Description

Oryza rufipogon is a species of flowering plant in the family Poaceae. It is known as brownbeard rice, wild rice, and red rice. It is native to East-, Southeast- and South- Asia. It has a close evolutionary relation to Oryza sativa, the plant grown as a major rice food crop throughout the world. Both have an AA genome.

Whole Genomes

Whole Genome Sequences & Annotations for Oryza rufipogon

• Oryza rufipogon ASM81722v2

S genes

Oryza rufipogon ASM81722v2 S genes

Query	Scaffold	Size(bp)	Coordinates	tBLASTn Hit	tBLASTn %ID	Domain
DUF247I-SΨ	HG417169.1	26652778	5391548-5391697	LpSDUF247-I_chromosome1	67	DUF247
DUF247II-S	HG417169.1	26652778	5378027-5379688	LpSDUF247-II_chromosome1	68	DUF247
HPS10-S	HG417169.1	26652778	5381623-5381725, 5381828-5381964	LpsS_contig11029	37	-
DUF247I-ZΨ	HG417168.1	30521686	28078371-28078724	Olongistaminata	62	DUF247
DUF247II-Z	HG417168.1	30521686	28084831-28086447	AlongiglumisDUF247II-Z	75	DUF247
HPS10-Z	HG417168.1	30521686	28083282-28083379, 28083509-28083629	Osativa	64	-

Downloads

The Oryza rufipogon S gene sequences are available in FASTA format.

CDS and Protein (FASTA file)

S-gene_Oryza_rufipogon

Publications

Stein JC, Yu Y, Copetti D, Zwickl DJ, Zhang L, Zhang C, Chougule K, Gao D, Iwata A, Goicoechea JL, Wei S, Wang J, Liao Y, Wang M, Jacquemin J, Becker C, Kudrna D, Zhang J, Londono CEM, Song X, Lee S, Sanchez P, Zuccolo A, Ammiraju JSS, Talag J, Danowitz A, Rivera LF, Gschwend AR, Noutsos C, Wu CC, Kao SM, Zeng JW, Wei FJ, Zhao Q, Feng Q, El Baidouri M, Carpentier MC, Lasserre E, Cooke R, Rosa Farias DD, da Maia LC, Dos Santos RS, Nyberg KG, McNally KL, Mauleon R, Alexandrov N, Schmutz J, Flowers D, Fan C, Weigel D, Jena KK, Wicker T, Chen M, Han B, Henry R, Hsing YC, Kurata N, de Oliveira AC, Panaud O, Jackson SA, Machado CA, Sanderson MJ, Long M, Ware D, Wing RA. Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza. Nat Genet. 2018 Feb;50(2):285-296. doi: 10.1038/s41588-018-0040-0.

Li W, Zhang QJ, Zhu T, Tong Y, Li K, Shi C, Zhang Y, Liu YL, Jiang JJ, Liu Y, Xia EH, Huang H, Zhang LP, Zhang D, Shi C, Jiang WK, Zhao YJ, Mao SY, Jiao JY, Xu PZ, Yang LL, Gao LZ. Draft genomes of two outcrossing wild rice, Oryza rufipogon and O. longistaminata, reveal genomic features associated with mating-system evolution. Plant Direct. 2020 Jun 11;4(6):e00232. doi: 10.1002/pld3.232.

Xie X, Du H, Tang H, Tang J, Tan X, Liu W, Li T, Lin Z, Liang C, Liu YG. A chromosome-level genome assembly of the wild rice Oryza rufipogon facilitates tracing the origins of Asian cultivated rice. Sci China Life Sci. 2021 Feb;64(2):282-293. doi: 10.1007/s11427-020-1738-x.