Agrogenomics Research Center

Plant Genome Research Unit



  2013-latest (2010-2012）

  1. Nakamura S, Pourkheirandish M, Morishige H, Kubo Y, Nakamura M, Ichimura K, Seo S, Kanamori H, Wu J, Ando T, Hensel G, Sameri M, Stein N, Sato K, Matsumoto T, Yano M, Komatsuda T (2016) Mitogen-activated Protein Kinase Kinase 3 regulates seed dormancy in barley Current Biology 26(6):775-781 10.1016/j.cub.2016.01.024
  2. Pourkheirandish M, Hensel G, Kilian B, Senthil N, Chen G, Sameri M, Azhaguvel P, Sakuma S, Dhanagond S, Sharma R, Mascher M, Himmelbach A, Gottwald S, Nair S.K, Tagiri A, Yukuhiro F, Nagamura Y, Kanamori H, Matsumoto T, Willcox G, Middleton C.P, Wicker T, Walther A, Waugh R, Fincher G.B, Stein N, Kumlehn J, Sato K, Komatsuda T (2015) Evolution of the grain dispersal system in barley Cell 162(3):527-539 10.1016/j.cell.2015.07.002
  3. International Wheat Genome Sequencing Consortium (2014) A chromosome-based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome Science 345(6194)
    DOI: 10.1126/science.1251788
  4. Budot B.O, Encabo J.R, Ambita I.V, Atienza-Grande G.A, Satoh K, Kondoh H, Ulat V.J, Mauleon R, Kikuchi S, Choi I-R (2014) Suppression of cell wall-related genes associated with stunting of Oryza glaberrima infected with rice tungro spherical virus Frontiers in Microbiology 5:26
  5. Kim S.T, Kim S.G, Agrawal G.K, Kikuchi S, Rakwal R (2014) Rice proteomics: A model system for crop improvement and food security Proteomics 14(4-5):593-610
  6. Nuruzzaman M, Sharoni A.M, Satoh K, Kumar A, Leung H, Kikuchi S (2014) Comparative transcriptome profiles of the WRKY gene family under control, hormone-treated, and drought conditions in near-isogenic rice lines reveal differential, tissue specific gene activation Journal of Plant Physiology 171(1):2-13
  7. Oono Y, Yazawa T, Kawahara Y, Kanamori H, Kobayashi F, Sasaki H, Mori S, Wu J, Handa H, Itoh T, Matsumoto T (2014) Genome-wide transcriptome analysis reveals that cadmium stress signaling controls the expression of genes in drought stress signal pathways in rice PLoS ONE 9(5):e96946
  8. Sakai H, Kanamori H, Arai-Kichise Y, Shibata-Hatta M, Ebana K, Oono Y, Kurita K, Fujisawa H, Katagiri S, Mukai Y, Hamada M, Itoh T, Matsumoto T, Katayose Y, Wakasa K, Yano M, Wu J (2014) Construction of pseudomolecule sequences of the aus rice cultivar Kasalath for comparative genomics of Asian cultivated rice DNA Research (Advance Access: doi:10.1093/dnares/dsu006)
  9. Sugimoto M, Oono Y, Gusev O, Matsumoto T, Yazawa T, Levinskikh M.A, Sychev V.N, Bingham G.E, Wheeler R, Hummerick M (2014) Genome-wide expression analysis of reactive oxygen species gene network in Mizuna plants grown in long-term spaceflight BMC Plant Biology 14:4
  10. Wakasa Y, Oono Y, Yazawa T, Hayashi S, Ozawa K, Handa H, Matsumoto T, Takaiwa F (2014) RNA sequencing-mediated transcriptome analysis of rice plants in endoplasmic reticulum stress conditions BMC Plant Biology 14:101
  11. Agrawal G.K, Sarkar A, Righetti P.G, Pedreschi R, Carpentier S, Wang T, Barkla B.J, Kohli A, Ndimba B.K, Bykova N.V, Rampitsch C, Zolla L, Rafudeen M.S, Cramer R, Bindschedler L.V, Tsakirpaloglou N, Ndimba R.J, Farrant J.M, Renaut J, Job D, Kikuchi S, Rakwal R (2013) A decade of plant proteomics and mass spectrometry: Translation of technical advancements to food security and safety issues Mass Spectrometry Reviews 32(5):335-365
  12. Asano T, Miyao A, Hirochika H, Kikuchi S, Kadowaki K (2013) A pentatricopeptide repeat gene of rice is required for splicing of chloroplast transcripts and RNA editing of ndhA Plant Biotechnology 30(1):57-64
  13. Kanamori H, Fujisawa M, Katagiri S, Oono Y, Fujisawa H, Karasawa W, Kurita K, Sasaki H, Mori S, Hamada M, Mukai Y, Yazawa T, Mizuno H, Namiki N, Sasaki T, Katayose Y, Matsumoto T, Wu J (2013) A BAC physical map of aus rice cultivar ‘Kasalath’, and the map-based genomic sequence of ‘Kasalath’ chromosome 1 The Plant Journal 76(4):699-708
  14. Kawahigashi H, Kasuga S, Okuizumi H, Hiradate S, Yonemaru J (2013) Evaluation of Brix and sugar content in stem juice from sorghum varieties Grassland Science 59(1):11-19
  15. Kawahigashi H, Oshima M, Nishikawa T, Okuizumi H, Kasuga S, Yonemaru J (2013) A novel waxy allele in sorghum landraces in East Asia Plant Breeding 132(3):305-310
  16. Li C, Wang A, Ma X, Pourkheirandish M, Sakuma S, Wang N, Ning S, Nevo E, Nawrath C, Komatsuda T, Chen G (2013) An eceriferum locus, cer-zv, is associated with a defect in cutin responsible for water retention in barley (Hordeum vulgare) leaves Theoretical and Applied Genetics 126(3):637-646
  17. Mizuno H, Kawahigashi H, Ogata J, Minami H, Kanamori H, Nakagawa H, Matsumoto T (2013) Genomic inversion caused by gamma irradiation contributes to downregulation of a WBC11 homolog in bloomless sorghum Theoretical and Applied Genetics 126(6):1513-1520
  18. Nakamura T, Yazaki J, Kishimoto N, Kikuchi S, Robertson A.J, Gusta L.V, Ishikawa M (2013) Comparison of long-term up-regulated genes during induction of freezing tolerance by cold and ABA in bromegrass cell cultures revealed by microarray analyses Plant Growth Regulation 71(2):113-136
  19. Ning S, Wang N, Sakuma S, Pourkheirandish M, Wu J, Matsumoto T, Koba T, Komatsuda T (2013) Structure, transcription and post-transcriptional regulation of the bread wheat orthologs of the barley cleistogamy gene Cly1 Theoretical and Applied Genetics 126(5):1273-1283
  20. Nuruzzaman M, Sharoni A.M, Kikuchi S (2013) Roles of NAC transcription factors in the regulation of biotic and abiotic stress responses in plants Frontiers in Microbiology 4:248
  21. Ogiso-Tanaka E, Matsubara K, Yamamoto S, Nonoue Y, Wu J, Fujisawa H, Ishikubo H, Tanaka T, Ando T, Matsumoto T, Yano M (2013) Natural variation of the RICE FLOWERING LOCUS T1 contributes to flowering time divergence in rice PLoS ONE 8(10):e75959
  22. Oono Y, Kobayashi F, Kawahara Y, Yazawa T, Handa H, Itoh T, Matsumoto T (2013) 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 14:77
  23. Oono Y, Kawahara Y, Yazawa T, Kanamori H, Kuramata M, Yamagata H, Hosokawa S, Minami H, Ishikawa S, Wu J, Antonio B, Handa H, Itoh T, Matsumoto T (2013a) Diversity in the complexity of phosphate starvation transcriptomes among rice cultivars based on RNA-Seq profiles Plant Molecular Biology 83(6):523-537
  24. Sakuma S, Pourkheirandish M, Hensel G, Kumlehn J, Stein N, Tagiri A, Yamaji N, Ma J.F, Sassa H, Koba T, Komatsuda T (2013) Divergence of expression pattern contributed to neofunctionalization of duplicated HD-Zip I transcription factor in barley New Phytologist 197(3):939-948
  25. Satoh K, Kondoh H, De Leon T.B, Macalalad R.J.A, Cabunagan R.C, Cabauatan P.Q, Mauleon R, Kikuchi S, Choi I-R (2013) Gene expression responses to rice tungro spherical virus in susceptible and resistant near-isogenic rice plants Virus Research 171(1):111-120
  26. Swamy B.P.M, Ahmed H.U, Henry A, Mauleon R, Dixit S, Vikram P, Tilatto R, Verulkar S.B, Perraju P, Mandal N.P, Variar M, Robin S, Chandrababu R, Singh O.N, Dwivedi J.L, Das S.P, Mishra K.K, Yadaw R.B, Aditya T.L, Karmakar B, Satoh K, Moumeni A, Kikuchi S, Leung H, Kumar A (2013) Genetic, physiological, and gene expression analyses reveal that multiple QTL enhance yield of rice mega-variety IR64 under drought PLoS ONE 8(5):e62795
  27. Tanaka T, Sakai H, Fujii N, Kobayashi F, Nakamura S, Itoh T, Matsumoto T, Wu J (2013) bex-db: Bioinformatics workbench for comprehensive analysis of barley-expressed genes Breeding Science 63(4):430-434
  28. Yazawa T, Kawahigashi H, Matsumoto T, Mizuno H (2013) Simultaneous transcriptome analysis of sorghum and Bipolaris sorghicola by using RNA-seq in combination with De Novo transcriptome assembly PLoS ONE 8(4):e62460