R570 Sugarcane cultivar

Overview
GenusSaccharum
SpeciesS. officinarum X S. spontaneum derived hybrid
Common NameR570 (sugarcane cultivar)
AbbreviationSh (Saccharum hybrid)

R570 is a modern sugarcane cultivar. Modern sugarcane cultivars are derived from a few interspecific hybridizations performed a century ago between the sugar rich domesticated species Saccharum officinarum (2n=8x=80) and the wild species Saccharum spontaneum (2n=40 to 128). R570 cultivar was obtained by CERF (now eRcane) in Réunion island (http://www.ercane.re/). The genome of this cultivar has about 115 chromosomes, including 10% of whole chromosomes derived from S. spontaneum, 10% from S. officinarum/S. spontaneum recombinant chromosomes, with the remaining being whole chromosomes from S. officinarum (D'HONT et al. 1996). Modern sugarcane cultivars have a total genome size of about 10 Gb while the monoploid genome size is about 800-900 Mb. The monoploid reference genome sequence was obtained by sequencing a mimimum tiling path (MTP) of 4660 BACs selected based on their alignment on the sorghum genome. The overlapping regions between BAC sequences were then trimmed to construct a single tiling path (STP) that is single copy in sugarcane. This strategy was deployed to overcome assembly difficulties linked to the high ploidy, aneuploidy and heterozygosity of sugarcane cultivars.

This sugarcane reference genome was obtained in the framework of an international collaboration coordinated by Cirad (Centre de Coopération Internationale en Recherche Agronomique pour le Développement) and involving JGI (Joint Genome Institute), Keygene, QAAFI (Queensland Alliance for Agriculture and Food Innovation), CSIRO (Commonwealth Scientific and Industrial Research Organisation), SASRI (South African Sugarcane Research Institute), USP (Universidade de Sao Paulo,) and financially supported by the International Consortium for Sugarcane Biotechnology (ICSB) and the Joint BioEnergy Institute (JBEI). 

Schematic representation of the genome of a typical modern sugarcane cultivar:
Each bar represents a chromosome, in orange or red when originating from S. officinarum or S. spontaneum, respectively. Chromosomes aligned on the same row are hom(oe)ologous chromosomes (HG).
The key characteristics of this genome are the high polyploidy, aneuploidy, bi-specific origin of the chromosomes, the existence of structural differences between chromosomes of the two origins and the presence of interspecific chromosome recombinants.

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Feature NameUnique NameType
Sh_001C11_p000070Sh_001C11_p000070polypeptide
Sh_001D16_p000010Sh_001D16_p000010polypeptide
Sh_001D16_p000020Sh_001D16_p000020polypeptide
Sh_001D16_p000030Sh_001D16_p000030polypeptide
Sh_001D16_p000040Sh_001D16_p000040polypeptide
Sh_001D16_p000050Sh_001D16_p000050polypeptide
Sh_001D16_p000060Sh_001D16_p000060polypeptide
Sh_001D16_p000070Sh_001D16_p000070polypeptide
Sh_001E11_p000010Sh_001E11_p000010polypeptide
Sh_001E11_p000020Sh_001E11_p000020polypeptide
Sh_001E11_p000030Sh_001E11_p000030polypeptide
Sh_001E11_p000040Sh_001E11_p000040polypeptide
Sh_001E11_p000050Sh_001E11_p000050polypeptide
Sh_001E11_p000060Sh_001E11_p000060polypeptide
Sh_001E11_p000070Sh_001E11_p000070polypeptide
Sh_001E11_p000080Sh_001E11_p000080polypeptide
Sh_001E11_p000090Sh_001E11_p000090polypeptide
Sh_001E11_p000100Sh_001E11_p000100polypeptide
Sh_001E11_p000110Sh_001E11_p000110polypeptide
Sh_001F16_contig-1_p000010Sh_001F16_contig-1_p000010polypeptide
Sh_001F16_contig-1_p000020Sh_001F16_contig-1_p000020polypeptide
Sh_001F16_contig-1_p000030Sh_001F16_contig-1_p000030polypeptide
Sh_001F16_contig-1_p000040Sh_001F16_contig-1_p000040polypeptide
Sh_001F16_contig-2_p000010Sh_001F16_contig-2_p000010polypeptide
Sh_001F16_contig-2_p000020Sh_001F16_contig-2_p000020polypeptide

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