Tabs(ALL, DNA, BLAST, GO, Taxonomy, DO, Reference) are clickable.
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Reference Related Resource Count :
33,482
|
Reference Detail
|
| Author |
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. |
| Reference |
Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. |
| Journal |
Mol Plant |
| Volume |
9(2) |
| Page |
221-232 |
| Year Published |
2016 |
| Pubmed ID |
26455463
|
Related Resource Count
|
37 items
|
|
|
|
| Organism |
strain |
Rice
|
Wild |
37 |
|
|
| Organism |
DNA |
| Associated Resource is not found. |
|
|
Rice:
|
W0610
|
 Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
3 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kariya K, Murata K, Kokubo Y, Ube N, Ueno K, Yabuta Y, Teraishi M, Okumoto Y, Mori N, Ishihara A. (2019) Variation of diterpenoid phytoalexin oryzalexin A production in cultivated and wild rice. Phytochemistry 166 112057
Murata K, Kitano T, Yoshimoto R, Takata R, Ube N, Ueno K, Ueno M, Yabuta Y, Teraishi M, Holland CK, Jander G, Okumoto Y, Mori N, Ishihara A. (2020) Natural variation in the expression and catalytic activity of a naringenin 7-O-methyltransferase influences antifungal defenses in diverse rice cultivars. Plant J 101(5) 1103-1117
Kariya K, Ube N, Ueno M, Teraishi M, Okumoto Y, Mori N, Ueno K, Ishihara A. (2020) Natural variation of diterpenoid phytoalexins in cultivated and wild rice species. Phytochemistry 180 112518
Ishikawa R, Castillo CC, Htun TM, Numaguchi K, Inoue K, Oka Y, Ogasawara M, Sugiyama S, Takama N, Orn C, Inoue C, Nonomura KI, Allaby R, Fuller DQ, Ishii T. (2022) A stepwise route to domesticate rice by controlling seed shattering and panicle shape. Proc Natl Acad Sci U S A 119(26) e2121692119
Wu J, Fujisawa M, Tian Z, Yamagata H, Kamiya K, Shibata M, Hosokawa S, Ito Y, Hamada M, Katagiri S, Kurita K, Yamamoto M, Kikuta A, Machita K, Karasawa W, Kanamori H, Namiki N, Mizuno H, Ma J, Sasaki T, Matsumoto T. (2009) Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. Plant J 60(5) 805-19
Sugimoto K, Takeuchi Y, Ebana K, Miyao A, Hirochika H, Hara N, Ishiyama K, Kobayashi M, Ban Y, Hattori T, Yano M. (2010) Molecular cloning of Sdr4, a regulator involved in seed dormancy and domestication of rice. Proc Natl Acad Sci U S A 107(13) 5792-7
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Xu JH, Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2007) Phylogenetic analysis of Oryza rufipogon strains and their relations to Oryza sativa strains by insertion polymorphism of rice SINEs. Genes Genet Syst 82(3) 217-29
Xu JH, Osawa I, Tsuchimoto S, Ohtsubo E, Ohtsubo H. (2005) Two new SINE elements, p-SINE2 and p-SINE3, from rice. Genes Genet Syst 80(3) 161-71
Mizuta Y, Harushima Y, Kurata N. (2010) Rice pollen hybrid incompatibility caused by reciprocal gene loss of duplicated genes. Proc Natl Acad Sci U S A 107(47) 20417-22
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M. (2011) Artificial selection for a green revolution gene during japonica rice domestication. Proc Natl Acad Sci U S A 108(27) 11034-9
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W1724
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
4 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
|
|
Rice:
|
W1214
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
4 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
|
|
Rice:
|
W1685
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
3 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Sugimoto K, Takeuchi Y, Ebana K, Miyao A, Hirochika H, Hara N, Ishiyama K, Kobayashi M, Ban Y, Hattori T, Yano M. (2010) Molecular cloning of Sdr4, a regulator involved in seed dormancy and domestication of rice. Proc Natl Acad Sci U S A 107(13) 5792-7
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M. (2011) Artificial selection for a green revolution gene during japonica rice domestication. Proc Natl Acad Sci U S A 108(27) 11034-9
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W1865
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
3 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Nagano H, Onishi K, Ogasawara M, Horiuchi Y, Sano Y. (2005) Genealogy of the "Green Revolution" gene in rice. Genes Genet Syst 80(5) 351-6
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Saitoh K, Onishi K, Mikami I, Thidar K, Sano Y. (2004) Allelic diversification at the C (OsC1) locus of wild and cultivated rice: nucleotide changes associated with phenotypes. Genetics 168(2) 997-1007
Xu JH, Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2007) Phylogenetic analysis of Oryza rufipogon strains and their relations to Oryza sativa strains by insertion polymorphism of rice SINEs. Genes Genet Syst 82(3) 217-29
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M. (2011) Artificial selection for a green revolution gene during japonica rice domestication. Proc Natl Acad Sci U S A 108(27) 11034-9
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 T 1 contributes to flowering time divergence in rice. PLoS One 8(10) e75959
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W1230
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
3 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kariya K, Murata K, Kokubo Y, Ube N, Ueno K, Yabuta Y, Teraishi M, Okumoto Y, Mori N, Ishihara A. (2019) Variation of diterpenoid phytoalexin oryzalexin A production in cultivated and wild rice. Phytochemistry 166 112057
Murata K, Kitano T, Yoshimoto R, Takata R, Ube N, Ueno K, Ueno M, Yabuta Y, Teraishi M, Holland CK, Jander G, Okumoto Y, Mori N, Ishihara A. (2020) Natural variation in the expression and catalytic activity of a naringenin 7-O-methyltransferase influences antifungal defenses in diverse rice cultivars. Plant J 101(5) 1103-1117
Kariya K, Ube N, Ueno M, Teraishi M, Okumoto Y, Mori N, Ueno K, Ishihara A. (2020) Natural variation of diterpenoid phytoalexins in cultivated and wild rice species. Phytochemistry 180 112518
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W0593
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
3 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kariya K, Murata K, Kokubo Y, Ube N, Ueno K, Yabuta Y, Teraishi M, Okumoto Y, Mori N, Ishihara A. (2019) Variation of diterpenoid phytoalexin oryzalexin A production in cultivated and wild rice. Phytochemistry 166 112057
Kariya K, Ube N, Ueno M, Teraishi M, Okumoto Y, Mori N, Ueno K, Ishihara A. (2020) Natural variation of diterpenoid phytoalexins in cultivated and wild rice species. Phytochemistry 180 112518
Wu J, Fujisawa M, Tian Z, Yamagata H, Kamiya K, Shibata M, Hosokawa S, Ito Y, Hamada M, Katagiri S, Kurita K, Yamamoto M, Kikuta A, Machita K, Karasawa W, Kanamori H, Namiki N, Mizuno H, Ma J, Sasaki T, Matsumoto T. (2009) Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. Plant J 60(5) 805-19
Takahashi H, Sato YI, Nakamura I. (2008) Evolutionary analysis of two plastid DNA sequences in cultivated and wild species of Oryza Breed Sci. 58 225-233
Miyashita NT, Yoshida K, Ishii T. (2005) DNA variation in the metallothionein genes in wild rice Oryza rufipogon: relationship between DNA sequence polymorphism, codon bias and gene expression. Genes Genet Syst 80(3) 173-83
Nagano H, Onishi K, Ogasawara M, Horiuchi Y, Sano Y. (2005) Genealogy of the "Green Revolution" gene in rice. Genes Genet Syst 80(5) 351-6
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Xu JH, Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2007) Phylogenetic analysis of Oryza rufipogon strains and their relations to Oryza sativa strains by insertion polymorphism of rice SINEs. Genes Genet Syst 82(3) 217-29
Takata M, Kishima Y, Sano Y. (2005) DNA Methylation Polymorphisms in Rice and Wild Rice Strains: Detection of Epigenetic Markers Breed Sci. 55 57-63
Xu JH, Osawa I, Tsuchimoto S, Ohtsubo E, Ohtsubo H. (2005) Two new SINE elements, p-SINE2 and p-SINE3, from rice. Genes Genet Syst 80(3) 161-71
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M. (2011) Artificial selection for a green revolution gene during japonica rice domestication. Proc Natl Acad Sci U S A 108(27) 11034-9
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 T 1 contributes to flowering time divergence in rice. PLoS One 8(10) e75959
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W1236
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
2 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kariya K, Ube N, Ueno M, Teraishi M, Okumoto Y, Mori N, Ueno K, Ishihara A. (2020) Natural variation of diterpenoid phytoalexins in cultivated and wild rice species. Phytochemistry 180 112518
Ishimaru K, Hirotsu N, Madoka Y, Murakami N, Hara N, Onodera H, Kashiwagi T, Ujiie K, Shimizu B, Onishi A, Miyagawa H, Katoh E. (2013) Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yield. Nat Genet 45(6) 707-11
Xu JH, Kurata N, Akimoto M, Ohtsubo H, Ohtsubo E. (2005) Identification and characterization of Australian wild rice strains of Oryza meridionalis and Oryza rufipogon by SINE insertion polymorphism. Genes Genet Syst 80(2) 129-34
Suzaki T, Ohneda M, Toriba T, Yoshida A, Hirano HY. (2009) FON2 SPARE1 redundantly regulates floral meristem maintenance with FLORAL ORGAN NUMBER2 in rice. PLoS Genet 5(10) e1000693
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Kobayashi H. (2015) A study of the relationship between wild rice (Oryza rufipogon) and japonica rice varieties (Oryza sativa L.) The Bulletin of Okayama University of Science 51A 53-56
Mizuta Y, Harushima Y, Kurata N. (2010) Rice pollen hybrid incompatibility caused by reciprocal gene loss of duplicated genes. Proc Natl Acad Sci U S A 107(47) 20417-22
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W0120
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
1 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Niihama M, Mochizuki M, Kurata N, Nonomura K. (2015) PCR-based INDEL markers co-dominant between Oryza sativa, japonica cultivars and closely-related wild Oryza species. Breed Sci 65(4) 357-61
Cai HW, Wang XK, Morishima H. (2004) Comparison of population genetic structures of common wild rice (Oryza rufipogon Griff.), as revealed by analyses of quantitative traits, allozymes, and RFLPs. Heredity (Edinb) 92(5) 409-17
Hayashi K, Kawahara Y, Maeda H, Hayano-Saito Y. (2022) Comparative analyses of <i>Stvb</i>-allelic genes reveal <i>japonica</i> specificity of rice stripe resistance in <i>Oryza sativa</i>. Breed Sci 72(5) 333-342
Kariya K, Murata K, Kokubo Y, Ube N, Ueno K, Yabuta Y, Teraishi M, Okumoto Y, Mori N, Ishihara A. (2019) Variation of diterpenoid phytoalexin oryzalexin A production in cultivated and wild rice. Phytochemistry 166 112057
Murata K, Kitano T, Yoshimoto R, Takata R, Ube N, Ueno K, Ueno M, Yabuta Y, Teraishi M, Holland CK, Jander G, Okumoto Y, Mori N, Ishihara A. (2020) Natural variation in the expression and catalytic activity of a naringenin 7-O-methyltransferase influences antifungal defenses in diverse rice cultivars. Plant J 101(5) 1103-1117
Kariya K, Ube N, Ueno M, Teraishi M, Okumoto Y, Mori N, Ueno K, Ishihara A. (2020) Natural variation of diterpenoid phytoalexins in cultivated and wild rice species. Phytochemistry 180 112518
Shin D, Lee S, Kim TH, Lee JH, Park J, Lee J, Lee JY, Cho LH, Choi JY, Lee W, Park JH, Lee DW, Ito H, Kim DH, Tanaka A, Cho JH, Song YC, Hwang D, Purugganan MD, Jeon JS, An G, Nam HG. (2020) Natural variations at the Stay-Green gene promoter control lifespan and yield in rice cultivars. Nat Commun 11(1) 2819
Ishimaru K, Hirotsu N, Madoka Y, Murakami N, Hara N, Onodera H, Kashiwagi T, Ujiie K, Shimizu B, Onishi A, Miyagawa H, Katoh E. (2013) Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yield. Nat Genet 45(6) 707-11
Wu J, Fujisawa M, Tian Z, Yamagata H, Kamiya K, Shibata M, Hosokawa S, Ito Y, Hamada M, Katagiri S, Kurita K, Yamamoto M, Kikuta A, Machita K, Karasawa W, Kanamori H, Namiki N, Mizuno H, Ma J, Sasaki T, Matsumoto T. (2009) Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. Plant J 60(5) 805-19
Miyashita NT, Yoshida K, Ishii T. (2005) DNA variation in the metallothionein genes in wild rice Oryza rufipogon: relationship between DNA sequence polymorphism, codon bias and gene expression. Genes Genet Syst 80(3) 173-83
Nagano H, Onishi K, Ogasawara M, Horiuchi Y, Sano Y. (2005) Genealogy of the "Green Revolution" gene in rice. Genes Genet Syst 80(5) 351-6
Suzaki T, Ohneda M, Toriba T, Yoshida A, Hirano HY. (2009) FON2 SPARE1 redundantly regulates floral meristem maintenance with FLORAL ORGAN NUMBER2 in rice. PLoS Genet 5(10) e1000693
Honma Y, Yoshida Y, Terachi T, Toriyama K, Mikami T, Kubo T. (2011) Polymorphic minisatellites in the mitochondrial DNAs of Oryza and Brassica. Curr Genet 57(4) 261-70
Hattori Y, Nagai K, Furukawa S, Song XJ, Kawano R, Sakakibara H, Wu J, Matsumoto T, Yoshimura A, Kitano H, Matsuoka M, Mori H, Ashikari M. (2009) The ethylene response factors SNORKEL1 and SNORKEL2 allow rice to adapt to deep water. Nature 460(7258) 1026-30
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Hattori Y, Nagai K, Mori H, Kitano H, Matsuoka M, Ashikari M. (2008) Mapping of three QTLs that regulate internode elongation in deepwater rice. Breed Sci. 58 39-46
Karki S, Tsukiyama T, Okumoto Y, Rizal G, Naito K, Teraishi M, Nakazaki T, Tanisaka T. (2009) Analysis of distribution and proliferation of mPing family transposons in a wild rice (Oryza rufipogon Griff.). Breed Sci. 59 297-307
Wu Y, Zhao S, Li X, Zhang B, Jiang L, Tang Y, Zhao J, Ma X, Cai H, Sun C, Tan L. (2018) Deletions linked to PROG1 gene participate in plant architecture domestication in Asian and African rice. Nat Commun 9(1) 4157
Nishikawa T, Vaughan DA, Kadowaki K. (2005) Phylogenetic analysis of Oryza species, based on simple sequence repeats and their flanking nucleotide sequences from the mitochondrial and chloroplast genomes. Theor Appl Genet 110(4) 696-705
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Miyabayashi, T., Nonomura, K.I., Morishima, H., Kurata N. (2007) Genome size of twenty wild Oryza Species determined by flow cytometric and chromosome analyses. Breed Sci. 57 73-78
Hattori, Y., Miura, K., Asano, K., Yamamoto, E., Mori, H., Kitano, H., Matsuoka, M., Ashikari, M. (2007) A major QTL confers rapid internode elongation in response to water rise in deepwater rice. Breed Sci. 57 305-314
Xu JH, Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2007) Phylogenetic analysis of Oryza rufipogon strains and their relations to Oryza sativa strains by insertion polymorphism of rice SINEs. Genes Genet Syst 82(3) 217-29
Inukai T, Sano Y. (2002) Sequence rearrangement in the AT-rich minisatellite of the novel rice transposable element Basho. Genome 45(3) 493-502
Xu JH, Osawa I, Tsuchimoto S, Ohtsubo E, Ohtsubo H. (2005) Two new SINE elements, p-SINE2 and p-SINE3, from rice. Genes Genet Syst 80(3) 161-71
Mizuta Y, Harushima Y, Kurata N. (2010) Rice pollen hybrid incompatibility caused by reciprocal gene loss of duplicated genes. Proc Natl Acad Sci U S A 107(47) 20417-22
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
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 T 1 contributes to flowering time divergence in rice. PLoS One 8(10) e75959
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
Shenton M, Iwamoto C, Kurata N, Ikeo K. (2016) Effect of Wild and Cultivated Rice Genotypes on Rhizosphere Bacterial Community Composition. Rice (N Y) 9(1) 42
|
|
Rice:
|
W1294
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
1 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kariya K, Murata K, Kokubo Y, Ube N, Ueno K, Yabuta Y, Teraishi M, Okumoto Y, Mori N, Ishihara A. (2019) Variation of diterpenoid phytoalexin oryzalexin A production in cultivated and wild rice. Phytochemistry 166 112057
Murata K, Kitano T, Yoshimoto R, Takata R, Ube N, Ueno K, Ueno M, Yabuta Y, Teraishi M, Holland CK, Jander G, Okumoto Y, Mori N, Ishihara A. (2020) Natural variation in the expression and catalytic activity of a naringenin 7-O-methyltransferase influences antifungal defenses in diverse rice cultivars. Plant J 101(5) 1103-1117
Kariya K, Ube N, Ueno M, Teraishi M, Okumoto Y, Mori N, Ueno K, Ishihara A. (2020) Natural variation of diterpenoid phytoalexins in cultivated and wild rice species. Phytochemistry 180 112518
Yoshida Y, Nosaka-T M, Yoshikawa T, Sato Y. (2022) Measurements of Antibacterial Activity of Seed Crude Extracts in Cultivated Rice and Wild Oryza Species. Rice (N Y) 15(1) 63
Ishimaru K, Hirotsu N, Madoka Y, Murakami N, Hara N, Onodera H, Kashiwagi T, Ujiie K, Shimizu B, Onishi A, Miyagawa H, Katoh E. (2013) Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yield. Nat Genet 45(6) 707-11
Wu J, Fujisawa M, Tian Z, Yamagata H, Kamiya K, Shibata M, Hosokawa S, Ito Y, Hamada M, Katagiri S, Kurita K, Yamamoto M, Kikuta A, Machita K, Karasawa W, Kanamori H, Namiki N, Mizuno H, Ma J, Sasaki T, Matsumoto T. (2009) Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. Plant J 60(5) 805-19
Nagano H, Onishi K, Ogasawara M, Horiuchi Y, Sano Y. (2005) Genealogy of the "Green Revolution" gene in rice. Genes Genet Syst 80(5) 351-6
Suzaki T, Ohneda M, Toriba T, Yoshida A, Hirano HY. (2009) FON2 SPARE1 redundantly regulates floral meristem maintenance with FLORAL ORGAN NUMBER2 in rice. PLoS Genet 5(10) e1000693
Honma Y, Yoshida Y, Terachi T, Toriyama K, Mikami T, Kubo T. (2011) Polymorphic minisatellites in the mitochondrial DNAs of Oryza and Brassica. Curr Genet 57(4) 261-70
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Karki S, Tsukiyama T, Okumoto Y, Rizal G, Naito K, Teraishi M, Nakazaki T, Tanisaka T. (2009) Analysis of distribution and proliferation of mPing family transposons in a wild rice (Oryza rufipogon Griff.). Breed Sci. 59 297-307
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Kobayashi H. (2015) A study of the relationship between wild rice (Oryza rufipogon) and japonica rice varieties (Oryza sativa L.) The Bulletin of Okayama University of Science 51A 53-56
Kato H, Tezuka K, Feng YY, Kawamoto T, Takahashi H, Mori K, Akagi H. (2007) Structural diversity and evolution of the Rf-1 locus in the genus Oryza. Heredity (Edinb) 99(5) 516-24
Saitoh K, Onishi K, Mikami I, Thidar K, Sano Y. (2004) Allelic diversification at the C (OsC1) locus of wild and cultivated rice: nucleotide changes associated with phenotypes. Genetics 168(2) 997-1007
Miyabayashi, T., Nonomura, K.I., Morishima, H., Kurata N. (2007) Genome size of twenty wild Oryza Species determined by flow cytometric and chromosome analyses. Breed Sci. 57 73-78
Teranishi C, Yoshida K, Miyashita NT. (2008) DNA polymorphism in the supERWOMAN1 (SPW1) locus of the wild rice Oryza rufipogon and its related species. Genes Genet Syst 83(5) 403-15
Inukai T, Sano Y. (2002) Sequence rearrangement in the AT-rich minisatellite of the novel rice transposable element Basho. Genome 45(3) 493-502
Mizuta Y, Harushima Y, Kurata N. (2010) Rice pollen hybrid incompatibility caused by reciprocal gene loss of duplicated genes. Proc Natl Acad Sci U S A 107(47) 20417-22
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M. (2011) Artificial selection for a green revolution gene during japonica rice domestication. Proc Natl Acad Sci U S A 108(27) 11034-9
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 T 1 contributes to flowering time divergence in rice. PLoS One 8(10) e75959
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W1238
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
3 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Xu JH, Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2007) Phylogenetic analysis of Oryza rufipogon strains and their relations to Oryza sativa strains by insertion polymorphism of rice SINEs. Genes Genet Syst 82(3) 217-29
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W0600
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
4 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
|
|
Rice:
|
W1087
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
4 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
|
|
Rice:
|
W2264
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
3 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Sugimoto K, Takeuchi Y, Ebana K, Miyao A, Hirochika H, Hara N, Ishiyama K, Kobayashi M, Ban Y, Hattori T, Yano M. (2010) Molecular cloning of Sdr4, a regulator involved in seed dormancy and domestication of rice. Proc Natl Acad Sci U S A 107(13) 5792-7
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M. (2011) Artificial selection for a green revolution gene during japonica rice domestication. Proc Natl Acad Sci U S A 108(27) 11034-9
|
|
Rice:
|
W0630
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
2 |
| Species : |
O. rufipogon |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
石川 亮 Ryo Ishikawa、杉山昇平 Shohei Sugiyama、
辻村雄紀 Yuki Tsujimura、沼口孝司 Koji Numaguchi、
クリスティーナ・コボ・カスティヨ Cristina Cobo Castillo、
石井尊生 Takashige Ishii。 () イネの栽培化関連形質の評価：
植物遺伝学と考古植物学との融和研究
Evaluation of the domesticationrelated
traits in rice:
plant genetics meets archaeobotany アフロ・ユーラシアの考古植物学 234-240
Inoue C, Htun TM, Inoue K, Ikeda K, Ishii T, Ishikawa R. (2015) Inhibition of abscission layer formation by an interaction of two seed-shattering loci, sh4 and qSH3, in rice. Genes Genet Syst 90(1) 1-9
Ryo Ishikawa, Cristina C. Castillo, Dorian Q. Fuller (2020) Genetic evaluation of domestication-related traits in rice: implications for the archaeobotany of rice origins Archaeological and Anthropological Sciences 12
Tsujimura Y, Sugiyama S, Otsuka K, Htun TM, Numaguchi K, Castillo C, Akagi T, Ishii T, Ishikawa R. (2019) Detection of a novel locus involved in non-seed-shattering behaviour of Japonica rice cultivar, Oryzasativa ''Nipponbare''. Theor Appl Genet 132(9) 2615-2623
Amarasinghe YPJ, Kuwata R, Nishimura A, Phan PDT, Ishikawa R, Ishii T. (2020) Evaluation of Domestication Loci Associated with Awnlessness in Cultivated Rice, Oryza sativa. Rice (N Y) 13(1) 26
Ishikawa R, Castillo CC, Htun TM, Numaguchi K, Inoue K, Oka Y, Ogasawara M, Sugiyama S, Takama N, Orn C, Inoue C, Nonomura KI, Allaby R, Fuller DQ, Ishii T. (2022) A stepwise route to domesticate rice by controlling seed shattering and panicle shape. Proc Natl Acad Sci U S A 119(26) e2121692119
Ishimaru K, Hirotsu N, Madoka Y, Murakami N, Hara N, Onodera H, Kashiwagi T, Ujiie K, Shimizu B, Onishi A, Miyagawa H, Katoh E. (2013) Loss of function of the IAA-glucose hydrolase gene TGW6 enhances rice grain weight and increases yield. Nat Genet 45(6) 707-11
Takahashi H, Sato YI, Nakamura I. (2008) Evolutionary analysis of two plastid DNA sequences in cultivated and wild species of Oryza Breed Sci. 58 225-233
Xu JH, Kurata N, Akimoto M, Ohtsubo H, Ohtsubo E. (2005) Identification and characterization of Australian wild rice strains of Oryza meridionalis and Oryza rufipogon by SINE insertion polymorphism. Genes Genet Syst 80(2) 129-34
Thanh PT, Phan PDT, Mori N, Ishikawa R, Ishii T. (2011) Development of backcross recombinant inbred lines between Oryza sativa Nipponbare and O. rufipogon and QTL detection on drought tolerance Breed Sci. 61 76-79
Miyashita NT, Yoshida K, Ishii T. (2005) DNA variation in the metallothionein genes in wild rice Oryza rufipogon: relationship between DNA sequence polymorphism, codon bias and gene expression. Genes Genet Syst 80(3) 173-83
Nagano H, Onishi K, Ogasawara M, Horiuchi Y, Sano Y. (2005) Genealogy of the "Green Revolution" gene in rice. Genes Genet Syst 80(5) 351-6
Suzaki T, Ohneda M, Toriba T, Yoshida A, Hirano HY. (2009) FON2 SPARE1 redundantly regulates floral meristem maintenance with FLORAL ORGAN NUMBER2 in rice. PLoS Genet 5(10) e1000693
Htun TM, Inoue C, Chhourn O, Ishii T, Ishikawa R. (2014) Effect of quantitative trait loci for seed shattering on abscission layer formation in Asian wild rice Oryza rufipogon. Breed Sci 64(3) 199-205
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Jacquemin J, Bhatia D, Singh K, Wing RA. (2013) The International Oryza Map Alignment Project: development of a genus-wide comparative genomics platform to help solve the 9 billion-people question. Curr Opin Plant Biol 16(2) 147-56
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Ikemoto M, Otsuka M, Thanh PT, Phan PDT, Ishikawa R, Ishii T. (2017) Gene interaction at seed-awning loci in the genetic background of wild rice. Genes Genet Syst 92(1) 21-26
Takagi K, Nagano H, Kishima Y, Sano Y (2003) MITE-transposon Display Efficiently Detects Polymorphisms among the Oryza AA-genome Species Breed Sci. 53 125-132
Huang X, Kurata N, Wei X, Wang ZX, Wang A, Zhao Q, Zhao Y, Liu K, Lu H, Li W, Guo Y, Lu Y, Zhou C, Fan D, Weng Q, Zhu C, Huang T, Zhang L, Wang Y, Feng L, Furuumi H, Kubo T, Miyabayashi T, Yuan X, Xu Q, Dong G, Zhan Q, Li C, Fujiyama A, Toyoda A, Lu T, Feng Q, Qian Q, Li J, Han B. (2012) A map of rice genome variation reveals the origin of cultivated rice. Nature 490(7421) 497-501
Xu JH, Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2007) Phylogenetic analysis of Oryza rufipogon strains and their relations to Oryza sativa strains by insertion polymorphism of rice SINEs. Genes Genet Syst 82(3) 217-29
Takata M, Kishima Y, Sano Y. (2005) DNA Methylation Polymorphisms in Rice and Wild Rice Strains: Detection of Epigenetic Markers Breed Sci. 55 57-63
Thanh PT, Phan PD, Ishikawa R, Ishii T. (2010) QTL analysis for flowering time using backcross population between Oryza sativa Nipponbare and O. rufipogon. Genes Genet Syst 85(4) 273-9
Ishikawa R, Thanh PT, Nimura N, Htun TM, Yamasaki M, Ishii T. (2010) Allelic interaction at seed-shattering loci in the genetic backgrounds of wild and cultivated rice species. Genes Genet Syst 85(4) 265-71
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Asano K, Yamasaki M, Takuno S, Miura K, Katagiri S, Ito T, Doi K, Wu J, Ebana K, Matsumoto T, Innan H, Kitano H, Ashikari M, Matsuoka M. (2011) Artificial selection for a green revolution gene during japonica rice domestication. Proc Natl Acad Sci U S A 108(27) 11034-9
Phan PD, Kageyama H, Ishikawa R, Ishii T. (2012) Estimation of the outcrossing rate for annual Asian wild rice under field conditions. Breed Sci 62(3) 256-62
Ishii T, Numaguchi K, Miura K, Yoshida K, Thanh PT, Htun TM, Yamasaki M, Komeda N, Matsumoto T, Terauchi R, Ishikawa R, Ashikari M. (2013) OsLG1 regulates a closed panicle trait in domesticated rice. Nat Genet 45(4) 462-5, 465e1-2
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 T 1 contributes to flowering time divergence in rice. PLoS One 8(10) e75959
Mitani-Ueno N, Ogai H, Yamaji N, Ma JF. (2014) Physiological and molecular characterization of Si uptake in wild rice species. Physiol Plant 151(3) 200-7
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
Ikemoto M, Ohyagi T, Thanh PT, Ishikawa R, Ishii T. (2016) Evaluation of shooting and rooting ability from nodes and ratooning ability using backcross recombinant inbred lines between Oryza rufipogon and O. sativa The Society of Crop Science and Breeding in Kinki, Japan 61号 13-17
Ishikawa R, Watabe T, Nishioka R, Thanh PT, Ishii T. (2017) Identification of Quantitative Trait Loci Controlling Floral Morphology of Rice Using a Backcross Population between Common Cultivated Rice, Oryza sativa and Asian Wild Rice, O. rufipogon Am J Plant Sci 8 734-744
Ishikawa R, Nishimura A, Htun TM, Nishioka R, Oka Y, Tsujimura Y, Inoue C, Ishii T. (2017) Estimation of loci involved in non-shattering of seeds in early rice domestication. Genetica 145(2) 201-207
Ishii T, Ishikawa R. () Domestication Loci Controlling Panicle Shape,
Seed Shattering, and Seed Awning Rice Genomics, Genetics and Breeding
|
|
Rice:
|
W0652
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
1 |
| Species : |
O. barthii |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Hayashi K, Kawahara Y, Maeda H, Hayano-Saito Y. (2022) Comparative analyses of <i>Stvb</i>-allelic genes reveal <i>japonica</i> specificity of rice stripe resistance in <i>Oryza sativa</i>. Breed Sci 72(5) 333-342
Yoshida Y, Nosaka-T M, Yoshikawa T, Sato Y. (2022) Measurements of Antibacterial Activity of Seed Crude Extracts in Cultivated Rice and Wild Oryza Species. Rice (N Y) 15(1) 63
Wu J, Fujisawa M, Tian Z, Yamagata H, Kamiya K, Shibata M, Hosokawa S, Ito Y, Hamada M, Katagiri S, Kurita K, Yamamoto M, Kikuta A, Machita K, Karasawa W, Kanamori H, Namiki N, Mizuno H, Ma J, Sasaki T, Matsumoto T. (2009) Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. Plant J 60(5) 805-19
Suzaki T, Ohneda M, Toriba T, Yoshida A, Hirano HY. (2009) FON2 SPARE1 redundantly regulates floral meristem maintenance with FLORAL ORGAN NUMBER2 in rice. PLoS Genet 5(10) e1000693
Ishikawa R, Ohnishi T, Kinoshita Y, Eiguchi M, Kurata N, Kinoshita T. (2011) Rice interspecies hybrids show precocious or delayed developmental transitions in the endosperm without change to the rate of syncytial nuclear division. Plant J 65(5) 798-806
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Karki S, Tsukiyama T, Okumoto Y, Rizal G, Naito K, Teraishi M, Nakazaki T, Tanisaka T. (2009) Analysis of distribution and proliferation of mPing family transposons in a wild rice (Oryza rufipogon Griff.). Breed Sci. 59 297-307
Tsuchiya T, Nakamura I (2004) Disruption of GSTZ1 Gene by Large Genetic Alteration in Oryza glaberrima Breed Sci. 54 67-73
Wu Y, Zhao S, Li X, Zhang B, Jiang L, Tang Y, Zhao J, Ma X, Cai H, Sun C, Tan L. (2018) Deletions linked to PROG1 gene participate in plant architecture domestication in Asian and African rice. Nat Commun 9(1) 4157
Nishikawa T, Vaughan DA, Kadowaki K. (2005) Phylogenetic analysis of Oryza species, based on simple sequence repeats and their flanking nucleotide sequences from the mitochondrial and chloroplast genomes. Theor Appl Genet 110(4) 696-705
Kumagai M, Wang L, Ueda S. (2010) Genetic diversity and evolutionary relationships in genus Oryza revealed by using highly variable regions of chloroplast DNA. Gene 462(1-2) 44-51
Fujino K, Wu J, Sekiguchi H, Ito T, Izawa T, Matsumoto T. (2010) Multiple introgression events surrounding the Hd1 flowering-time gene in cultivated rice, Oryza sativa L. Mol Genet Genomics 284(2) 137-46
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W0698
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
2 |
| Species : |
O. barthii |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Kariya K, Ube N, Ueno M, Teraishi M, Okumoto Y, Mori N, Ueno K, Ishihara A. (2020) Natural variation of diterpenoid phytoalexins in cultivated and wild rice species. Phytochemistry 180 112518
Wu J, Fujisawa M, Tian Z, Yamagata H, Kamiya K, Shibata M, Hosokawa S, Ito Y, Hamada M, Katagiri S, Kurita K, Yamamoto M, Kikuta A, Machita K, Karasawa W, Kanamori H, Namiki N, Mizuno H, Ma J, Sasaki T, Matsumoto T. (2009) Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. Plant J 60(5) 805-19
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Wu Y, Zhao S, Li X, Zhang B, Jiang L, Tang Y, Zhao J, Ma X, Cai H, Sun C, Tan L. (2018) Deletions linked to PROG1 gene participate in plant architecture domestication in Asian and African rice. Nat Commun 9(1) 4157
Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2002) Evolutionary relationships among rice species with AA genome based on SINE insertion analysis. Genes Genet Syst 77(5) 323-34
Miyabayashi, T., Nonomura, K.I., Morishima, H., Kurata N. (2007) Genome size of twenty wild Oryza Species determined by flow cytometric and chromosome analyses. Breed Sci. 57 73-78
Xu JH, Osawa I, Tsuchimoto S, Ohtsubo E, Ohtsubo H. (2005) Two new SINE elements, p-SINE2 and p-SINE3, from rice. Genes Genet Syst 80(3) 161-71
Mizuta Y, Harushima Y, Kurata N. (2010) Rice pollen hybrid incompatibility caused by reciprocal gene loss of duplicated genes. Proc Natl Acad Sci U S A 107(47) 20417-22
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W1187
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
2 |
| Species : |
O. glumaepatula |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Parthiban Thathapalli Prakash, Dmytro Chebotarov, Jianwei Zhang, David A Kudrna, Rolando O Torres, Mignon A Natividad, Marinell R Quintana, Jiaming Song, Carlos E Maldonado, Sherry Lou Hechanova, Kshirod Jena, Rod A Wing, Amelia Henry (2023) <i>Oryza glumaepatula</i>: A wild relative to improve drought tolerance in cultivated rice Plant Physiology 193 2381-2397
Takahashi H, Sato YI, Nakamura I. (2008) Evolutionary analysis of two plastid DNA sequences in cultivated and wild species of Oryza Breed Sci. 58 225-233
Nagano H, Onishi K, Ogasawara M, Horiuchi Y, Sano Y. (2005) Genealogy of the "Green Revolution" gene in rice. Genes Genet Syst 80(5) 351-6
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2002) Evolutionary relationships among rice species with AA genome based on SINE insertion analysis. Genes Genet Syst 77(5) 323-34
Saitoh K, Onishi K, Mikami I, Thidar K, Sano Y. (2004) Allelic diversification at the C (OsC1) locus of wild and cultivated rice: nucleotide changes associated with phenotypes. Genetics 168(2) 997-1007
Mizuta Y, Harushima Y, Kurata N. (2010) Rice pollen hybrid incompatibility caused by reciprocal gene loss of duplicated genes. Proc Natl Acad Sci U S A 107(47) 20417-22
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W1508
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
1 |
| Species : |
O. longistaminata |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Niihama M, Mochizuki M, Kurata N, Nonomura K. (2015) PCR-based INDEL markers co-dominant between Oryza sativa, japonica cultivars and closely-related wild Oryza species. Breed Sci 65(4) 357-61
Suzaki T, Ohneda M, Toriba T, Yoshida A, Hirano HY. (2009) FON2 SPARE1 redundantly regulates floral meristem maintenance with FLORAL ORGAN NUMBER2 in rice. PLoS Genet 5(10) e1000693
Ishikawa R, Ohnishi T, Kinoshita Y, Eiguchi M, Kurata N, Kinoshita T. (2011) Rice interspecies hybrids show precocious or delayed developmental transitions in the endosperm without change to the rate of syncytial nuclear division. Plant J 65(5) 798-806
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Ogami T, Yasui H, Yoshimura A, Yamagata Y. (2019) Identification of Anther Length QTL and Construction of Chromosome Segment Substitution Lines of <i>Oryza longistaminata</i>. Plants (Basel) 8(10)
Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2002) Evolutionary relationships among rice species with AA genome based on SINE insertion analysis. Genes Genet Syst 77(5) 323-34
Miyabayashi, T., Nonomura, K.I., Morishima, H., Kurata N. (2007) Genome size of twenty wild Oryza Species determined by flow cytometric and chromosome analyses. Breed Sci. 57 73-78
Xu JH, Osawa I, Tsuchimoto S, Ohtsubo E, Ohtsubo H. (2005) Two new SINE elements, p-SINE2 and p-SINE3, from rice. Genes Genet Syst 80(3) 161-71
Tsuchimoto S, Hirao Y, Ohtsubo E, Ohtsubo H. (2008) New SINE families from rice, OsSN, with poly(A) at the 3'' ends. Genes Genet Syst 83(3) 227-36
Mizuta Y, Harushima Y, Kurata N. (2010) Rice pollen hybrid incompatibility caused by reciprocal gene loss of duplicated genes. Proc Natl Acad Sci U S A 107(47) 20417-22
Yamaki S, Miyabayashi T, Eiguchi M, Kitano H, Nonomura K.I., Kurata N. (2010) Diversity of panicle branching patterns in wild relatives of rice. Breed Sci. 60(5) 586-596
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
|
|
Rice:
|
W1540
|
Available
|
National Institute of GENETICS
|
Category: Wild
| Core collection rank : |
2 |
| Species : |
O. longistaminata |
| Genome : |
AA |
| Taxonomy : |
Oryza
|
| Reference : |
Wu J, Fujisawa M, Tian Z, Yamagata H, Kamiya K, Shibata M, Hosokawa S, Ito Y, Hamada M, Katagiri S, Kurita K, Yamamoto M, Kikuta A, Machita K, Karasawa W, Kanamori H, Namiki N, Mizuno H, Ma J, Sasaki T, Matsumoto T. (2009) Comparative analysis of complete orthologous centromeres from two subspecies of rice reveals rapid variation of centromere organization and structure. Plant J 60(5) 805-19
Yamaki S, Ohyanagi H, Yamasaki M, Eiguchi M, Miyabayashi T, Kubo T, Kurata N, Nonomura K. (2013) Development of INDEL markers to discriminate all genome types rapidly in the genus Oryza. Breed Sci 63(3) 246-54
Kubo T, Takashi T, Ashikari M, Yoshimura A, Kurata N. (2016) Two Tightly Linked Genes at the hsa1 Locus Cause Both F1 and F2 Hybrid Sterility in Rice. Mol Plant 9(2) 221-232
Cheng C, Tsuchimoto S, Ohtsubo H, Ohtsubo E. (2002) Evolutionary relationships among rice species with AA genome based on SINE insertion analysis. Genes Genet Syst 77(5) 323-34
Xu JH, Osawa I, Tsuchimoto S, Ohtsubo E, Ohtsubo H. (2005) Two new SINE elements, p-SINE2 and p-SINE3, from rice. Genes Genet Syst 80(3) 161-71
Mizuta Y, Harushima Y, Kurata N. (2010) Rice pollen hybrid incompatibility caused by reciprocal gene loss of duplicated genes. Proc Natl Acad Sci U S A 107(47) 20417-22
Yin H, Akimoto M, Kaewcheenchai R, Sotowa M, Ishii T, Ishikawa R. (2015) Inconsistent diversities between nuclear and plastid genomes of AA genome species in the genus Oryza. Genes Genet Syst 90(5) 269-81
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