九州大学生体防御医学研究所分子機能制御学部門エピゲノム制御学分野

業績リスト
Publication List

生体防御医学研究所

業績リスト

国立遺伝学研究所：藤英博

原著論文　 Original Research Papers

Uehara, R., Au Yeung, W.K., Toriyama, K., Ohishi, H., Kubo, N., Toh, H., Suetake, I., Shirane, K. & Sasaki, H.: The DNMT3A ADD domain is required for efficient de novo DNA methylation and maternal imprinting in mouse oocytes.; PLoS Genet. 19:e1010855 (2023); Pubmed

Maruyama, O., Li, Y., Toh, H., Au Yeung, W.K. & Sasaki, H: CMIC: Predicting DNA methylation inheritance of CpG islands with embedding vectors of variable-length k-mers.; BMC Bioinform. 23:371 (2022).; Pubmed

Kibe, K., Shirane, K., Ohishi, H., Uemura, S., Toh, H. & Sasaki, H.: The DNMT3A PWWP domain is essential for the normal DNA methylation landscape in mouse somatic cells and oocytes.; PLoS Genet. 17, e1009570 (2021); PubMed

Hiramoto, T., Tahara, M., Liao, J., Soda, Y., Miura, Y., Kurita, R., Hamana, H., Inoue K., Kohara, H., Hijikata, Y., Okano, S., Yamaguchi, Y., Oda, Y., Ichiyanagi, K., Toh, H., Sasaki, H., Kishi, H., Ryo, A., Muraguchi, A., Takeda, M. & Tani, K.: Non-transmissible MV vector with segmented RNA genome establishes different types of iPSCs from hematopoietic cells.; Mol. Ther. 28, 129-141 (2020); PubMed

Yamanaka, S., Nishihara, H., Toh, H., Nagai, L.A.E., Hashimoto, K., Park, S.J., Shibuya, A., Suzuki, A.M., Tanaka, Y., Nakai, K., Carninci, P., Sasaki, H. & Siomi, H.: Broad heterochromatic domains open in gonocyte development prior to de novo DNA methylation.; Dev. Cell 51, 21-34 (2019); PubMed

Kanatsu-Shinohara, M., Yamamoto, T., Toh, H., Kazuki, Y., Imoto, J., Ikeo, K., Oshima, M., Shirahige, K., Iwama, A., Nabeshima, Y., Sasaki, H. & Shinohara, T.: Aging of spermatogonial stem cells by Jnk-mediated glycolysis activation.; Proc. Natl. Acad. Sci. USA 116, 16404-16409 (2019); PubMed

Nguyen, T.T.T., Oshima, K., Toh, H., Khasnobish, A., Fujii, Y., Arakawa, K. & Morita, H.: Draft genome sequence of Butyricimonas faecihominis 30A1, isolated from feces of a Japanese Alzheimer's disease patient.; Microbiol. Resour. Announc. 8, e00462-19 (2019); PubMed

Okae, H., Toh, H., Sato, T., Hiura, H., Takahashi, S., Shirane, K., Kabayama, Y., Suyama, M., Sasaki, H. & Arima, T.: Derivation of human trophoblast stem cells.; Cell Stem Cell 22, 50-63 (2018); PubMed

Maenohara, S., Unoki, M., Toh, H., Ohishi, H., Sharif, J., Koseki, H. & Sasaki, H.: Role of UHRF1 in de novo DNA methylation in oocytes and maintenance methylation in preimplantation embryos.; PLoS Genet. 13, e1007042 (2017); PubMed

Sukma, A., Toh, H., Nguyen, T.T.T., Fitria, N., Mimura, I., Kaneko, R., Arakawa, K. & Morita, H.: Microbiota community structure in traditional fermented milk dadiah in Indonesia: Insights from high-throughput 16S rRNA gene sequencing.; Milk Science International 71, 1-3 (2017)

Toh, H., Matsubara, T., Tomida, S., Mimura, I., Arakawa, K., Kikusui, T. & Morita, H.: Draft genome sequence of Bifidobacterium lemurum DSM 28807T isolated from the gastrointestinal tracts of ring-tailed lemurs (Lemur catta).; Genome Announc. 5, e01656-16 (2017); PubMed

Toh, H., Shirane, K., Miura, F., Kubo, N., Ichiyanagi, K., Hayashi, K., Saitou, M., Suyama, M., Ito, T. & Sasaki, H.: Software updates in the Illumina HiSeq platform affect whole-genome bisulfite sequencing.; BMC Genomics 18, 31 (2017); PubMed

Kabayama, Y., Toh, H., Katanaya, A., Sakurai, T., Chuma, S., Kuramochi-Miyagawa, S., Saga, Y., Nakano, T. & Sasaki, H.: Roles of MIWI, MILI and PLD6 in small RNA regulation in mouse growing oocytes.; Nucl. Acids Res. 45, 5387-5398 (2017); PubMed

Fujii, Y., Toh, H., Matsubara, T., Tomida, S., Nguyen, C.T.K., Mimura, I., Nakamura, S. & Morita, H.: Draft genome sequence of probiotic Lactobacillus acidophilus strain L-55 isolated from a healthy human gut.; Genome Announc. 4, e01357-16 (2016); PubMed

Hamada, H., Okae, H., Toh, H., Chiba, H., Hiura, H., Shirane, K., Sato, T., Suyama, M., Yaegashi, N., Sasaki, H. & Arima, T.: Allele-specific methylome and transcriptome analysis reveals widespread imprinting in the human placenta.; Am. J. Hum. Genet. 99, 1045-1058 (2016); PubMed

Morita, H., Toh, H., Oshima, K., Nakano, A., Hano, C., Yoshida, S., Nguyen, T.T., 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 Announc. 4, e00166-16 (2016); PubMed

Morita, H., Toh, H., Oshima, K., Nakano, A., Hano, C., Yoshida, S., Bolormaa, T., Burenjargal, S., Nguyen, C.T., 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 Announc. 4, e00178-16 (2016); 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 Announc. 4, e01566-15 (2016); PubMed

Toh, H., Nakano, A., Kim, C.N., Mimura, I., Arakawa, K., Tashiro, K., Kikusui, T. & Morita, H.: Draft genome sequence of a coccoid Lactobacillus equigenerosi NRIC 0697T isolated from the gastrointestinal tract of healthy thoroughbreds.; Genome Announc. 4, e01679-15 (2016); PubMed

Toh, H., Yamazaki, Y., Tashiro, K., Kawarai, S., Oshima, K., A. Nakano, Kim, C.N., 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 Announc. 3, e01463-15 (2015); PubMed

Toh, H., Morita, H., Tsuji, H., Iwashita, K., Goto, N., Nakayama, J., Sekine, M., Kato, Y., Suzuki, K. & Fujita, N.: Complete genome sequence of Lactobacillus acetotolerans RIB 9124 (NBRC 13120) isolated from putrefied (hiochi) Japanese sake.; J. Biotechnol. 214, 214-215 (2015); PubMed

Morita, H., Toh, H.(co-first author), 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. 211, 10-11 (2015); PubMed

Morita, H., Toh, H.(co-first author), 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. 210, 68-69 (2015); PubMed

Morita, H., Toh, H.(co-first author), Oshima, K., Nakano, A., Shindo, C., Komiya, K., Arakawa, K., Suda, W., K., Honda, K. & Hattori, M.: Complete genome sequence of Bifidobacterium bifidum JCM 1255T isolated from feces of a breast-fed infant.; J. Biotechnol. 210, 66-67 (2015); PubMed

Morita, H., Toh, H.(co-first author), Oshima, K., Nakano, A., Yamashita, N., Iioka, E., Arakawa, K., Suda, W., K., Honda, K. & Hattori, M.: Complete genome sequence of Bifidobacterium catenulatum JCM 1194T isolated from human feces.; J. Biotechnol. 210, 25-26 (2015); PubMed

Morita, H., Toh, H.(co-first author), Oshima, K., Nakano, A., Yamashita, N., Iioka, E., Arakawa, K., Suda, W., K., Honda, K. & Hattori, M.: Complete genome sequence of Bifidobacterium breve JCM 1192T isolated from infant feces.; J. Biotechnol. 210, 81-82 (2015); PubMed

Kubo, N., Toh, H., Shirane, K., Shirakawa, T., Kobayashi, H., Sato, T., Sone, H., Sato, Y., Tomizawa, S., Tsurusaki, Y., Shibata, H., Saitsu, H., Suzuki, Y., Matumoto, N., Suyama, M., Kono, T., Ohbo, K. & Sasaki, H.: DNA methylation and gene expression dynamics during spermatogonial stem cell differentiation in the early postnatal mouse testis.; BMC Genomics 16, 624 (2015); 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. 3, e00481-15 (2015); PubMed

Oshima, K., Hayashi, J., Toh, H., Nakano, A., Shindo, C., Komiya, K., Morita, H., Honda, K. & Hattori, M.: Complete genome sequence of Parascardovia denticolens JCM 12538T, isolated from human dental caries.; Genome Announc. 3, e00485-15 (2015); 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. 3, e00284-15 (2015); 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. 3, e00285-15 (2015); 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. 3, e00286-15 (2015); PubMed

Morita, H., Toh, H.(co-first author), 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. 3, e00255-15 (2015); PubMed

Kosaka, T., Toh, H., Fujiyama, A., Sakaki, Y., Watanabe, K., Meng, X.Y., Hanada, S. & Toyoda, A.: Physiological and genetic basis for self-aggregation of a thermophilic hydrogenotrophic methanogen, Methanothermobacter strain CaT2.; Environ. Microbiol. Rep. 6, 268-277 (2014); PubMed

Takahata, M., Toh, H., Nakano, A., Takagi, M., Murakami, M., Ishii, Y., Takizawa, T., Tanabe, S. & Morita, H.: Complete sequence analysis of two cryptic plasmids from Bifidobacterium kashiwanohense JCM 15439 (type strain) isolated from healthy infant feces.; Anim. Sci. J. 85, 158-163 (2014); PubMed

Kato, K., Toh, H., Sakamoto, N., Mori, K., Tashiro, K., Hibi, N., Sonomoto, K. & Nakayama, J.: Draft Genome Sequence of Lactobacillus namurensis Chizuka 01, Isolated from Nukadoko, a Pickling Bed of Fermented Rice Bran.; Genome Announc. 2, e01263-13 (2014); PubMed

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 8, e75073 (2013); 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 8, e71861 (2013); 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. 1, e00742-13 (2013); PubMed

Kosaka, T., Toh, H. & Toyoda, A.: Complete Genome Sequence of a Thermophilic Hydrogenotrophic Methanogen, Methanothermobacter sp. Strain CaT2.; Genome Announc. 1, e00672-13 (2013); PubMed

Shirane, K., Toh, H., Kobayashi, H., Miura, F., Chiba, H., Ito, T., Kono, T. & Sasaki, H.: Mouse oocyte methylomes at base resolution reveal genome-wide accumulation of non-CpG methylation and role of DNA methyltransferases.; PLoS Genet. 9, e1003439 (2013); 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. 8, e60521 (2013); PubMed

Liu, Y., Toh, H., Sasaki, H., Zhang, X. & Cheng, X.: An atomic model of ZFP57 recognition of CpG methylation within a specific DNA sequence.; Genes Dev. 26, 2374-2379 (2012); 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 3, 449-454 (2012); 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. 194, 4767-4768 (2012); PubMed

Hira, D., Toh, H., Migita, C.T., 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. 586, 1658-1663. (2012); PubMed

Miyauchi, E., Toh, H., Nakano, A., Tanabe, S. & Morita, H.: Comparative Genomic Analysis of Lactococcus garvieae Strains Isolated from Different Sources Reveals Candidate Virulence Genes.; Int. J. Microbiol. 728276 (2012); 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. 61, 2610-2615 (2011); PubMed

Toh, H., Sharma, V.K., Oshima, K., Kondo, S., Hattori, M., Ward, B.F., Free, A. & Taylor, T.D.: Complete genome sequences of Arcobacter butzleri ED-1 and Arcobacter sp. strain L, both isolated from a microbial fuel cell.; J. Bacteriol. 193, 6411-6412 (2011); PubMed

Morita, H., Toh, H. [co-first author], 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. 6, e23184 (2011); 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 ?TMA of the extreme thermophile Thermus thermophilus.; Bacteriophage. 1, 152-164 (2011); PubMed

Fukuda, S., Toh, H., Hase, K., Oshima, K., Nakanishi, Y., Yoshimura, K., Tobe, T., Clarke, J.M., Topping, D.L., Suzuki, Y., Taylor, T.D., Itoh, K., Kikuchi, J., Morita, H., Hattori, M. & Ohno, H.: Bifidobacteria can protect from enteropathogenic infection through production of acetate.; Nature 469, 543-549 (2011); PubMed

Toh, H., Oshima, K., Toyoda, A., Ogura, Y., Ooka, T., Sasamoto, H., Park, S., Iyoda, S., Kurokawa, K., Morita, H., Itoh, K., Taylor, T.D., Hayashi, T. & Hattori, M.: Complete genome sequence of the wild-type commensal Escherichia coli strain SE15, belonging to phylogenetic group B2.; J. Bacteriol. 192, 1165-1166 (2010); 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. 60, 109-112 (2010); PubMed

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

Ogura, Y., Ooka, T., Iguchi, A., Toh, H., Asadulghani, M., Oshima, K., Kodama, T., Abe, H., Nakayama, K., Kurokawa, K., Tobe, T., Hattori, M. & Hayashi, T.: Comparative genomics reveal the mechanism of the parallel evolution of O157 and non-O157 enterohemorrhagic Escherichia coli.; Proc. Natl. Acad. Sci. USA 469, 543-549 (2009); PubMed

Morita, H., Nakano, A., Shimazu, M., Toh, H., Nakajima, F., Nagayama, M., Hisamatsu, S., Kato, Y., Takagi, M., Takami, H., Akita, H., Matsumoto, M., Masaoka, T. & Murakami, M.: Lactobacillus hayakitensis,L. equigenerosiandL. equi, predominant lactobacilli in the intestinal flora of healthy thoroughbreds.; Anim. Sci. J. 80, 339-346 (2009); PubMed

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, strictly anaerobic bacterium isolated from the faeces of thoroughbred horses.; Int. J. Syst. Evol. Microbiol. 58, 2682-2686 (2008); PubMed

Hongoh, Y., Sharma, V.K., Prakash, T., Noda, S., Toh, H., Taylor, T.D., Kudo, T., Sakaki, Y., Toyoda, A., Hattori, M. & Ohkuma, M.: Genome of an endosymbiont coupling N2 fixation to cellulolysis within protist cells in termite gut.; Science 322, 1108-1109 (2008); PubMed

Oshima, K., Toh, H., Ogura, Y., Sasamoto, H., Morita, M., Park, S., Ooka, T., Iyoda, S., Taylor, T.D., 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. 15, 375-386 (2008); PubMed

Morita, H., Toh, H., Fukuda, S., Horikawa, H., Oshima, K., Suzuki, T., Murakami, M., Hisamatsu, S., Kato, Y., Takizawa, T., Fukuoka, H., Yoshimura, T., Itoh, K., O'Sullivan, D.J., McKay, L.L., 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. 15, 151-161 (2008); 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. 15, 215-225 (2008); PubMed

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. 15, 39-47 (2008); PubMed

Miura, K., Toh, H., Hirakawa, H., Sugii, M., Murata, M., Nakai, K., Tashiro, K., Kuhara, S., Yoshinao Azuma, Y. & Shirai, M.: Genome-wide analysis of Chlamydophila pneumoniae gene expression at the late stage of Infection.; DNA Res. 15, 83-91 2008 (2008); PubMed

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

Nakabachi, A., Yamashita, A., Toh, H., Ishikawa, H., Dunbar, H.E., Moran, N.A. & Hattori, M.: The 160-kilobase genome of the bacterial endosymbiont Carsonella.; Science 314, 267-267 (2006); PubMed

Toh, H., Weiss, B.L., Perkin, S.A.H., 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. 16, 149-156 (2006); PubMed

Azuma, Y., Hirakawa, H., Yamashita, A., Cai, Y., Rahman, M.A., 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. 13, 15-23 (2006); 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 102,13272-13277 (2005); 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 101, 14919-14924 (2004); PubMed

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

Nagao, Y., Kitada, S., Kojima, K., Toh, H., Kuhara, S., Ogishima, T. & Ito, A.: Glycine-rich region of mitochondrial processing peptidase α-subunit is essential for binding and cleavage of the precursor proteins.; J. Biol. Chem. 275, 34552-34556 (2000); PubMed

Toh, H., Savoie, C.J., Kamikawaji, N., Muta, S., Sasazuki, T. & Kuhara, S.: Changes at the floor of the peptide-binding groove induce a strong preference for Proline at position 3 of the bound peptide: Molecular dynamics simulations of HLA-A*0217.; Biopolymers 54, 318-327 (2000); PubMed

Toh, H., Kamikawaji, N., Tana, T., Muta, S., Sasazuki, T. & Kuhara, S.: Magnitude of structural changes of the T-cell receptor binding regions determine the strength of T-cell antagonism: molecular dynamics simulations of HLA-DR4 (DRB1*0405) complexed with analogue peptide.; Protein Eng. Des. Sel. 13, 423-429 (2000); PubMed

Toh, H., Kamikawaji, N., Tana, T., Sasazuki, T. & Kuhara, S.: Molecular dynamics simulations of HLA-DR4 (DRB1*0405) complexed with analogue peptide: conformational changes in the putative T-cell receptor binding regions.; Protein Eng. Des. Sel. 11, 1027-1032 (1998); PubMed

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総説　Reviews　/　和文　Japanese

藤英博, 佐々木裕之: エピジェネティクスと国際ヒトエピゲノムコンソーシアム; 医学のあゆみ 266, 475-478 (2018)

藤英博, 佐々木裕之: 国際ヒトエピゲノムコンソーシアムの現状と展開; ホルモンと臨床 62, 141-144 (2015)

森田英利, 藤英博: 乳酸菌のゲノム解析の進展; 腸内細菌学雑誌 21, 209-215 (2007)

藤英博, 三浦公志郎: 細菌のゲノム解読と臨床への利用クラミジア; 臨床と微生物 28, 773-778 (2001)

著書　Books　/　和文　Japanese

藤英博: 微生物の設計図を読み解く; 微生物機能学 三共出版 (2012)

藤英博: 嫌気的アンモニア酸化（anammox）の反応機構と微生物複合システム解析; メタゲノム解析技術の最前線 シーエムシー出版 (2011)

森田英利, 藤英博: 乳酸菌・ビフィズス菌のゲノム解析; 乳酸菌とビフィズス菌のサイエンス 京都大学学術出版会 (2010)

藤英博, 森田英利, 服部正平: メタゲノム解析とその応用; 乳酸菌とビフィズス菌のサイエンス 京都大学学術出版会 (2010)

藤英博, 日本乳酸菌学会: ゲノム解析法; 乳酸菌とビフィズス菌のサイエンス 京都大学学術出版会 (2010)

森田英利, 藤英博: 乳酸菌・ビフィズス菌のゲノミクス・プロテオミクス; 乳酸菌の保健機能と応用 シーエムシー出版 (2007)

藤英博, 服部正平: ゲノム解析; プロバイオティクスとバイオジェニクス エヌ・ティー・エス社 (2007)

三浦公志郎, 藤英博, 白井睦訓: ゲノム解析; クラミジア・ニューモニエの細菌学的特徴～ゲノム解析からわかったこと～ 医薬ジャーナル社 (2002)

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