Saccharum spontaneum AP85-441

AP85-441 is a S. spontaneum tetraploid (2n=4x=32, x=8) obtained from an anther culture of the octoploid (2n=8X=64) SES208 accession (Moore et al., 1989).

SES208 was collected in India, Sevoke West Bengal (Pange & Babu 1959).

The assembly was performed using BAC pools sequenced with Illumina HiSeq 2500 and whole-genome shotgun sequencing with PacBio RS II as well as Hi-C reads, followed by Illumina short reads polishing. The assembly represent a total of 3.1 Gb from which 2.9Gb are assembled in 32 pseudo-chromosomes organized in 8 homologous groups comprising each 4 homologous chromosomes.

A total of 35,525 protein-coding genes models were annotated with alleles defined.

Reference :  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. . Nature genetics. 2018 Nov; 50(11):1565-1573. doi: 10.1038/s41588-018-0237-2