Masahira Hattori

Summary

Affiliation: University of Tokyo
Country: Japan

Publications

  1. pmc The human intestinal microbiome: a new frontier of human biology
    Masahira Hattori
    Graduate School of Frontier Sciences, The University of Tokyo, 5 1 5 Kasiwanoha, Kashiwa, Chiba 277 8561, Japan
    DNA Res 16:1-12. 2009
  2. pmc Complete genome sequence and comparative analysis of the fish pathogen Lactococcus garvieae
    Hidetoshi Morita
    School of Veterinary Medicine, Azabu University, Sagamihara, Kanagawa, Japan
    PLoS ONE 6:e23184. 2011
  3. pmc Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes
    Ken Kurokawa
    Laboratory of Comparative Genomics, Graduate School of Information Science, Nara Institute of Science and Technology, Ikoma, Nara, Japan
    DNA Res 14:169-81. 2007
  4. pmc Complete genome sequence and comparative analysis of the wild-type commensal Escherichia coli strain SE11 isolated from a healthy adult
    Kenshiro Oshima
    Kitasato Institute for Life Sciences, Kitasato University, 1 15 1 Kitasato, Sagamihara, Kanagawa 228 8555, Japan
    DNA Res 15:375-86. 2008
  5. pmc Robustness of gut microbiota of healthy adults in response to probiotic intervention revealed by high-throughput pyrosequencing
    Seok Won Kim
    Center for Omics and Bioinformatics, The Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha 5 1 5, Kashiwa, Chiba 277 8561, Japan
    DNA Res 20:241-53. 2013
  6. pmc Comparative genomic analyses of Streptococcus mutans provide insights into chromosomal shuffling and species-specific content
    Fumito Maruyama
    Division of Bacteriology, Department of Infectious Diseases Control, International Research Center for Infectious Diseases, The Institute of Medical Science, The University of Tokyo, Tokyo 108 8639, Japan
    BMC Genomics 10:358. 2009
  7. pmc The identification and functional implications of human-specific "fixed" amino acid substitutions in the glutamate receptor family
    Hiroki Goto
    Division of Human Moelcular Genetics, Research Center for Genetic Information, Medical Institute of Bioregulation, Kyushu University, Fukuoka 812 8582, Japan
    BMC Evol Biol 9:224. 2009
  8. pmc Evolution in an oncogenic bacterial species with extreme genome plasticity: Helicobacter pylori East Asian genomes
    Mikihiko Kawai
    Department of Medical Genome Sciences, Graduate School of Frontier Sciences, University of Tokyo, Minato ku, Tokyo, 108 8639, Japan
    BMC Microbiol 11:104. 2011
  9. doi request reprint Plasma membrane-localized Al-transporter from blue hydrangea sepals is a member of the anion permease family
    Takashi Negishi
    Graduate School of Information Science, Nagoya University, Nagoya, Japan
    Genes Cells 18:341-52. 2013
  10. pmc Chromosome painting in silico in a bacterial species reveals fine population structure
    Koji Yahara
    Department of Medical Genome Sciences, Graduate School of Frontier Sciences, University of Tokyo, Tokyo, Japan
    Mol Biol Evol 30:1454-64. 2013

Collaborators

Detail Information

Publications25

  1. pmc The human intestinal microbiome: a new frontier of human biology
    Masahira Hattori
    Graduate School of Frontier Sciences, The University of Tokyo, 5 1 5 Kasiwanoha, Kashiwa, Chiba 277 8561, Japan
    DNA Res 16:1-12. 2009
    ....
  2. pmc Complete genome sequence and comparative analysis of the fish pathogen Lactococcus garvieae
    Hidetoshi Morita
    School of Veterinary Medicine, Azabu University, Sagamihara, Kanagawa, Japan
    PLoS ONE 6:e23184. 2011
    ..The analysis also predicted other potential virulence factors such as haemolysin. The present study provides new insights into understanding of the virulence mechanisms of L. garvieae in fish...
  3. pmc Comparative metagenomics revealed commonly enriched gene sets in human gut microbiomes
    Ken Kurokawa
    Laboratory of Comparative Genomics, Graduate School of Information Science, Nara Institute of Science and Technology, Ikoma, Nara, Japan
    DNA Res 14:169-81. 2007
    ..In addition, we discovered a conjugative transposon family explosively amplified in human gut microbiomes, which strongly suggests that the intestine is a 'hot spot' for horizontal gene transfer between microbes...
  4. pmc Complete genome sequence and comparative analysis of the wild-type commensal Escherichia coli strain SE11 isolated from a healthy adult
    Kenshiro Oshima
    Kitasato Institute for Life Sciences, Kitasato University, 1 15 1 Kitasato, Sagamihara, Kanagawa 228 8555, Japan
    DNA Res 15:375-86. 2008
    ..coli in human gut habitat...
  5. pmc Robustness of gut microbiota of healthy adults in response to probiotic intervention revealed by high-throughput pyrosequencing
    Seok Won Kim
    Center for Omics and Bioinformatics, The Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha 5 1 5, Kashiwa, Chiba 277 8561, Japan
    DNA Res 20:241-53. 2013
    ..Such OTUs were found to be individual specific and tend to be unevenly distributed in the subjects. These data, thus, suggest robustness of the gut microbiota composition in healthy adults on probiotic administration...
  6. pmc Comparative genomic analyses of Streptococcus mutans provide insights into chromosomal shuffling and species-specific content
    Fumito Maruyama
    Division of Bacteriology, Department of Infectious Diseases Control, International Research Center for Infectious Diseases, The Institute of Medical Science, The University of Tokyo, Tokyo 108 8639, Japan
    BMC Genomics 10:358. 2009
    ..While the pathogenicity of this species is distinct from other human pathogenic streptococci, the species-specific evolution of the genus Streptococcus and its genomic diversity are poorly understood...
  7. pmc The identification and functional implications of human-specific "fixed" amino acid substitutions in the glutamate receptor family
    Hiroki Goto
    Division of Human Moelcular Genetics, Research Center for Genetic Information, Medical Institute of Bioregulation, Kyushu University, Fukuoka 812 8582, Japan
    BMC Evol Biol 9:224. 2009
    ..To clarify the evolutionary dynamics and mechanisms of the GluR genes in the lineage leading to humans, we determined the complete sequences of the coding regions and splice sites of 26 chimpanzee GluR genes...
  8. pmc Evolution in an oncogenic bacterial species with extreme genome plasticity: Helicobacter pylori East Asian genomes
    Mikihiko Kawai
    Department of Medical Genome Sciences, Graduate School of Frontier Sciences, University of Tokyo, Minato ku, Tokyo, 108 8639, Japan
    BMC Microbiol 11:104. 2011
    ..We used newly developed comparative methods to follow the evolution of East Asian H. pylori genomes using 20 complete genome sequences from Japanese, Korean, Amerind, European, and West African strains...
  9. doi request reprint Plasma membrane-localized Al-transporter from blue hydrangea sepals is a member of the anion permease family
    Takashi Negishi
    Graduate School of Information Science, Nagoya University, Nagoya, Japan
    Genes Cells 18:341-52. 2013
    ..The over-expression of HmPALT2 in Arabidopsis resulted in aluminum-hypersensitivity, suggesting that HmPALT2 should work as an aluminum transporter into cells in planta...
  10. pmc Chromosome painting in silico in a bacterial species reveals fine population structure
    Koji Yahara
    Department of Medical Genome Sciences, Graduate School of Frontier Sciences, University of Tokyo, Tokyo, Japan
    Mol Biol Evol 30:1454-64. 2013
    ..We expect this approach to further our understanding of intraspecific bacterial evolution by revealing population structure at a finer scale...
  11. ncbi request reprint Bacterial population dynamics in a laboratory activated sludge reactor monitored by pyrosequencing of 16S rRNA
    Hiroyasu Satoh
    Department of Socio cultural and Environmental Studies, The University of Tokyo, Tokyo, Japan
    Microbes Environ 28:65-70. 2013
    ..It was clearly demonstrated that pyrosequencing with barcoded primers is a very effective tool to clarify the dynamics of the bacterial population in activated sludge...
  12. pmc Coordinated changes in DNA methylation in antigen-specific memory CD4 T cells
    Shin Ichi Hashimoto
    Department of Molecular Preventive Medicine, Graduate School of Medicine, The University of Tokyo, Tokyo 113 0033, Japan
    J Immunol 190:4076-91. 2013
    ..By comparing DMRs between naive and Ag-specific memory T cells, this study provides new insights into the functional status of memory T cells...
  13. pmc Complete genome sequence of the denitrifying and N2O-reducing bacterium Azoarcus sp. strain KH32C
    Tomoyasu Nishizawa
    Department of Applied Biological Chemistry, The University of Tokyo, Yayoi, Bunkyo ku, Tokyo, Japan
    J Bacteriol 194:1255. 2012
    ..strain KH32C. The genome is composed of one chromosome and one megaplasmid and contains genes for plant-microbe interactions and the gene clusters for aromatic-compound degradations...
  14. pmc Tonoplast- and plasma membrane-localized aquaporin-family transporters in blue hydrangea sepals of aluminum hyperaccumulating plant
    Takashi Negishi
    Graduate School of Information Science, Nagoya University, Chikusa ku, Nagoya, Aichi, Japan
    PLoS ONE 7:e43189. 2012
    ..The overexpression of VALT and PALT1 in Arabidopsis thaliana conferred Al-tolerance and Al-sensitivity, respectively...
  15. ncbi request reprint Revealing microbial community structures in large- and small-scale activated sludge systems by barcoded pyrosequencing of 16S rRNA gene
    Purnika Damindi Ranasinghe
    Department of Socio Cultural Environmental Studies, The University of Tokyo, Japan
    Water Sci Technol 66:2155-61. 2012
    ..Thus, the pyrosequencing method provides high resolution insight into microbial community structures in activated sludge that might have been unnoticed with conventional approaches...
  16. pmc Dysbiosis of salivary microbiota in inflammatory bowel disease and its association with oral immunological biomarkers
    Heba S Said
    1Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha 5 1 5, Kashiwa, Chiba 277 8561, Japan
    DNA Res 21:15-25. 2014
    ..Our data demonstrate that dysbiosis of salivary microbiota is associated with inflammatory responses in IBD patients, suggesting that it is possibly linked to dysbiosis of their gut microbiota. ..
  17. ncbi request reprint Analysis of early bacterial communities on volcanic deposits on the island of Miyake (Miyake-jima), Japan: a 6-year study at a fixed site
    Reiko Fujimura
    United Graduate School of Agricultural Science, Tokyo University of Agriculture and Technology, Fuchu shi, Tokyo, Japan
    Microbes Environ 27:19-29. 2012
    ..The detection of known 16S rRNA gene sequences from Fe(III)-reducing acidophiles promoted us to propose the acidity-driven iron cycle for the early microbial ecosystem on the deposit...
  18. pmc A unique dermal dendritic cell subset that skews the immune response toward Th2
    Ryuichi Murakami
    Laboratory of Cancer Biology and Molecular Immunology, Graduate School of Pharmaceutical Sciences, The University of Tokyo, Tokyo, Japan
    PLoS ONE 8:e73270. 2013
    ..We propose that the properties of MGL2(+) dDCs, are complementary to those of CD103(+) dDCs and skew the immune response toward a Th2-type response. ..
  19. pmc Birth and death of genes linked to chromosomal inversion
    Yoshikazu Furuta
    Department of Medical Genome Sciences, Graduate School of Frontier Sciences, University of Tokyo, Minato ku, Tokyo 108 8639, Japan
    Proc Natl Acad Sci U S A 108:1501-6. 2011
    ..These results will guide the interpretation of extensive DNA sequencing results for understanding long- and short-term genome evolution in various organisms and in cancer cells...
  20. pmc Complete genome sequence of the serotype k Streptococcus mutans strain LJ23
    Chihiro Aikawa
    Section of Bacterial Pathogenesis, Tokyo Medical and Dental University Graduate School of Medical and Dental Sciences, Tokyo, Japan
    J Bacteriol 194:2754-5. 2012
    ..Here we report the complete genome sequence of serotype k S. mutans strain LJ23, which was recently isolated from the oral cavity of a Japanese patient...
  21. doi request reprint Genome-wide profiling of DNA methylation in human cancer cells
    Katsumi Ogoshi
    Department of Molecular Preventive Medicine, Graduate School of Medicine, The University of Tokyo, 7 3 1 Hongo, Bunkyo ku, Tokyo 113 0033, Japan
    Genomics 98:280-7. 2011
    ..The MSDS method has the potential to provide novel insight into the functional complexity of the human genome...
  22. pmc Microbial populations responsive to denitrification-inducing conditions in rice paddy soil, as revealed by comparative 16S rRNA gene analysis
    Satoshi Ishii
    Department of Applied Biological Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1 1 1 Yayoi, Bunkyo ku, Tokyo 113 8657, Japan
    Appl Environ Microbiol 75:7070-8. 2009
    ..Therefore, OTUs related to Herbaspirillum are potential key players in nitrate respiration and denitrification under the conditions used...
  23. ncbi request reprint [Disease and metagenomics of intestinal microbiomes]
    Masahira Hattori
    Graduate School of Frontier Sciences, The University of Tokyo
    Nihon Rinsho 67:1214-8. 2009
    ..The International Human Microbiome Project was recently launched to further promote this newly developing field, which will provide new strategies for the maintenance of human health...
  24. pmc A large-scale full-length cDNA analysis to explore the budding yeast transcriptome
    Fumihito Miura
    Department of Computational Biology, Graduate School of Frontier Sciences, University of Tokyo, Kashiwa 277 8561, Japan
    Proc Natl Acad Sci U S A 103:17846-51. 2006
    ..The budding yeast will serve as a versatile model for the studies on these aspects of transcriptome, and the full-length cDNA clones can function as an invaluable resource in such studies...
  25. pmc Complete genome sequence of the wild-type commensal Escherichia coli strain SE15, belonging to phylogenetic group B2
    Hidehiro Toh
    Advanced Science Institute, RIKEN, Yokohama, Kanagawa, Japan
    J Bacteriol 192:1165-6. 2010
    ..coli phylogenetic group B2, which includes the majority of extraintestinal pathogenic E. coli. Here, we report the finished and annotated genome sequence of this organism...