A view of transcriptome during cold stress in sugarcane using Saccharum spontaneum genome

Transcriptomic data of two sugarcane cultivars ‘ROC22’ and ‘GT08-1108’ were investigated for the expression analysis cold responsive genes. The raw RNA Seq downloaded from SRA NCBI database reanalyzed mapped by using Saccharum spontaneum genome. In reference genome, 83826 unigenes annotated and, among these, 46,159 (55%) functionally with Gene Ontology (GO) categories. transcriptome-based analysis, 183,515 assembled 110,021 (60%) GO For cultivar GT08-1108, genome pipeline, 11,652 (13.9%) differentially expressed (7,238 upregulated; 4,414 downregulated), while 16,145 (8.8%) (8,965 7,180 downregulated) pipeline. ROC22, 11,516 (13.7%) genes (7,174 4,342 20,317 (11.1%) (10,898 9,419 respectively. analyses, downregulated genes, 3,248 coincident between cultivars, remaining 1,166 only in ‘GT-1180’ 1,094 ‘ROC22’. With transcriptome assembly, 13,113 deferentially both 3,032 unique to 7,204 We concluded that response stress expresses many although assembly overestimated number consequently, a higher This may be due difficulties separating homeologues paralogue When is available, we recommend its use since predicted on tend more accurate.