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Takashi Matsumoto

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Shunzong Ning; Mohammad Pourkheirandish; Shun Sakuma; Ning Wang; Jianzhong Wu; Takato Koba; Takashi Matsumoto; Takao Komatsuda
Structure, transcription and post-transcriptional regulation of the bread wheat orthologs of the barley cleistogamy gene Cly1.
Hiroaki Sakai; Takuji Sasaki; Tsuyoshi Tanaka; Hironobu Wakimoto; Yuko Yamada; Ching-chia Yang; Takashi Abe; Toshimichi Ikemura; Hachiro Inokuchi; Masao Iwamoto; Yoshihiro Kawahara; Jungsok Kim; Sung Shin Lee; Takashi Matsumoto; Akira Muto; Hisataka Numa; Takeshi Itoh
Rice Annotation Project Database (RAP-DB): an integrative and interactive database for rice genomics.
Takayuki Yazawa; Hiroyuki Kawahigashi; Takashi Matsumoto; Hiroshi Mizuno
Simultaneous Transcriptome Analysis of Sorghum and Bipolaris sorghicola by Using RNA-seq in Combination with De Novo Transcriptome Assembly.

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All Publications

2013: Shunzong Ning; Mohammad Pourkheirandish; Shun Sakuma; Ning Wang; Jianzhong Wu; Takato Koba; Takashi Matsumoto; Takao Komatsuda
Structure, transcription and post-transcriptional regulation of the bread wheat orthologs of the barley cleistogamy gene Cly1.
TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik 2013;126(5):1273-83.
2013: Hiroaki Sakai; Takuji Sasaki; Tsuyoshi Tanaka; Hironobu Wakimoto; Yuko Yamada; Ching-chia Yang; Takashi Abe; Toshimichi Ikemura; Hachiro Inokuchi; Masao Iwamoto; Yoshihiro Kawahara; Jungsok Kim; Sung Shin Lee; Takashi Matsumoto; Akira Muto; Hisataka Numa; Takeshi Itoh
Rice Annotation Project Database (RAP-DB): an integrative and interactive database for rice genomics.
Plant & cell physiology 2013;54(2):e6.
2013: Takayuki Yazawa; Hiroyuki Kawahigashi; Takashi Matsumoto; Hiroshi Mizuno
Simultaneous Transcriptome Analysis of Sorghum and Bipolaris sorghicola by Using RNA-seq in Combination with De Novo Transcriptome Assembly.
PloS one 2013;8(4):e62460.
2013: Youko Oono; Takayuki Yazawa; Hirokazu Handa; Takeshi Itoh; Yoshihiro Kawahara; Fuminori Kobayashi; Takashi Matsumoto
Characterisation of the wheat (triticum aestivum L.) transcriptome by de novo assembly for the discovery of phosphate starvation-responsive genes: gene expression in Pi-stressed wheat.
BMC genomics 2013;14():77.
2012: Takahisa Yuo; Yuko Yamashita; Masahiko Ichii; Stephen A Jobling; Hiroyuki Kanamori; Udda Lundqvist; Takashi Matsumoto; Kazuhiro Sato; Shin Taketa
A SHORT INTERNODES (SHI) family transcription factor gene regulates awn elongation and pistil morphology in barley.
Journal of experimental botany 2012;63(14):5223-32.
2012: Jan P Buchmann; Beat Keller; Takashi Matsumoto; Nils Stein; Thomas Wicker
Inter-species sequence comparison of Brachypodium reveals how transposon activity corrodes genome colinearity.
The Plant journal : for cell and molecular biology 2012;71(4):550-63.
2012: S Fukuoka; S Ivan; Takashi Matsumoto; R Mizobuchi; K Okuno; N Saka; Masahiro Yano
A multiple gene complex on rice chromosome 4 is involved in durable resistance to rice blast.
TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik 2012;125(3):551-9.
2012: Ching-chia Yang; Yoshihiro Kawahara; Takashi Matsumoto; Hiroshi Mizuno; Jianzhong Wu; Takeshi Itoh
Independent domestication of Asian rice followed by gene flow from japonica to indica.
Molecular biology and evolution 2012;29(5):1471-9.
2012: Yoshihiro Kawahara; Takashi Matsumoto; Takeshi Itoh; Hiroyuki Kanamori; Youko Oono; Eiichi Minami
Simultaneous RNA-seq analysis of a mixed transcriptome of rice and blast fungus interaction.
PloS one 2012;7(11):e49423.
2012: Yuichi Katayose; Kanako Kurita; Takashi Matsumoto; Hiroshi Minami; Hajime Ohyanagi; Kyuya Harada; Hiroshi Ikawa; Kazue Ito; Tomoko Ito; Akito Kaga; Hiroyuki Kanamori; Michie Shibata; Michihiko Shimomura; Yasutaka Tsubokura; Jianzhong Wu; Takuji Sasaki
DaizuBase, an integrated soybean genome database including BAC-based physical maps.
Breeding science 2012;61(5):661-4.
2012: Hiroshi Mizuno; Jun Ogata; Hiroshi Minami; Takeshi Itoh; Hiroyuki Kanamori; Yoshihiro Kawahara; Hiroyuki Kawahigashi; Takashi Matsumoto
Global transcriptome analysis reveals distinct expression among duplicated genes during sorghum-interaction.
BMC plant biology 2012;12():121.
2011: Shingo Nakamura; Kou Nakazono; Taiichi Ogawa; Yasunari Ogihara; Akemi Tagiri; Shigeko Utsugi; Fumitaka Abe; Hirokazu Handa; Hiroki Ishida; Hiroyuki Kawahigashi; Kanako Kawaura; Takashi Matsumoto; Masahiko Mori; Hideho Miura
A wheat homolog of MOTHER OF FT AND TFL1 acts in the regulation of germination.
The Plant cell 2011;23(9):3215-29.
2011: Kenji Asano; Motoyuki Ashikari; Kazuyuki Doi; Kaworu Ebana; Hideki Innan; Tomoko Ito; Satoshi Katagiri; Hidemi Kitano; Takashi Matsumoto; Kotaro Miura; Shohei Takuno; Jianzhong Wu; Masanori Yamasaki; Makoto Matsuoka
Artificial selection for a green revolution gene during japonica rice domestication.
Proceedings of the National Academy of Sciences of the United States of America 2011;108(27):11034-9.
2011: Hiroyuki Kawahigashi; Shigemitsu Kasuga; Tsuyu Ando; Hiroyuki Kanamori; Jianzhong Wu; Jun-ichi Yonemaru; Takashi Sazuka; Takashi Matsumoto
Positional cloning of ds1, the target leaf spot resistance gene against Bipolaris sorghicola in sorghum.
TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik 2011;123(1):131-42.
2011: Hiroaki Sakai; Hiroshi Ikawa; Tsuyoshi Tanaka; Hisataka Numa; Hiroshi Minami; Masaki Fujisawa; Michie Shibata; Kanako Kurita; Ari Kikuta; Masao Hamada; Hiroyuki Kanamori; Nobukazu Namiki; Jianzhong Wu; Takeshi Itoh; Takashi Matsumoto; Takuji Sasaki
Distinct evolutionary patterns of Oryza glaberrima deciphered by genome sequencing and comparative analysis.
The Plant journal : for cell and molecular biology 2011;66(5):796-805.
2011: Takashi Matsumoto; Tsuyoshi Tanaka; Hiroaki Sakai; Naoki Amano; Hiroyuki Kanamori; Kanako Kurita; Ari Kikuta; Kozue Kamiya; Mayu Yamamoto; Hiroshi Ikawa; Nobuyuki Fujii; Kiyosumi Hori; Takeshi Itoh; Kazuhiro Sato
Comprehensive sequence analysis of 24,783 barley full-length cDNAs derived from 12 clone libraries.
Plant physiology 2011;156(1):20-8.
2011: Kaworu Ebana; Taeko Shibaya; Jianzhong Wu; Kazuki Matsubara; Hiroyuki Kanamori; Hiroko Yamane; Utako Yamanouchi; Tatsumi Mizubayashi; Izumi Kono; Ayahiko Shomura; Sachie Ito; Tsuyu Ando; Kiyosumi Hori; Takashi Matsumoto; Masahiro Yano
Uncovering of major genetic factors generating naturally occurring variation in heading date among Asian rice cultivars.
TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik 2011;122(6):1199-210.
2011: Simon Krattinger; Evans S Lagudah; Thomas Wicker; Joanna M Risk; Anthony R Ashton; Liselotte L Selter; Takashi Matsumoto; Beat Keller
Lr34 multi-pathogen resistance ABC transporter: molecular analysis of homoeologous and orthologous genes in hexaploid wheat and other grass species.
The Plant journal : for cell and molecular biology 2011;65(3):392-403.
2011: Hiroshi Mizuno; Takuji Sasaki; Jianzhong Wu; Hiroshi Ikawa; Takeshi Itoh; Hiroyuki Kanamori; Yuichi Katayose; Yoshihiro Kawahara; Takashi Matsumoto
Asymmetric distribution of gene expression in the centromeric region of rice chromosome 5.
Frontiers in plant science 2011;2():16.
2010: Nagao Hayashi; Haruhiko Inoue; Takahiro Kato; Taketo Funao; Masaki Shirota; Takehiko Shimizu; Hiroyuki Kanamori; Hiroko Yamane; Yuriko Hayano-Saito; Takashi Matsumoto; Masahiro Yano; Hiroshi Takatsuji
Durable panicle blast-resistance gene Pb1 encodes an atypical CC-NBS-LRR protein and was generated by acquiring a promoter through local genome duplication.
The Plant journal : for cell and molecular biology 2010;64(3):498-510.
2010: Shun Sakuma; Mohammad Pourkheirandish; Takashi Matsumoto; Takato Koba; Takao Komatsuda
Duplication of a well-conserved homeodomain-leucine zipper transcription factor gene in barley generates a copy with more specific functions.
Functional & integrative genomics 2010;10(1):123-33.
2010: Sudha K Nair; Ning Wang; Yerlan Turuspekov; Mohammad Pourkheirandish; Suphawat Sinsuwongwat; Guoxiong Chen; Mohammad Sameri; Akemi Tagiri; Ichiro Honda; Yoshiaki Watanabe; Hiroyuki Kanamori; Thomas Wicker; Nils Stein; Yoshiaki Nagamura; Takashi Matsumoto; Takao Komatsuda
Cleistogamous flowering in barley arises from the suppression of microRNA-guided HvAP2 mRNA cleavage.
Proceedings of the National Academy of Sciences of the United States of America 2010;107(1):490-5.
2010: Hiroshi Mizuno; Yoshihiro Kawahara; Hiroaki Sakai; Hiroyuki Kanamori; Hironobu Wakimoto; Harumi Yamagata; Youko Oono; Jianzhong Wu; Hiroshi Ikawa; Takeshi Itoh; Takashi Matsumoto
Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.).
BMC genomics 2010;11():683.
2009: Hisataka Numa; Marie Nishimura; Tsuyoshi Tanaka; Hiroyuki Kanamori; Ching-Chia Yang; Takashi Matsumoto; Yoshiaki Nagamura; Takeshi Itoh
Genome-wide validation of Magnaporthe grisea gene structures based on transcription evidence.
FEBS letters 2009;583(4):797-800.
2009: Thomas Wicker; Simon Krattinger; Evans S Lagudah; Takao Komatsuda; Mohammad Pourkheirandish; Takashi Matsumoto; Sylvie Cloutier; Laurenz Reiser; Hiroyuki Kanamori; Kazuhiro Sato; Dragan Perovic; Nils Stein; Beat Keller
Analysis of intraspecies diversity in wheat and barley genomes identifies breakpoints of ancient haplotypes and provides insight into the structure of diploid and hexaploid triticeae gene pools.
Plant physiology 2009;149(1):258-70.
2008: Hiroshi Mizuno; Jianzhong Wu; Yuichi Katayose; Hiroyuki Kanamori; Takuji Sasaki; Takashi Matsumoto
Characterization of chromosome ends on the basis of the structure of TrsA subtelomeric repeats in rice (Oryza sativa L.).
Molecular genetics and genomics : MGG 2008;280(1):19-24.
2008: Takashi Matsumoto; Jianzhong Wu; Baltazar A Antonio; Takuji Sasaki
Development in rice genome research based on accurate genome sequence.
International journal of plant genomics 2008;2008():348621.
2008: Hiroshi Mizuno; Jianzhong Wu; Yuichi Katayose; Hiroyuki Kanamori; Takuji Sasaki; Takashi Matsumoto
Chromosome-specific distribution of nucleotide substitutions in telomeric repeats of rice (Oryza sativa L.).
Molecular biology and evolution 2008;25(1):62-8.
2007: Takao Komatsuda; Mohammad Pourkheirandish; Congfen He; Perumal Azhaguvel; Hiroyuki Kanamori; Dragan Perovic; Nils Stein; Andreas Graner; Thomas Wicker; Akemi Tagiri; Udda Lundqvist; Tatsuhito Fujimura; Makoto Matsuoka; Takashi Matsumoto; Masahiro Yano
Six-rowed barley originated from a mutation in a homeodomain-leucine zipper I-class homeobox gene.
Proceedings of the National Academy of Sciences of the United States of America 2007;104(4):1424-9.
2006: Hiroshi Mizuno; Kazue Ito; Jianzhong Wu; Tsuyoshi Tanaka; Hiroyuki Kanamori; Yuichi Katayose; Takuji Sasaki; Takashi Matsumoto
Identification and mapping of expressed genes, simple sequence repeats and transposable elements in centromeric regions of rice chromosomes.
DNA research : an international journal for rapid publication of reports on genes and genomes 2006;13(6):267-74.
2006: Masaki Fujisawa; Harumi Yamagata; Kozue Kamiya; Mari Nakamura; Shoko Saji; Hiroyuki Kanamori; Jianzhong Wu; Takashi Matsumoto; Takuji Sasaki
Sequence comparison of distal and proximal ribosomal DNA arrays in rice (Oryza sativa L.) chromosome 9S and analysis of their flanking regions.
TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik 2006;113(3):419-28.
2006: Hiroshi Mizuno; Jianzhong Wu; Hiroyuki Kanamori; Masaki Fujisawa; Nobukazu Namiki; Shoko Saji; Satoshi Katagiri; Yuichi Katayose; Takuji Sasaki; Takashi Matsumoto
Sequencing and characterization of telomere and subtelomere regions on rice chromosomes 1S, 2S, 2L, 6L, 7S, 7L and 8S.
The Plant journal : for cell and molecular biology 2006;46(2):206-17.
2005: Takuji Sasaki; Wu Jianzhong; Takeshi Itoh; Takashi Matsumoto
[Complete rice genome sequence information: the key for elucidation of Rosetta stones of other cereal genome].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2005;50(16 Suppl):2167-73.
2005: Takuji Sasaki; Takashi Matsumoto; Baltazar A Antonio; Yoshiaki Nagamura
From mapping to sequencing, post-sequencing and beyond.
Plant & cell physiology 2005;46(1):3-13.
2005: Yuichi Ito; Kohji Arikawa; Baltazar A Antonio; Isamu Ohta; Shinji Naito; Yoshiyuki Mukai; Atsuko Shimano; Masatoshi Masukawa; Michie Shibata; Mayu Yamamoto; Yukiyo Ito; Junri Yokoyama; Yasumichi Sakai; Katsumi Sakata; Yoshiaki Nagamura; Nobukazu Namiki; Takashi Matsumoto; Kenichi Higo; Takuji Sasaki
Rice Annotation Database (RAD): a contig-oriented database for map-based rice genomics.
Nucleic acids research 2005;33(Database issue):D651-5.
2004: Jianzhong Wu; Harumi Yamagata; Mika Hayashi-Tsugane; Saori Hijishita; Masaki Fujisawa; Michie Shibata; Yukiyo Ito; Mari Nakamura; Miyuki Sakaguchi; Rie Yoshihara; Harumi Kobayashi; Kazue Ito; Wataru Karasawa; Mayu Yamamoto; Shoko Saji; Satoshi Katagiri; Hiroyuki Kanamori; Nobukazu Namiki; Yuichi Katayose; Takashi Matsumoto; Takuji Sasaki
Composition and structure of the centromeric region of rice chromosome 8.
The Plant cell 2004;16(4):967-76.
2004: Takuji Sasaki; Takashi Matsumoto; Yoshiaki Nagamura; Nobukazu Namiki
[Bioinformatics for breeding].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2004;49(2):175-80.
2003: Jianzhong Wu; Hiroshi Mizuno; Mika Hayashi-Tsugane; Yukiyo Ito; Yoshino Chiden; Masaki Fujisawa; Satoshi Katagiri; Shoko Saji; Shoji Yoshiki; Wataru Karasawa; Rie Yoshihara; Akiko Hayashi; Harumi Kobayashi; Kazue Ito; Masao Hamada; Masako Okamoto; Maiko Ikeno; Yoko Ichikawa; Yuichi Katayose; Masahiro Yano; Takashi Matsumoto; Takuji Sasaki
Physical maps and recombination frequency of six rice chromosomes.
The Plant journal : for cell and molecular biology 2003;36(5):720-30.
2002: Takuji Sasaki; Takashi Matsumoto; Jianzhong Wu; Kimiko Yamamoto; Yuichi Katayose
[The completion of rice genome sequence and analysis of its genetic information].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2002;47(12 Suppl):1512-7.
2002: Jianzhong Wu; Tomoko Maehara; Takanori Shimokawa; Shinichi Yamamoto; Chizuko Harada; Yuka Takazaki; Nozomi Ono; Yoshiyuki Mukai; Kazuhiro Koike; Junshi Yazaki; Fumiko Fujii; Ayahiko Shomura; Tsuyu Ando; Izumi Kono; Kazunori Waki; Kimiko Yamamoto; Masahiro Yano; Takashi Matsumoto; Takuji Sasaki
A comprehensive rice transcript map containing 6591 expressed sequence tag sites.
The Plant cell 2002;14(3):525-35.
2002: Katsumi Sakata; Yoshiaki Nagamura; Hisataka Numa; Baltazar A Antonio; Hideki Nagasaki; Atsuko Idonuma; Wakako Watanabe; Yuji Shimizu; Ikuo Horiuchi; Takashi Matsumoto; Takuji Sasaki; Kenichi Higo
RiceGAAS: an automated annotation system and database for rice genome sequence.
Nucleic acids research 2002;30(1):98-102.
2001: Takuji Sasaki; K Yamamoto; T Baba; J Wu; Takashi Matsumoto
[The progress in rice genome sequence analysis].
Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme 2001;46(16 Suppl):2499-504.
2001: Ken Ishimaru; Tatsuro Hirose; N Aoki; S Takahashi; Kiyomi Ono; S Yamamoto; J Wu; S Saji; T Baba; Masashi Ugaki; Takashi Matsumoto; R Ohsugi
Antisense expression of a rice sucrose transporter OsSUT1 in rice (Oryza sativa L.).
Plant & cell physiology 2001;42(10):1181-5.
2001: Takashi Matsumoto; Jianzhong Wu; T Baba; Yuichi Katayose; Kimiko Yamamoto; K Sakata; Masahiro Yano; Takuji Sasaki
Rice genomics: current status of genome sequencing.
Novartis Foundation symposium 2001;236():28-38; discussion 38-41.