Description

Saccharum spontaneum (wild sugarcane, kans grass) is a grass native throughout much of tropical and subtropical Asia, northern Australia, and eastern and northern Africa. It is a perennial grass, growing up to three meters in height, with spreading rhizomatous roots. The plant has hybridized with Saccharum officinarum, a domesticated sugarcane. The hybridization has produced Saccharum barberi and Saccharum sinense.

Whole Genomes

Whole Genome Sequences & Annotations for Saccharum spontaneum

• Saccharum spontaneum Np-X

S genes

Saccharum spontaneum Np-X S genes

Query	Chromosome	Size(bp)	Coordinates	tBLASTn Hit	tBLASTn %ID	Domain
DUF247I-S1	Chr10A	62086223	36843964-36845649	Shybrid	70	DUF247
DUF247I-S2	Chr10B	62776581	35239746-35241422	Shybrid	67	DUF247
DUF247I-S3	Chr10C	59107536	35474463-35476151	Shybrid	66	DUF247
DUF247I-S4	Chr10C	59107536	35391752-35393440	Shybrid	66	DUF247
DUF247I-S5	Chr10D	59917352	33271657-33273345	Shybrid	71	DUF247
DUF247II-S1	Chr10A	62086223	36638159-36639805	Shybrid	64	DUF247
DUF247II-S2	Chr10B	62776581	34555297-34556922	Shybrid	60	DUF247
DUF247II-S3	Chr10C	59107536	34185050-34186663	Shybrid	61	DUF247
DUF247II-S4	Chr10D	59917352	32758250-32759872	Shybrid	61	DUF247
HPS10-S1	Chr10A	62086223	36642060-36642163, 36642249-36642414	ShybridS1	73	-
HPS10-S2	Chr10B	62776581	34559513-34559619, 34559697-34559859	ShybridS1	58	-
HPS10-S3	Chr10C	59107536	34188680-34188842, 34188964-34189073	ShybridS1	54	-
HPS10-S4	Chr10C	59107536	34213383-34213492, 34213614-34213776	ShybridS1	54	-
HPS10-S5	Chr10D	59917352	33844600-33844759, 33844908-33845020	ShybridS1	67	-
DUF247I-Z1	Chr6A	57781833	51728058-51729647	Shybrid	62	DUF247
DUF247I-Z2	Chr6B	59431965	50372017-50373600	Shybrid	62	DUF247
DUF247I-Z3	Chr6C	64971179	58793187-58794812	Shybrid	58	DUF247
DUF247I-Z4	Chr6D	60951635	55855053-55856756	Shybrid	61	DUF247
DUF247II-Z1	Chr6A	57781833	51776753-51778411	Shybrid	50	DUF247
DUF247II-Z2	Chr6B	59431965	50248865-50250505	Shybrid	53	DUF247
DUF247II-Z3	Chr6C	64971179	58806801-58808447	Shybrid	49	DUF247
DUF247II-Z4	Chr6D	60951635	55869760-55871466	Shybrid	50	DUF247
HPS10-Z1	Chr6A	57781833	51764237-51764393, 51764465-51764574	ShybridZ5	42	-
HPS10-Z2	Chr6B	59431965	50259004-50259110, 50259208-50259367	ShybridZ6	56	-
HPS10-Z3	Chr6C	64971179	58804978-58805146, 58805242-58805354	Scereale	64	-
HPS10-Z4	Chr6D	60951635	55868527-55868680, 55868792-55868880	ShybridZ5	35	-

Downloads

The Saccharum spontaneum S gene sequences are available in FASTA format.

CDS and Protein (FASTA file)

S-gene_Saccharum_spontaneum

Publications

Zhang Q, Qi Y, Pan H, Tang H, Wang G, Hua X, Wang Y, Lin L, Li Z, Li Y, Yu F, Yu Z, Huang Y, Wang T, Ma P, Dou M, Sun Z, Wang Y, Wang H, Zhang X, Yao W, Wang Y, Liu X, Wang M, Wang J, Deng Z, Xu J, Yang Q, Liu Z, Chen B, Zhang M, Ming R, Zhang J. Genomic insights into the recent chromosome reduction of autopolyploid sugarcane Saccharum spontaneum. Nat Genet. 2022 Jun;54(6):885-896. doi: 10.1038/s41588-022-01084-1.

Zhang J, Zhang X, Tang H, Zhang Q, Hua X, Ma X, Zhu F, Jones T, Zhu X, Bowers J, Wai CM, Zheng C, Shi Y, Chen S, Xu X, Yue J, Nelson DR, Huang L, Li Z, Xu H, Zhou D, Wang Y, Hu W, Lin J, Deng Y, Pandey N, Mancini M, Zerpa D, Nguyen JK, Wang L, Yu L, Xin Y, Ge L, Arro J, Han JO, Chakrabarty S, Pushko M, Zhang W, Ma Y, Ma P, Lv M, Chen F, Zheng G, Xu J, Yang Z, Deng F, Chen X, Liao Z, Zhang X, Lin Z, Lin H, Yan H, Kuang Z, Zhong W, Liang P, Wang G, Yuan Y, Shi J, Hou J, Lin J, Jin J, Cao P, Shen Q, Jiang Q, Zhou P, Ma Y, Zhang X, Xu R, Liu J, Zhou Y, Jia H, Ma Q, Qi R, Zhang Z, Fang J, Fang H, Song J, Wang M, Dong G, Wang G, Chen Z, Ma T, Liu H, Dhungana SR, Huss SE, Yang X, Sharma A, Trujillo JH, Martinez MC, Hudson M, Riascos JJ, Schuler M, Chen LQ, Braun DM, Li L, Yu Q, Wang J, Wang K, Schatz MC, Heckerman D, Van Sluys MA, Souza GM, Moore PH, Sankoff D, VanBuren R, Paterson AH, Nagai C, Ming R. Allele-defined genome of the autopolyploid sugarcane Saccharum spontaneum L. Nat Genet. 2018 Nov;50(11):1565-1573. doi: 10.1038/s41588-018-0237-2.