Agrogenomics Research Center

Plant Genome Research Unit



  2010-2012 (2013-latest）

  1. Asano T, Hayashi N, Kobayashi M, Aoki N, Miyao A, Mitsuhara I, Ichikawa H, Komatsu S, Hirochika H, Kikuchi S, Ohsugi R (2012) A rice calcium-dependent protein kinase OsCPK12 oppositely modulates salt-stress tolerance and blast disease resistance The Plant Journal 69(1):26-36
  2. Asano T, Hayashi N, Kikuchi S, Ohsugi R (2012) CDPK-mediated abiotic stress signaling Plant Signaling & Behavior 7(7):817-821
  3. Kawahara Y, Oono Y, Kanamori H, Matsumoto T, Itoh T, Minami E (2012) Simultaneous RNA-seq analysis of a mixed transcriptome of rice and blast fungus interaction PLoS ONE 7(11):e49423
  4. Kikuchi R, Kawahigashi H, Oshima M, Ando T, Handa H (2012) The differential expression of HvCO9, a member of the CONSTANS-like gene family, contributes to the control of flowering under short-day conditions in barley Journal of Experimental Botany 63(2):773-784
  5. Mizuno H, Kawahigashi H, Kawahara Y, Kanamori H, Ogata J, Minami H, Itoh T, Matsumoto T (2012) Global transcriptome analysis reveals distinct expression among duplicated genes during sorghum-interaction BMC Plant Biology 12:121
  6. Nuruzzaman M, Sharoni A.M, Satoh K, Al-Shammari T, Shimizu T, Sasaya T, Omura T, Kikuchi S (2012) The thioredoxin gene family in rice: genome-wide identification and expression profiling under different biotic and abiotic treatments Biochemical and Biophysical Research Communications 423(2):417-423
  7. Nuruzzaman M, Sharoni A.M, Satoh K, Moumeni A, Venuprasad R, Serraj R, Kumar A, Leung H, Attia K, Kikuchi S (2012) Comprehensive gene expression analysis of the NAC gene family under normal growth conditions, hormone treatment, and drought stress conditions in rice using near-isogenic lines (NILs) generated from crossing Aday Selection (drought tolerant) and IR64 Molecular Genetics and Genomics 287(5):389-410
  8. Oshima M, Handa H (2012) The identification of quantitative trait loci that control the paternal inheritance of a mitochondrial plasmid in rapeseed (Brassica napus L.) Genes & Genetic Systems 87(1):19-2
  9. 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 (2012) Gene expression responses to rice tungro spherical virus in susceptible and resistant near-isogenic rice plants Virus Research 171(1):111-120
  10. Sharoni A.M, Nuruzzaman M, Satoh K, Moumeni A, Attia K, Venuprasad R, Serraj R, Kumar A, Leung H, Rafiul Islam A.K.M, Kikuchi S (2012) Comparative transcriptome analysis of AP2/EREBP gene family under normal and hormone treatments, and under two drought stresses in NILs setup by Aday Selection and IR64 Molecular Genetics and Genomics 287(1):1-19
  11. The International Barley Genome Sequencing Consortium (2012) A physical, genetic and functional sequence assembly of the barley genome Nature (Published online) 10.1038/nature11543
  12. Yang C, Kawahara Y, Mizuno H, Wu J, Matsumoto T, Itoh T (2012) Independent domestication of Asian rice followed by gene flow from japonica to indica Molecular Biology and Evolution 29(5):1471-1479
  13. Baba T, Tanno K, Furusho M, Komatsuda T (2011) Allelic variation at the EF-G locus among northern Moroccan six-rowed barleys Plant Genetic Resources: Characterization and Utilization 9(2):240-242
  14. Bahrini I, Ogawa T, Kobayashi F, Kawahigashi H, Handa H (2011) Overexpression of the pathogen-inducible wheat TaWRKY45 gene confers disease resistance to multiple fungi in transgenic wheat plants Breeding Science 61(4):319-326
  15. Bahrini I, Sugisawa M, Kikuchi R, Ogawa T, Kawahigashi H, Ban T, Handa H (2011) Characterization of a wheat transcription factor, TaWRKY45, and its effect on Fusarium head blight resistance in transgenic wheat plants Breeding Science 61(2):121-129
  16. Chen G, Komatsuda T, Ma J.F, Nawrath C, Pourkheirandish M, Tagiri A, Hu Y-G, Sameri M, Li X, Zhao X, Liu Y, Li C, Ma X, Wang A, Nair S, Wang N, Miyao A, Sakuma S, Yamaji N, Zheng X, Nevo E (2011) An ATP-binding cassette subfamily G full transporter is essential for the retention of leaf water in both wild barley and rice Proceedings of the National Academy of Sciences of the United States of America 108(30):12354-12359
  17. Kawahigashi H, Kasuga S, Ando T, Kanamori H, Wu J, Yonemaru J, Sazuka T, Matsumoto T (2011) Positional cloning of ds1, the target leaf spot resistance gene against Bipolaris sorghicola in sorghum Theoretical and Applied Genetics 123(1):131-142
  18. Kawahigashi H, Kasuga S, Okuizumi H, Kanamori H, Ando T, Matsumoto T (2011) Classification of genotypes of the target leaf spot-resistant gene (ds1) in a sorghum collection Crop Science 51(5):2095-2103
  19. Matsumoto T, Tanaka T, Sakai H, Amano N, Kanamori H, Kurita K, Kikuta A, Kamiya K, Yamamoto M, Ikawa H, Fujii N, Hori K, Itoh T, Sato K (2011) Comprehensive sequence analysis of 24,783 barley full-length cDNAs derived from 12 clone libraries Plant Physiology 156(1):20-28
  20. Mizuno H, Kawahara Y, Wu J, Katayose Y, Kanamori H, Ikawa H, Itoh T, Sasaki T, Matsumoto T (2011) Asymmetric distribution of gene expression in the centromeric region of rice chromosome 5 Frontiers in Plant Science 2:16
  21. Moumeni A, Satoh K, Kondoh H, Asano T, Hosaka A, Venuprasad R, Serraj R, Kumar A, Leung H, Kikuchi S (2011) Comparative analysis of root transcriptome profiles of two pairs of drought-tolerant and susceptible rice near-isogenic lines under different drought stress BMC Plant Biology 11:174
  22. Oono Y, Kawahara Y, Kanamori H, Mizuno H, Yamagata H, Yamamoto M, Hosokawa S, Ikawa H, Akahane I, Zhu Z, Wu J, Itoh T, Matsumoto T (2011) mRNA-seq reveals a comprehensive transcriptome profile of rice under phosphate stress Rice 4(2):50-65
  23. Sakai H, Ikawa H, Tanaka T, Numa H, Minami H, Fujisawa M, Shibata M, Kurita K, Kikuta A, Hamada M, Kanamori H, Namiki N, Wu J, Itoh T, Matsumoto T, Sasaki T (2011) Distinct evolutionary patterns of Oryza glaberrima deciphered by genome sequencing and comparative analysis The Plant Journal 66(5):796-805
  24. Sameri M, Pourkheirandish M, Chen G, Tonooka T, Komatsuda T (2011) Detection of photoperiod responsive and non-responsive flowering time QTL in barley Breeding Science 61(2):183-188
  25. Satoh K, Shimizu T, Kondoh H, Hiraguri A, Sasaya T, Choi I-R, Omura T, Kikuchi S (2011) Relationship between symptoms and gene expression induced by the infection of three strains of Rice dwarf virus PLoS ONE 6(3):e18094
  26. Sharoni A.M, Nuruzzaman M, Satoh K, Shimizu T, Kondoh H, Sasaya T, Choi I-R, Omura T, Kikuchi S (2011) Gene structures, classification, and expression models of the AP2/EREBP transcription factor family in rice Plant and Cell Physiology 52(2):344-360
  27. Choi P, Mano Y, Ishikawa A, Odashima M, Umezawa T, Fujimura T, Takahata Y, Komatsuda T (2010) Identification of QTLs controlling somatic embryogenesis using RI population of cultivar × weedy soybean Plant Biotechnology Reports 4(1):23-27
  28. Kobayashi F, Takumi S, Handa H (2010) Identification of quantitative trait loci for ABA responsiveness at the seedling stage associated with ABA-regulated gene expression in common wheat Theoretical and Applied Genetics 121(4):629-641
  29. Mizuno H, Kawahara Y, Sakai H, Kanamori H, Wakimoto H, Yamagata H, Oono Y, Wu J, Ikawa H, Itoh T, Matsumoto T (2010) Massive parallel sequencing of mRNA in identification of unannotated salinity stress-inducible transcripts in rice (Oryza sativa L.) BMC Genomics 11:683
  30. Mizuno H, Tanaka T, Sakai H, Kawahigashi H, Itoh T, Kikuchi S, Matsumoto T (2010) Characterization of 2159 unmapped full-length cDNA sequences of Oryza sativa L. ssp. japonica ‘Nipponbare’ Plant Molecular Biology Reporter 28(2):357-362
  31. Nair S.K, Wang N, Turuspekov Y, Pourkheirandish M, Sinsuwongwat S, Chen G, Sameri M, Tagiri A, Honda I, Watanabe Y, Kanamori H, Wicker T, Stein N, Nagamura Y, Matsumoto T, Komatsuda T (2010) 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 107(1):490-495
  32. Nuruzzaman M, Manimekalai R, Sharoni A.M, Satoh K, Kondoh H, Ooka H, Kikuchi S (2010) Genome-wide analysis of NAC transcription factor family in rice Gene 465(1-2):30-44
  33. Oshima M, Kikuchi R, Imamura J, Handa H (2010) Origin of the CMS gene locus in rapeseed cybrid mitochondria: Active and inactive recombination produces the complex CMS gene region in the mitochondrial genomes of Brassicaceae Genes & Genetic Systems 85(5):311-318
  34. Sakuma S, Pourkheirandish M, Matsumoto T, Koba T, Komatsuda T (2010) Duplication of a well-conserved homeodomain-leucine zipper transcription factor gene in barley generates a copy with more specific functions Functional & Integrative Genomics 10(1):123-133
  35. Satoh K, Kondoh H, Sasaya T, Shimizu T, Choi I-R, Omura T, Kikuchi S (2010) Selective modification of rice (Oryza sativa) gene expression by rice stripe virus infection Journal of General Virology 91(1):294-305