Vigna angularis Assembly and Gene Annotation

About Vigna angularis

Vigna angularis (adzuki bean) is an annual legume crop, widely grown throughout East Asia and the Himalayas for food. It is widely used as an ingredient for traditional dessert cuisines due to its sweet taste, as well as its nutritious protein and starch contents. It is a diploid (2n = 2x = 22) with an estimated genome size of 538 Mb.

Assembly

This assembly comes from the Beijing University of Agriculture. Paired-end (180 bp) and mate-pair (5 and 10 kb) libraries were prepared using 100 bp short reads (Illumina HiSeq 2000) and were combined with a single unpaired library of average read length of 458 bp (Roche GS-FLX+) for a total physical coverage of 291x. The assembly produced 3,883 scaffolds with N50 length of 703 kb, covering 75% of the estimated genome size. Scaffolds were assembled into pseudo-molecules using synteny and genetic mapping of a population of 133 F4 lines (814 SNPs in 11 linkage groups).

Annotation

Gene prediction using the MAKER pipeline revealed 26,857 high confidence protein-coding genes using RNA-seq of flower, pod, leaf, and root tissues. In total, 86% of the 248 core eukaryotic genes in CEGMA pipeline were matched to the genome assembly.

Repeated sequences were called with the Repeat Detector, which is part of the Ensembl Genomes repeat feature pipelines. Repeats length: 179149622 - Repeats content: 38.4%

References

1. Draft genome sequence of adzuki bean, Vigna angularis.
   Kang YJ, Satyawan D, Shim S, Lee T, Lee J, Hwang WJ, Kim SK, Lestari P, Laosatit K, Kim KH et al. 2015. Sci Rep. :8069.

Picture credit: By Sanjay Acharya [CC BY-SA 3.0 (https://creativecommons.org/licenses/by-sa/3.0) or GFDL (http://www.gnu.org/copyleft/fdl.html)], from Wikimedia Commons

More information

General information about this species can be found in Wikipedia.