Kyushu University Academic Staff Educational and Research Activities Database
List of Papers
Hidehiro Toh Last modified date:2021.05.31

Research Lecturer / Department of Molecular and Structural Biology / Medical Institute of Bioregulation


Papers
1. 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 Genetics, 17, 5, e1009570, 2021.05.
2. Hiramoto T, Tahara M, Liao J, Soda Y, Miura Y, Kurita R, Hamana H, Inoue K, Kohara H, Miyamoto S, 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, Molecular Therapy, 28, 1, 129-141, 2020.01.
3. Yamanaka S, Nishihara H, Toh H, Eijy Nagai LA, Hashimoto K, Park SJ, Shibuya A, Suzuki AM, Tanaka Y, Nakai K, Carninci P, Sasaki H, Siomi H., Broad heterochromatic domains open in gonocyte development prior to de novo DNA methylation, Developmental Cell, 51, 1, 21-34, 2019.10.
4. Kanatsu-Shinohara M, Yamamoto T, Toh H, Kazuki Y, Kazuki K, 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. Nat. Acad. Sci. USA, 116, 33, 16404-16409, 2019.08.
5. Nguyen TTT, 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, Microbiology Resource Announcements, 8, 23, e00462-19, 2019.06.
6. 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, 2018.01.
7. 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 Genetics, 13, e1007042, 2017.10.
8. 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, 2017.08.
9. 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, Nucleic Acids Research, 45, 5387-5398, 2017.05.
10. 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 Announcements, 5, e01656-16, 2017.02.
11. 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, 2017.01.
12. Fujii Y, Toh H, Matsubara T, Tomida S, Nguyen CT, Mimura I, Nakamura S, Morita H, Draft genome sequence of probiotic Lactobacillus acidophilus strain L-55 isolated from a healthy human gut, Genome Announcements, 4, e01357-16, 2016.12.
13. 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, The American Journal of Human Genetics, 99, 1045-1058, 2016.11.
14. Morita H, Toh H (co-first author), 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 Announcements, 4, e00178-16, 2016.03.
15. Morita H, Toh H (co-first author), 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 traditional fermented mare milk airag in Tuv aimag, Mongolia, Genome Announcements, 4, e00166-16, 2016.03.
16. Toh H, Nakano A, Nguyen CT, 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 Announcements, 4, e01679-15, 2016.02.
17. 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 Announcements, 4, e01566-15, 2016.01.
18. 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 Announcements, 3, e01463-15, 2015.12.
19. 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, Journal of Biotechnology, 214, 214-215, 2015.11.
20. 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, Journal of Biotechnology, 211, 10-11, 2015.10.
21. Morita H, Toh H (co-first author), 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, Journal of Biotechnology, 210, 81-82, 2015.09.
22. Morita H, Toh H (co-first author), 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, Journal of Biotechnology, 210, 25-26, 2015.09.
23. Morita H, Toh H (co-first author), 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, Journal of Biotechnology, 210, 66-67, 2015.09.
24. 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, Journal of Biotechnology, 210, 68-69, 2015.09.
25. 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, Matsumoto 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, 2015.08.
26. 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 Announcements, 3, e00485-15, 2015.05.
27. 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 Announcements, 3, e00481-15, 2015.05.
28. 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 Announcements, 3, e00285-15, 2015.04.
29. 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 Announcements, 3, e00284-15, 2015.04.
30. 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 Announcements, 3, e00255-15, 2015.04.
31. 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 Announcements, 3, e00286-15, 2015.04.
32. Kosaka T, Toh H, Fujiyama A, Sakaki Y, Watanabe K, Meng XY, Hanada S, Toyoda A, Physiological and genetic basis for self-aggregation of a thermophilic hydrogenotrophic methanogen, Methanothermobacter strain CaT2, Environmental Microbiology Reports, 6, 268-277, 2014.06.
33. Kato K, Toh H (co-first author), 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 Announcements, 2, e01263-13, 2014.02.
34. 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 faeces, Animal Science Journal, 85, 158-163, 2014.02.
35. 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, 2013.10.
36. Toh H, Oshima K, Suzuki T, Hattori M, Morita H, Complete genome sequence of the equol-producing bacterium Adlercreutzia equolifaciens DSM 19450T, Genome Announcements, 1, e00742-13, 2013.09.
37. 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, 2013.09.
38. Kosaka T, Toh H, Toyoda A, Complete genome sequence of a thermophilic hydrogenotrophic methanogen, Methanothermobacter sp. CaT2, Genome Announcements, 1, e00672-13, 2013.08.
39. 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 Genetics, 9, e1003439, 2013.04.
40. 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, 2013.03.
41. 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 & Development, 26, 2374-2379, 2012.11.
42. 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, Journal of Bacteriology, 194, 4767-4768, 2012.09.
43. 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, 2012.09.
44. 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 Letters, 586, 1658-1663, 2012.06.
45. 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, International Journal of Microbiology, 2012, 728276, 2012.02.
46. Toh H, Sharma V, Oshima K, Kondo S, Hattori M, Ward FB, Free A, Taylor TD, Complete genome sequences of Arcobacter butzleri ED-1 and Arcobacter sp.-L, isolated from a microbial fuel cell, Journal of Bacteriology, 193, 6411-6412, 2011.11.
47. 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, International Journal of Systematic and Evolutionary Microbiology, 61, 2610-2615, 2011.11.
48. 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, 2011.05.
49. Fukuda S, Toh H, Hase K, Oshima K, Nakanishi Y, Yoshimura K, Tobe T, Clarke JM, Topping DL, 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, 469, 543-547, 2011.01.
50. 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, 2011.08.
51. 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, Journal of Bacteriology, 192, 1165-1166, 2010.02.
52. 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, International journal of systematic and evolutionary microbiology, 60, 109-112, 2010.01.
53. Morita H, Toh H (co-first author), Oshima K, Murakami M, Taylor TD, Igimi S, Hattori M, Complete genome sequence of the probiotic Lactobacillus rhamnosus ATCC 53103, Journal of Bacteriology, 191, 7630-7631, 2009.12.
54. 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, 106, 17939-17944, 2009.10.
55. 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. equigenerosi and L. equi, predominant lactobacilli in the intestinal flora of healthy thoroughbreds, Animal Science Journal, 80, 339-346, 2009.06.
56. 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, International Journal of Systematic and Evolutionary Microbiology, 58, 2682-2686, 2008.12.
57. Oshima K, Toh H (co-first author), 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 Research, 15, 375-386, 2008.12.
58. Hongoh Y, Sharma VK, Prakash T, Noda S, Toh H, Taylor TD, 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, 2008.11.
59. 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 Research, 15, 215-225, 2008.08.
60. 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 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 Research, 15, 151-161, 2008.06.
61. Miura K, Toh H, Hirakawa H, Sugii M, Murata M, Nakai K, Tashiro K, Kuhara S, Azuma Y, Shirai M, Genome-wide analysis of Chlamydophila pneumoniae gene expression at the late stage of infection, DNA Research, 15, 83-91, 2008.04.
62. 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 Research, 15, 39-47, 2008.02.
63. 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 Research, 14, 169-181, 2007.08.
64. Nakabachi A, Yamashita A, Toh H, Ishikawa H, Dunbar HE, Moran NA, Hattori M, The 160-kilobase genome of the bacterial endosymbiont Carsonella, Science, 314, 267, 2006.10.
65. 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 Research, 13, 15-23, 2006.02.
66. Toh H, Weiss BL, Perkin SA, 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 Research, 16, 149-156, 2006.02.
67. 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. Nat. Acad. Sci. USA, 102, 13272-13277, 2005.09.
68. 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, 2004.10.
69. Toh H, Miura K, Shirai M, Hattori M, In silico inference of inclusion membrane protein family in obligate intracellular parasites chlamydiae, DNA Research, 10, 9-17, 2003.02.
70. Nagao Y, Kitada S, Kojima K, Toh H, Kuhara S, Ogishima T, Ito A, Glycine-rich region of mitochondrial processing peptidase alpha-subunit is essential for binding and cleavage of the precursor proteins, The Journal of Biological Chemistry, 275, 34552-34556, 2000.11.
71. Toh H, Savoie CJ, 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, 2000.10.
72. 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 Engineering, 13, 423-429, 2000.06.
73. 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 Engineering, 11, 1027-1032, 1998.11.