toh H, Oshima K, Nakano A, Shindo C, Komiya K, Arakawa K, Suda W, Honda K, Hattori M.
Complete genome sequence of Bifidobacterium bifidum JCM 1255T isolated from feces of a breast-fed infant.
J Biotechnol. (2015) 210:66-67. doi:10.1016/j.jbiotec.2015.06.413.Pubmed

Morita H, Toh H, Oshima K, Nakano A, Arakawa K, Takayama Y, Kurokawa R, Takanashi K, Honda K, Hattori M.
Complete genome sequence of Bifidobacterium pseudocatenulatum JCM 1200T isolated from infant feces.
J Biotechnol. (2015) 210:68-69. doi:10.1016/j.jbiotec.2015.06.416.Pubmed

Morita H, Toh H, Oshima K, Nakano A, Yamashita N, Iioka E, Arakawa K, Suda W, Honda K, Hattori M.
Complete genome sequence of Bifidobacterium catenulatum JCM 1194T isolated from human feces.
J Biotechnol. (2015) 210:25-26. doi:10.1016/j.jbiotec.2015.06.415.Pubmed

Tsuda A, Suda W, Morita H, Takanashi K, Takagi A, Koga Y, Hattori M.
Influence of Proton-Pump Inhibitors on the Luminal Microbiota in the Gastrointestinal Tract.
Clin Transl Gastroenterol. (2015) 6:e89. doi:10.1038/ctg.2015.20.Pubmed

Oshima K, Hayashi J, Toh H, Nakano A, Shindo C, Komiya K, Morita H, Honda , Hattori M.
Complete Genome Sequence of Parascardovia denticolens JCM 12538T, Isolated from Human Dental Caries.
Genome Announc. (2015) 3:e00485-15. doi:10.1128/genomeA.00485-15.Pubmed

Oshima K, Hayashi J, Toh H, Nakano A, Omori E, Hattori Y, Morita H, Honda K, Hattori M.
Complete Genome Sequence of Scardovia inopinata JCM 12537T, Isolated from Human Dental Caries.
Genome Announc. (2015) 3:e00481-15. doi:10.1128/genomeA.00481-15.Pubmed

Hirose Y, Katayama M, Ohtsubo Y, Misawa N, Iioka E, Suda W, Oshima K, Hanaoka M, Tanaka K, Eki T, Ikeuchi M, Kikuchi Y, Ishida M, Hattori M.
Complete Genome Sequence of Cyanobacterium Geminocystis sp. Strain NIES-3708, Which Performs Type II Complementary Chromatic Acclimation.
Genome Announc. (2015) 3:e00357-15. doi:10.1128/genomeA.00357-15.Pubmed

Suzuki N, Murata-Kamiya N, Yanagiya K, Suda W, Hattori M, Kanda H, Bingo A, Fujii Y, Maeda S, Koike K, Hatakeyama M.
Mutual reinforcement of inflammation and carcinogenesis by the Helicobacter pylori CagA oncoprotein.
Sci Rep. (2015) 5:10024. doi:10.1038/srep10024.Pubmed

Hirose Y, Katayama M, Ohtsubo Y, Misawa N, Iioka E, Suda W, Oshima K, Hanaoka M, Tanaka K, Eki T, Ikeuchi M, Kikuchi Y, Ishida M, Hattori M.
Complete Genome Sequence of Cyanobacterium Geminocystis sp. Strain NIES-3709, Which Harbors a Phycoerythrin-Rich Phycobilisome.
Genome Announc. (2015) 3:e00385-15. doi:10.1128/genomeA.00385-15.Pubmed

Morita H, Toh H, Nakano A, Oshima K, Takagi M, Suda W, Tanabe S, Hattori M.
Complete Genome Sequence of Bifidobacterium kashiwanohense JCM 15439T, Isolated from Feces from a Healthy Japanese Infant.
Genome Announc. (2015) 3:e00255-15. doi:10.1128/genomeA.00255-15. Pubmed

Oshima K, Hisamatsu S, Toh H, Nakano A, Kiuchi M, Kuroyanagi H, Morita H, Hattori M.
Complete Genome Sequence of Gardnerella vaginalis Strain JCM 11026T, Isolated from Vaginal Tracts of Women.
Genome Announc. (2015) 3:e00286-15. doi:10.1128/genomeA.00286-15. Pubmed

Toh H, Oshima K, Nakano A, Yamashita N, Iioka E, Kurokawa R, Morita H, Hattori M.
Complete Genome Sequence of Bifidobacterium scardovii Strain JCM 12489T, Isolated from Human Blood.
Genome Announc. (2015) 3:e00285-15. doi:10.1128/genomeA.00285-15. Pubmed

Toh H, Hayashi J, Oshima K, Nakano A, Takayama Y, Takanashi K, Morita H, Hattori M.
Complete Genome Sequence of Bifidobacterium dentium Strain JCM 1195T, Isolated from Human Dental Caries.
Genome Announc. (2015) 3:e00284-15. doi:10.1128/genomeA.00284-15. Pubmed

Takeuchi M, Yamagishi T, Kamagata Y, Oshima K, Hattori M, Katayama T, Hanada S, Tamaki H, Marumo K, Maeda H, Nedachi M, Iwasaki W, Suwa Y, Sakata S.
Tepidicaulis marinus gen. nov., sp. nov., a novel marine bacterium reducing nitrate to nitrous oxide strictly under microaerobic conditions.
Int J Syst Evol Microbiol. (2015) 65:1749-1754. doi:10.1099/ijs.0.000167.Pubmed

Inoue JI, Oshima K, Suda W, Sakamoto M, Iino T, Noda S, Hongoh Y, Hattori M, Ohkuma M.
Distribution and Evolution of Nitrogen Fixation Genes in the Phylum Bacteroidetes.
Microbes Environ. (2015) 30:44-50. Pubmed

Okazaki S, Noisangiam R, Okubo T, Kaneko T, Oshima K, Hattori M, Teamtisong K, Songwattana P, Tittabutr P, Boonkerd N, Saeki K, Sato S, Uchiumi T, Minamisawa K, Teaumroong N.
Genome Analysis of a Novel Bradyrhizobium sp. DOA9 Carrying a Symbiotic Plasmid.
PLoS One. (2015) 10:e0117392. doi:10.1371/journal.pone.0117392.Pubmed

Miyamoto Y, Sakai A, Hattori M, Nara K.
Strong effect of climate on ectomycorrhizal fungal composition: evidence from range overlap between two mountains.
ISME J. (2015) 9:1870-1879. doi:10.1038/ismej.2015.8.Pubmed

Kayama S, Shigemoto N, Kuwahara R, Oshima K, Hirakawa H, Hisatsune J, Jové T, Nishio H, Yamasaki K, Wada Y, Ueshimo T, Miura T, Sueda T, Onodera M, Yokozaki M, Hattori M, Ohge H, Sugai M.
Complete Nucleotide Sequence of the IncN Plasmid Encoding IMP-6 and CTX-M-2 from Emerging Carbapenem-Resistant Enterobacteriaceae in Japan.
Antimicrob. Agents Chemother. (2015) 59:1356-1359. doi:10.1128/AAC.04759-14.Pubmed

Hiraide Y, Oshima K, Fujisawa T, Uesaka K, Hirose Y, Tsujimoto R, Yamamoto H, Okamoto S, Nakamura Y, Terauchi K, Omata T, Ihara K, Hattori M, Fujita Y.
Loss of cytochrome cM stimulates cyanobacterial heterotrophic growth in the dark.
Plant Cell Physiol. (2015) 56:334-345. doi:10.1093/pcp/pcu165.Pubmed

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Fujimura R, Nishimura A, Ohshima S, Sato Y, Nishizawa T, Oshima K, Hattori M, Narisawa K, Ohta H.
Draft Genome Sequence of the Betaproteobacterial Endosymbiont Associated with the Fungus Mortierella elongata FMR23-6.
Genome Announc. (2014) 2:e01272-14. doi: 10.1128/genomeA.01272-14.Pubmed

Takatani N, Nakanishi M, Meirelles P, Mino S, Suda W, Oshima K, Hattori M, Ohkuma M, Hosokawa M, Miyashita K, Thompson FL, Niwa A, Sawabe T, Sawabe T.
Draft Genome Sequence of Marine Flavobacterium Jejuia pallidilutea Strain 11shimoA1 and Pigmentation Mutants.
Genome Announc. (2014) 2:e01236-14. doi:10.1128/genomeA.01236-14.Pubmed

Takatani N, Nakanishi M, Meirelles P, Mino S, Suda W, Oshima K, Hattori M, Ohkuma M, Hosokawa M, Miyashita K, Thompson FL, Niwa A, Sawabe T, Sawabe T.
Draft Genome Sequences of Marine Flavobacterium Algibacter lectus Strains SS8 and NR4.
Genome Announc. (2014) 2:e01168-14. doi:10.1128/genomeA.01168-14.Pubmed

Nakanishi M, Meirelles P, Suzuki R, Takatani N, Mino S, Suda W, Oshima K, Hattori M, Ohkuma M, Hosokawa M, Miyashita K, Thompson FL, Niwa A, Sawabe T, Sawabe T.
Draft Genome Sequences of Marine Flavobacterium Nonlabens Strains NR17, NR24, NR27, NR32, NR33, and Ara13.
Genome Announc. (2014) 2:e01165-14. doi:10.1128/genomeA.01165-14.Pubmed

Al-Saari N, Meirelles PM, Mino S, Suda W, Oshima K, Hattori M, Ohkuma M, Thompson FL, Gomez-Gil B, Sawabe T, Sawabe T.
Draft Genome Sequences of Two Vibrionaceae Species, Vibrio ponticus C121 and Photobacterium aphoticum C119, Isolated as Coral Reef Microbiota.
Genome Announc. (2014) 2:e01095-14. doi:10.1128/genomeA.01095-14.Pubmed

Okubo T, Ikeda S, Sasaki K, Ohshima K, Hattori M, Sato T, Minamisawa K.
Phylogeny and Functions of Bacterial Communities Associated with Field-Grown Rice Shoots.
Microbes Environ. (2014) 29:329-332. Pubmed

Iguchi A, Nagaya Y, Pradel E, Ooka T, Ogura Y, Katsura K, Kurokawa K, Oshima K, Hattori M, Parkhill J, Sebaihia M, Coulthurst S, Gotoh N, Thomson NR, Ewbank JJ, Hayashi T.
Genome evolution and plasticity of Serratia marcescens, an important multidrug resistant nosocomial pathogen.
Genome Biol. Evol. (2014) 6:2096-2110. doi:10.1093/gbe/evu160. Pubmed

Kawamoto S, Maruya M, Kato LM, Suda W, Atarashi K, Doi Y, Tsutsui Y, Qin H, Honda K, Okada T, Hattori M, Fagarasan S.
Foxp3(+) T cells regulate immunoglobulin a selection and facilitate diversification of bacterial species responsible for immune homeostasis.
Immunity (2014) 41:152-65. doi:10.1016/j.immuni.2014.05.016. Pubmed

Takeuchi M, Kamagata Y, Oshima K, Hanada S, Tamaki H, Marumo K, Maeda H, Nedachi M, Hattori M, Iwasaki W, Sakata S.
Methylocaldum marinum sp. nov., a novel thermotolerant methane oxidizing bacterium isolated from marine sediments.
Int. J. Syst. Evol. Microbiol. (2014) 64:3240-3246. doi:10.1099/ijs.0.063503-0. Pubmed

Nikoh N, Hosokawa T, Moriyama M, Oshima K, Hattori M, Fukatsu T.
Evolutionary origin of insect–Wolbachia nutritional mutuals.
Proc. Natl. Acad. Sci. U S A. (2014) 111:10257-62. doi:10.1073/pnas.1409284111.Pubmed

Kudo T, Kawauchi A, Nakahara T, Zhang X, Taniyama S, Takatani T, Arakawa O, Oshima K, Suda W, Kitamura K, Iida T, Iino T, Inoue T, Hongoh Y, Hattori M, Ohkuma M.
Draft Genome Sequences of Vibrio sp. Strains Isolated from Tetrodotoxin-Bearing Scavenging Gastropod.
Genome Announc. (2014) 2:e00623-14. doi:10.1128/genomeA.00623-14.Pubmed

Kudo T, Nakahara T, Zhang X, Taniyama S, Arakawa O, Murase S, Nakata H, Oshima K, Suda W, Kitamura K, Iida T, Oshida Y, Inoue T, Hongoh Y, Hattori M, Ohkuma M.
Draft Genome Sequences of Geomicrobium sp. Strains JCM 19037, JCM 19038, JCM 19039, and JCM 19055, Isolated from Aquatic Samples.
Genome Announc. (2014) 2:e00622-14. doi:10.1128/genomeA.00622-14.Pubmed

Kumagai Y, Yoshizawa S, Oshima K, Hattori M, Iwasaki W, Kogure K.
Complete Genome Sequence of Winogradskyella sp. Strain PG-2, a Proteorhodopsin-Containing Marine Flavobacterium.
Genome Announc. (2014) 2:e00490-14. doi:10.1128/genomeA.00490-14.Pubmed

Ivanova EP, Ng HJ, Webb HK, Feng G, Oshima K, Hattori M, Ohkuma M, Sergeev AF, Mikhailov VV, Crawford RJ, Sawabe T.
Draft Genome Sequences of Marinobacter similis A3d10T and Marinobacter salarius R9SW1T.
Genome Announc. (2014) 2:e00442-14. doi:10.1128/genomeA.00442-14.Pubmed

Kato T, Fukuda S, Fujiwara A, Suda W, Hattori M, Kikuchi J, Ohno H.
Multiple Omics Uncovers Host–Gut Microbial Mutualism During Prebiotic Fructooligosaccharide Supplementation.
DNA Res. (2014) in press. doi:10.1093/dnares/dsu013.Pubmed

Irisawa T, Oshima K, Suda W, Kitahara M, Sakamoto M, Kitamura K, Iida T, Hattori M, Ohkuma M.
Draft Genome Sequence of Lactobacillus sucicola JCM 15457T, a Motile Lactic Acid Bacterium Isolated from Oak Sap.
Genome Announc. (2014) 2:e00403-14. doi:10.1128/genomeA.00403-14.Pubmed

International Glossina Genome Initiative.*
Genome sequence of the tsetse fly (Glossina morsitans): vector of African trypanosomiasis.
Science (2014) 344:380-386. doi:10.1126/science.1249656.Pubmed

• Watanabe J, Hattori M, Berriman M, Lehane MJ, Hall N, Solano P, Aksoy S, Hide W, Touré Y, Attardo GM, Darby AC, Toyoda A, Hertz-Fowler C, Larkin DM, Cotton JA, Watanabe J, Sanders MJ, Swain MT, Hattori M, Berriman M, Quail MA, Inoue N, Ravel S, Taylor TD, Srivastava TP, Sharma V, Warren W, Wilson RK, Suzuki Y, Lawson D, Hughes DS, Megy K, Masiga DK, Mireji PO, Attardo GM, Hansen IA, Van Den Abbeele J, Benoit JB, Bourtzis K, Lehane MJ, Aksoy S, Masiga DK, Obiero GF, Robertson HM, Jones JW, Zhou JJ, Field LM, Friedrich M, Mireji PO, Nyanjom SR, Telleria EL, Caljon G, Van Den Abbeele J, Ribeiro JM, Acosta-Serrano A, Benoit JB, Ooi CP, Rose C, Price DP, Haines LR, Lehane MJ, Christoffels A, Sim C, Pham DQ, Denlinger DL, Geiser L, Omedo IA, Benoit JB, Winzerling JJ, Peyton JT, Marucha KK, Jonas M, Meuti ME, Rawlings ND, Mireji PO, Zhang Q, Macharia RW, Michalkova V, Dashti ZJ, Baumann AA, Gäde G, Marco HG, Hansen IA, Caers J, Schoofs L, Riehle MA, Hu W, Tu Z, Tarone AM, Malacrida AR, Kibet CK, Benoit JB, Scolari F, Attardo GM, Koekemoer JJ, Willis J, Gomulski LM, Falchetto M, Scott MJ, Fu S, Sze SH, Luiz T, Weiss B, Walshe DP, Wang J, Benoit JB, Attardo GM, Wamalwa M, Mwangi S, Aksoy S, Ramphul UN, Snyder AK, Brelsfoard CL, Thomas GH, Tsiamis G, Bourtzis K, Arensburger P, Rio RV, Macdonald SJ, Panji S, Kruger A, Christoffels A, Benkahla A, Balyeidhusa AS, Msangi A, Ooi CP, Okoro CK, Masiga DK, Stephens D, Walshe DP, Stanley EJ, Mpondo F, Wamwiri F, Mramba F, Attardo GM, Siwo G, Obiero GF, Githinji G, Harkins G, Murilla G, Lehväslaiho H, Malele I, Koekemoer JJ, Auma JE, Kinyua JK, Ouma J, Watanabe J, Megy K, Okedi L, Manga L, Jonas M, Wamalwa M, Aslett M, Koffi M, Berriman M, Lehane MJ, Gaunt MW, Makgamathe M, Hall N, Mulder N, Manangwa O, Abila PP, Wincker P, Mireji PO, Gregory R, Rio RV, Bateta R, Sakate R, Aksoy S, Ommeh S, Lehane S, Nyanjom SR, Imanishi T, Taylor TD, Osamor VC, Sharma V, Hide W, Kawahara Y, Benoit JB.
  

Kudo T, Kidera A, Kida M, Kawauchi A, Shimizu R, Nakahara T, Zhang X, Yamada A, Amano M, Hamada Y, Taniyama S, Arakawa O, Yoshida A, Oshima K, Suda W, Kuwahara H, Nogi Y, Kitamura K, Yuki M, Iida T, Moriya S, Inoue T, Hongoh Y, Hattori M, Ohkuma M.
Draft Genome Sequences of Psychrobacter Strains JCM 18900, JCM 18901, JCM 18902, and JCM 18903, Isolated Preferentially from Frozen Aquatic Organisms.
Genome Announc. (2014) 2:e00280-14. doi:10.1128/genomeA.00280-14.Pubmed

Yuki M, Oshima K, Suda W, Kitahara M, Kitamura K, Iida T, Hattori M, Ohkuma M.
Draft Genome Sequences of Two Lactobacillus Strains, L. farraginis JCM 14108T and L. composti JCM 14202T, Isolated from Compost of Distilled Shōchū Residue.
Genome Announc. (2014) 2:e00257-14. doi:10.1128/genomeA.00257-14.Pubmed

Starns D, Oshima K, Suda W, Iino T, Yuki M, Inoue J, Kitamura K, Iida T, Darby A, Hattori M, Ohkuma M.
Draft Genome Sequence of Cytophaga fermentans JCM 21142T, a Facultative Anaerobe Isolated from Marine Mud.
Genome Announc. (2014) 2:e00206-14. doi:10.1128/genomeA.00206-14.Pubmed

Kudo T, Sakamoto K, Akinaga M, Kawauchi A, Nakahara T, Zhang X, Yamada A, Oshima K, Suda W, Kuwahara H, Nakamura N, Nogi Y, Kitamura K, Yuki M, Iida T, Moriya S, Inoue T, Hongoh Y, Hattori M, Ohkuma M.
Draft Genome Sequences of Cyclodextrin-Producing Alkaliphilic Bacillus Strains JCM 19045, JCM 19046, and JCM 19047.
Genome Announc. (2014) 2:e00211-14. doi:10.1128/genomeA.00211-14.Pubmed

Yuki M, Oshima K, Suda W, Oshida Y, Kitamura K, Iida T, Hattori M, Ohkuma M.
Draft Genome Sequence of Paenibacillus pini JCM 16418T, Isolated from the Rhizosphere of Pine Tree.
Genome Announc. (2014) 2:e00210-14. doi:10.1128/genomeA.00210-14.Pubmed

Narushima S, Sugiura Y, Oshima K, Atarashi K, Hattori M, Suematsu M, Honda K.
Characterization of the 17 strains of regulatory T cell-inducing human-derived Clostridia.
Gut Microbes. (2014) 5:1-7. doi:10.4161/gmic.28572.Pubmed

Miyamoto Y, Nakano T, Hattori M, Nara K.
The mid-domain effect in ectomycorrhizal fungi: range overlap along an elevation gradient on Mount Fuji, Japan.
ISME J. (2014) 8:1739-46. doi:10.1038/ismej.2014.34.Pubmed

Yuki M, Oshima K, Suda W, Sakamoto M, Kitamura K, Iida T, Hattori M, Ohkuma M.
Draft Genome Sequence of Clostridium straminisolvens Strain JCM 21531T, Isolated from a Cellulose-Degrading Bacterial Community.
Genome Announc. (2014) 2:e00110-14. doi:10.1128/genomeA.00110-14.Pubmed

Ahmed I, Oshima K, Suda W, Kitamura K, Iida T, Ohmori Y, Fujiwara T, Hattori M, Ohkuma M.
Draft Genome Sequence of the Boron-Tolerant and Moderately Halotolerant Bacterium Gracilibacillus boraciitolerans JCM 21714T.
Genome Announc. (2014) 2:e00097-14. doi:10.1128/genomeA.00097-14.Pubmed

Yuki M, Oshima K, Suda W, Sakamoto M, Iida T, Hattori M, Ohkuma M.
Draft Genome Sequence of Bacteroides reticulotermitis Strain JCM 10512T, Isolated from the Gut of a Termite.
Genome Announc. (2014) 2:e00072-14. doi:10.1128/genomeA.00072-14.Pubmed

Yuki M, Oshima K, Suda W, Oshida Y, Kitamura K, Iida T, Hattori M, Ohkuma M.
Draft Genome Sequences of Three Alkaliphilic Bacillus Strains, Bacillus wakoensis JCM 9140T, Bacillus akibai JCM 9157T, and Bacillus hemicellulosilyticus JCM 9152T.
Genome Announc. (2014) 2:e01258-13. doi:10.1128/genomeA.01258-13.Pubmed

Sakamoto M, Oshima K, Suda W, Kitamura K, Iida T, Hattori M, Ohkuma M.
Draft Genome Sequences of Three Strains of Bacteroides pyogenes Isolated from a Cat and Swine.
Genome Announc. (2014) 2:e01242-13. doi:10.1128/genomeA.01242-13.Pubmed

Guo Y, Fujimura R, Sato Y, Suda W, Kim SW, Oshima K, Hattori M, Kamijo T, Narisawa K, Ohta H.
Characterization of Early Microbial Communities on Volcanic Deposits along a Vegetation Gradient on the Island of Miyake, Japan.
Microbes Environ. (2014) 29:38-49. Pubmed

Ohkuma M, Yuki M, Oshima K, Suda W, Oshida Y, Kitamura K, Iida T, Hattori M.
Draft Genome Sequence of the Alkaliphilic and Xylanolytic Paenibacillus sp. Strain JCM 10914, Isolated from the Gut of a Soil- Feeding Termite.
Genome Announc. (2014) 2:e01144-13. doi:10.1128/genomeA.01144-13.Pubmed

Murayama MA, Kakuta S, Maruhashi T, Shimizu K, Seno A, Kubo S, Sato N, Saijo S, Hattori M, Nose M, Iwakura Y.
CTRP3 plays an important role in the development of collagen-induced arthritis in mice.
Biochem. Biophys. Res. Commun. (2014) 443:42-48. doi:10.1016/j.bbrc.2013.11.040.Pubmed

Takeuchi M, Katayama T, Yamagishi T, Hanada S, Tamaki H, Kamagata Y, Oshima K, Hattori M, Marumo K, Nedachi M, Maeda H, Suwa Y, Sakata S.
Methyloceanibacter caenitepidi gen. nov., sp. nov., a facultatively methylotrophic bacterium isolated from marine sediments near a hydrothermal vent.
Int. J. Syst. Evol. Microbiol. (2014) 64:462-468. doi:10.1099/ijs.0.053397-0.Pubmed

Said HS, Suda W, Nakagome S, Chinen H, Oshima K, Kim S, Kimura R, Iraha A, Ishida H, Fujita J, Mano S, Morita H, Dohi T, Oota H, Hattori M.
Dysbiosis of Salivary Microbiota in Inflammatory Bowel Disease and Its Association With Oral Immunological Biomarkers.
DNA Res. (2014) 21:15-25. doi:10.1093/dnares/dst037.Pubmed

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Toh H, Oshima K, Nakano A, Takahata M, Murakami M, Takaki T, Nishiyama H, Igimi S, Hattori M, Morita H.
Genomic Adaptation of the Lactobacillus casei Group.
PLoS One (2013) 8:e75073. Pubmed

Hisatsune J, Hirakawa H, Yamaguchi T, Fudaba Y, Oshima K, Hattori M, Kato F, Kayama S, Sugai M.
Emergence of Staphylococcus aureus Carrying Multiple Drug Resistance Genes on a Plasmid Encoding Exfoliative Toxin B.
Antimicrob. Agents Chemother. (2013) 57:6131-6140. Pubmed

Toh H, Oshima K, Suzuki T, Hattori M, Morita H.
Complete Genome Sequence of the Equol-Producing Bacterium Adlercreutzia equolifaciens DSM 19450T.
Genome Announc. (2013) 1:e00742-13. Pubmed

Murakami R, Denda-Nagai K, Hashimoto S, Nagai S, Hattori M, Irimura T.
A Unique Dermal Dendritic Cell Subset That Skews the Immune Response toward Th2.
PLoS One (2013) 8:e73270. Pubmed

Matsutani M, Ogawa M, Takaoka N, Hanaoka N, Toh H, Yamashita A, Oshima K, Hirakawa H, Kuhara S, Suzuki H, Hattori M, Kishimoto T, Ando S, Azuma Y, Shirai M.
Complete Genomic DNA Sequence of the East Asian Spotted Fever Disease Agent Rickettsia japonica.
PLoS One (2013) 8:e71861. Pubmed

Shimizu-Kadota M, Kato H, Shiwa Y, Oshima K, Machii M, Araya-Kojima T, Zendo T, Hattori M, Sonomoto K, Yoshikawa H.
Genomic Features of Lactococcus lactis IO-1, a Lactic Acid Bacterium That Utilizes Xylose and Produces High Levels of L-Lactic Acid.
Biosci. Biotechnol. Biochem. (2013) 77:1804-1808. Pubmed

Itoh H, Ishii S, Shiratori Y, Oshima K, Otsuka S, Hattori M, Senoo K.
Seasonal Transition of Active Bacterial and Archaeal Communities in Relation to Water Management in Paddy Soils.
Microbes Environ. (2013) 28:370-380. Pubmed

Tsukui T, Ueha S, Abe J, Hashimoto SI, Shichino S, Shimaoka T, Shand FH, Arakawa Y, Oshima K, Hattori M, Inagaki Y, Tomura M, Matsushima K.
Qualitative Rather than Quantitative Changes Are Hallmarks of Fibroblasts in Bleomycin-Induced Pulmonary Fibrosis.
Am. J. Pathol. (2013) 183:758-773. Pubmed

Nakabachi A, Ueoka R, Oshima K, Teta R, Mangoni A, Gurgui M, Oldham NJ, van Echten-Deckert G, Okamura K, Yamamoto K, Inoue H, Ohkuma M, Hongoh Y, Miyagishima SY, Hattori M, Piel J, Fukatsu T.
Defensive Bacteriome Symbiont with a Drastically Reduced Genome.
Curr. Biol. (2013) 23:1478-1484. Pubmed

Atarashi K, Tanoue T, Oshima K, Suda W, Nagano Y, Nishikawa H, Fukuda S, Saito T, Narushima S, Hase K, Kim S, Fritz JV, Wilmes P, Ueha S, Matsushima K, Ohno H, Olle B, Sakaguchi S, Taniguchi T, Morita H, Hattori M, Honda K.
Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota.
Nature (2013) 500:232-236. Pubmed

Shibata TF, Maeda T, Nikoh N, Yamaguchi K, Oshima K, Hattori M, Nishiyama T, Hasebe M, Fukatsu T, Kikuchi Y, Shigenobu S.
Complete Genome Sequence of Burkholderia sp. Strain RPE64, Bacterial Symbiont of the Bean Bug Riptortus pedestris.
Genome Announc. (2013) 1:e00441-13. Pubmed

Yoshimoto S, Loo TM, Atarashi K, Kanda H, Sato S, Oyadomari S, Iwakura Y, Oshima K, Morita H, Hattori M, Honda K, Ishikawa Y, Hara E, Ohtani N.
Obesity-induced gut microbial metabolite promotes liver cancer through senescence secretome.
Nature (2013) 499:97-101. Pubmed

Nakamura Y, Mori K, Saitoh K, Oshima K, Mekuchi M, Sugaya T, Shigenobu Y, Ojima N, Muta S, Fujiwara A, Yasuike M, Oohara I, Hirakawa H, Chowdhury VS, Kobayashi T, Nakajima K, Sano M, Wada T, Tashiro K, Ikeo K, Hattori M, Kuhara S, Gojobori T, Inouye K.
Evolutionary changes of multiple visual pigment genes in the complete genome of Pacific bluefin tuna.
Proc. Natl. Acad. Sci. U S A (2013) 110:11061-11066. Pubmed

Kim SW, Suda W, Kim S, Oshima K, Fukuda S, Ohno H, Morita H, Hattori M.
Robustness of Gut Microbiota of Healthy Adults in Response to Probiotic Intervention Revealed by High-Throughput Pyrosequencing.
DNA Res. (2013) 20:241-253.Pubmed

Fukao M, Oshima K, Morita H, Toh H, Suda W, Kim SW, Suzuki S, Yakabe T, Hattori M, Yajima N.
Genomic Analysis by Deep Sequencing of the Probiotic Lactobacillus brevis KB290 Harboring Nine Plasmids Reveals Genomic Stability.
PLoS One (2013) 8:e60521.Pubmed

Miyamoto H, Shimada E, Satoh T, Tanaka R, Oshima K, Suda W, Fukuda S, Nishiuchi T, Matsuura M, Mori K, Miyamoto H, Ohno H, Hattori M, Kodama H, Matsushita T.
Thermophile-fermented compost as a possible scavenging feed additive to prevent peroxidation.
J. Biosci. Bioeng. (2013) 116:203-208.Pubmed

Hashimoto SI, Ogoshi K, Sasaki A, Abe J, Qu W, Nakatani Y, Ahsan B, Oshima K, Shand FH, Ametani A, Suzuki Y, Kaneko S, Wada T, Hattori M, Sugano S, Morishita S, Matsushima K.
Coordinated Changes in DNA Methylation in Antigen-Specific Memory CD4 T Cells.
J. Immunol. (2013) 190:4076-4091.Pubmed

Yahara K, Furuta Y, Oshima K, Yoshida M, Azuma T, Hattori M, Uchiyama I, Kobayashi I.
Chromosome painting in silico in a bacterial species reveals fine population structure.
Mol. Biol. Evol. (2013) 30:1454-1464.Pubmed

Song S, Jarvie T, Hattori M.
Our Second Genome-Human Metagenome: How Next-Generation Sequencer Changes our Life Through Microbiology.
Adv. Microb. Physiol. (2013) 62:119-144.Pubmed

Negishi T, Oshima K, Hattori M, Yoshida K.
Plasma membrane-localized Al-transporter from blue hydrangea sepals is a member of the anion permease family.
Genes Cells (2013) 18:341-352.Pubmed

Okubo T, Fukushima S, Itakura M, Oshima K, Longtonglang A, Teaumroong N, Mitsui H, Hattori M, Hattori R, Hattori T, Minamisawa K.
Soil oligotrophic bacterium Agromonas oligotrophica (Bradyrhizobium oligotrophicum) is a nitrogen-fixing symbiont of Aeschynomene indica as suggested by genome analysis.
Appl. Environ. Microbiol. (2013) 79:2542-2451.Pubmed

Wakai T, Shinoda T, Uchida N, Hattori M, Nakamura Y, Beresford T, Ross RP, Yamamoto N.
Comparative analysis of proteolytic enzymes need for processing of antihypertensive peptides between Lactobacillus helveticus CM4 and DPC4571.
J. Biosci. Bioeng. (2013) 115:246-252.Pubmed

Satoh H, Oshima K, Suda W, Ranasinghe P, Li N, Gunawardana EG, Hattori M, Mino T.
Bacterial Population Dynamics in a Laboratory Activated Sludge Reactor Monitored by Pyrosequencing of 16S rRNA.
Microbes Environ. (2013) 28:65-70.Pubmed

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Tan E, Wongwarangkana C, Kinoshita S, Suzuki Y, Oshima K, Hattori M, Ineno T, Tamaki K, Kera A, Muto K, Yada T, Kitamura S, Asakawa S, Watabe S.
Global gene expression analysis of gill tissues from normal and thermally selected strains of rainbow trout.
Fish. Sci. (2012) 78:1041–1049.

Negishi T, Oshima K, Hattori M, Kanai M, Mano S, Nishimura M, Yoshida K.
Tonoplast- and plasma membrane-localized aquaporin-family transporters in blue hydrangea sepals of aluminum hyperaccumulating plant.
PLoS One (2012) 7:e43189.Pubmed

Hayashida K, Hara Y, Abe T, Yamasaki C, Toyoda A, Kosuge T, Suzuki Y, Sato Y, Kawashima S, Katayama T, Wakaguri H, Inoue N, Homma K, Tada-Umezaki M, Yagi Y, Fujii Y, Habara T, Kanehisa M, Watanabe H, Ito K, Gojobori T, Sugawara H, Imanishi T, Weir W, Gardner M, Pain A, Shiels B, Hattori M, Nene V, Sugimoto C.
Comparative genome analysis of three eukaryotic parasites with differing abilities to transform leukocytes reveals key mediators of Theileria-induced leukocyte transformation.
MBio (2012) 3:e00204-12.Pubmed

Ranasinghe PD, Satoh H, Oshiki M, Oshima K, Suda W, Hattori M, Mino T.
Revealing microbial community structures in large- and small-scale activated sludge systems by barcoded pyrosequencing of 16S rRNA gene.
Water Sci. Technol. (2012) 66:2155-2161.Pubmed

Takeno A, Okamoto A, Tori K, Oshima K, Hirakawa H, Toh H, Agata N, Yamada K, Ogasawara N, Hayashi T, Shimizu T, Kuhara S, Hattori M, Ohta M.
Complete Genome Sequence of Bacillus cereus NC7401, Which Produces High Levels of the Emetic Toxin Cereulide.
J. Bacteriol. (2012) 194:4767-4768.Pubmed

Fukuda S, Toh H, Taylor TD, Ohno H, Hattori M.
Acetate-producing bifidobacteria protect the host from enteropathogenic infection via carbohydrate transporters.
Gut Microbes (2012) 3:449-454.Pubmed

Fujimura R, Sato Y, Nishizawa T, Oshima K, Kim SW, Hattori M, Kamijo T, Ohta H.
Complete Genome Sequence of Leptospirillum ferrooxidans Strain C2-3, Isolated from a Fresh Volcanic Ash Deposit on the Island of Miyake, Japan.
J. Bacteriol. (2012) 194:4122-4123.Pubmed

Suzuki N, Uefuji H, Nishikawa T, Mukai Y, Yamashita A, Hattori M, Ogasawara N, Bamba T, Fukusaki EI, Kobayashi A, Ogata Y, Sakurai N, Suzuki H, Shibata D, Nakazawa Y.
Construction and analysis of EST libraries of the trans-polyisoprene producing plant, Eucommia ulmoides Oliver.
Planta (2012) 236:1405-1417. Pubmed

Hira D, Toh H, Migita CT, Okubo H, Nishiyama T, Hattori M, Furukawa K, Fujii T.
Anammox organism KSU-1 expresses a NirK-type copper-containing nitrite reductase instead of a NirS-type with cytochrome cd₁.
FEBS Lett. (2012) 586:1658-1663.Pubmed

Aikawa C, Furukawa N, Watanabe T, Minegishi K, Furukawa A, Eishi Y, Oshima K, Kurokawa K, Hattori M, Nakano K, Maruyama F, Nakagawa I, Ooshima T.
Complete Genome Sequence of the Serotype Streptococcus mutans Strain LJ23.
J. Bacteriol. (2012) 194:2754-2755.Pubmed

Yahara K, Kawai M, Furuta Y, Takahashi N, Handa N, Tsuru T, Oshima K, Yoshida M, Azuma T, Hattori M, Uchiyama I, Kobayashi I.
Genome-wide survey of mutual homologous recombination in a highly sexual bacterial species.
Genome Biol. Evol. (2012) 4:628-640.Pubmed

Kato H, Shiwa Y, Oshima K, Machii M, Araya-Kojima T, Zendo T, Shimizu-Kadota M, Hattori M, Sonomoto K, Yoshikawa H.
Complete Genome Sequence of Lactococcus lactis IO-1, a Lactic Acid Bacterium That Utilizes Xylose and Produces High Levels of L-Lactic Acid.
J. Bacteriol. (2012) 194:2102-2103.Pubmed

Okubo T, Tsukui T, Maita H, Okamoto S, Oshima K, Fujisawa T, Saito A, Futamata H, Hattori R, Shimomura Y, Haruta S, Morimoto S, Wang Y, Sakai Y, Hattori M, Aizawa SI, Nagashima KV, Masuda S, Hattori T, Yamashita A, Bao Z, Hayatsu M, Kajiya-Kanegae H, Yoshinaga I, Sakamoto K, Toyota K, Nakao M, Kohara M, Anda M, Niwa R, Jung-Hwan P, Sameshima-Saito R, Tokuda SI, Yamamoto S, Yamamoto S, Yokoyama T, Akutsu T, Nakamura Y, Nakahira-Yanaka Y, Takada Hoshino Y, Hirakawa H, Mitsui H, Terasawa K, Itakura M, Sato S, Ikeda-Ohtsubo W, Sakakura N, Kaminuma E, Minamisawa K.
Complete Genome Sequence of Bradyrhizobium sp. S23321: Insights into Symbiosis Evolution in Soil Oligotrophs.
Microbes Environ. (2012) 27:306-315.Pubmed

Rio RV, Symula RE, Wang J, Lohs C, Wu YN, Snyder AK, Bjornson RD, Oshima K, Biehl BS, Perna NT, Hattori M, Aksoy S.
Insight into the transmission biology and species-specific functional capabilities of tsetse (Diptera: glossinidae) obligate symbiont wigglesworthia.
MBio (2012) 3:e00240-11. Pubmed

Nishizawa T, Tago K, Oshima K, Hattori M, Ishii S, Otsuka S, Senoo K.
Complete Genome Sequence of the Denitrifying and N₂O-Reducing Bacterium Azoarcus sp. Strain KH32C.
J. Bacteriol. (2012) 194:1255.Pubmed

Takami H, Noguchi H, Takagi Y, Uchiyama I, Toyoda A, Nishi S, Chee GJ, Arai W, Nunoura T, Itoh T, Hattori M, Takai K.
A deeply branching thermophilic bacterium with an ancient acetyl-CoA pathway dominates a subsurface ecosystem.
PLoS One (2012) 7:e30559. Pubmed

Fujimura R, Sato Y, Nishizawa T, Nanba K, Oshima K, Hattori M, Kamijo T, Ohta H.
Analysis of early bacterial communities on volcanic deposits on the island of Miyake (Miyake-jima), Japan: a 6-year study at a fixed site.
Microbes Environ. (2012) 27:19-29. Pubmed

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Toh H, Sharma VK, Oshima K, Kondo S, Hattori M, Ward FB, Free A, Taylor TD.
Complete Genome Sequences of Arcobacter butzleri ED-1 and Arcobacter sp. Strain L, Both Isolated from a Microbial Fuel Cell.
J. Bacteriol. (2011) 193:6411-6412. Pubmed

Ishii S, Tago K, Nishizawa T, Oshima K, Hattori M, Senoo K.
Complete Genome Sequence of the Denitrifying and N₂O-Reducing Bacterium Pseudogulbenkiania sp. Strain NH8B.
J. Bacteriol. (2011) 193:6395-6396. Pubmed

Prakash T, Oshima K, Morita H, Fukuda S, Imaoka A, Kumar N, Sharma VK, Kim SW, Takahashi M, Saitou N, Taylar TD, Ohno H, Umesaki Y, Hattori M.
Complete genome sequences of rat and mouse segmented filamentous bacteria, a potent inducer of Th17 cell differentiation.
Cell Host Microbe (2011) 10:273–284. Pubmed

Tamakoshi M, Murakami A, Sugisawa M, Tsuneizumi K, Takeda S, Saheki T, Izumi T, Akiba T, Mitsuoka K, Toh H, Yamashita A, Arisaka F, Hattori M, Oshima T, Yamagishi A.
Genomic and proteomic characterization of the large Myoviridae bacteriophage φTMA of the extreme thermophile Thermus thermophilus.
Bacteriophage (2011) 1:152-164. Pubmed

Yokoyama S, Oshima K, Nomura I, Hattori M, Suzuki T.
Complete genomic sequence of the equol-producing bacterium Eggerthella sp. strain YY7918, isolated from adult human intestine.
J. Bacteriol. (2011) 193:5570-5571. Pubmed

Yokoyama S, Oshima K, Nomura I, Hattori M, Suzuki T.
Complete genomic sequence of the O-desmethylangolensin-producing bacterium Clostridium rRNA Cluster XIVa strain SY8519, isolated from adult human intestine.
J. Bacteriol. (2011) 193:5568-5569. Pubmed

Morita H, Toh H, Oshima K, Yoshizaki M, Kawanishi M, Nakaya K, Suzuki T, Miyauchi E, Ishii Y, Tanabe S, Murakami M, Hattori M.
Complete genome sequence and comparative analysis of the fish pathogen Lactococcus garvieae.
PLoS One (2011) 6:e23184. Pubmed

Ogoshi K, Hashimoto S, Natatani Y, Qu W, Oshima K, Tokunaga K, Sugano S, Hattori M, Morishita S, Matsushima K.
Genome wide profiling of DNA methylation in human cancer cells.
Genomics (2011) 98:280-287. Pubmed

Kuwahara T, Ogura Y, Oshima K, Kurokawa K, Ooka T, Hirakawa H, Itoh T, Nakayama-Imaohji H, Ichimura M, Itoh K, Ishifune C, Maekawa Y, Yasutomo K, Hattori M, Hayashi T.
The lifestyle of the segmented filamentous bacterium: A non-culturable gut-associated immunostimulating microbe inferred by whole-genome sequencing.
DNA Res. (2011) 18:291-303. Pubmed

Nikoh N, Hosokawa T, Oshima K, Hattori M, Fukatsu T.
Reductive evolution of bacterial genome in insect gut environment.
Genome Biol. Evol. (2011) 3:702-714. Pubmed

Watanabe T, Maruyama F, Nozawa T, Aoki A, Okano S, Shibata Y, Oshima K, Kurokawa K, Hattori M, Nakagawa I, Abiko Y.
Complete genome sequence of the periodontogenic bacterium Porphyromonas gingivalis TDC60.
J. Bacteriol. (2011) 193:4259-4260. Pubmed

Sato A, Oshima K, Noguchi H, Ogawa M, Takahashi T, Oguma T, Koyama Y, Itoh T, Hattori M, Hanya Y.
Draft genome sequencing and comparative analysis of Aspergillus sojae NBRC4239.
DNA Res. (2011) 18:165-176. Pubmed

Ikeda S, Okubo T, Takeda N, Banba M, Sasaki K, Imaizumi-Anraku H, Fujihara S, Ohwaki Y, Ohshima K, Fukuta Y, Eda S, Mitsui H, Hattori M, Sato T, Shinano T, Minamisawa K.
The genotype of the calcium/calmodulin-dependent protein kinase gene (CCaMK) determines bacterial community diversity in rice roots under paddy and upland field conditions.
Appl. Environ. Microbiol. (2011) 77:4399-4405. Pubmed

Kawai M, Furuta Y, Yahara K, Tsuru T, Oshima K, Handa N, Yoshida M, Azuma T, Hattori M, Uchiyama I, Kobayashi I.
Evolution in an oncogenic bacterial species with extreme genome plasticity: Helicobacter pylori East Asian genomes.
BMC Microbiology (2011) 11:104. Pubmed

Arumugam M, Jeroen Raes J, Pelletier E, Paslier DL, Yamada T, Mende DR, Fernandes GR, Tap J, Bruls T, Batto JM, Bertalan M, Borruel N, Casellas F, Fernandez L, Gautier L, Hansen T, Hattori M, Hayashi T, Kleerebezem M, Kurokawa K, Leclerc M, Levenez F, Manichanh C, H. Nielsen B, Nielsen T, Pons N, Poulain J, Qin J, Sicheritz-Ponten T, Tims S, Torrents D, Ugarte E, Zoetendal ED, Wang J, Guarner F, Pedersen O, de Vos WM, Brunak S, Doré J, MetaHIT Consortium, Weissenbach J, Ehrlich SD, Bork P.
Enterotypes of the human gut microbiome.
Nature (2011) 473:174-180. Pubmed

Fukuda S, Toh H, Hase K, Oshima K, Nakanishi Y, Yoshimura K, Tobe T, Clarke JM, Topping DP, Suzuki T, Taylor TD, Itoh K, Kikuchi J, Morita H, Hattori M, Ohno H.
Bifidobacteria can protect from enteropathogenic infection through production of acetate.
Nature (2011) 469:543–547. Pubmed

Furuta Y, Kawai M, Yahara K, Takahashi N, Handa N, Tsuru T, Oshima K, Yoshida M, Azuma T, Hattori M, Uchiyama I, Kobayashi I.
Birth and death of genes linked to chromosomal inversion.
Proc. Natl. Acad. Sci. USA. (2011) 108:1501-1506. Pubmed

Nunoura T, Takaki Y, Kakuta J, Nishi S, Sugahara J, Kazama H, Chee GJ, Hattori M, Kanai A, Atomi H, Takai K, Takami H.
Insights into the evolution of Archaea and eukaryotic protein modifier systems revealed by the genome of a novel archaeal group.
Nucleic Acids Res. (2011) 39:3204-3223. Pubmed

Morita H, Nakano A, Onoda H, Toh H, Oshima K, Takami H, Murakami M, Fukuda S, Takizawa T, Kuwahara T, Ohno H, Tanabe S, Hattori M.
Bifidobacterium kashiwanohense sp. nov., isolated from healthy infant faeces.
Int. J. Syst. Evol. Microbiol. (2011) 61:2610-2615. Pubmed

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Iyori K, Hisatsune J, Kawakami T, Shibata S, Murayama N, Ide K, Nagata M, Fukata T, Iwasaki T, Oshima K, Hattori M, Sugai M, Nishifuji K.
Identification of a novel Staphylococcus pseudintermedius exfoliative toxin gene and its prevalence in isolates from canines with pyoderma and healthy dogs.
FEMS Microbiol Lett. (2010) 312:169-175. Pubmed

Yano H, Miyakoshi M, Ohshima K, Tabata M, Nagata Y, Hattori M, Tsuda M.
Complete Nucleotide Sequence of TOL Plasmid pDK1 Provides Evidence for Evolutionary History of IncP-7 Catabolic Plasmids.
J Bacteriol. (2010) 192:4337-4347. Pubmed

Toh H, Oshima K, Toyoda A, Ogura Y, Ooka T, Sasamoto H, Park SH, Iyoda S, Kurokawa K, Morita H, Itoh K, Taylor TD, Hayashi T, Hattori M.
Complete genome sequence of the wild-type commensal Escherichia coli strain SE15 belonging to phylogenetic group B2.
J. Bacteriol. (2010) 192:1165-1166. Pubmed

Morita H, Shimazu M, Shiono H, Toh H, Nakajima F, Akita H, Takagi M, Takami H, Murakami M, Masaoka T, Tanabe S, Hattori M.
Lactobacillus equicursoris sp. nov. isolated from the faeces of a thoroughbred racehorse.
Int. J. Syst. Evol. Microbiol. (2010) 60:109–112.Pubmed

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Morita H, Toh H, Oshima K, Murakami M, Taylor TD, Igimi S, Hattori M.
Complete genome sequence of probiotic Lactobacillus rhamnosus ATCC 53103.
J. Bacteriol. (2009) 191:7630-7631. Pubmed

Ogura Y, Ooka T, Iguchi A, Toh H, Asadulghani M, Oshima K, Yamashita A, Kodama T, Abe H, Kurokawa K, Nakayama K, Tobe T, Hattori M, Hayashi T.
Comparative genomics revealed the mechanism of parallel evolution of enterohemorrhagic Escherichia coli.
Proc. Natl. Acad. Sci. USA. (2009) 106:17939-17944. Pubmed

Ishii S, Yamamoto M, Kikuchi M, Oshima K, Hattori M, Otsuka S, Senoo K.
Microbial Populations Responding to Denitrification-Inductive Conditions in Rice Paddy Soil, As Revealed by Comparative 16S rRNA Gene Analysis.
Appl. Environ. Microbiol. (2009) 75:7070-7078. Pubmed

Goto H, Watanabe K, Araragi N, Kageyama R, Tanaka K, Kuroki Y, Toyoda A, Hattori M, Sakaki Y, Fujiyama A, Fukumaki Y, Shibata H.
The identification and functional implications of human-specific “fixed” amino acid substitutions in the glutamate receptor family.
BMC Evol. Biol. (2009) 2009 9:224. Pubmed

Maruyama F, Kobata M, Kurokawa K, Nishida K, Sakurai A, Nakano K, Nomura R, Kawabata S, Ooshima T, Nakai K, Hattori M, Hamada S, Nakagawa I.
Comparative genomic analyses of Streptococcus mutans provide insights into chromosomal shuffling and species-specific content.
BMC Genomics. (2009) 10:358.Pubmed

Nieuwenhuis EE, Matsumoto T, Lindenbergh D, Willemsen R, Kaser A, Simons-Oosterhuis Y, Brugman S, Yamaguchi K, Ishikawa H, Aiba Y, Koga Y, Samsom JN, Oshima K, Kikuchi M, Escher JC, Hattori M, Onderdonk AB, Blumberg RS.
Cd1d-dependent regulation of bacterial colonization in the intestine of mice.
J. Clin. Invest. (2009) 119:1241-1250.Pubmed

Nakao Y, Kanamori T, Itoh T, Kodama Y, Rainieri S, Nakamura N, Shimonaga T, Hattori M, Ashikari T.
Genome Sequence of the Lager Brewing Yeast, an Interspecies Hybrid.
DNA Res. (2009) 16:115-129.Pubmed

Hattori M, Taylor TD.
The human intestinal microbiome: A new frontier of human biology.
DNA Res. (2009) 16:1-12.Pubmed

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Morita H, Shiratori C, Murakami M, Takami H, Toh H, Kato Y, Nakajima F, Takagi M, Akita H, Masaoka T, Hattori M.
Sharpea azabuensis gen. nov., sp. nov., a Gram-positive strict anaerobic bacterium isolated from the faeces of Thoroughbred horses.
Int. J. Syst. Evol. Microbiol. (2008) 58:2682-2686.Pubmed

Kumagai H, Utsunomiya S, Nakamura S, Yamamoto R, Harada A, Kaji T, Hazama M, Ohashi T, Inami A, Ikegami T, Miyamoto K, Endo N, Yoshimi K, Toyoda A, Hattori M, Sakaki Y.
Large-scale microfabricated channel plates for high-throughput, fully automated DNA sequencing.
Electrophoresis (2008) 29:4723-4732.Pubmed

Hongoh Y, Sharma VK, Prakash T, Noda S, Toh H, Taylor TD, Kudo T, Sakaki T, Toyoda A, Hattori M, Ohkuma M.
Genome of an Endosymbiont Coupling N2 Fixation to Cellulolysis Within Protist Cells in Termite Gut.
Science (2008) 322:1108-1109.Pubmed. News

Oshima K, Toh H, Ogura Y, Sasamoto H, Morita H, Park SH, Ooka T, Iyoda S, Taylor TD, Hayashi T, Itoh K, Hattori M.
Complete Genome Sequence and Comparative Analysis of the Wild-type Commensal Escherichia coli Strain SE11 Isolated from a Healthy Adult.
DNA Res. (2008) 15:375-386.Pubmed

Ogura Y, Abe H, Katsura K, Kurokawa K, Asadulghani M, Iguchi A, Ooka T, Nakayama K, Yamashita A, Hattori M, Tobe T, Hayashi T.
Systematic identification and sequence analysis of the genomic islands of the enteropathogenic Escherichia coli strain B171-8 by the combined use of Whole Genome PCR Scanning and fosmid mapping.
J. Bacteriol. (2008) 190:6948-6960.Pubmed

Naito M, Hirakawa H, Yamashita A, Ohara N, Shoji M, Yukitake H, Nakayama K, Toh H, Yoshimura F, Kuhara S, Hattori M, Hayashi T, Nakayama K.
Determination of the Genome Sequence of Porphyromonas gingivalis Strain ATCC 33277 and Genomic Comparison with Strain W83 Revealed Extensive Genome Rearrangements in P. gingivalis.
DNA Res. (2008) 15:215-225.Pubmed

Nakayama K, Yamashita A, Kurokawa K, Morimoto T, Ogawa M, Fukuhara M, Urakami H, Ohnishi M, Uchiyama I, Ogura Y, Ooka T, Oshima K, Tamura A, Hattori M, Hayashi T.
The Whole-genome Sequencing of the Obligate Intracellular Bacterium Orientia tsutsugamushi Revealed Massive Gene Amplification During Reductive Genome Evolution.
DNA Res. (2008) 15:185-199.Pubmed

Wang J, Hu C, Wu Y, Stuart A, Amemiya C, Berriman M, Toyoda A, Hattori M, Aksoy S.
Characterization of the antimicrobial peptide attacin loci from Glossina morsitans.
Insect Mol. Biol. (2008) 17:293-302.Pubmed

Murakami K, Toyoda A, Hattori M, Kuroki Y, Fujiyama A, Kojima T, Matsuda M, Sakaki Y, Yamamoto M-T.
BAC library construction and BAC end sequencing of five Drosophila species: the comparative map with the D. melanogaster genome.
Genes & Genetic Systems. (2008) 83:245-256.Pubmed

Morita H, Toh H, Fukuda S, Horikawa H, Oshima K, Suzuki T, Murakami M, Hisamatsu S, Kato Y, Fukuoka H, Yoshimura T, Ito K, O'Sullivan DJ, McKay LL, Ohno H, Kikuchi J, Masaoka T, Hattori M.
Comparative genome analysis of Lactobacillus reuteri and Lactobacillus fermentum reveal a genomic island for reuterin and cobalamin production.
DNA Res. (2008) 15:151-161.Pubmed

Ohnishi Y, Ishikawa J, Hara H, Suzuki H, Ikenoya M, Ikeda H, Yamashita A, Hattori M, Horinouchi S.
The Genome Sequence of the Streptomycin-Producing Microorganism Streptomyces griseus IFO 13350.
J. Bacteriol. (2008) 190:4050-4060.Pubmed

Hongoh Y, Sharma VK, Prakash T, Noda S, Taylor TD, Kudo T, Sakaki T, Toyoda A, Hattori M, Ohkuma M.
Complete genome of the uncultured Termite Group 1 bacteria in a single host protist cell.
Proc. Natl. Acad. Sci. USA (2008) 105:5555-5560.Pubmed　News

Goto T, Yamashita A, Hirakawa H, Matsutani M, Todo K, Ohshima K, Toh H, Miyamoto K, Kuhara S, Hattori M, Shimizu T, Akimoto S.
Complete Genome Sequence of Finegoldia magna, an Anaerobic Opportunistic Pathogen.
DNA Res. (2008) 15:39-47.Pubmed

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Kurokawa K, Itoh T, Kuwahara T, Oshima K, Toh H, Toyoda A, Takami H, Morita H, Sharma VK, Srivastava TP, Taylor TD, Noguchi H, Mori H, Ogura Y, Ehrlich DS, Itoh K, Takagi T, Sakaki Y, Hayashi T, Hattori M.
Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes.
DNA Res. (2007) 14:169-181. Pubmed

Qin T, Hirakawa H, Iida KI, Oshima K, Hattori M, Tashiro K, Kuhara S, Yoshida SI.
Complete nucleotide sequence of pLD-TEX-KL, a 66-kb plasmid of Legionella dumoffii TEX-KL strain.
Plasmid (2007) 58:261-268. Pubmed

Morita H, Kuwahara T, Ohshima K, Sasamoto H, Itoh K, Hattori M, Hayashi T, Takami H.
An improved isolation method for metagenomic analysis of the microbial flora of the human intestine.
Microbes Environ. (2007) 22:214-222.

→Pubmed(ALL LIST)

Miura F, Kawaguchi N, Sese J, Toyoda A, Hattori M, Morishita S, Ito T.
A large-scale full-length cDNA analysis to explore the budding yeast transcriptome.
Proc. Natl. Acad. Sci. USA (2006) 103:17846-17851.Pubmed

Nakabachi A, Yamashita A, Toh H, Ishikawa H, Dunbar HE, Moran NA, Hattori M.
The 160-kilobase genome of the bacterial endosymbiont Carsonella.
Science (2006) 314:267.Pubmed写真

Kanamoto H, Yamashita A, Asao H, Okumura S, Takase H, Hattori M, Yokota A, Tomizawa K.
Efficient and stable transformation of Lactuca sativa L. cv. Cisco (lettuce) plastids.
Transgenic Res. (2006) 15:205-217. Pubmed

Taylor TD, Noguchi H, Totoki Y, Toyoda A, Kuroki Y, Dewar K, Lloyd C, Itoh T, Takeda T, Kim DW, She X, Barlow KF, Bloom T, Bruford E, Chang JL, Cuomo CA, Eichler E, FitzGerald MG, Jaffe DB, LaButti K, Nicol R, Park HS, Seaman C, Sougnez C, Yang X, Zimmer AR, Zody MC, Birren BW, Nusbaum C, Fujiyama A, Hattori M, Rogers J, Lander ES, Sakaki Y.
Human chromosome 11 DNA sequence and analysis including novel gene identification.
Nature (2006) 440:497-500.Pubmed

Izawa M, Kitamura N, Odake N, Maki F, Kanehira K, Nemoto H, Yamaguchi M, Yamashita A, Sasaki N, Hattori M, Kanayama S, Yoned Y.
A rapid and simple transcriptional sequencing method for GC-rich DNA regions.
Jpn J. Vet. Res. (2006) 53:159-168.Pubmed

Kuroki Y, Toyoda A, Noguchi H, Taylor TD, Itoh T, Kim DS, Kim DW, Choi SH, Kim IC, Choi HH, Kim YS, Satta Y, Saitou N, Yamada T, Morishita S, Hattori M, Sakaki Y, Park HS, Fujiyama A.
Comparative analysis of chimpanzee and human Y chromosomes unveils complex evolutionary pathway.
Nature Genetics (2006) 38:158-167.Pubmed

Azuma Y, Hirakawa H, Yamashita A, Cai Y, Rahman MA, Suzuki H, Mitaku S, Toh H, Goto S, Murakami T, Sugi K, Hayashi H, Fukushi H, Hattori M, Kuhara S, Shirai M.
Genome sequence of the cat pathogen, Chlamydophila felis.
DNA Res. (2006) 13:15-23.Pubmed

Toh H, Weiss B, Perkin S, Yamashita A, Oshima K, Hattori M, Aksoy S.
Massive genome erosion and functional adaptations provide insights into the symbiotic lifestyle of Sodalis glossinidius in the tsetse host.
Genome Res. (2006) 16:149-156.Pubmed

Sakaguchi Y, Hayashi T, Kurokawa K, Nakayama K, Oshima K, Fujinaga Y, Ohnishi M, Ohtsubo E, Hattori M, Oguma K.
The genome sequence of Clostridium botulinum type C neurotoxin-converting phage and the molecular mechanisms of unstable lysogeny.
Proc. Natl. Acad. Sci. USA (2005) 102:17472-17477. Pubmed

Itoh T, Toyoda A, Taylor TD, Sakaki Y, Hattori M.
Identification of large ancient duplications associated with human gene deserts.
Nature Genetics (2005) 37:1041-1043. Pubmed

Nusbaum C, Zody MC, Borowsky ML, Kamal M, Kodira CD, Taylor TD, Whittaker CA, Chang JL, Cuomo CA, Dewar K, FitzGerald MG, Yang X, Abouelleil A, Allen NR, Anderson S, Bloom T, Bugalter B, Butler J, Cook A, DeCaprio D, Engels R, Garber M, Gnirke A, Hafez N, Hall JL, Norman CH, Itoh T, Jaffe DB, Kuroki Y, Lehoczky J, Lui A, Macdonald P, Mauceli E, Mikkelsen TS, Naylor JW, Nicol R, Nguyen C, Noguchi H, O'Leary SB, Piqani B, Smith CL, Talamas JA, Topham K, Totoki Y, Toyoda A, Wain HM, Young SK, Zeng Q, Zimmer AR, Fujiyama A, Hattori M, Birren BW, Sakaki Y, Lander ES.
DNA sequence and analysis of human chromosome 18.
Nature (2005) 437:551-555. Pubmed

Kuroda M, Yamashita A, Hirakawa H, Kumano M, Morikawa K, Higashide M, Maruyama A, Inose Y, Matoba K, Toh H, Kuhara S, Hattori M, Ohta T.
Whole genome sequence of Staphylococcus saprophyticus reveals the pathogenesis of uncomplicated urinary tract infection.
Proc. Natl. Acad. Sci. USA (2005) 102:13272-13277. Pubmed

Osada T, Toyoda A, Moisyadi S, Akutsu H, Hattori M, Sakaki Y, Yanagimachi R.
Production of inbred and hybrid transgenic mice carrying large (> 200 kb) foreign DNA fragments by intracytoplasmic sperm injection.
Mol. Reprod. Dev. (2005) 72:329-335. Pubmed

Aksoy S, Berriman M, Hall N, Hattori M, Hide W, Lehane MJ.
A case for a Glossina genome project.
Trends Parasitol. (2005) 21:107-111. Pubmed

Yokomine T, Shirohzu H, Purbowasito W, Toyoda A, Iwama H, Ikeo K, Hori T, Mizuno S, Tsudzuki M, Matsuda Y, Hattori M, Sakaki Y, Sasaki H.
Structural and functional analysis of a 0.5-Mb chicken region orthologous to the imprinted mammalian Ascl2/Mash2-Igf2-H19 region.
Genome Res. (2005) 15:154-165. Pubmed

Abe K, Noguchi H, Tagawa K, Yuzuriha M, Toyoda A, Kojima T, Ezawa K, Saitou N, Hattori M, Sakaki Y, Moriwaki K, Shiroishi T.
Contribution of Asian mouse subspecies Mus musculus molossinus to genomic constitution of strain C57BL/6J, as defined by BAC-end sequence-SNP analysis.
Genome Res. (2004) 14:2439-2447. Pubmed

Shirohzu H, Yokomine T, Sato C, Kato R, Toyoda A, Purbowasito W, Suda C, Mukai T, Hattori M, Okumura K, Sakaki Y, Sasaki H.
A 210-kb segment of tandem repeats and retroelements located between imprinted subdomains of mouse distal chromosome 7.
DNA Res. (2004) 11:325-334. Pubmed

International Human Genome Sequencing Consortium.(RIKEN GSC group: Sakaki Y, Hattori M, et al.)
Finishing the euchromatic sequence of the human genome.
Nature (2004) 431:931-945. Pubmed写真

Ishikawa J, Yamashita A, Mikami Y, Hoshino Y, Kurita H, Hotta K, Shiba T, Hattori M.
The complete genomic sequence of Nocardia farcinica IFM 10152.
Proc. Natl. Acad. Sci. USA (2004) 101:14925-14930. Pubmed

Kuwahara T, Yamashita A, Hirakawa H, Nakayama H, Toh H, Okada N, Kuhara S, Hattori M, Hayashi T, Ohnishi Y.
Genomic analysis of Bacteroides fragilis reveals extensive DNA inversions regulating cell surface adaptation.
Proc. Natl. Acad. Sci. USA (2004) 101:14919-14924. Pubmed{{:fig:star.gif?8×8|}

Ueda K, Yamashita A, Ishikawa J, Shimada M, Watsuji TO, Morimura K, Ikeda H, Hattori M, Beppu T.
Genome sequence of Symbiobacterium thermophilum, an uncultivable bacterium that depends on microbial commensalism.
Nucleic Acids Res. (2004) 32:4937-4944. Pubmed

Watanabe H, Fujiyama A, Hattori M, Taylor TD, Toyoda A, Kuroki Y, Noguchi H, BenKahla A, Lehrach H, Sudbrak R, Kube M, Taenzer S, Galgoczy P, Platzer M, Scharfe M, Nordsiek G, Blocker H, Hellmann I, Khaitovich P, Paabo S, Reinhardt R, Zheng HJ, Zhang XL, Zhu GF, Wang BF, Fu G, Ren SX, Zhao GP, Chen Z, Lee YS, Cheong JE, Choi SH, Wu KM, Liu TT, Hsiao KJ, Tsai SF, Kim CG, OOta S, Kitano T, Kohara Y, Saitou N, Park HS, Wang SY, Yaspo ML, Sakaki Y.
DNA sequence and comparative analysis of chimpanzee chromosome 22.
Nature (2004) 429:382-388. Pubmed

Ohta T, Hirakawa H, Morikawa K, Maruyama A, Inose Y, Yamashita A, Oshima K, Kuroda M, Hattori M, Hiramatsu K, Kuhara S, Hayashi H.
Nucleotide substitutions in Staphylococcus aureus strains, Mu50, Mu3, and N315.
DNA Res. (2004) 11:51-56. Pubmed

Ohshima K, Hattori M, Yada T, Gojobori T, Sakaki Y, Okada N.
Whole-genome screening indicates a possible burst of formation of processed pseudogenes and Alu repeats by particular L1 subfamilies in ancestral primates.
Genome Biol. (2003) 4:R74. Pubmed

Nakagawa I, Kurokawa K, Yamashita A, Nakata M, Tomiyasu Y, Okahashi N, Kawabata S, Yamazaki K, Shiba T, Yasunaga T, Hayashi H, Hattori M, Hamada S.
Genome sequence of an M3 strain of Streptococcus pyogenes reveals a large-scale genomic rearrangement in invasive strains and new insights into phage evolution.
Genome Res. (2003) 13:1042-1055. Pubmed

Ikeda H, Ishikawa J, Hanamoto A, Shinose M, Kikuchi H, Shiba T, Sakaki Y, Hattori M, Omura S.
Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis.
Nature Biotechnology (2003) 21:526-531. Pubmed写真

Toh H, Miura K, Shirai M, Hattori M.
In silico inference of inclusion membrane protein family in obligate intracellular parasites chlamydiae.
DNA Res. (2003) 10:9-17. Pubmed

Makino K, Oshima K, Kurokawa K, Yokoyama K, Uda T, Tagomori K, Iijima Y, Najima M, Nakano M, Yamashita A, Kubota Y, Kimura S, Yasunaga T, Honda T, Shinagawa H, Hattori M, Iida T.
Genome sequence of Vibrio parahaemolyticus: a pathogenic mechanism distinct from that of V cholerae.
Lancet (2003) 361:743-749. Pubmed

Xinh PT, Tri NK, Nagao H, Nakazato H, Taketazu F, Fujisawa S, Yagasaki F, Chen YZ, Hayashi Y, Toyoda A, Hattori M, Sakaki Y, Tokunaga K, Sato Y.
Breakpoints at 1p36.3 in three MDS/AML(M4) patients with t(1;3)(p36;q21) occur in the first intron and in the 5' region of MEL1.
Genes, Chromosomes and Cancer 36:313-317. Pubmed

Sasaki Y, Ishikawa J, Yamashita A, Oshima K, Kenri T, Furuya K, Yoshino C, Horino A, Shiba T, Sasaki T, Hattori M.
The complete genomic sequence of Mycoplasma penetrans, an intracellular bacterial pathogen in humans.
Nucleic Acids Res. (2002) 30:5293-5300. Pubmed

Brunak S, Danchin A, Hattori M, Nakamura H, Shinozaki K, Matise T, Preuss D.
Nucleotide sequence database policies.
Science (2002) 298:1333. Pubmed

Akman L, Yamashita A, Watanabe H, Oshima K, Shiba T, Hattori M, Aksoy S.
Genome sequence of the endocellular obligate symbiont of tsetse flies, Wigglesworthia glossinidia.
Nature Genetics (2002) 32:402-407. Pubmed

Tri NK, Xinh PT, Nagao H, Izumi T, Ozawa K, Toyoda A, Hattori M, Sakaki Y, Tokunaga K, Sato Y.
Identification of the breakpoints at 1p36.2 and 3p21.3 in an AML(M3) patient who had t(1;3)(p36.2;p21.3) at the third relapse.
Genes Chromosomes Cancer (2002) 35:365-367. Pubmed

Wakui K, Toyoda A, Kubota T, Hidaka E, Ishikawa M, Katsuyama T, Sakaki Y, Hattori M, Fukushima Y.
Familial 14-Mb deletion at 21q11.2-q21.3 and variable phenotypic expression.
J. Hum. Genet. (2002) 47:511-516. Pubmed

Toyoda A, Noguchi H, Taylor TD, Ito T, Pletcher MT, Sakaki Y, Reeves RH, Hattori M.
Comparative genomic sequence analysis of the human chromosome 21 down syndrome critical region.
Genome Res. (2002) 12:1323-1332. Pubmed

Takamatsu K, Maekawa K, Togashi T, Choi D-K, Suzuki Y, Taylor TD, Toyoda A, Sugano S, Fujiyama A, Hattori M, Sakaki Y, Takeda T.
Identification of two novel primate-specific genes in DSCR.
DNA Res. (2002) 9:89-97. Pubmed

Shimizu T, Ohtani K, Hirakawa H, Ohshima K, Yamashita A, Shiba T, Ogasawara N, Hattori M, Kuhara S, Hayashi H.
Complete genome sequence of Clostridium perfringens, an anaerobic flesh-eater.
Proc. Natl. Acad. Sci. USA (2002) 99:996-1001. Pubmed

Fujiyama A, Watanabe H, Toyoda A, Taylor TD, Itoh T, Tsai S-F, Park H-S, Yaspo M-L, Lehrach H, Chen Z, Fu G, Saitou N, Osoegawa K, de Jong PJ, Suto Y, Hattori M, Sakaki Y.
Construction and analysis of a human-chimpanzee comparative clone map.
Science (2002) 295:131-134. Pubmed

Watanabe Y, Fujiyama A, Ichiba Y, Hattori M, Yada T, Sakaki Y, Ikemura T.
Chromosome-wide assessment of replication timing for human chromosomes 11q and 21q: disease-related genes in timing-switch regions.
Hum. Mol. Genet. (2002) 11:13-21. Pubmed

Hattori M, Taylor TD.
Part three in the book of genes.
Nature (2001) 414:854-855. Pubmed

Omura S, Ikeda H, Ishikawa J, Hanamoto A, Takahashi C, Shinose M, Takahashi Y, Horikawa H, Nakazawa H, Osonoe T, Kikuchi H, Shiba T, Sakaki Y, Hattori M.
Genome sequence of an industrial microorganism Streptomyces avermitilis: deducing the ability of producing secondary metabolites.
Proc. Natl. Acad. Sci. USA (2001)98:12215-12220. Pubmed

Ichikawa Y, Goto J, Hattori M, Toyoda A, Ishii K, Jeong SY, Hashida H, Masuda N, Ogata K, Kasai F, Hirai M, Maciel P, Rouleau GA, Sakaki Y, Kanazawa I.
The genomic structure and expression of MJD, the Machado-Joseph disease gene.
J. Hum. Genet. (2001) 46:413-422. Pubmed

Choi DK, Suzuki Y, Yoshimura S, Togashi T, Hida M, Taylor TD, Wang Y, Sugano S, Hattori M, Sakaki Y.
Molecular cloning and characterization of a gene expressed in mouse developing tongue, mDscr5 gene, a homolog of human DSCR5 (Down syndrome Critical Region gene 5).
Mamm. Genome (2001) 12:347-351. Pubmed

Kuroda M, Ohta T, Uchiyama I, Baba T, Yuzawa H, Kobayashi I, Cui L, Oguchi A, Aoki K, Nagai Y, Lian J, Ito T, Kanamori M, Matsumaru H, Maruyama A, Murakami H, Hosoyama A, Mizutani-Ui Y, Takahashi NK, Sawano T, Inoue R, Kaito C, Sekimizu K, Hirakawa H, Kuhara S, Goto S, Yabuzaki J, Kanehisa M, Yamashita A, Oshima K, Furuya K, Yoshino C, Shiba T, Hattori M, Ogasawara N, Hayashi H, Hiramatsu K.
Whole genome sequencing of meticillin-resistant Staphylococcus aureus.
Lancet (2001) 357:1225-1240. Pubmed

Ito T, Chiba T, Ozawa R, Yoshida M, Hattori M, Sakaki Y.
A comprehensive two-hybrid analysis to explore the yeast protein interactome.
Proc. Natl. Acad. Sci. USA (2001) 98:4569-4574. Pubmed

Hayashi T, Makino K, Ohnishi M, Kurokawa K, Ishii K, Yokoyama K, Han CG, Ohtsubo E, Nakayama K, Murata T, Tanaka M, Tobe T, Iida T, Takami H, Honda T, Sasakawa C, Ogasawara N, Yasunaga T, Kuhara S, Shiba T, Hattori M, Shinagawa H.
Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12.
DNA Res. (2001) 8:11-22. Pubmed

McPherson JD, Marra M, Hillier L, Waterston RH, Chinwalla A, Wallis J, Sekhon M, Wylie K, Mardis ER, Wilson RK, Fulton R, Kucaba TA, Wagner-McPherson C, Barbazuk WB, Gregory SG, Humphray SJ, French L, Evans RS, Bethel G, Whittaker A, Holden JL, McCann OT, Dunham A, Soderlund C, Scott CE, Bentley DR, Schuler G, Chen HC, Jang W, Green ED, Idol JR, Maduro VV, Montgomery KT, Lee E, Miller A, Emerling S, Kucherlapati, Gibbs R, Scherer S, Gorrell JH, Sodergren E, Clerc-Blankenburg K, Tabor P, Naylor S, Garcia D, de Jong PJ, Catanese JJ, Nowak N, Osoegawa K, Qin S, Rowen L, Madan A, Dors M, Hood L, Trask B, Friedman C, Massa H, Cheung VG, Kirsch IR, Reid T, Yonescu R, Weissenbach J, Bruls T, Heilig R, Branscomb E, Olsen A, Doggett N, Cheng JF, Hawkins T, Myers RM, Shang J, Ramirez L, Schmutz J, Velasquez O, Dixon K, Stone NE, Cox DR, Haussler D, Kent WJ, Furey T, Rogic S, Kennedy S, Jones S, Rosenthal A, Wen G, Schilhabel M, Gloeckner G, Nyakatura G, Siebert R, Schlegelberger B, Korenberg J, Chen XN, Fujiyama A, Hattori M, Toyoda A, Yada T, Park HS, Sakaki Y, Shimizu N, Asakawa S, Kawasaki K, Sasaki T, Shintani A, Shimizu A, Shibuya K, Kudoh J, Minoshima S, Ramser J, Seranski P, Hoff C, Poustka A, Reinhardt R, Lehrach H.
A physical map of the human genome.
Nature (2001) 409:934-941. Pubmed

Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC, Baldwin J, Devon K, Dewar K, Doyle M, FitzHugh W, Funke R, Gage D, Harris K, Heaford A, Howland J, Kann L, Lehoczky J, LeVine R, McEwan P, McKernan K, Meldrim J, Mesirov JP, Miranda C, Morris W, Naylor J, Raymond C, Rosetti M, Santos R, Sheridan A, Sougnez C, Stange-Thomann N, Stojanovic N, Subramanian A, Wyman D, Rogers J, Sulston J, Ainscough R, Beck S, Bentley D, Burton J, Clee C, Carter N, Coulson A, Deadman R, Deloukas P, Dunham A, Dunham I, Durbin R, French L, Grafham D, Gregory S, Hubbard T, Humphray S, Hunt A, Jones M, Lloyd C, McMurray A, Matthews L, Mercer S, Milne S, Mullikin JC, Mungall A, Plumb R, Ross M, Shownkeen R, Sims S, Waterston RH, Wilson RK, Hillier LW, McPherson JD, Marra MA, Mardis ER, Fulton LA, Chinwalla AT, Pepin KH, Gish WR, Chissoe SL, Wendl MC, Delehaunty KD, Miner TL, Delehaunty A, Kramer JB, Cook LL, Fulton RS, Johnson DL, Minx PJ, Clifton SW, Hawkins T, Branscomb E, Predki P, Richardson P, Wenning S, Slezak T, Doggett N, Cheng JF, Olsen A, Lucas S, Elkin C, Uberbacher E, Frazier M, Gibbs RA, Muzny DM, Scherer SE, Bouck JB, Sodergren EJ, Worley KC, Rives CM, Gorrell JH, Metzker ML, Naylor SL, Kucherlapati RS, Nelson DL, Weinstock GM, Sakaki Y, Fujiyama A, Hattori M, Yada T, Toyoda A, Itoh T, Kawagoe C, Watanabe H, Totoki Y, Taylor TD, Weissenbach J, Heilig R, Saurin W, Artiguenave F, Brottier P, Bruls T, Pelletier E, Robert C, Wincker P, Smith DR, Doucette-Stamm L, Rubenfield M, Weinstock K, Lee HM, Dubois J, Rosenthal A, Platzer M, Nyakatura G, Taudien S, Rump A, Yang H, Yu J, Wang J, Huang G, Gu J, Hood L, Rowen L, Madan A, Qin S, Davis RW, Federspiel NA, Abola AP, Proctor MJ, Myers RM, Schmutz J, Dickson M, Grimwood J, Cox DR, Olson MV, Kaul R, Raymond C, Shimizu N, Kawasaki K, Minoshima S, Evans GA, Athanasiou M, Schultz R, Roe BA, Chen F, Pan H, Ramser J, Lehrach H, Reinhardt R, McCombie WR, de la Bastide M, Dedhia N, BlAvcker H, Hornischer K, Nordsiek G, Agarwala R, Aravind L, Bailey JA, Bateman A, Batzoglou S, Birney E, Bork P, Brown DG, Burge CB, Cerutti L, Chen HC, Church D, Clamp M, Copley RR, Doerks T, Eddy SR, Eichler EE, Furey TS, Galagan J, Gilbert JG, Harmon C, Hayashizaki Y, Haussler D, Hermjakob H, Hokamp K, Jang W, Johnson LS, Jones TA, Kasif S, Kaspryzk A, Kennedy S, Kent WJ, Kitts P, Koonin EV, Korf I, Kulp D, Lancet D, Lowe TM, McLysaght A, Mikkelsen T, Moran JV, Mulder N, Pollara VJ, Ponting CP, Schuler G, Schultz J, Slater G, Smit AF, Stupka E, Szustakowski J, Thierry-Mieg D, Thierry-Mieg J, Wagner L, Wallis J, Wheeler R, Williams A, Wolf YI, Wolfe KH, Yang SP, Yeh RF, Collins F, Guyer MS, Peterson J, Felsenfeld A, Wetterstrand KA, Patrinos A, Morgan MJ, Szustakowki J.
Initial sequencing and analysis of the human genome.
Nature (2001) 409:860-921. Pubmed写真

Shiose A, Kuroda J, Tsuruya K, Hirai M, Hirakata H, Naito S, Hattori M, Sakaki Y, Sumimoto H.
A novel superoxide-producing NAD(P)H oxidase in kidney.
J. Biol. Chem. (2001) 276:1417-1423. Pubmed

Levanon D, Glusman G, Bangsow T, Ben-Asher E, Male DA, Avidan N, Bangsow C, Hattori M, Taylor TD, Taudien S, Blechschmidt K, Shimizu N, Rosenthal A, Sakaki Y, Lancet D, Groner Y.
Architecture and anatomy of the genomic locus encoding the human leukemia-associated transcription factor RUNX1/AML1.
Gene (2001) 262:23-33. Pubmed

Okamura K, Hagiwara-Takeuchi Y, Li T, Vu TH, Hirai M, Hattori M, Sakaki Y, Hoffman AR, Ito T.
Comparative genome analysis of the mouse imprinted gene impact and its nonimprinted human homolog IMPACT: toward the structural basis for species-specific imprinting.
Genome Res. (2000) 10:1878-1889. Pubmed

Nakagawara A, Ohira M, Kageyama H, Mihara M, Furuta S, Machida T, Takayasu H, Islam A, Nakamura Y, Takahashi M, Shishikura T, Kaneko Y, Toyoda A, Hattori M, Sakaki Y, Ohki M, Horii A, Soeda E, Inazawa J, Seki N, Kuma H, Nozawa I, Sakiyama S.
Identification of the homozygously deleted region at chromosome 1p36.2 in human neuroblastoma.
Med. Pediatr. Oncol. (2000) 35:516-521. Pubmed

Yokoyama K, Makino K, Kubota Y, Watanabe M, Kimura S, Yutsudo CH, Kurokawa K, Ishii K, Hattori M, Tatsuno I, Abe H, Yoh M, Iida T, Ohnishi M, Hayashi T, Yasunaga T, Honda T, Sasakawa C, Shinagawa H.
Complete nucleotide sequence of the prophage VT1-Sakai carrying the Shiga toxin 1 genes of the enterohemorrhagic Escherichia coli O157:H7 strain derived from the Sakai outbreak.
Gene (2000) 258:127-139. Pubmed

Ohnishi M, Murata T, Nakayama K, Kuhara S, Hattori M, Kurokawa K, Yasunaga T, Yokoyama K, Makino K, Shinagawa H, Hayashi T.
Comparative analysis of the whole set of rRNA operons between an enterohemorrhagic Escherichia coli O157:H7 Sakai strain and an Escherichia coli K-12 strain MG1655.
Syst. Appl. Microbiol. (2000) 23:315-324. Pubmed

Shigenobu S, Watanabe H, Hattori M, Sakaki Y, Ishikawa H.
Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp. APS.
Nature (2000) 407:81-86. Pubmed

Ohira M, Kageyama H, Mihara M, Furuta S, Machida T, Shishikura T, Takayasu H, Islam A, Nakamura Y, Takahashi M, Tomioka N, Sakiyama S, Kaneko Y, Toyoda A, Hattori M, Sakaki Y, Ohki M, Horii A, Soeda E, Inazawa J, Seki N, Kuma H, Nozawa I, Nakagawara A.
Identification and characterization of a 500-kb homozygously deleted region at 1p36.2-p36.3 in a neuroblastoma cell line.
Oncogene (2000) 19:4302-4307. Pubmed

Yatsuki H, Watanabe H, Hattori M, Joh K, Soejima H, Komoda H, Xin Z, Zhu X, Higashimoto K, Nishimura M, Kuratomi S, Sasaki H, Sakaki Y, Mukai T.
Sequence-based structural features between Kvlqt1 and Tapa1 on mouse chromosome 7F4/F5 corresponding to the Beckwith-Wiedemann syndrome region on human 11p15.5: long-stretches of unusually well conserved intronic sequences of kvlqt1 between mouse and human.
DNA Res. (2000) 7:195-206. Pubmed

Togashi T, Choi DK, Taylor TD, Suzuki Y, Sugano S, Hattori M, Sakaki Y.
A novel gene, DSCR5, from the distal Down syndrome critical region on chromosome 21q22.2.
DNA Res. (2000) 7:207-212. Pubmed

Park HS, Nogami M, Okumura K, Hattori M, Sakaki Y, Fujiyama A.
Newly identified repeat sequences, derived from human chromosome 21qter, are also localized in the subtelomeric region of particular chromosomes and 2q13, and are conserved in the chimpanzee genome.
FEBS Lett. (2000) 475:167-169. Pubmed

Shirai M, Hirakawa H, Kimoto M, Tabuchi M, Kishi F, Ouchi K, Shiba T, Ishii K, Hattori M, Kuhara S, Nakazawa T.
Comparison of whole genome sequences of Chlamydia pneumoniae J138 from Japan and CWL029 from USA.
Nucleic Acids Res. (2000) 28:2311-2314. Pubmed

Shirai M, Hirakawa H, Ouchi K, Tabuchi M, Kishi F, Kimoto M, Takeuchi H, Nishida J, Shibata K, Fujinaga R, Yoneda H, Matsushima H, Tanaka C, Furukawa S, Miura K, Nakazawa A, Ishii K, Shiba T, Hattori M, Kuhara S, Nakazawa T.
Comparison of outer membrane protein genes omp and pmp in the whole genome sequences of Chlamydia pneumoniae isolates from Japan and the United States.
J. Infect. Dis. (2000) 181 :S524-527. Pubmed

Hattori M, Fujiyama A, Taylor TD, Watanabe H, Yada T, Park HS, Toyoda A, Ishii K, Totoki Y, Choi DK, Soeda E, Ohki M, Takagi T, Sakaki Y, Taudien S, Blechschmidt K, Polley A, Menzel U, Delabar J, Kumpf K, Lehmann R, Patterson D, Reichwald K, Rump A, Schillhabel M, Schudy A, Zimmermann W, Rosenthal A, Kudoh J, Shibuya K, Kawasaki K, Asakawa S, Shintani A, Sasaki T, Nagamine K, Mitsuyama S, Antonarakis SE, Minoshima S, Shimizu N, Nordsiek G, Hornischer K, Brant P, Scharfe M, Schon O, Desario A, Reichelt J, Kauer G, Blocker H, Ramser J, Beck A, Klages S, Hennig S, Riesselmann L, Dagand E, Haaf T, Wehrmeyer S, Borzym K, Gardiner K, Nizetic D, Francis F, Lehrach H, Reinhardt R, Yaspo ML.
The DNA sequence of human chromosome 21.
Nature (2000) 405:311-319. Pubmed写真写真

Hida A, Koike N, Hirose M, Hattori M, Sakaki Y, Tei H.
The human and mouse Period1 genes: five well-conserved E-boxes additively contribute to the enhancement of mPer1 transcription.
Genomics (2000) 65:224-233. Pubmed

Slavov D, Hattori M, Sakaki Y, Rosenthal A, Shimizu N, Minoshima S, Kudoh J, Yaspo ML, Ramser J, Reinhardt R, Reimer C, Clancy K, Rynditch A, Gardiner K.
Criteria for gene identification and features of genome organization: analysis of 6.5 Mb of DNA sequence from human chromosome 21.
Gene (2000) 247:215-232. Pubmed

Gomyo H, Arai Y, Tanigami A, Murakami Y, Hattori M, Hosoda F, Arai K, Aikawa Y, Tsuda H, Hirohashi S, Asakawa S, Shimizu N, Soeda E, Sakaki Y, Ohki M.
A 2-Mb Sequence-Ready Contig Map and a Novel Immunoglobulin Superfamily Gene IGSF4 in the LOH Region of Chromosome 11q23.2.
Genomics (1999) 62:139-146.

Hattori M, Tsukahara F, Furuhata Y, Tanahashi H, Hirose M, Saito M, Tsukuni S, Sakaki Y.
A novel method for making nested deletions and its application for sequencing of a 300 kb region of human APP locus.
Nucleic Acids Res. (1997) 25:1802-1808.

Ohira M, Seki N, Nagase T, Suzuki E, Nomura N, Ohara O, Hattori M, Sakaki Y, Eki T, Murakami Y, Saito T, Ichikawa H, Ohki M.
Gene Identification in 1.6-Mb Region of the Down Syndrome Region on Chromosome 21.
Genome Res. (1997) 7:47-58.

Nakashima K, Nobuhisa I, Deshimaru M, Nakai M, Ogawa T, Shimohigashi Y, Fukumaki Y, Hattori M, Sakaki Y, Kihara H, Ohno M.
Accelerated evolution in the protein-coding regions is universal in crotalinae snake venom gland phospholipase A2 isozyme gene.
Proc. Natl. Acad. Sci. USA (1995) 92:5605-5609.

Hattori M, Toyoda A, Ichikawa H, Ito T, Ohgusu H, Oishi N, Kano T, Kuhara S, Ohki M, Sakaki, Y.
Sequence-Tagged Not l Sites of Human Chromosome 21: Sequence Analysis and Mapping.
Genomics (1993) 17:39-44.

Hattori M, Shibata A, Yoshioka K, Sakaki Y.
Orphan Peak Analysis: A Novel Method for Detection of Point Mutations Using an Automated Fluorescence DNA Sequencer.
Genomics (1993) 15:415-417.

Chumakov I, Rigault P, Guillou S, Ougen P, Billaut A, Guasconi G, Gervy P, LeGall I, Soularue P, Grinas L, Bougueleret L, Bellanne-Chantelot C, Lacroix B, Barillot E, Gesnouin P, Pook S, Vaysseix G, Frelat G, Schmitz A, Sambucy J-L, Bosch A, Estivill X, Weissenbach J, Vignal A, Riethman H, Cox D, Patterson D, Gardiner K, Hattori M, Sakaki Y, Ichikawa H, Ohki M, Paslier DL, Heilig R, Antonarakis S, Cohen D.
Continuum of overlapping clones spanning the entire human chromosome 21q.
Nature (1992) 359:380-387.

Minakami R, Kurose K, Etoh K, Furuhata Y, Hattori M, Sakaki Y.
Identification of an internal cis-element essential for the human L1 transcription and a nuclear factor(s) binding to the element.
Nucleic Acids Res. (1992) 20:3139-3145.

Hattori M, Yoshioka K, Sakaki Y.
High-sensitive fluorescent DNA sequencing and its application for detection and mass-screening of point mutations.
Electrophoresis (1992) 13:560-565.

Hattori M, Abraham LJ, Northemann W, Fey GH.
Acute-phase reaction induces a specific complex between hepatic nuclear proteins and the interleukin 6 response element of the rat α2-macroglobulin gene.
Proc. Natl. Acad. Sci. USA (1990) 87:2364-2368.

Hattori M, Tugores A, Veloz L, Karin M, Brenner, DA.
A simple method for the preparation of transcriptionally active liver nuclear extracts.
DNA Cell Biol. (1990) 9:777-781.

Hattori M, Kuhara K, Takenaka O, Sakaki Y.
L1 Family of Repetitive DNA Sequences in Primates May Be Derived from a Sequence Encoding a Reverse Transcriptase-related Protein.
Nature (1986) 321:625-628.

Hattori M, Sakaki, Y.
Dideoxy Sequencing Method Using Denatured Plasmid Templates.
Analytical Biochem. (1986) 152:232-238.

服部正平：人体にすみ付く細菌たち Kewpie News 527:1-17（キューピー（株） 2018）
服部正平、西嶋傑：日本人腸内細菌叢のユニークさと国間多様性 医学のあゆみ 264(1), 27-33（医歯薬出版 2018）
須田亙：ヒト腸内細菌叢のメタゲノム解析 CLINICAL NEUROSCIENCE 35:1293-1296 (中外医学社 2017)
服部正平：ヒトマイクロバイオームデータと病態診断 遺伝子医学 MOOK 32, 49-56（メディカルドウ 2017）
服部正平：ヒトマイクロバイオーム研究とは? ファルマシア, 53(11), 1049（日本薬学会 2017）
服部正平：メタゲノミクスを応用した腸内フローラの解析　Medical Technology, 45(10), 1050-1056（医歯薬出版 2017）
服部正平：ヒト腸内マイクロバイオーム解析の技術をみる　分子リウマチ治療 10(3), 121-125（メディカルレビュー社 2017）
須田亙、服部正平：「腸内マイクロバイオームの網羅的解法」INTESTINE 21 (4), 287-292（日本メディカルセンター 2017）
服部正平、西嶋傑：日本人腸内細菌叢の特徴と国間多様性　糖尿病診療マスター 15(6), 456-464（医学書院 2017）
服部正平：ヒトマイクロバイオーム研究の現状と将来の方向性　THE LUNG 25(2), 135-141（メディカルレビュー社 2017）
大島健志朗、西嶋傑、服部正平：ヒト腸内細菌叢のメタゲノム解析　生体の科学　68 (2), 165-169 (医学書院 2017)
須田亙：次世代シークエンサーとバイオインフォ マティクスを応用した腸内細菌叢の解析 BIOPHILIA 5:50-58 (アドスリー 2016)
須田亙、服部正平：次世代シークエンシングを応用した腸内細菌叢解析方法 カレントテラピー 34:1048-1052 (2016)
須田亙、西嶋傑、高安伶奈、大島健志朗：腸内細菌叢のメタゲノム解析・メタ16S解析 実験医学別冊 今すぐ始める！メタゲノム解析実験プロトコール 28-38（羊土社 2016）
高安伶奈、須田亙：唾液細菌叢のメタゲノム解析・メタ16S解析 実験医学別冊 今すぐ始める！メタゲノム解析実験プロトコール 62-68（羊土社 2016）
恒吉桃香、十倉充範、大島健志朗、須田亙、服部正平：メタトランスクリプトーム解析　編集 服部正平 実験医学別冊　NGSアプリケーション メタゲノム解析実験プロトコール, 132-142（羊土社 2016）
服部正平、西嶋傑：日本人腸内細菌叢のメタゲノム解析と特徴解明　編集 服部正平 実験医学別冊　NGSアプリケーション メタゲノム解析実験プロトコール, 39-43（羊土社 2016）
服部正平：メタゲノム解析技術のオーバービュー　編集 服部正平 実験医学別冊　NGSアプリケーション メタゲノム解析実験プロトコール, 8-14（羊土社 2016）
服部正平：メタゲノミクスとヒト腸内マイクロバイオーム研究　最新医学 71(9), 1773-1781（最新医学社 2016）
須田亙、西嶋傑、服部正平：次世代シーケンサーを用いた腸内細菌叢の解析手法と日本人腸内細菌叢の特徴　The Lipid 27 (2), 20-26,（メディカルレビュー社 2016）
服部正平：ヒト腸内細菌叢の全体像と多様性　Biophilia 5(2), 6-14（アドスリー 2016）
服部正平：人体内の微生物ビッグデータ　実験医学増刊 ビッグデータ 34(5), 38-44（羊土社 2016）
服部正平：ヒトマイクロバイオーム研究（総論）アニムス 86, 10-14（2016）
恒吉桃香、十倉充範、大島健志朗、須田亙：メタトランスクリプトームによる菌種・機能の解析 実験医学別冊　RNA-Seq実験ハンドブック p190-196（羊土社 2016）
大島健志朗、須田亙、服部正平：微生物ゲノム研究の動向　難培養微生物研究の最新技術Ⅲ　1-8（シームシー出版 2016）
須田亙、高安伶奈、小鳥遊景泰: メタゲノム解析・16S 解析とその解析技術　ヒトマイクバイオーム研究最前線 343-351（エヌ・テイー・エス出版 2016）
西嶋傑, 服部正平：日本人腸内細菌叢のメタゲノム解析 ヒトマイクロバイオーム研究最前線　17-26（エヌ・テイー・エス出版 2016）
大島健志朗、西嶋傑、須田亙：日本人腸内細菌叢のメタゲノム解析 ヒトマイクロバイオーム研究最前線　7-15（エヌ・テイー・エス出版 2016）
服部正平：マイクロバイオーム 概念と解析・検索方法　臨床と微生物 42(6) 667-672（近代出版 2015）
服部正平：ヒトマイクロバイオームのシークエンス解析 Surgery Frontier 22(3), 242-245 (メディカルレビュー社 2015)
須田亙, 小鳥遊景泰, 服部正平：ヒトマイクロバイオームの解析手法とその基本構造　細胞　47 (2),61-64（ニューサイエンス社 2015）
服部正平：総論 マイクロバイオーム研究の最前線　細胞　47 (2),50-52（ニューサイエンス社 2015）
須田亙, 大島健志朗, 服部正平：細菌種や組成を調べるメタ16Sとメタゲノム解析 実験医学別冊 次世代シークエンス解析スタンダード 41, 258-268 (羊土社 2014)
服部正平：腸内細菌叢のMetagenomics　Bio Clinica 29(8),728-733（北隆館 2014）
服部正平：メタゲノム解析による腸内フローラ全体像の解明　生物の科学 遺伝 68(4),322-327（エヌ・ティー・エス 2014）
服部正平：ヒトマイクロバイオームとは？ Medical Technology 42(6),527-528（医歯薬出版 2014）
服部正平：疾患の腸内マイクロバイオーム解析 分子消化器病 11(2),161-168（先端医学社 2014）
服部正平：ヒト常在菌叢のメタゲノム解析 医学のあゆみ 249(5),385（医歯薬出版2014）
須田亙、服部正平：次世代シークエンサーを用いた腸内フローラDNA解析　臨床と微生物 41(2) 107-112（近代出版 2014）
服部正平、西嶋傑：ヒト腸内細菌マイクロバイオームの特徴. G. I. Resaerch 22(2), 128-135（先端医学社 2014）
服部正平：編集 大野博司・服部正平 実験医学増刊「常在細菌叢が操るヒトの健康と疾患」第１章 1. 常在細菌叢をいかに読み解くのか. ヒトマイクロバイオームの大規模シークエンス解析. 32(5) 42(680)-48(686)（羊土社 2014）
服部正平：ヒト腸内細菌叢メタゲノムの大規模シークエンス解析 化学と工業 67(2): 132-135（日本化学会 2014）
須田亙、大島健志朗、森田英利：次世代シークエンサーを用いた常在細菌叢解析　細胞工学 32:1115-1119（秀潤社 2013）
須田亙：454GSシリーズを用いた16Sアンプリコンシークエンシングによる細菌叢構造解析 日本微生物生態学会誌 29:63-69 (日本微生物生態学 2013)
服部正平：ヒト腸内細菌研究の進歩 炎症と免疫 21(6), 472-479（先端医学社 2013）
高安伶奈， 高安美佐子： 腸内細菌叢生態の数理モデル構築　細胞工学 32(11), 1143-1147 (秀潤社　2013)
西嶋傑、服部正平：監修　特集「体内の細菌が作るもう一つの世界マイクロバイオームの驚異」 ヒトの腸内マイクロバイオーム. 細胞工学 32(11), 1129-1132（秀潤社 2013）
服部正平：監修　特集「体内の細菌が作るもう一つの世界マイクロバイオームの驚異」 基礎の基礎. 細胞工学 32(11), 1110-1114（秀潤社 2013）
服部正平：企画「マイクロバイオームと疾患」 健康と疾患のマイクロバイオーム比較解析 医学のあゆみ 246(13),1077-1082（医歯薬出版株式会社 2013）
服部正平：企画「マイクロバイオームと疾患」 はじめに 医学のあゆみ 246(13),1075（医歯薬出版株式会社 2013）
服部正平：ヒトマイクロバイオームのメタゲノム科学, Journal of Germfree life and gnotobiology（日本無菌生物ノートバイオロジー学会）, 43(1):41 (2013)
服部正平：ゲノム医学・生命科学研究 総集編 実験医学増刊 31(15), 第４章 腸内細菌を含むマイクロバイオーム 4-4 「ヒトマイクロバイオームの全体構造と機能」203-208（羊土社 2013）
服部正平：ゲノム医学・生命科学研究 総集編 実験医学増刊 31(15), 第４章 腸内細菌を含むマイクロバイオーム 概論 「第2のヒトゲノムとしてのヒトマクロバイオーム」181-186（羊土社 2013）
服部正平：次世代シークエンスによる消化器系疾患病態解明への挑戦 G. I. Resaerch 21(3), 88-96（先端医学社 2013）
服部正平、金相完、須田亙：次世代シークエンサーを用いたヒト常在菌叢の大量16S解析 臨床検査 57 (4), 406-414（医学書院 2013）
須田亙、大島健志朗：次世代シークエンサーを使用した環境中の細菌叢の16S解析およびメタゲノム解析 日本微生物生態学会誌 27:63-69，(日本微生物生態学 2012)
服部正平：ヒト常在菌叢マイクロバイオーム研究　感染・共生・生体防御システム 実験医学増刊 30(20), 3248-3254（羊土社 2012）
服部正平：ゲノム科学によるヒト腸内細菌叢研究のあらたなフロンティア 医学のあゆみ 243(2),137-142（医歯薬出版株式会社 2012）
服部正平：腸内細菌叢のメタゲノム解析とは？ Health & Beauty Review 8月号 26-27（講談社 2012）
服部正平：個人差を生むマイクロバイオーム 日経サイエンス 2012年10月号 50-57 (2012)
服部正平、大島健志朗、須田亙：細菌叢の16Sとメタゲノム解析 第６章メタゲノム解析編 次世代シークエンサー: 目的別アドバンストメソッド（細胞工学別冊）160-168（細胞工学 2012）
服部正平：次世代シークエンスはすべての腸内細菌を明らかにできるか　分子消化器病 9(2), 130-137（先端医学社 2012）
服部正平：ヒト腸内細菌叢のメタゲノミクス　食品・免疫アレルギー辞典 101-103（朝倉書店 2011）
服部正平：ヒト腸内マイクロバイオーム　Surgery Frontier 18 (4), 64-67 (メディカルレビュー社 2011)
服部正平：次世代シークエンサーを用いた腸内細菌叢のゲノム研究　化学療法の領域, 27 (9), 25-33（医薬ジャーナル社 2011）
服部正平：ヒト腸内細菌叢をゲノムレベルで探る 分子消化器病, 8(2), 116-121（先端医学社 2011）
服部正平：７章 腸内細菌叢と腸内共生系 腸内共生系のバイオサイエンス 247-255（丸善出版 2011）
福田真嗣、服部正平、大野博司：ビフィズス菌の産生する酢酸が病原性大腸菌感染を予防する-糖トランスポーターの重要性-　実験医学 29 (6), 923-926 (2011)
服部正平：ヒト腸内マイクロバイオームのゲノム科学　細胞工学 30 (4), 399-403（細胞工学 2011）
服部正平：第3章 微生物のゲノム科学　現代生物科学入門 2 ゲノム科学の展開, 59-95（岩波書店 2011）
服部正平：ヒト腸内細菌叢のメタゲノム解析　臨床検査 55 (2), 135-141 (医学書院 2011)
服部正平：腸内細菌叢メタゲノム研究と腸疾患　大腸癌FRONTIER, 3 (3), 55-59（メディカルレビュー社 2010）
服部正平：メタゲノム解析による腸内細菌叢の遺伝子研究　遺伝子診断学（第2版）, 68, 506-510 (日本臨牀社 2010)
服部正平：フローラ解析-メタゲノム解析　医科プロバイオティクス学　79-93 (シナジー　2009)
服部正平：ヒト腸内細菌叢のメタゲノム解析　IBD Research 3 (4), 308-314 (先端医学社　2009)
服部正平：メタゲノミクスによる腸内細菌叢研究 MSD(メディカル・サイエンス・ダイジェスト) 35(8), 321-324 (ニューサイエンス社 2009)
服部正平：メタゲノミクスとヒト腸内細菌叢の機能 実験医学増刊号「遺伝子医学の最前線と次世代シーケンサー」実験医学 27(12), 121-127 (羊土社 2009)
服部正平：次世代シークエンサーの現状と展望 Cancer Frontier 11, 121-130 (医薬ジャーナル社 2009)
服部正平、概論：超高速シークエンサーがもたらす生命科学研究の大展開 実験医学 27 (1), 2-7 (羊土社 2009）
服部正平、腸内細菌叢のメタゲノム解析とヒト生物学への展開 感染・炎症・免疫　39 (1), 2-13 (医薬の門社 2009）
服部正平、ヒト腸内細菌叢の大規模シークエンス解析 バイオサイエンスとインダストリー 67(5), 192-196（バイオインダストリー協会 2009）
服部正平、疾患と腸内細菌叢のメタゲノム解析 日本臨牀 67 (6), 1214-1218（日本臨牀社 2009）
黒川顕、服部正平、メタゲノムデータベース　実験医学増刊バイオデータベースとソフトウェア最前線 27(7), 1003-1008(羊土社　2008)
服部正平、ヒトの腸内細菌叢の全体像〜メタゲノム解析から見えてきたこと〜 科学 78(1), 30-33（岩波書店 2008）
黒川顕・服部正平、細菌叢のメタゲノム解析 細胞工学別冊 比較ゲノム学から読み解く生命システム 161-165（秀潤社 2007)
豊田敦・服部正平、新型DNAシークエンサーのインパクト 臨床遺伝学’07—ゲノム研究の臨床へのインパクト 21(3), 187-197（最新医学社 2007)
服部正平、第10章 腸内細菌叢のメタゲノム解析 乳酸菌の保健機能と応用 107-118（シーエムシー出版 2007)
服部正平・林哲也・黒川顕・伊藤武彦・桑原知巳、ヒト腸内細菌叢のゲノムシークエンス 腸内細菌学雑誌 21(3), 187-197（2007)
服部正平、論説空間「２１世紀ゲノム研究」 東京大学新聞（2007年3月10日)
豊田敦・服部正平、超高速ゲノム解読の動向 実験医学 増刊号 25, 274-279（羊土社 2007)
服部正平、第二次大規模ゲノムシークエンスの予兆 実験医学 24, 3003-3010（羊土社 2006)
服部正平・黒川顕・伊藤武彦、メタゲノム解析による生命システム研究の広がり〜ヒト腸内細菌叢を読む〜 科学 76, 827-833（岩波書店 2006）
服部正平、多種生物種のゲノムプロジェクト〜比較ゲノム研究〜 分子細胞治療 5, 268-272（先端医学社 2006）
林哲也・服部正平、ヒト常在菌を含む環境細菌叢のメタゲノム解析 細胞工学 25, 812-816（秀潤社 2006)
服部正平・榊佳之、細菌叢メタゲノム解析の意義とヒトメタゲノム計画 臨床と微生物 33, 115-120 （近代出版 2006）
渡邉日出海・服部正平、チンパンジーゲノム概要版配列の解読 蛋白質核酸酵素 51, 178-187 (共立出版 2006)
伊藤武彦・服部正平、 ヒトゲノム遺伝子砂漠内での哺乳動物に共通な大規模ゲノム重複の発見 実験医学 24, 388-391 (羊土社 2006)
服部正平、細菌のゲノム解析の到達点と展望 蛋白質核酸酵素 増刊号 50, 2231-2236 (共立出版 2005)
服部正平、ゲノム解析法の展開 細菌はなぜ病気を起こすか 35-45 （クバプロ 2005）
藤英博・服部正平、ゲノム解析総論 プロバイオティクスとバイオジェニクス 199-214 （エヌ・ティー・エス社 2005）
服部正平、ヒトは何ゆえにヒトか : ヒトゲノムの全解読とゲノム研究の今後 日本哺乳動物卵子学会誌 22, 2, 1 (2005)
服部正平、ヒトゲノム完成版の解析 蛋白質核酸酵素 50, 162-168 (共立出版 2005)
豊田敦・服部正平、現場で役立つバイオ機器の使い方・選び方 Bionics 1, 76-81 （オーム社 2005）
服部正平、解読されたヒトゲノムの全貌 臨床精神医学 33, 1287-1295（アークメディア 2004)
山下敦士・服部正平 DNAシークエンシング 蛋白質核酸酵素 増刊号 49, 1484-1489 (共立出版 2004)
服部正平、微生物ゲノムシークエンス決定法 微生物はなぜ病気を起こすか 33-45 （クバプロ 2004）
服部正平、ヒトゲノムを読み解く - ゲノム構造 Molecular Medicine 増刊号 41, 14-21 （中山書店 2004）
豊田敦・服部正平、クローン化・配列決定できない配列 Molecular Medicine 増刊号 41, 37-39 （中山書店 2004）
服部正平、ヒトゲノム解析 ゲノミクス・プロテオミクスの新展開 409-422 （エヌ・ティー・エス社 2004）
服部正平、ヒトゲノム解読完了とその意味 食生活 98, 74-79 （全衛連 2004）
服部正平、ヒトゲノム完全解読の全貌 ゲノム医学 3, 9-18 （メディカルレビュー社 2003）
服部正平、ヒトゲノム解読に重要な役割を果たした技術 学術月報 56, 14-20 （日本学術振興会 2003）
服部正平、ヒトゲノム解読の現状と今後の課題 DNA多型 11, 1-6（2003）
服部正平、ヒトゲノム完全解読がもたらす生命科学の新たな展開 実験医学 21, 1623-1628 (羊土社 2003)
服部正平、ヒトゲノム配列の完全解読　科学 75, 393-399 (岩波書店 2003)
服部正平、ヒトゲノム計画の系譜と今後の展望　Molecular Medicine 増刊号 39, 198-207 （中山書店 2002）
渡邉日出海・藤山秋佐夫・服部正平・榊佳之、ヒト・チンパンジー比較ゲノム地図　蛋白質核酸酵素 47, 808-813 (共立出版 2002)
服部正平、ヒトゲノム解析 現状と将来　日本農芸化学会誌 76, バイオサイエンスの新世紀 380-384 (2002)
服部正平、ヒトゲノム20番染色体の完全解読　実験医学 20, 564 (羊土社 2002)
服部正平、ヒトゲノムプロジェクトー全解読へのカウントダウン　Medicina 39, 390-393 (医学書院 2002)
伊藤武彦・服部正平、ヒトゲノム解読と配列アノテーション　実験医学 増刊号 19, ゲノム医科学と基礎からのバイオインフォマティクス 1377-1382 (羊土社 2001)
服部正平、ゲノム医科学とbioinformatics　医学のあゆみ 198, 793-795 (医歯薬出版 2001)
服部正平・藤山秋佐夫・榊佳之、ヒト21番染色体シークエンス地図　蛋白質核酸酵素 46, 2254-2261 (共立出版 2001)
服部正平、ゲノム計画を前進させた解読作業の自動化　別冊化学「ヒトゲノム最前線」 22-30 (化学同人 2001)
服部正平、ヒトゲノムプロジェクトの現状と未来　医学のあゆみ　 195, 870-875 (医歯薬出版 2000)
榊佳之・服部正平・藤山秋佐夫・豊田敦・渡邊日出海・矢田哲士・Todd Taylor・朴洪石・十時泰、ヒト21番染色体の全解読–その達成への歩みと意義　蛋白質核酸酵素 45, 2520-2527 (共立出版 2000)
服部正平、国際協力下でのヒトゲノムシークエンシング　蛋白質核酸酵素 45, 1978-1985 (共立出版 2000)
服部正平、ヒト21番染色体シークエンスとヒトゲノムプロジェクト　遺伝 54, 26-31 (裳華房 2000)
服部正平、日本が中心となったヒト21番染色体シークエンスプロジェクト 遺伝 54, 9-11 (裳華房 2000)
服部正平、ヒト21番染色体シークエンス完成はヒトゲノム計画のGold Standard　文科省ゲノムサイエンスニュース 5, 3-5 (2000)
服部正平、ゲノム：ヒト21番染色体シークエンスとヒトゲノムプロジェクト　現代医療 32, 40-46 (現代医療社 2000)

服部正平：「第2章 微生物が超生命体をデザインする」小川（西秋）葉子・太田邦史編著　生命デザイン学入門（岩波ジュニア新書） p33-65（岩波書店 2016. 3. 18）共著 Amazon
服部正平、ヒトゲノム完全解読から「ヒト」理解へ (東洋書店 2005)　Amazon
小笠原直毅・高見英人・久原哲・服部正平、ホールゲノムショットガン法によるゲノム解析とアノテーション (学会出版センター 2001)　Amazon