Study : Genome sequencing and assembly of sugarcane cultivar SP80-3280


Genome sequencing and assembly of sugarcane cultivar SP80-3280
The combination of polyploidy and hybridity is essential to many crops, exemplified by sugarcane cultivars with 10-13 sets of chromosomes from two Saccharum species. Here, the sequence of the hybrid commercial cultivar SP80-3280, based on Illumina Synthetic Long-Reads, and an assembly that resolved alleles, revealed 373,869 putative genes. Alignment with sorghum single copy genes indicates sugarcane CDS have 1 to 15 copies, mostly 4-6 (putative alleles). Dissimilarities among allele sequences increase from the coding region to the promoter region, often associated with tissue-specific expression. Sucrose synthase and phenylalanine ammonia-lyase which represent two key gene families central to carbon partitioning between sucrose and lignin/fiber content, reveal differences in putative promoter elements, tissue and species-specific expression. Similarity between sugarcane and sorghum genomes may be reconciled with phenotypic differences between the organisms by 1,334 SNVs in 585 unique single copy genes that potentially disrupt gene function. The availability of a sugarcane polyploid genome assembly may expedite its application to narrow the gap between current and theoretical potential yields, and further improve its contribution to mitigate climate change.


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