研究発表

RIKEN BRC Annual Report

Publications

2009 〜 2010

研究発表
Publications

Experimental Animal Divisioncomplemetary strand of annotated genes" BMC Genomics
Vol.10 pp1-12 (2009)

Journals in English or non-Japanese (Peer reviewed)

Nakata H, Hashimoto T, Seki Y, Mekada K, Obata Y, Yoshiki A,"Simultaneous detection of multiple transgenes for GeneticallyModiﬁed mouse strains" Experimental Animals Vol.58 pp437-442(2009)

Araki K, Takeda N, Yoshiki A, Obata Y, Nakagata N, Shiroishi
T, Moriwaki K, Yamamura K, "Establishment of germlinecompetent embryonic stem cell lines from the MSM/Ms strain"
Mammalian Genome Vol.20 pp14-20 (2009)
MIki H, Hirose M, Ogonuki N, Inoue K, Kezuka F, Honda A,
Mekada K, Hanaki K, Iwafune H, Yoshiki A, Ishino F, Ogura A,"Eﬃcient production of androgenetic embryos by roundspermatid injection" Genesis Vol.47 pp155-160 (2009)
Yoshiki A, Ike F, Mekada K, Kitaura Y, Nakata H, Hiraiwa N,
Mochida K, Ijuin M, Kadota M, Murakami A, Ogura A, Abe K,
Moriwaki K, Obata Y, "The mouse resources at the RIKEN
BioResource Center" Experimental Animals Vol.58 pp85-96(2009)
Moriwaki K, Miyashita N, Mita A, Gotoh H, Tsuchiya K, Kato
H,Mekada K, Noro C, Oota S, Yoshiki A, Obata Y, Yonekawa H,
Shiroishi T, "Unique Inbred Strain MSM/Ms Established fromthe Japanese Wild Mouse" Experimental Animals Vol.58 pp123134 (2009)
Mekada K, Abe K, Murakami A, Nakamura S, Nakata H,
Moriwaki K, Obata Y, Yoshiki A, "Genetic diﬀerences among
C57BL/6 substrains" Experimental Animals Vol.58 pp141-149(2009)
Ogonuki N, Inoue K, Hirose M, Miura I, Mochida K, Sato T,
Mise N, Mekada K, Yoshiki A, Abe K, Kurihara H, Wakana S,
Ogura A, "A high-speed congenic strategy using ﬁrstwave
male germ cells" PLoS One Vol.4 ppe4943-1-e4943-7 (2009)
Taguma K, Nakamura C, Ozaki A, Suzuki C, Hachisu A,
Kobayashi K, Mochida K, Ogura A, Kaneda H, Wakana S, "A
practical novel method for ensuring stable capacitation of
spermatozoa from cryopreserved C57BL/6J sperm suspension"Experimental Animals Vol.58 pp395-401 (2009)
Inoue K, Ogonuki N, Mekada K, Yoshiki A, Sado T, Ogura A,"Sex-reversed somatic cell cloning in the mouse" Journal of
Reproduction and Development Vol.55 pp 566-569 (2009)
Numata K, Osada Y, Okada Y, Saito R, Hiraiwa N, Nakaoka H,
Yamamoto N, Watanabe K, Okubo K, Kohama C, Kanai A, Abe
K, Kiyosawa H, "Identiﬁcation of novel endogenous antisensetranscripts by DNA microarray analysis targeting

56

Yoshiki A, Mekada K, Ike F, Nakata H, Hiraiwa N, Kitaura Y,
Mochida K, Kadota M, Murakami A, Ijuin M, Ogura A,
Moriwaki K, Obata Y, "Distribution of the highest quality mouse
resources from the RIKEN BioResource Center" VOGiS Herald
Vol.13 pp514-522 (2009)
Mekada K, Yoshiki A, "Which C57BL/6 substrain was used forthe background strain of your mouse?" VOGiS Herald Vol.13
pp523-528 (2009)
Oota S, Mekada K, Fujita Y, Humphries J, Fukami K, Obata Y,
Rowe T, Yoshiki A, "Four-dimensional quantitative analysis of
the ait of mutant mice using coarse-grained motion capture" inProc. EMBS '09. 31st Annual International Conference of theIEEE Vol. pp5227-5230
Kitagawa Y, Tohya Y, Ike F, Kajita A, Park S, Ishii T, Kyuwa S,
Yoshikawa Y, "Indirect ELISA and indirect immunoﬂuorescentantibody assay for detecting the antibody against murine
Norovirus S7 in mice" Experimental Animals Vol.59 pp47-55(2010)
Yamazaki Y, Akashi R, Banno Y, Endo T, Ezura H, Fukami K,
Inaba K, Isa T, Kamei K, Kasai F, Kobayashi M, Kurata N,
Kusaba M, Mizusawa T, Mitani S, Nakamura T, Nakamura Y,
Nakatsuji N, Naruse K, Niki H, Nitasaka E, Obata Y, Okamoto
H, Ohkuma M, Sato K, Serikawa T, Shiroishi T, Sugawara H,
Urushibara H, Yamamoto M, Yaoita Y, Yoshiki A, Kohara Y,"NBRP databases: databases of biological resources in Japan"
Nucleic Acids Research Vol.38 ppD26-D32 (2010)
Kasahara T, Abe K, Mekada K, Yoshiki A, Kato T, "Genetic
variation of melatonin productivity in laboratory mice underdomestication" Proceedings of the National Academy of
Sciences of the United States of America Vol.107 pp6412-6417(2010)

International Conferences (Invited)
Ike F, "Introduction of sentinel mice monitoring system and theadvantages and disadvantages comparison" NLAC Seminar
Tainan Taiwan 1 2009

Mekada K, "Mouse colony management in RIKEN BRC andgenetic diversity of mouse inbred strains" NLAC Seminar
Tainan Taiwan 1 2009
Yoshiki A, Ike F, Mekada K, Nakata H, Hiraiwa N, Mochida K,
Ogura A, Nakamura Y, Fukami-Kobayashi K, Abe K, Moriwaki
K, and Obata Y, "Current status of Japan mouse resources: The
2009 progress report of mouse resources at the RIKEN BRC"
4th AMMRA Annual Meeting Kumamoto Japan 12 2009

Domestic Conferences (Invited)
Yoshiki A, "Genetic control of inbred strains: Genetic control ofbreeding colony of mice and rats" The 43rd Annual Meeting ofJapanese Association for Experimental Animal Technologists
Niigata Japan 10 2009
Yoshiki A, "Establishment of genetically engineered mouse
resources based on seeds and needs of research community"
Mutant resources provided by NBRP, NBRP symposium, The
32nd Annual Meeting of the Molecular Biology Society of Japan
Yokohama Japan 12 2009

Experimental Plant Division
Journals in English or non-Japanese (Peer reviewed）
Urano K, Maruyama K, Ogata Y, Morishita Y, Takeda M,
Sakurai N, Suzuki H, Saito K, Shibata D, Kobayashi M,
Yamaguchi-Shinozaki K, Shinozaki K, "Characterization of the
ABA-regulated global responses to dehydration in Arabidopsis
by metabolomics" The Plant Journal Vol.57 pp1065-1078 (2009)
Sawaki Y, Iuchi S, Kobayashi Y, Kobayashi Y, Ikka T, Sakurai
N, Fujita M, Shinozaki K, Shibata D, Kobayashi M, Koyama H,"STOP1 regulates multiple genes that protect Arabidopsis fromproton and aluminum toxicities" Plant Physiology Vol.150
pp281-294 (2009)
Nakashima K, Fujita Y, Kanamori N, Katagiri T, Umezawa T,
Kidokoro S, Maruyama K, Yoshida T, Ishiyama K, Kobayashi
M, Shinozaki K, Yamaguchi-Shinozaki K, "Three Arabidopsis
SnRK2 protein kinases, SRK2D/SnRK2.2, SRK2E/SnRK2.6/OST1and SRK21/SnRK2.3, involved in ABA signaling are essential
for the control of seed development and dormancy" Plant andCell Physiology Vol.50 pp1345-1363 (2009)
Abe K, Osakabe K, Ishikawa Y, Tagiri A, Yamanouchi H,
Takyuu T, Yoshioka T, Ito T, Kobayashi M, Shinozaki K,

Ichikawa H, Toki S, "Ineﬃcient double-strand DNA break repair
is associated with increased fasciation in Arabidopsis BRCA2
mutants" Journal of Experimental Botany Vol.60 pp2751-2761(2009)
Abe H, Shimoda T, Onishi J, Kugimiya S, Narusaka M, Seo S,
Narusaka Y, Tsuda S, Kobayashi M, "Jasmonate-dependent
plant defense restricts thrips performance and preference"
BMC Plant Biology Vol.9 pp1-12 (2009)
Leon-Reyes A, Spoel S, De Lange E, Abe H, Kobayashi M,
Tsuda S, Millenaar F, Welschen R, Ritsema T, Pieterse C,"Ethylene modulates the role of nonexpressor of pathogenesisrelated genes1 in cross talk between salicylate and jasmonate
signaling" Plant Physiology Vol.149 pp1797-1809 (2009)
Suzuki H, Park S, Okubo K, Kitamura J, Ueguchi M, Iuchi S,
Katoh E, Kobayashi M, Yamaguchi I, Matsuoka M, Asami T,
Nakajima M, "Diﬀerential expression and aﬃnities of Arabidopsis gibberellin receptors can explain variation in phenotypes ofmultiple knock-out mutants" The Plant Journal Vol.60 pp48-55(2009)
Fujita Y, Nakashima K, Yoshida T, Katagiri T, Kidokoro S,
Kanamori N, Umezawa T, Fujita M, Maruyama K, Ishiyama K,
Kobayashi M, Nakasone S, Yamada K, Ito T, Shinozaki K,
Yamaguchi-Shinozaki K, "Three SnRK2 protein kinases are themain positive regulators of abscisic acid signaling in response towater stress in Arabidopsis" Plant and Cell Physiology Vol.50
pp2123-2132 (2009)
Yamazaki Y, Akashi R, Banno Y, Endo T, Ezura H, Fukami K,
Inaba K, Isa T, Kamei K, Kasai F, Kobayashi M, Kurata N,
Kusaba M, Mizusawa T, Mitani S, Nakamura T, Nakamura Y,
Nakatsuji N, Naruse K, Niki H, Nitasaka E, Obata Y, Okamoto
H, Ohkuma M, Sato K, Serikawa T, Shiroishi T, Sugawara H,
Urushibara H, Yamamoto M, Yaoita Y, Yoshiki A, Kohara Y,"NBRP databases: databases of biological resources in Japan"
Nucleic Acids Research Vol.38 ppD26-D32 (2010)
Sugimoto k, Takeuchi Y, Ebana K, Miyao A, Hirochika H, Hara
N, Ishiyama K, Kobayashi M, Ban Y, Hattori T, Yano M,"Molecular cloning of Sdr4, a regulator involved in seed
dormancy and domestication of rice" Proceedings of the
National Academy of Sciences of the United States of America
Vol.107 pp5792-5797 (2010)
Hatakeyama K, Horisaki A, Niikura S, Narusaka Y, Abe H,
Yoshiaki H, Ishida M, Fukuoka H, Matsumoto S, "Mapping ofquantitative trait loci for high level of selﬁncompatibility in
Brassica rapa L." Genome Vol.53 pp257-265 (2010)

57

Osakabe Y, Mizuno S, Tanaka H, Maruyama K, Osakabe K,
Todaka D, Fujita Y, Kobayashi M, Shinozaki K, Shinozaki K,"Overproduction of the membrane-bound receptor-like protein
kinase 1, RPK1, enhances abiotic stress tolerance in Arabidopsis" Journal of Biological Chemistry Vol.285 pp9190-9201 (2010)
Katori T, Ikeda A, Iuchi S, Kobayashi M, Shinozaki K, Maehashi
K, Sakata Y, Tanaka S, Taji T, "Dissecting the genetic control ofnatural variation in salt tolerance of Arabidopsis thaliana
accessions" Journal of Experimental Botany Vol.61 pp1125-1138(2010)

International Conferences (Invited)
Kobayashi M, "Plant Resource Project in RIKEN BRC" 1st
ANRRC & Asian Chapter Meeting of ISBER Seoul Korea 9
2009

Domestic Conferences (Invited)
Kobayashi M, "Arabidopsis resources prepared and provided
through the 2010 Project, and research trends toward thesucceeding projects." 2nd Symposium on Plant Stress Research
Kurashiki Japan 3 2010

Cell Engineering Division

vitro diﬀerentiation of pancreatic-like cells from human amnionderived ﬁbroblast-like cells" Human Cell Vol.22 pp55-63 (2009)
Takahashi Y, Forrest A, Maeno E, Hashimoto T, Daub C,
Yasuda J, "MiR-107 and MiR-185 Can Induce Cell Cycle Arrestin Human Non Small Cell Lung Cancer Cell Lines" PLoS One
Vol.4 ppe6677-1-e6677-9 (2009)
Nakamura Y, "Bio-Resource of human and animalderived cellmaterials" Experimental Animals Vol.59 pp1-7 (2010)
Yamazaki Y, Akashi R, Banno Y, Endo T, Ezura H, Fukami K,
Inaba K, Isa T, Kamei K, Kasai F, Kobayashi M, Kurata N,
Kusaba M, Mizusawa T, Mitani S, Nakamura T, Nakamura Y,
Nakatsuji N, Naruse K, Niki H, Nitasaka E, Obata Y, Okamoto
H, Ohkuma M, Sato K, Serikawa T, Shiroishi T, Sugawara H,
Urushibara H, Yamamoto M, Yaoita Y, Yoshiki A, Kohara Y,"NBRP databases: databases of biological resources in Japan"
Nucleic Acids Research Vol.38 ppD26-D32 (2010)

International Conferences (Invited)
Nakamura Y, "Simple Sequence Length Polymorphism (SSLP)
analysis to determine the mouse strain from which mouse celllines are derived" 2009 in vitro Biology Meeting Charleston
South Carolina USA 6 2009
Nakamura Y, "Cell Bank in RIKEN BRC" 1st ANRRC & Asian
Chapter Meeting of ISBER Seoul Korea 9 2009

Journals in English or non-Japanese (Peer reviewed）
Ishigaki T, Sudo K, Hiroyama T, Miharada K, Ninomiya H,
Chiba S, Nagasawa T, Nakamura Y, "Human hematopoietic
stem cells can survive in vitro for several months" Advances in
Hematology Vol.2009 pp1-7 (2009)
Suzuki H, Forrest A, Daub C, Lassmann T, Hasegawa Y, De
Hoon M, Katayama S, Carninci P, Tomaru Y, Katayama M,
Kubosaki A, Ando Y, Arner E, Bertin N, Bulger E, Furuno M,
Okada M, Hashimoto T, Ishihara R, Kawaji H, Kimura Y, Kondo
S, Lennartsson A, Lizio M, Maeda N, Nakano M, Okazaki Y,
Okuda H, Plessy C, Severin J, Suzuki M, Suzuki T, Waki K,
Waterhouse A, Yamaguchi K, Yasuda J, The FANTOM C,
Arakawa T, Fukuda S, Imamura K, Kai C, Kaiho A, Kawashima
T, Suzuki C, Kitazume Y, Kojima M, Miura H, Murakami K,
Murata M, Fukuda N, Sueki H, Noma S, Ogawa C, Sano T,
Simon C, Tagami M, Takahashi Y, Kawai J, Hayashizaki Y,"The transcriptional network that controls growth arrest anddiﬀerentiation in a human myeloid leukemia cell line" Nature
Genetics Vol.41 pp553-562 (2009)
Danjoh I, Sone H, Noda N, Iimura E, Nagayoshi M, Saijo K,
Hiroyama T, Nakamura Y, "Is parainﬂuenza virus a threatening
virus for human cancer cell lines?" Human Cell Vol.22 pp81-84(2009)
Tamagawa T, Ishiwata I, Sato K, Nakamura Y, "Induced in

58

Nakamura Y, "Human Resources in RIKEN BRC" 1st ANRRC& Asian Chapter Meeting of ISBER Seoul Korea 9 2009
Nakamura Y, "Stem cell bank and in vitro production of red
blood cells from ES and iPS cells" the 4th anniversary of NichiIn center for regenerative medicine Chennai India 10 2009
Nakamura Y, "In vitro production of transfusable red blood
cells" International Society for Blood Transfusion (ISBT) 20th
Regional Congress, Asia Nagoya Japan 11 2009

Gene Engineering Division

Vol.122 pp965-975 (2009)
Yamasaki T, Takahashi A, Pan J, Yamaguchi N, Yokoyama K,"Phosphorylation of activation transcription factor-2 at serine
121 by protein kinase C controls c-Jun-mediated activation oftranscription" The Journal of Biological Chemistry Vol.284
pp8567-8581 (2009)
Takahashi A, Obata Y, Fukumoto Y, Nakayama Y, Kasahara K,
Kuga T, Higashiyama Y, Saito T, Yokoyama K, Yamaguchi N,"Nuclear localization of Srcfamily tyrosine kinases is requiredfor growth factor-induced euchromatinization" Experimental
Cell Research Vol.315 pp1117-1141 (2009)
Nakade K, Pan J, Yamasaki T, Murata T, Wasylyk B,
Yokoyama K, "JDP2(Jun dimerization protein 2)-deﬁcient mouseembryonic ﬁbroblasts are resistant to replicative senescence"
The Journal of Biological Chemistry Vol.284 pp10808-10817(2009)
Weidenfeld-Baranboim k, Hasin T, Darlyuk I, Heinrich R,
Elhanani O, Pan J, Yokoyama K, Aronheim A, "The ubiquitously
expressed bZIP inhibitor, JDP2, suppresses the transcription of
its homologue immediate early gene counterpart, ATF3"
Nucleic Acids Research Vol.37 pp2194-2203 (2009)
Yamazaki Y, Akashi R, Banno Y, Endo T, Ezura H, Fukami K,
Inaba K, Isa T, Kamei K, Kasai F, Kobayashi M, Kurata N,
Kusaba M, Mizusawa T, Mitani S, Nakamura T, Nakamura Y,
Nakatsuji N, Naruse K, Niki H, Nitasaka E, Obata Y, Okamoto
H, Ohkuma M, Sato K, Serikawa T, Shiroishi T, Sugawara H,
Urushibara H, Yamamoto M, Yaoita Y, Yoshiki A, Kohara Y,"NBRP databases: databases of biological resources in Japan"
Nucleic Acids Research Vol.38 ppD26-D32 (2010)
Yokoyama K, Murata T, Pan J, Nakade K, Kishikawa S, Ugai H,
Kimura M, Kujime Y, Sakayori M, Masuzaki S, Yamasaki T,
Kurihara C, Okubo M, Nakano Y, Kusa Y, Yoshikawa A, Inabek, Ueno K, Obata Y, "Genetic Materials at the Gene Engineering
Division, RIKEN BioResource Center" Expreimental Animals
Vol.59 pp115-124 (2010)
Nakade K, Wasylyk B, Yokoyama K, "Epigenetic regulation of
p16Ink4a and Arf by JDP2 in cellular senescence" BioMolecular
Concepts Vol.1 pp49-58 (2010)

Journals in English or non-Japanese (Peer reviewed）

研究発表

RIKEN BRC Annual Report

Publications

2009 〜 2010

Microbe Division
Journals in English or non-Japanese (Peer reviewed）
Sakamoto M, Kumada H, Hamada N, Takahashi Y, Okamoto M,
Bakir M, Benno Y, "Prevotella falsenii sp. nov., a Prevotellaintermedia-like organism isolated from monkey dental plaque"
International Journal of Systematic and Evolutionary Microbiology Vol.59 pp319-322 (2009)
Li B, Furihata K, Kudo T, Yokota A, "Kitasatospora saccharophila sp. nov. and Kitasatospora kazusanensis sp. nov., isolated
from soil and transfer of Streptomyces atroaurantiacus to thegenus Kitasatospora as Kitasatospora atroaurantiaca comb. nov."
The Journal of General and Applied Microbiology Vol.55
pp19-26 (2009)
Mayanagi G, Kimura M, Nakaya S, Hirata H, Sakamoto M,
Benno Y, Shimauchi H, "Probiotic eﬀects of orally administered
Lactobacillus salivarius WB21-containing tablets on periodontopathic bacteria: a double-blinded, placebo-controlled, randomized
clinical trial" Journal of Clinical Periodontology Vol.36 pp506-513(2009)
Chamroensaksri N, Tanasupawat S, Akaracharanya A,
Visessanguan W, Kudo T, Itoh T, "Salinivibrio siamensis sp.
nov., from fermented ﬁsh (pla-ra) in Thailand" International
Journal of Systematic and Evolutionary Microbiology Vol.59
pp880-885 (2009)
Sakamoto M, Takagaki A, Matsumoto K, Kato Y, Goto K, Benno
Y, "Butyricimonas synergistica gen. nov., sp. nov. and Butyricimonas virosa sp. nov., butyric acid-producing bacteria in thefamily ̀Porphyromonadaceae' isolated from rat faeces" International Journal of Systematic and Evolutionary Microbiology
Vol.59 pp1748-1753 (2009)
Iino T, Suzuki K, Harayama S, "Lacticigenium naphtae gen. nov.,
sp. nov., a halotolerant and motile lactic acid bacterium isolated
from crude oil" International Journal of Systematic and Evolutionary Microbiology Vol.59 pp775-780 (2009)
Matsumoto M, Sakamoto M, Benno Y, "Dynamics of fecal microbiota in hospitalized elderly fed probiotic LKM512 yogurt"
Microbiology and Immunology Vol.53 pp421-432 (2009)

Books in English or non-Japanese (Peer reviewed）
Fukuda K, Abei M, Ugai H, Kawashima R, Seo E, Wakayama
M, Murata T, Endo S, Hamada H, Yokoyama K, "E1A, E1B
double-restricted replicative adenovirus at low dose greatly
augments tumor-speciﬁc suicide gene therapy for gallbladdercancer" Cancer Gene Therapy Vol.16 pp126-136 (2009)
Sato I, Obata Y, Kasahara K, Nakayama Y, Fukumoto Y, Yamasaki T, Yokoyama K, Saito T, Yamaguchi N, "Diﬀerential
traﬃcking of Src, Lyn, Yes, and Fyn is speciﬁed by the state ofpalmitoylation in the SH4 domain" Journal of Cell Science

0111835 Book, Proc. (in English or non-Japanese) Hirano T,
Yokoyama K, "Role of extrachromosomal elements in HL-60
human leukemia cells" The Human Genome: Features,
Variations and Genetic Disorders pp91-100 (2009)

Kajiura T, Takeda T, Sakata S, Sakamoto M, Hashimoto M,
Suzuki H, Suzuki M, Benno Y, "Change of intestinal microbiota
with elemental diet and its impact on therapeutic eﬀects in amurine model of chronic colitis" Digestive Diseases and Sciences
Vol.54 pp1892-1900 (2009)
Sato T, Hongoh Y, Noda S, Hattori S, Ui S, Ohkuma M, "Candidatus Desulfovibrio trichonymphae, a novel intracellular symbiont of the ﬂagellate Trichonympha agilis in termite gut"
Environmental Microbiology Vol.11 pp1007-1015 (2009)59

Noda S, Mantini C, Bordereau C, Kitade O, Dolan M, Viscogliosi
E, Ohkuma M, "Molecular phylogeny of parabasalids withemphasis on the order Cristamonadida and its complex morphological evolution" Molecular Phylogenetics and Evolution Vol.52
pp217-224 (2009)
Noda S, Hongoh Y, Sato T, Ohkuma M, "Complex coevolutionary history of symbiotic Bacteroidales bacteria of various
protists in the gut of termites" BMC Evolutionary Biology Vol.9
pp158 (2009)
Promnuan Y, Kudo T, Chantawannakul P, "Actinomycetes
isolated from beehives in Thailand" World Journal Microbiology
and Biotechnology Vol.25 pp1685-1689 (2009)
Yang Y, Itoh T, Yokobori S, Itahashi S, Shimada H, Satoh K,
Ohba H, Narumi I, Yamagishi A, "Deinococcus aerius sp. nov.,
isolated from the high atmosphere" International Journal of
Systematic and Evolutionary Microbiology Vol.59 pp1862-1866(2009)
Yoshinari S, Shiba T, Inaoka D, Itoh T, Kurisu G, Harada S, Kita
K, Watanabe Y, "Functional importance of Crenarchaea-speciﬁc
extra-loop revealed by an X-ray structure of a heterotetrameric
crenarchaeal splicing endonuclease" Nucleic Acids Research
Vol.37 pp4787-4798 (2009)
Yang X, Sugita T, Takashima M, Hiruma M, Li R, Sudo H,
Ogawa H, Ikeda S, "Diﬀerentiation of Trichophyton rubrum
clinical isolates from Japanese and Chinese patients byrandomly ampliﬁed polymorphic DNA and DNA sequence
analysis of the nontranscribed spacer region of the rRNA gene"
Journal of Dermatological Science Vol.54 pp38-42 (2009)
Takashima M, Sugita T, Toriumi Y, Nakase T, "Cryptococcus
tepidarius sp. nov., a thermotolerant yeast species isolated froma stream from a hot-spring area in Japan" International Journalof Systematic and Evolutionary Microbiology Vol.59 pp181-185(2009)
Sakamoto M, Suzuki N, Matsunaga N, Koshihara K, Seki M,
Komiya H, Benno Y, "Parabacteroides gordonii sp. nov., isolated
from human blood cultures" International Journal of Systematicand Evolutionary Microbiology Vol.59 pp2843-2847 (2009)
Sugiyama Y, Ito Y, Suzuki M, Hirota A, "Indole derivatives froma marine sponge-derived yeast as DPPH radical scavengers"
Journal of Natural Products Vol.72 pp2069-2071 (2009)
Mantini C, Dalia-Cornette J, Noda S, Van Der Heijden H, Capron
M, Dei-Cas E, Landman W, Ohkuma M, Viscogliosi E, "Molecular identiﬁcation and phylogenetic relationships of trichomonadisolates of galliform birds inferred from nuclear small subunit
rRNA gene sequences" Parasitology Research Vol.106 pp163-170(2009)
Kitahara M, Sakamoto M, Benno Y, "Lactobacillus similis sp.

60nov., isolated from fermented cane molasses" International
Journal of Systematic and Evolutionary Microbiology Vol.60
pp187-190 (2010)
Hamana K., Hayashi H., Niitsu M., Itoh T, "Polyamine analysis ofthermophilic, acidophilic, alkaliphilic and radio-tolerant bacteria
belonging to the domain Bacteria and methanogens, thermophiles and extreme halophiles belonging to the domain Archaea-Polyamine catalogues of bacterial (eubacterial) and archaeal(archaebacterial) extremophiles IV-" Journal of Japanese Society
for Extremophiles Vol.8 pp59-68 (2009)
Yamazaki Y, Akashi R, Banno Y, Endo T, Ezura H, Fukami K,
Inaba K, Isa T, Kamei K, Kasai F, Kobayashi M, Kurata N,
Kusaba M, Mizusawa T, Mitani S, Nakamura T, Nakamura Y,
Nakatsuji N, Naruse K, Niki H, Nitasaka E, Obata Y, Okamoto
H, Ohkuma M, Sato K, Serikawa T, Shiroishi T, Sugawara H,
Urushibara H, Yamamoto M, Yaoita Y, Yoshiki A, Kohara Y,"NBRP databases: databases of biological resources in Japan"
Nucleic Acids Research Vol.38 ppD26-D32 (2010)
Sakamoto M, Suzuki N, Okamoto M, "Prevotella aurantiaca sp.
nov., isolated from the human oral cavity" International Journalof Systematic and Evolutionary Microbiology Vol.60 pp500-503(2010)
Kurtzman C, Suzuki M, "Phylogenetic analysis of ascomycete
yeasts that form coenzyme Q-9 and the proposal of the newgenera Babjeviella, Meyerozyma, Millerozyma, Priceomyces,
and Scheﬀersomyces" Mycoscience Vol.51 pp2-14 (2010)
Koyanagi T, Sakamoto M, Takeuchi Y, Ohkuma M, Izumi Y,"Analysis of Microbiota Associated with Peri-Implantitis using
16S rRNA Gene Clone Library" Journal of Oral Microbiology
Vol.2 pp5104-1-5104-7 (2010)
Yang Y, Itoh T, Yokobori S, Shimada H, Itahashi S, Satoh K,
Ohba H, Narumi I, Yamagishi A, "Deinococcus Aetherius sp.
nov., Isolated from the Stratosphere" International Journal of
Systematic and Evolutionary Microbiology Vol.60 pp776-779(2010)
Chamroensaksri N, Tanasupawat S, Akaracharaya A, Visessanguan W, Kudo T, Itoh T, "Gracilibacillus Thailandensis sp. nov.,
from Fermented Fish(Pla-ra)" International Journal of Systematic and Evolutionary Microbiology Vol.60 pp944-948 (2010)
Burns D, Janssen P, Itoh T, Minegishi H, Usami R, Kamekura
M, Dyall-Smith M, "Natronomonas Moolapensis sp.nov.,
Non-Alkaliphilic Isolates Recovered from a Solar Saltern
Crystallizer Pond, and Emended Description of the Genus
Natronomonas" International Journal of Systematic and Evolutionary Microbiology Vol.60 pp1173-1176 (2010)
Burns D, Janssen P, Itoh T, Kamekura M, Echigo A, DyallSmith M, "Halonotius Pteroides Gen.nov.,sp.nov.,an Extremely
Halophilic Archaeon Recoverd from a Saltern Crystallizer"

International Journal of Systematic and Evolutionary Microbiology Vol.60 pp1196-1199 (2010)
Nakazawa Y, Suzuki R, Uchino M, Sagane Y, Kudo T, Nagai T,
Sato H, Takano K, "Identiﬁcation of Actinomycetes Producing
Phospholipase D with High Transphosphatidylation Activity"
Current Microbiology Vol.60 pp365-372 (2010)
Obata T, Goto Y, Kunisawa J, Sato S, Sakamoto M, Setoyama H,
Matsuki T, Nonaka K, Shibata N, Gohda M, Kagiyama Y, Nochi
T, Yuki Y, Fukuyama Y, Mukai A, Shinzaki S, Fujihashi K,
Sasakawa C, Iijima H, Goto M, Umesaki Y, Benno Y, Kiyono H,"Indigenous Opportunistic Bacteria Inhabit Mammalian
Gut-associated Lymphoid Tissues and Share a Mucosal
Antibody-mediated Symbiosis" Proceedings of the National
Academy of Sciences of the United States of America Vol.107
pp7419-7424 (2010)
Vishniac H, Takashima M, "Rhodotorula arctica sp. nov., abasidiomycetous yeast from Arctic soil" International Journal of
Systematic and Evolutionary Microbiology Vol.60 pp1215-1218(2010)

研究発表

RIKEN BRC Annual Report

Publications

2009 〜 2010

Domestic Conferences (Invited)
Ohkuma M, "Genome analyses of multiplex symbiotic microbialcommunity in the gut of termites" The Society for Biotechnology, Japan / Annual Meeting 2009 Nagoya Japan 9 2009
Ohkuma M, "Genome analyses of microbial symbionts oftermites and eﬃcient utilization of cellulose" The 25th JapaneseSociety of Microbial Ecology Higashi-Hiroshima Japan 11 2009
Ohkuma M, "Approaches to yet-uncultivated microorganisms inthe symbiotic community of the termite gut" The 29th annual
meeting of Japan Society for Microbial Systematics Kisarazu
Japan 11 2009
Takashima M, "Nomenclature of fungi with the emphasis on
medically mycology" The 30th regional symposium for medical
mycology Tokyo Japan 11 2009
Kosako Y, "Achievement of Prof. Hideko Yabuuchi and present
status of taxonomy of the genus Pseudomonas " The 44th
meeting of Society of Pseudomonas Infectious Disease TokyoJapan 2 2010

Nakase T, Imanishi Y, Ninomiya S, Takashima M, "Candidarishirensis sp. nov., a novel methylotrophic anamorphic yeast
species isolated from soil on Rishiri Island in japan" The Journalof General and Applied Microbiology Vol.56 pp169-173 (2010)

Bioresource Imformation DivisionInternational Conferences (Invited)

Journals in English or non-Japanese (Peer reviewed）

Ohkuma M, "Symbioses of ﬂagellates and bacteria for eﬃcient
digestion in termite gut" Canadian Institute for Advanced
Research Integrated Microbial Biodiversity Program 2009
Annual General Meeting Asilomar USA 6 2009

Moriwaki K, Miyashita N, Mita A, Gotoh H, Tsuchiya K, Kato H,
Mekada K, Noro C, Oota S, Yoshiki A, Obata Y, Yonekawa H,
Shiroishi T, "Unique Inbred Strain MSM/Ms Established fromthe Japanese Wild Mouse" Experimental Animals Vol.58 pp123134 (2009)

Ohkuma M, "Symbioses in the gut microbial community oftermites for eﬃcient cellulose digestion" SIM Annual Meetingand Exhibition Toronto Canada 7 2009
Takashima M, Ohkuma M, "Japan Collection of Microorganisms:
Activity of RIKEN BRC-JCM" 1st ANRRC & Asian Chapter
Meeting of ISBER Seoul Korea 9 2009
Takashima M, Ohkuma M, "Microbial Diversity and the Role of
RIKEN BRC-JCM" 1st ANRRC & Asian Chapter Meeting of
ISBER Seoul Korea 9 2009
Itoh T, "How culture collections support microbial research inthe 21st century" Workshop on Characterization of Microbial
Communities Associated with Polluted Environments using
Polyphasic Approach Chandigarh India 2 2010
Itoh T, "A perspective of diversity and speciation in thermophilic archaea" Workshop on Characterization of Microbial
Communities Associated with Polluted Environments using
Polyphasic Approach Chandigarh India 2 2010

Iida K, Fukami K, Toyoda A, Sakaki Y, Kobayashi M, Seki M,
Shinozaki K, "Analysis of Multiple Occurrences of Alternative
Splicing Events in Arabidopsis thaliana Using Novel Sequenced
Full-Length cDNAs" DNA Research Vol.16 pp155-164 (2009)
Oota S, Mekada K, Fujita Y, Humphries J, Fukami K, Obata Y,
Rowe T, Yoshiki A, "Four-dimensional quantitative analysis of
the ait of mutant mice using coarse-grained motion capture" inProc. EMBS '09. 31st Annual International Conference of theIEEE Vol. pp5227-5230 (2009)
Yamazaki Y, Akashi R, Banno Y, Endo T, Ezura H, Fukami K,
Inaba K, Isa T, Kamei K, Kasai F, Kobayashi M, Kurata N,
Kusaba M, Mizusawa T, Mitani S, Nakamura T, Nakamura Y,
Nakatsuji N, Naruse K, Niki H, Nitasaka E, Obata Y, Okamoto
H, Ohkuma M, Sato K, Serikawa T, Shiroishi T, Sugawara H,
Urushibara H, Yamamoto M, Yaoita Y, Yoshiki A, Kohara Y,"NBRP databases: databases of biological resources in Japan"
Nucleic Acids Research Vol.38 ppD26-D32 (2010)

61

Bioresource Engineering Divisionpreimplantation development" Genesis Vol. 47 pp611-616 (2009)

Journals in English or non-Japanese (Peer reviewed）

Inoue K, Ogonuki N, Mekada K, Yoshiki A, Sado T, Ogura A,"Sex-reversed somatic cell cloning in the mouse" Journal of
Reproduction and Development Vol.55 pp 566-569 (2009)

Tachibana M, Terada Y, Ogonuki N, Ugajin T, Ogura A,
Murakami T, Yaegashi N, Okamura K, "Functional assessmentof centrosomes of spermatozoa and spermatids microinjected
into rabbit oocytes" Molecular Reproduction and Development
Vol.76 pp270-277 (2009)
Honda A, Hirose M, Ogura A, "Basic FGF and Activin/Nodal
but Not LIF Signaling Sustain Undiﬀerentiated Status of Rabbit
Embryonic Stem Cells." Experimental Cell Research Vol.315
pp2033-2042 (2009)
Lee J, Kanatsu-Shinohara M, Ogonuki N, Miki H, Inoue K,
Morimoto T, Morimoto H, Ogura A, Shinohara T, "Heritable
Imprinting Defect Caused by Epigenetic Abnormalities inMouse Spermatogonial Stem Cells" Biology of Reproduction
Vol.80 pp518-527 (2009)
MIki H, Hirose M, Ogonuki N, Inoue K, Kezuka F, Honda A,
Mekada K, Hanaki K, Iwafune H, Yoshiki A, Ishino F, Ogura A,"Eﬃcient production of androgenetic embryos by roundspermatid injection" Genesis Vol.47 pp155-160 (2009)
Yoshiki A, Ike F, Mekada K, Kitaura Y, Nakata H, Hiraiwa N,
Mochida K, Ijuin M, Kadota M, Murakami A, Ogura A, Abe K,
Moriwaki K, Obata Y, "The mouse resources at the RIKEN
BioResource Center" Experimental Animals Vol.58 pp85-96(2009)
Ogonuki N, Inoue K, Hirose M, Miura I, Mochida K, Sato T,
Mise N, Mekada K, Yoshiki A, Abe K, Kurihara H, Wakana S,
Ogura A, "A high-speed congenic strategy using ﬁrst-wave
male germ cells" PLoS One Vol.4 ppe4943-1-e4943-7 (2009)
Miki H, Wakisaka N, Inoue K, Ogonuki N, Mori M, Kim J, Ohta
A, Ogura A, "Embryonic Rather than Extraembryonic Tissues
Have More Impact on the Development of Placental Hyperplasia in Cloned Mice" Placenta Vol.30 pp543-546 (2009)
Honda A, Hirose M, Inoue K, Hiura H, MIki H, Ogonuki N,
Sugimoto M, Abe K, Kanatsu-Shinohara M, Kono T, Shinohara
T, Ogura A, "Large-scale production of growing oocytes in vitro
from neonatal mouse ovaries" The International Journal of
Developmental Biology Vol.53 pp605-613 (2009)

Yoshiki A, Mekada K, Ike F, Nakata H, Hiraiwa N, Kitaura Y,
Mochida K, Kadota M, Murakami A, Ijuin M, Ogura A,
Moriwaki K, Obata Y, "Distribution of the highest quality mouse
resources from the RIKEN BioResource Center" VOGiS Herald
Vol.13 pp514-522 (2009)
Jin B, Mochida K, Ogura A, Hotta E, Kobayashi Y, Ito K, Egawa
G, Seki S, Honda H, Edashige K, Kasai M, "Equilibrium vitriﬁcation of mouse embryos" Biology of Reproduction Vol.82 pp444450 (2010)
Kanatsu-Shinohara M, Ogonuki N, Miki H, Inoue K, Morimoto H,
Takashima S, Ogura A, Shinohara T, "Genetic inﬂuences inmouse spermatogonial stem cell self-renewal" Journal of Reproduction and Development Vol.56 pp145-153 (2010)
Hayashi Y, Kusuda-Furue M, Tanaka S, Hirose M, Wakisaka N,
Danno H, Ohnuma K, Oeda S, Aihara Y, Shiota K, Ogura A,
Ishiura S, Asashima M, "BMP4 induction of trophoblast frommouse embryonic stem cells in deﬁned culture conditions on
laminin" In Vitro Cellular Developmental Biology: Animal Vol.46
pp1-15 (2010)
Goto M, Shimada K, Sato A, Takahashi E, Fukasawa T,
Takahashi T, Ohka S, Taniguchi T, Honda E, Nomoto A, Ogura
A, Kirikae T, Hanaki K, "Rapid detection of Pseudomonas
aeruginosa in mouse feces by colorimetric loop-mediatedisothermal ampliﬁcation" Journal of Microbiological Methods
Vol.81 pp247-252 (2010)
Ogonuki N, Mori M, Shinmen A, Inoue K, Mochida K, Ohta A,
Ogura A, "The eﬀect on intracytoplasmic sperm injection
outcome of genotype, male germ cell stage and freeze-thawing
in mice" PLoS One Vol. 5 e11062. doi:10.1371/journal.pone.0011062(2010)
Honda A, Hirose M, Hatori M, Matoba S, Miyoshi H, Inoue K,
Ogura A, "Generation of induced pluripotent stem cells in
rabbits: potential experimental models for human regenerative
medicine." The Journal of Biological Chemistry" in press (2010)

Ogura A, "Construction of embryos by micromanipulation"
Iwate Animal Model Association Morioka Japan 6 2009
Ogura A, "Characterization of oocytes and thecal stem cells
isolated from neonatal mouse ovaries" 14th Annual Meeting of
the Japan Society of Reproductive Endocrinology Tokyo Japan
11 2009
Ogonuki N, "Applications of microinsemination techniques tolaboratory animals" The Second Symposium of The JapaneseSociety of Animal Models for Human Diseases Tokyo Japan 11
2009
Ogura A, "Fertilizing ability and genomic imprinting of malegerm cells" Symposium on the Mechanisms of Reproduction at
the National Institute of Agrobiological Sciences Tokyo Japan
12 2009
Ogura A, "Towards the practical applications of nuclear transfer
cloning" 2nd Primate Symposium at the Shiga University of
Medical Science Otsu Japan 2 2010

Technology and Development Teamfor Mammalian Cellular Dynamics

Honda A, "Current status of rabbit ES cells: where are we andwhere can we go?" The Third International Meeting on Rabbit
Biotechnology Xi'an China 6 2009

Kim J, Ogura A, "Changes in allele-speciﬁc association of histone
modiﬁcations at the imprinting control regions during mouse

Ogonuki N, "Applications of microinsemination techniques tolaboratory animals" The 56th Annual Meeting of the Japanese

RIKEN BRC Annual Report

Publications

2009 〜 2010

"Usp46 is a quantitative trait gene regulating mouse immobile
behavior in the tail suspension and forced swimming tests"
Nature Genetics Vol.41 pp688-695 (2009)
Numata K, Osada Y, Okada Y, Saito R, Hiraiwa N, Nakaoka H,
Yamamoto N, Watanabe K, Okubo K, Kohama C, Kanai A, Abe
K, Kiyosawa H, "Identiﬁcation of novel endogenous antisensetranscripts by DNA microarray analysis targeting complementary strand of annotated genes" BMC Genomics Vol.10 pp1-12(2009)
Nomura-Kitabayashi A, Phoon C, Kishigami S, Rosenthal J,
Yamauchi Y, Abe K, Yamamura K, Samtani R, Lo C, Mishina Y,"Outﬂow tract cushions perform a critical valve-like function in
the early embryonic heart requiring BMPRIA-mediated signaling in cardiac neural crest" American Journal of Physiology:
Heart and Circulatory Physiology Vol. pp18843-1 (2009)
Cao L, Shitara H, Sugimoto M, Hayashi J, Abe K, Yonekawa H,"New evidence conﬁrms that the mitochondrial bottleneck isgenerated without reduction of mitochondrial DNA content inearly primordial germ cells of mice" PLoS Genetics Vol.12
ppe1000756-1-e1000756-8 (2009)
Ebihara S, Tomida S, Mamiya T, Sakamaki H, Miura M, Aosaki
T, Masuda M, Niwa M, Kameyama T, Kobayashi J, Iwaki Y,
Imai S, Ishikawa A, Abe K, Yoshimura T, Nabeshima T, "Usp46,
encoding a ubiquitin speciﬁc peptidase, is a quantitative trait
gene underlying "behavioral despair" in mice" Sleep and Biological Rhythms Vol.8 pp114-119 (2010)

Journals in English or non-Japanese (Peer reviewed）
Domestic Conferences (Invited)
Yoshiki A, Ike F, Mekada K, Kitaura Y, Nakata H, Hiraiwa N,
Mochida K, Ijuin M, Kadota M, Murakami A, Ogura A, Abe K,
Moriwaki K, Obata Y, "The mouse resources at the RIKEN
BioResource Center" Experimental Animals Vol.58 pp85-96(2009)
Mekada K, Abe K, Murakami A, Nakamura S, Nakata H,
Moriwaki K, Obata Y, Yoshiki A, "Genetic diﬀerences among
C57BL/6 substrains" Experimental Animals Vol.58 pp141-149(2009)

Cao L, Abe K, "Evaluations of functional processes in live
animals by in vivo imaging" The 56th Annual Meeting of theJapanese Association for Laboratory Animal Science Saitama
Japan 5 2009

Subteam for BioSignal Integration
Journals in English or non-Japanese (Peer reviewed）

Ogonuki N, Inoue K, Hirose M, Miura I, Mochida K, Sato T,
Mise N, Mekada K, Yoshiki A, Abe K, Kurihara H, Wakana S,
Ogura A, "A high-speed congenic strategy using ﬁrst-wave
male germ cells" PLoS One Vol.4 ppe4943-1-e4943-7 (2009)

International Conferences (Invited)

Taguma K, Nakamura C, Ozaki A, Suzuki C, Hachisu A,
Kobayashi K, Mochida K, Ogura A, Kaneda H, Wakana S, "A
practical novel method for ensuring stable capacitation of
spermatozoa from cryopreserved C57BL/6J sperm suspension"Experimental Animals Vol.58 pp395-401 (2009)62

Association for Laboratory Animal Science Saitama Japan 5
2009

研究発表

Honda A, Hirose M, Inoue K, Hiura H, MIki H, Ogonuki N,
Sugimoto M, Abe K, Kanatsu-Shinohara M, Kono T, Shinohara
T, Ogura A, "Large-scale production of growing oocytes in vitro
from neonatal mouse ovaries" The International Journal of
Developmental Biology Vol.53 pp605-613 (2009)

Domestic Conferences (Invited)
Tomida S, Mamiya T, Sakamaki H, Miura M, Aosaki T, Masuda
M, Niwa M, Kameyama T, Kobayashi J, Iwaki Y, Imai S,
Ishikawa A, Abe K, Yoshimura T, Nabeshima T, Ebihara S,

Mise-Omata S, Kuroda E, Sugiura T, Yamashita U, Obata Y, Doi
T, "The NF-κB RelA subunit confers resistance to Leishmania
major by inducing nitric oxide synthase 2 and Fas experession
but not Th1 diﬀerentiation" The Journal of Immunology Vol.182
pp 4910- 4916 (2009)
Yamazaki M, Fukushima H, Shin M, Katagiri T, Doi T,
Takahashi T, Jimi E, "Tumor Necrosis Factor α Represses BoneMorphogenetic Protein (BMP) Signaling by Interfering with the
DNA Binding of Smads through the Activation of NF-κB" The
Journal of Biological Chemistry Vol.284 pp35987-35995 (2009)
Maruyama T, Fukushima H, Nakao K, Shin M, Yasuda H, Weih63

F, Doi T, Aoki K, Alles N, Ohya K, Hosokawa R, Jimi E,"Processing of the NF-κB2 precursor, p100, to p52 is critical for
RANKL-induced osteoclast diﬀerentiation." Journal of Bone andMineral Research Vol. pp - (2010)

Subteam for Manipulation of
Celll Fate
Journals in English or non-Japanese (Peer reviewed）
Tominaga H, Maeda S, Miyoshi H, Miyazono K, Komiya S,
Imamura T, "Expression of osterix inhibits bone morphogenetic
protein-induced chondrogenic diﬀerentiation of mesenchymal
progenitor cells" Journal of Bone and Mineral Metabolism Vol.27
pp36-45 (2009)
Takashima S, Takehashi M, Lee J, Chuma S, Okano M, Hata K,
Suetake I, Nakatsuji N, Miyoshi H, Tajima S, Tanaka Y,
Toyokuni S, Sasaki H, Kanatsu S, Shinohara T, "Abnormal DNA
Methyltransferase Expression in Mouse Germline Stem Cells
Results in Spermatogenic Defects" Biology of Reproduction
Vol.81 pp155-164 (2009)
Lee H, Lee H, Lee Y, Kim H, Kim Y, Kim J, Jeon S, Kim S,
Miyoshi H, Chung H, Kim D, "Retronectin enhances lentivirusmediated gene delivery into hematopoietic progenitor cells"
Biologicals Vol.37 pp203-209 (2009)
Kitamura N, Motoi Y, Mori A, Tatsumi H, Nemoto S, Miyoshi H,
Kitamura F, Miyatake S, Hiroi T, Kaminuma O, "Suppressiverole of C-terminal binding protein 1 in IL-4 synthesis in human
T cells" Biochemical and Biophysical Research Communications
Vol.382 pp326-330 (2009)
Noda S, Ichikawa H, Miyoshi H, "Hematopoietic stem cell aging
is associated with functional decline and delayed cell cycle
progression" Biochemical and Biophysical Research Communications Vol.383 pp210-215 (2009)
Komuro A, Yashiro M, Iwata C, Morishita Y, Johansson E,
Matsumoto Y, Watanabe A, Aburatani H, Miyoshi H, Kiyono K,
Shirai Y, Suzuki H, Hirakawa K, Kano M, Miyazono K, "Diﬀusetype gastric carcinoma: progression, angiogenesis, andtransforming growth factor beta signaling" Journal of the
National Cancer Institute Vol.101 pp592-604 (2009)
Sasaki E, Suemizu H, Shimada A, Hanazawa K, Oiwa R,
Kamioka M, Tomioka I, Sotomaru Y, Hirakawa R, Eto T,
Shiozawa S, Maeda T, Ito M, Ito R, Kito C, Yagihashi C, Kawai
K, Miyoshi H, Tanioka Y, Tamaoki N, Habu S, Okano H,
Nomura T, "Generation of transgenic non-human primates with
germline transmission" Nature Vol.459 pp523-527 (2009)
Kaminuma O, Kitamura F, Miyatake S, Yamaoka K, Miyoshi H,
Inokuma S, Tatsumi H, Nemoto S, Kitamura N, Mori A, Hiroi T,

64"T-box 21 transcription factor is responsible for distorted TH2
diﬀerentiation in human peripheral CD4＋ T cells" Journal ofAllergy and Clinical Immunology Vol.123 pp813-823 (2009)
Ishikawa F, Miyoshi H, Nose K, Shibanuma M, "Transcriptional
induction of MMP-10 by TGF-β,mediated by activation of
MEF2A and downregulation of class IIa HDACs" Oncogene
Vol.29 pp909-919 (2010)
Kitamura F, Kitamura N, Mori A, Tatsumi H, Nemoto S,
Miyoshi H, Miyatake S, Hiroi T, Kaminuma O, "Selective downregulation of Th2 cytokines by C-terminal binding protein 2 inhuman T cells" International Archives of Allergy and Immunology Vol.152 pp18-21 (2010)
Inoue S, Noda S, Kashima K, Nakada K, Hayashi J, Miyoshi H.
"Mitochondrial respiration defects modulate diﬀerentiation but
not proliferation of hematopoietic stem and progenitor cells"
FEBS Letters Vol.584 pp3402-3409 (2010)
Zhang X, Kondo M, Chen J, Miyoshi H, Suzuki H, Ohashi T,
Shida H, "Inhibitory eﬀect of human TRIM5alpha on HIV-1
production" Microbes and Infection in press

Technology and Development Teamfor Mouse Phenotype Analysis:
Japan Mouse Clinic
Journals in English or non-Japanese (Peer reviewed）

H, Yamada I, Motegi H, Toki H, Inoue M, Minowa O, Noda T,
Waki K, Tanaka N, Masuya H, Obata Y, "Introduction to theJapan Mouse Clinic at the RIKEN BioResource Center" Experimental Animals Vol.58 pp443-450 (2009)

Schoﬁeld P, Bubela T, Weaver T, Portilla L, Brown S, Hancock
J, Einhorn D, Tocchini-Valentini G, Hrabe de Angelis M, Rosenthal N, Barnes J, Collis A, Desaintes C, Dixon J, Doyle A, Eppig
J, Field D, Grunberger M, Heim S, Hicks G, Hubbard T,
Jennings R, Kennedy K, Kennedy G, Kolar P, Livingstone A,
Lloyd K, Masuya H, Matteoni R, Maurer J, McKenzie A,
McKerlie C, Moore M, Muddyman D, Nguyen T, Parsons M,
Quackenbush J, Reuveni E, Salimova E, Siegal V, Skingle M,
Smedley D, Sugden A, Wakana S, Walsh J, "Post-publication
sharing of data and tools" Nature Vol.461 pp171-173 (2009)
Tanaka N, Waki K, Kaneda H, Suzuki T, Yamada I, Furuse T,
Kobayashi K, Motegi H, Toki H, Inoue M, Minowa O, Noda T,
Takao K, Miyakawa T, Takahashi A, Koide T, Wakana S,
Masuya H, "SDOP-DB: a comparative standardized-protocol
database for mouse phenotypic analyses" Bioinformatics Vol.26
pp1133-1134 (2010)

Ogonuki N, Inoue K, Hirose M, Miura I, Mochida K, Sato T,
Mise N, Mekada K, Yoshiki A, Abe K, Kurihara H, Wakana S,
Ogura A, "A high-speed congenic strategy using ﬁrst-wave
male germ cells" PLoS One Vol.4 ppe4943-1-e4943-7 (2009)
Yoshida Y, Makita Y, Heida N, Asano S, Matsushima A, Ishii M,
Mochizuki Y, Masuya H, Wakana S, Kobayashi N, Toyoda T,"PosMed (Positional Medline): prioritizing genes with an artiﬁcial
neural network comprising medical documents to accelerate
positional cloning" Nucleic Acids Research Vol.37 ppW147-W152(2009)

Sato A, Kurita A, Asano K, Miyake Y, Yasuda T, Miura I,
Nishitai G, Arakawa S, Shimizu S, Wakana S, Yoshida H,
Tanaka M, "xCT deﬁniency accelerates chemically induced
tumorigenesis" Proceedings of the National Academy of
Sciences of the United States of America Vol.107 pp6436-6441(2010)

Taguma K, Nakamura C, Ozaki A, Suzuki C, Hachisu A,
Kobayashi K, Mochida K, Ogura A, Kaneda H, Wakana S, "A
practical novel method for ensuring stable capacitation of
spermatozoa from cryopreserved C57BL/6J sperm suspension"Experimental Animals Vol.58 pp395-401 (2009)

Furuse T, Wada Y, Hattori K, Yamada I, Kushida T, Shibukawa
Y, Masuya H, Kaneda H, Miura I, Seno N, Kanda T, Hirose R,
Toki S, Nakanishi K, Kobayashi K, Sezutsu H, Gondo Y, Noda T,
Yuasa s, Wakana S, "Phenotypic characterization of a new Grin1
mutant mouse generated by ENU mutagenesis" European
Journal of Neuroscience Vol.31 pp1281-1291 (2010)

Wakana S, Suzuki T, Furuse T, Kobayashi K, Miura I, Kaneda

RIKEN BRC Annual Report

Publications

2009 〜 2010

Wakana S, "Asian Phenotyping Consortium" KOMP Phenotyping Conference Bethesda USA 10 2009

Domestic Conferences (Invited)
Wada H, Yasuda T, Miura I, Miura I, Watabe K, Sawa C,
Kamijuku H, Kojo S, Taniguchi M, Nishino I, Wakana S, Yoshida
H, Seino K, "Establishment of an Improved Mouse Model for
Infantile Neuroaxonal Dystrophy That Shows Early Disease
Onset and Bears a Point Mutation in Pla2g6" American Journalof Pathology Vol.175 pp2257-2263 (2009)

Sato H, Suzuki T, Ikeda K, Masuya H, Sezutsu H, Kaneda H,
Kobayashi K, Miura I, Kurihara Y, Yokokura S, Nishida K,
Tamai M, Gondo Y, Noda T, Wakana S, "A monogenic dominant
mutation in Rom1 generated by N-ethyl-N-nitrosourea mutagenesis causes retinal degeneration in mice" Molecular Vision Vol.16
pp378-391 (2010)

Kakugawa K, Yasuda T, Miura I, Kobayashi A, Fukiage H, Sato
R, Matsuda M, Koseki H, Wakana S, Kawamoto H, Yoshida H,"A Novel Gene Essential for the Development of Single Positive
Thymocytes" Molecular and Cellular Biology Vol.29 pp5128-5135(2009)

研究発表

International Conferences (Invited)

Wakana S, "Standardization of mouse phenotyping platform andthe Japan Mouse Clinic" 195th Kumamoto University CARD
Seminar Kumamoto Japan 7 2009
Wakana S, "Standardization of mouse phenotyping platform andthe Japan Mouse Clinic" 1st Next Generation Bioresource Workshop Koganei Japan 8 2009
Furuse T, Wakana S, "Behavior analysis based on the standardized mouse phenotyping platform: From a ENU mutagenesis toa mouse clinic system" Sorcial recognition: Interdisciplinary
brain science symposium Kanazawa Japan 11 2009

Team for Advanced Development
and Evaluation of
Human Disease Models
Journals in English or non-Japanese (Peer reviewed）
Wakana S, Suzuki T, Furuse T, Kobayashi K, Miura I, Kaneda
H, Yamada I, Motegi H, Toki H, Inoue M, Minowa O, Noda T,
Waki K, Tanaka N, Masuya H, Obata Y, "Introduction to theJapan Mouse Clinic at the RIKEN BioResource Center" Experimental Animals Vol.58 pp443-450 (2009)
Tanaka N, Waki K, Kaneda H, Suzuki T, Yamada I, Furuse T,
Kobayashi K, Motegi H, Toki H, Inoue M, Minowa O, Noda T,
Takao K, Miyakawa T, Takahashi A, Koide T, Wakana S,
Masuya H, "SDOP-DB: a comparative standardized-protocol
database for mouse phenotypic analyses" Bioinformatics Vol.26
pp1133-1134 (2010)
Sato H, Suzuki T, Ikeda K, Masuya H, Sezutsu H, Kaneda H,
Kobayashi K, Miura I, Kurihara Y, Yokokura S, Nishida K,
Tamai M, Gondo Y, Noda T, Wakana S, "A monogenic dominant
mutation in Rom1 generated by N-ethyl-N-nitrosourea mutagenesis causes retinal degeneration in mice" Molecular Vision Vol.16
pp378-391 (2010)
Furuse T, Wada Y, Hattori K, Yamada I, Kushida T, Shibukawa
Y, Masuya H, Kaneda H, Miura I, Seno N, Kanda T, Hirose R,
Toki S, Nakanishi K, Kobayashi K, Sezutsu H, Gondo Y, Noda T,
Yuasa s, Wakana S, "Phenotypic characterization of a new Grin1
mutant mouse generated by ENU mutagenesis" European
Journal of Neuroscience Vol.31 pp1281-1291 (2010)

Wakana S, "Standardization of mouse phenotyping platform andthe Japan Mouse Clinic in RIKEN BRC" 2009 TMC
Mini-Symposium: Advances in Mouse Phenotyping Technology
Taipei Taiwan 10 200965

Mutagenesis and Genomics Team

Gondo Y, "Long Conserved Noncoding Sequences (LCNS) in
Vertebrates" 13th Evolutionary Biology Meeting at Marseilles
Marseilles France 9 2009

Journals in English or non-Japanese (Peer reviewed）
Domestic Conferences (Invited)
Gondo Y, Fukumura R, Murata T, Makino S, "Nextgeneration
gene targeting in the mouse for functional genomics" BMB
Reports Vol.42 pp315-323 (2009)
Cheung H, Zhang X, Ribeiro A, Mo R, Makino S, Puviindran V,
Law K, Briscoe J, Hui C, "The kinesin protein Kif7 is a criticalregulator of Gli transcription factors in Mammalian hedgehog
signaling" Science Signaling Vol.2 pp. ra29(1)-ra29(7) (2009)
Labrie V, Fukumura R, Rastogi A, Fick L, Wang W, Boutros P,
Kennedy J, Semeralul M, Lee F, Baker G, Belsham D, Barger S,
Gondo Y, Wong A, Roder J, "Serine racemase is associated withschizophrenia susceptibility in humans and in a mouse model."Human Molecular Genetics Vol.18 pp3227-3243 (2009)

Gondo Y, "Next-generation gene-targeting system provides ananalysis tool for the functional genomics" The 421st TMDUMRI Seminar Tokyo Japan 4 2009
Gondo Y, "Analysis of whole mouse exome by ultra-throughput
sequencers: comprehensive exploration of functional mutations
and SNPs" 2010 Agilent Genomics Forum Tokyo Japan 6 2010

Technology and Development Unit
for Knowledge Base of
Mouse Phenotype

esis causes retinal degeneration in mice" Molecular Vision Vol.16
pp378-391 (2010)
Furuse T, Wada Y, Hattori K, Yamada I, Kushida T, Shibukawa
Y, Masuya H, Kaneda H, Miura I, Seno N, Kanda T, Hirose R,
Toki S, Nakanishi K, Kobayashi K, Sezutsu H, Gondo Y, Noda T,
Yuasa s, Wakana S, "Phenotypic characterization of a new Grin1
mutant mouse generated by ENU mutagenesis" European
Journal of Neuroscience Vol.31 pp1281-1291 (2010)

Domestic Conferences (Invited)
Masuya H, "The development of animal model for osteoarthritis"
Technical Information Institute Seminor Tokyo Japan 9 2009

Ishii Research Collaborative Group
Journals in English or non-Japanese (Peer reviewed）

Sato H, Suzuki T, Ikeda K, Masuya H, Sezutsu H, Kaneda H,
Kobayashi K, Miura I, Kurihara Y, Yokokura S, Nishida K,
Tamai M, Gondo Y, Noda T, Wakana S, "A monogenic dominant
mutation in Rom1 generated by N-ethyl-N-nitrosourea mutagenesis causes retinal degeneration in mice" Molecular Vision Vol.16
pp378-391 (2010)
Furuse T, Wada Y, Hattori K, Yamada I, Kushida T, Shibukawa
Y, Masuya H, Kaneda H, Miura I, Seno N, Kanda T, Hirose R,
Toki S, Nakanishi K, Kobayashi K, Sezutsu H, Gondo Y, Noda T,
Yuasa s, Wakana S, "Phenotypic characterization of a new Grin1
mutant mouse generated by ENU mutagenesis" European
Journal of Neuroscience Vol.31 pp1281-1291 (2010)
Wada Y, Furuse T, Yamada I, Masuya H, Kushida T, Shibukawa Y, Nakai Y, Kobayashi K, Kaneda H, Gondo Y, Noda T,
Shiroishi T, Wakana S, ENU Mutagenesis Screening for
Dominant Behavioral Mutations Based on Normal Control Data
Obtained in Home-Cage Activity, Open-Field, and Passive
Avoidance Tests Experimental Animals Vol.59 pp495-510(2010)
Gondo Y, "Now and future of mouse mutagenesis for humandisease models." Journal of Genetics and Genomics, in press(2010)

Journals in English or non-Japanese (Peer reviewed）
Yoshida Y, Makita Y, Heida N, Asano S, Matsushima A, Ishii M,
Mochizuki Y, Masuya H, Wakana S, Kobayashi N, Toyoda T,"PosMed (Positional Medline): prioritizing genes with an artiﬁcial
neural network comprising medical documents to accelerate
positional cloning" Nucleic Acids Research Vol.37 ppW147-W152(2009)
Wakana S, Suzuki T, Furuse T, Kobayashi K, Miura I, Kaneda
H, Yamada I, Motegi H, Toki H, Inoue M, Minowa O, Noda T,
Waki K, Tanaka N, Masuya H, Obata Y, "Introduction to theJapan Mouse Clinic at the RIKEN BioResource Center" Experimental Animals Vol.58 pp443-450 (2009)
Schoﬁeld P, Bubela T, Weaver T, Portilla L, Brown S, Hancock
J, Einhorn D, Tocchini-Valentini G, Hrabe de Angelis M, Rosenthal N, Barnes J, Collis A, Desaintes C, Dixon J, Doyle A, Eppig
J, Field D, Grunberger M, Heim S, Hicks G, Hubbard T,
Jennings R, Kennedy K, Kennedy G, Kolar P, Livingstone A,
Lloyd K, Masuya H, Matteoni R, Maurer J, McKenzie A,
McKerlie C, Moore M, Muddyman D, Nguyen T, Parsons M,
Quackenbush J, Reuveni E, Salimova E, Siegal V, Skingle M,
Smedley D, Sugden A, Wakana S, Walsh J, "Post-publication
sharing of data and tools" Nature Vol.461 pp171-173 (2009)

Tabata T, Kokura K, Ten D, Ishii S, "Ski co-repressor complexes
maintain the basal repressed state of the TGF-beta target gene,
SMAD7, via HDAC3 and PRMT5" Genes to Cells Vol.14 pp17-28(2009)
Itoh H, Yoshimura N, Kurosawa M, Ishii S, Nukina N, Okazawa
H, "Knock-down of PQBP1 impairs anxiety-related cognition inmouse" Human Molecular Genetics Vol.18 pp4239-4254 (2009)
Hirose N, Maekawa T, Shinagawa T, Ishii S, "ATF-2 regulates
lipopolysaccharide-induced transcription in macrophage cells"
Biochemical and Biophysical Research Communications Vol.385
pp72-77 (2009)
Maekawa T, Kim S, Nakai D, Makino C, Takagi T, Ogura H,
Yamada K, Chatton B, Ishii S, "Social isolation stress induces
ATF-7 phosphorylation and impairs silencing of the 5-HT 5B
receptor gene" The EMBO Journal Vol.29 pp184-195 (2010)
Maekawa T, Jin W, Ishii S, "The role of ATF-2 family transcription factors in adipocyte diﬀerentiation: antiobesity eﬀects of p38
inhibitors" Molecular and Cellular Biology Vol.30 pp613-625(2010)

International Conferences (Invited)
Gondo Y, Fukumura R, Murata T, Makino S, ENU-based
gene-driven mutagenesis in the mouse: a next-generation
gene-targeting system Experimental Animals Vol.59, in press(2010)

International Conferences (Invited)
Gondo Y, "Trends in the Mouse Mutagenesis Projects andFuture Perspectives of Asian Network" 2009 Symposium of the
Korean Association for Laboratory Animal Science Cheongju
Korea 4 200966

Tanaka N, Waki K, Kaneda H, Suzuki T, Yamada I, Furuse T,
Kobayashi K, Motegi H, Toki H, Inoue M, Minowa O, Noda T,
Takao K, Miyakawa T, Takahashi A, Koide T, Wakana S,
Masuya H, "SDOP-DB: a comparative standardized-protocol
database for mouse phenotypic analyses" Bioinformatics Vol.26
pp1133-1134 (2010)
Sato H, Suzuki T, Ikeda K, Masuya H, Sezutsu H, Kaneda H,
Kobayashi K, Miura I, Kurihara Y, Yokokura S, Nishida K,
Tamai M, Gondo Y, Noda T, Wakana S, "A monogenic dominant
mutation in Rom1 generated by N-ethyl-N-nitrosourea mutagen-Ishii S, Seong K, Maekawa T, Shimizu H, Kim S, Nakai D,"Epigenetic regulation by ATF-2 family of transcription factors
in response to various stresses" 24th Naito Conference on
Nuclear Dynamics and RNA [II] Sapporo Japan 6 2009
Ishii S, Seong K, Maekawa T, Shimizu H, Kim S, Nakai D,"Epigenetic regulation by ATF-2 family of transcription factors
in response to various stresses" 4th International Worlshop on
Cell Regulation in Division and Arrest Okinawa Japan 11-12
2009

研究発表

RIKEN BRC Annual Report

Publications

2009 〜 2010

Shinozaki Research
Collaborative Group
Journals in English or non-Japanese (Peer reviewed）
Kondou Y, Higuchi M, Takahashi S, Sakurai T, Ichikawa T,
Kuroda H, Yoshizumi T, Tsumoto Y, Horii Y, Kawashima M,
Hasegawa Y, Kuriyama T, Matsui K, Kusano M, Albinsky D,
Takahashi H, Tsuchiya Y, Suzuki M, Sakakibara H, Kojima M,
Akiyama K, Kurotani A, Seki M, Fujita M, Enju A, Yokotani N,
Saitou T, Ashidate K, Fujimoto N, Ishikawa Y, Mori Y, Nanba
R, Takata K, Uno K, Sugano S, Natsuki J, Dobouzet J, Maeda S,
Ohtake M, Mori M, Oda K, Takatsuji H, Hirochika H, Matsui M,"Systematic approaches to using the FOX hunting system toidentify useful rice genes" The Plant Journal Vol. pp (2009)
Urano K, Maruyama K, Ogata Y, Morishita Y, Takeda M,
Sakurai N, Suzuki H, Saito K, Shibata D, Kobayashi M,
Yamaguchi-Shinozaki K, Shinozaki K, "Characterization of the
ABA-regulated global responses to dehydration in Arabidopsis
by metabolomics" The Plant Journal Vol.57 pp1065-1078 (2009)
Matsuda F, Sakakibara K, Niida R, Kuromori T, Shinozaki K,
Saito K, "MS/MS spectral tag (MS2T)-based annotation of
non-targeted proﬁle of plant secondary metabolites" The Plant
Journal Vol. pp1065 (2009)
Sawaki Y, Iuchi S, Kobayashi Y, Kobayashi Y, Ikka T, Sakurai
N, Fujita M, Shinozaki K, Shibata D, Kobayashi M, Koyama H,"STOP1 regulates multiple genes that protect Arabidopsis fromproton and aluminum toxicities" Plant Physiology Vol.150
pp281-294 (2009)
Makita Y, Kobayashi N, Mochizuki Y, Yoshida Y, Asano S,
Heida N, Deshpande M, Bhatia R, Matsushima A, Ishii M, Kawaguchi S, Iida K, Hanada K, Kuromori T, Seki M, Shinozaki K,
Toyoda T, "PosMed-plus: an Intelligent Search Engine that
Inferentially Integrates Cross-species Information Resources for
Molecular Breeding of Plants" Plant and Cell Physiology Vol.50
pp1249-1259 (2009)
Kawaura K, Mochida K, Enju A, Totoki Y, Toyoda A, Sakaki Y,
Kai C, Kawai J, Hayashizaki Y, Seki M, Shinozaki K, Ogihara Y,"Assessment of adaptive evolution between wheat and rice as
deduced from full-length common wheat cDNA sequence dataand expression patterns" BMC Genomics Vol.10 pp1-11 (2009)
Kuromori T, Takahashi S, Kondou Y, Shinozaki K, Matsui M,"Phenome analysis in plant species using loss-of-function andgain-of-function mutants" Plant and Cell Physiology Vol.50
pp1215-1231 (2009)
Nakashima K, Fujita Y, Kanamori N, Katagiri T, Umezawa T,
Kidokoro S, Maruyama K, Yoshida T, Ishiyama K, Kobayashi
M, Shinozaki K, Yamaguchi-Shinozaki K, "Three Arabidopsis
SnRK2
proteinkinases,
SRK2D/SnRK2.2,

67

SRK2E/SnRK2.6/OST1 and SRK21/SnRK2.3, involved in ABA
signaling are essential for the control of seed development anddormancy" Plant and Cell Physiology Vol.50 pp1345-1363 (2009)
Abe K, Osakabe K, Ishikawa Y, Tagiri A, Yamanouchi H,
Takyuu T, Yoshioka T, Ito T, Kobayashi M, Shinozaki K,
Ichikawa H, Toki S, "Ineﬃcient double-strand DNA break repair
is associated with increased fasciation in Arabidopsis BRCA2
mutants" Journal of Experimental Botany Vol.60 pp2751-2761(2009)
Kurihara Y, Matsui A, Hanada K, Kawashima M, Ishida J,
Morosawa T, Tanaka M, Kaminuma E, Mochizuki Y, Matsushima A, Toyoda T, Shinozaki K, Seki M, "Genome-wide
suppression of aberrant mRNA-like noncoding RNAs by NMD
in Arabidopsis" Proceedings of the National Academy of
Sciences of the United States of America Vol.106 pp2453-2458(2009)
Sato K, Shin-l T, Seki M, Shinozaki K, Yoshida H, Takeda K,
Yamazaki Y, Conte M, Kohara Y, "Development of 5006
full-length cDNAs in barley: A tool for accessing cereal genomics resources" DNA Research Vol.16 pp81-89 (2009)
Okuda K, Chateigner-Boutin A, Nakamura T, Delannoy E,
Sugita M, Myouga F, Motohashi R, Shinozaki K, Small I,
Shikanai T, "Pentatricopeptide repeat proteins with the DYW
motif have distinct molecular functions in RNA editing andRNA cleavage in Arabidopsis chloroplasts" The Plant Cell
Vol.21 pp146-156 (2009)
Takahashi H, Nozawa A, Seki M, Shinozaki K, Endo Y,
Sawasaki T, "A simple and high-sensitivity method for analysis
of ubiquitination and polyubiquitination based on wheat cell-freeprotein synthesis" BMC Plant Biology Vol.9 pp1-11 (2009)
Seki M, Shinozaki K, "Functional genomics using RIKEN Arabidopsis thaliana full-length cDNAs" Journal of Plant Research
Vol.122 pp355-366 (2009)
Shinozaki K, Sakakibara H, "Omics and bioinformatics: anessential toolbox for systems analyses of plant functions beyond2010" Plant and Cell Physiology Vol.50 pp1177-1180 (2009)
Iida K, Fukami-Kobayashi K, Toyoda A, Sakaki Y, Kobayashi M,
Seki M, Shinozaki K, Analysis of Multiple occurrences ofalternative splicing events in Arabidopsis thaliana using novel
wequenced full-length cDNAs DNA Research, Vol.16 pp155-164(2009)
Maruyama K, Takeda M, Kidokoro S, Yamada K, Sakuma Y,
Urano K, Fujita M, Yoshiwara K, Matsukura S, Morishita Y,
Sasaki R, Suzuki H, Saito K, Shibata D, Shinozaki K,
Yamaguchi-Shinozaki K, "Metabolic pathways involved in cold
acclimation identiﬁed by integrated analysis of metabolites andtranscripts regulated by DREB1A and DREB2A1[W][OA]" Plant
Physiology Vol.150 pp1972-1980 (2009)

68

Kurihara Y, Kaminuma E, Matsui A, Kawashima M, Tanaka M,
Morosawa T, Ishida J, Mochizuki Y, Shinozaki K, Toyoda T,
Seki M, "Transcriptome analyses revealed diverse expression
changes in ago1 and hyl1 Arabidopsis mutants" Plant and Cell
Physiology Vol.50 pp1715-1720 (2009)
Yamamoto Y, Yoshitsugu T, Sakurai T, Seki M, Shinozaki K,
Obokata J, "Heterogeneity of Arabidopsis core promotersrevealed by high-density TSS analysis" The Plant Journal Vol.60
pp350-362 (2009)
Nozawa A, Matsubara Y, Tanaka Y, Takahashi H, Akagi T,
Seki M, Shinozaki K, Endo Y, Sawasaki T, "Construction of aprotein library of Arabidopsis transcription factors using awheat cell-free protein production system and its application for
DNA binding analysis" Bioscience Biotechnology and Biochemistry Vol.73 pp1661-1664 (2009)
Tsutsui T, Kato W, Asada Y, Sako K, Sato T, Sonoda Y,
Kidokoro S, Yamaguchi-Shinozaki K, Tamaoki M, Arakawa K,
Ichikawa T, Nakazawa M, Seki M, Shinozaki K, Matsui M,
Ikeda A, Yamaguchi J, "DEAR1, a transcriptional repressor of
DREB protein that mediates plant defense and freezing stressresponses in Arabidopsis" Journal of Plant Research Vol.122
pp633- 643 (2009)
Umezawa T, Sugiyama N, Mizoguchi M, Hayashi S, Myouga F,
Yamaguchi-Shinozaki K, Ishihama Y, Hirayama T, Shinozaki K,"Type 2C protein phosphatases directly regulate abscisic
acid-activated protein kinases in Arabidopsis" Proceedings of
the National Academy of Sciences of the United States ofAmerica Vol.106 pp17588-17593 (2009)
Fujita Y, Nakashima K, Yoshida T, Katagiri T, Kidokoro S,
Kanamori N, Umezawa T, Fujita M, Maruyama K, Ishiyama K,
Kobayashi M, Nakasone S, Yamada K, Ito T, Shinozaki K,
Yamaguchi-Shinozaki K, "Three SnRK2 protein kinases are themain positive regulators of abscisic acid signaling in response towater stress in Arabidopsis" Plant and Cell Physiology Vol.50
pp2123-2132 (2009)
Kidokoro S, Maruyama K, Nakashima K, Imura Y, Narusaka Y,
Shinwari Z, Osakabe Y, Fujita Y, Mizoi J, Shinozaki K,
Yamaguchi-Shinozaki K, "The phytochrome-interacting factor
PIF8 negatively regulates DREB1 expression under circadian
control in Arabidopsis" Plant Physiology Vol.151 pp2046-2057(2009)
Igawa T, Fujiwara M, Takahashi H, Sawasaki T, Endo Y, Seki
M, Shinozaki K, Fukao Y, Yanagawa Y, "Isolation and identiﬁcation of ubiquitin-related proteins from Arabidopsis seedlings"
Journal of Experimental Botany Vol.60 pp3067-3073 (2009)
Seki M, Kamiya A, Carninci P, Hayashizaki Y, Shinozaki K,"Generation of full-length cDNA libraries: focus on plants"
Methods in Molecular Biology Vol.533 pp49-68 (2009)

Mochida K, Yoshida T, Sakurai T, Shinozaki K, Shinozaki K,
Tran S, "In silico analysis of transcription factor repertoire andprediction of stress responsive transcription factors in soybean"
DNA Research Vol.16 pp353-369 (2009)
Mochida K, Yoshida T, Sakurai T, Ogihara Y, Shinozaki K,"TriFLDB: A database of clustered full-length coding sequencesfrom triticeae with applications to comparative grass
genomics[C][W][OA]" Plant Physiology Vol.150 pp1135-1146(2009)
Mochida K, Furuta T, Ebana K, Shinozaki K, Kikuchi J, "Correlation exploration of metabolic and genomic diversity in rice"
BMC Genomics Vol.10 pp1-10 (2009)
Nishimura N, Okamoto M, Narusaka M, Yasuda M, Nakashita
H, Shinozaki K, Narusaka Y, Hirayama T, "ABA Hypersensitive
Germination2-1 causes the activation of both abscisic acid andsalicylic acid responses in Arabidopsis" Plant and Cell Physiology Vol.50 pp2112-2122 (2009)
Hanada K, Kuromori T, Myouga F, Toyoda T, Li W, Shinozaki
K, "Evolutionary Persistence of Functional Compensation by
Duplicate Genes in Arabidopsis" Genome Biology and Evolution
Vol.1 pp409-414 (2009)
Hanada K, Kuromori T, Myouga F, Toyoda T, Shinozaki K,"ncreased expression and protein divergence in duplicate genes
is associated with morphological diversiﬁcation." PLoS Genetics
Vol.5 ppe1000781 (2009)
Numa H, Kim J, Matsui A, Kurihara Y, Morosawa T, Ishida J,
Mochizuki Y, Kimura H, Shinozaki K, Toyoda T, Seki M,
Yoshikawa M, Habu Y, "Transduction of RNAdirected DNA
methylation signals to repressive histone marks in Arabidopsis
thaliana" The EMBO Journal Vol.29 pp352-362 (2010)
Myouga F, Akiyama K, Motohashi R, Kuromori T, Ito T, Iizumi
H, Ryusui R, Sakurai T, Shinozaki K, "The Chloroplast Function
Database: a large-scale collection of Arabidopsis Ds/Spm- or
T-DNA-tagged homozygous lines for nuclear-encoded chloroplast proteins, and their systematic phenotype analysis" The
Plant Journal Vol.61 pp529-542 (2010)
Mochida K, Yoshida T, Sakurai T, Shinozaki K, Shinozaki K,
Tran S, "LegumeTFDB: an integrative database of Glycine max,
Lotus japonicus and Medicago truncatula transcription factors"
Bioinformatics Vol.26 pp290-291 (2010)
Yamada K, Osakabe Y, Mizoi J, Nakashima K, Fujita Y,
Shinozaki K, Shinozaki K, "Function analysis of an Arabidopsis
thaliana abiotic stress-inducible facilitated diﬀusion transporter
for monosaccharides" The Journal of Biological ChemistryVol.285 pp1138-1146 (2010)
Kuromori T, Miyaji T, Yabuuchi H, Shimizu H, Sugimoto E,
Kamiya A, Moriyama Y, Shinozaki K, "ABC transporter

研究発表

RIKEN BRC Annual Report

Publications

2009 〜 2010

AtABCG25 is involved in abscisic acid transport and responses"
Proceedings of the National Academy of Sciences of the UnitedStates of America Vol.107 pp2361-2366 (2010)
Schmutz J, Cannon S, Schlueter J, Ma J, Mitros T, Nelson W,
Hyten D, Song Q, Thelen J, Cheng J, Xu D, Hellsten U, May G,
Yu Y, Sakurai T, Umezawa T, Bhattacharyya M, Sandhu D,
Valliyodan B, Lindquist E, Peto M, Grant D, Shu S, Goodstein D,
Barry K, Futrell-Griggs M, Abernathy B, Du J, Tian Z, Zhu L,
Gill N, Joshi T, Libault M, Sethuraman A, Zhang X, Shinozaki K,
Nguyen H, Wing R, Cregan P, Specht J, Grimwood J, Rokhsar
D, Stacey G, Shoemaker R, Jackson S, "Genome sequence of thepalaeopolyploid soybean" Nature Vol.463 pp178-183 (2010)
Hirayama T, Umezawa T, "The PP2C-SnRK2 complex" Plant
Signaling & Behavior Vol.5 pp1-4 (2010)
Hanada K, Akiyama K, Sakurai T, Toyoda T, Shinozaki K, Shiu
S, "sORF ﬁnder: a program package to identify small open
reading frames(sORFs) with high coding potential." Bioinformatics Vol.26 pp399-400 (2010)
Tran S, Nishiyama R, Shinozaki-Yamaguchi K, Shinozaki K,"Potential utilization of NAC transcription factors to enhance
abiotic stress tolerance in plants by biotechnological approach"
GM Crops Vol.1 pp1-8 (2010)
Tran S, Shinozaki K, Yamaguchi-Shinozaki K, "Role of cytokinin
responsive two-component system in ABA and osmotic stresssignalings" Plant Signaling & Behavior Vol.5 pp1-3 (2010)
Urano K., Kurihara Y., Seki K. and Shinozaki K.: Omics
analyses of regulatory networks in plant abiotic stressresponses, Curr.Opin. Plant Biol., 13, 132‒138 (2010)
Yoshida T, Fujita Y, Sayama H, Kidokoro S, Maruyama K,
Mizoi J, Shinozaki K, Yamaguchi-Shinozaki K, AREB1,
AREB2, and ABF3 are master transcription factors thatcooperatively regulate ABRE-dependent ABA signaling
involved in drought stress tolerance and require ABA for full
activation The Plant Journal, Vol.61, pp672-685 (2010)
Matsukura S, Mizoi J, Yoshida T, Todaka D, Ito Y, Maruyama
K, Shinozaki K, Yamaguchi-Shinozaki K, Comprehensive
analysis of rice DREB2-type genes that encode transcription
factors involved in the expression of abiotic stress-responsive
genes Molecular Genetics and Genomics, Vol.283, pp185-196(2010)
Osakabe Y, Mizuno S, Tanaka H, Maruyama K, Osakabe K,
Todaka D, Fujita Y, Kobayashi M, Shinozaki K, YamaguchiShinozaki K, Overproduction of the membrane-boundreceptor-like protein kinase1, RPK1, enhances abiotic stress
tolerance in Arabidopsis The Journal of Biological Chemistry,
Vol.285, pp9190-9201(2010)
Katori T, Ikeda A, Iuchi S, Kobayashi M, Shinozaki K, Maehashi
K, Sakata Y, Tanaka S, Taji T, Dissecting the genetic control of69

natural variation in salt tolerance of Arabidopsis thaliana
accessions Journal of Experimental Botany, Vol.61, pp1125-38(2010)
Okamoto M, Tatematsu K, Matusi A, Morosawa T, Ishida J,
Tanaka M, Endo TA, Mochizuki Y, Toyoda T, Kamiya Y,
Shinozaki K, Nambara E, Seki M,. Genome-wide analysis of
endogenous abscisic acid-mediated transcription in dry andimbibed seeds of Arabidopsis using tiling arrays The Plant
Journal, Vol.152, pp1284-1296 (2010)
Yamanaka T, Nakagawa Y, Mori K, Nakano M, Imamura T,
Kataoka H, Teraashima A, Iida K, Kojima I, Katagiri T,
Shinozaki K, Iida H, MCA1 and MCA2 that mediate Ca2+
uptake have distinct and overlapping roles in Arabidopsis
thaliana1 Plant Physiology, Vol.152, pp1284-1296 (2010)
Chikayama E, Sekiyama Y, Okamoto M, Nakanishi Y, Tsuboi Y,
Akiyama K, Saito K, Shinozaki K, Kikuchi J, Statistical indicesfor simultaneous large-scale metabolite detections for a single
NMR spectrum Analytical Chemistry, Vol.82, pp1653-1658(2010)
Mochida K, Shinozaki K, Genomics and bioinformatics
resources for crop improvement Plant and Cell Physiology,
Vol.51(4), pp497-523 (2010)
Mizoguchi M., Umezawa T., Nakashima K., Kidokoro S.,
Takasaki H., Fujita Y., Yamaguchi-Shinozaki K, Shinozaki K,
Two closely related subclass II SnRK2 protein kinases cooperatively regulate drought-inducible gene expression Plant andCell Physiology, Vol.51, pp842-847 (2010)
Shinozaki K, The ICAR2010 for development of Arabidopsis
research beyond 2010 J Journal of Platn Research, Vol.123,
pp265-266 (2010)

研究発表

RIKEN BRC Annual Report

Publications

2009 〜 2010

Jan A, Nakashima K, Todaka D, Ito Y, Shinozaki K,
Yamaguchi-Shinozaki K, "OsSCZF2, a novel CCCH-type zincﬁnger protein from rice, enhances drought and cold tolerance inrice by regulating the expressions of biotic and abiotic stressrelated genes" Rice & Drought Satellite Workshop Shanghai
China 10 2009
Shinozaki K, Shinozaki K, "Molecular breeding of drought stress
tolerance by gene transfer based on Arabidopsis knowledge"
Large Scale Planting of Transgenic Crops in Asia: Policy Issues,
Scientiﬁc Advances, Regulatory Considerations and Economic
Beneﬁts Banbury Meeting Suzhou China 11 2009
Seki M, Sakurai T, Matsui M, Manabe R, Matsui A, Ishida J,
Tanaka M, Shinozaki K, Narangajavana J, Triwitayakorn K,
Sojikul P, Umemura Y, Ishitani M, "Towards development of an
integrative cassava genome analysis platform for advancing
cassava molecular breeding" Plant & Animal Genomes XVIII
Conference San Diego USA 1 2010
Shinozaki K, Shinozaki K, "Regulatory networks of gene expression in abiotic stress response in Arabidopsis" 21st International
Conference on Arabidopsis Research (ICAR 2010) Yokohama
Japan 6 2010

Domestic Conferences (Invited)
Urano K, Shinozaki K, "Network analysis of dehydration stressresponse by metabolomics" The 27th Annual Meeting of theJapanese Society of Plant Cell and Molecular Biology Fujisawa
Japan 7 2009

適切な運営に向けた取り組み
Initiatives for the Better Management of the RIKEN BioResource Center

Resource C
Bio
ter

RIK

en

EN

Hirai MY, Sawada Y, Kanaya S, Kuromori T, Kobayashi M,
Klausnitzer R, Hanada K, Akiyama K, Sakurai T, Saito K,
Shinozaki K, Toward genome-wide metabolotyping andelucidation of metabolic system: metabolic proﬁling oflarge-scale bioresources Journal of Platn Research, Vol.123, pp
291-298 (2010)

J

ap
ic
an
l in
Mouse CInternational Conferences (Invited)
lo

M
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ed

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Qin F, Sakuma Y, Tran S, Maruyama K, Kidokoro S, Fujita Y,
Fujita M, Umezawa T, Sawano Y, Miyazono K, Tanokura M,
Shinozaki K, Yamaguchi-Shinozaki K, "Arabidopsis DREB2Ainteracting proteins function as ring E3 ligases and negatively
regulatate plant drought stress-responsve gene expression" 9th
IPMB Congress 2009 St. Louis USA 10 2009

ua

ya

en

pm

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Shinozaki K, Yamaguchi-Shinozaki K, "Regulatory network indrought stress response and tolerance" International Conferenceon Plant Genomics and Beyond Evry France 7 2009

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en

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Shinozaki K, Yamaguchi-Shinozaki K, "Transcriptional regulatory network in drought stress response and tolerance" Plant
Biology 2009 Honolulu USA 7 2009orge

Ba se f M o u seoPh