Beta vulgaris subsp. vulgaris Assembly and Gene Annotation

About Beta vulgaris

Sugar beet (Beta vulgaris ssp. vulgaris) is an important crop of temperate climates providing nearly 30% of the world's annual sugar production and a source for bioethanol and animal feed. The species belongs to the order of Caryophylalles, is diploid with 2n=18 chromosomes, has an estimated genome size of 714-758 Mbp and shares an ancient genome triplication with other eudicot plants. Leafy beets have been cultivated since Roman times, but sugar beet is one of the most recently domesticated crops [1].

Assembly

The double haploid sugar beet line KWS2320 was sequenced using the Roche/454, Illumina and Sanger sequencing platforms. The initial assembly was integrated with genome-wide genetic and physical map information, resulting in 225 genetically anchored scaffolds (394.6 Mb), assigned to nine chromosomes. The final assembly comprised 566.6 Mbp in 2,171 scaffolds and 38,337 unscaffolded contigs. The N50 size was 2.01 Mb (the 72nd scaffold) and the chromosomally assigned fraction 84.7%. A total of 94% of the publicly available isogenic expressed sequence tags (ESTs) were located in the assembly, suggesting that gene-containing regions are comprehensively covered [1]

A total of 27,421 protein-coding genes supported by mRNA evidence were predicted; 91% included start and stop codons [1].

References

  1. The genome of the recently domesticated crop plant sugar beet (Beta vulgaris).
    Dohm JC, Minoche AE, Holtgrwe D, Capella-Gutirrez S, Zakrzewski F, Tafer H, Rupp O, Srensen TR, Stracke R, Reinhardt R et al. 2014. Nature. 505:546-549.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

AssemblyRefBeet-1.2.2, INSDC Assembly GCA_000511025.2, Jul 2015
Database version90.2
Base Pairs517,420,803
Golden Path Length566,181,630
Genebuild byEnsemblPlants
Genebuild methodGenerated from ENA annotation
Data sourceEuropean Nucleotide Archive

Gene counts

Coding genes26,521
Non coding genes1,510
Small non coding genes1,466
Long non coding genes44
Gene transcripts30,231

About this species