Arabidopsis lyrata Assembly and Gene Annotation

About Arabidopsis lyrata

Arabidopsis lyrata is a small perennial outcrossing brassica that is distributed within Eastern Asia, Europe and Northwestern America. A close relative of the dicot model, Arabidopsis thaliana, Arabidopsis lyrata has a genome size that is 1.5x larger with a haploid chromosome number of 8.

Assembly

The genome was assembled by the Stanford Human Genome Center with assistance from the A. lyrata community. Sequencing followed a whole genome shotgun strategy and achieved an average genome coverage of 8x. The 206.7 Mbp Araly1 assembly contains 695 nuclear scaffolds.

Annotation

The genome was annotated by the U.S. Department of Energy Joint Genome Institute (JGI) using collaborator-submitted data, custom JGI analyses, and the automated JGI Annotation Pipeline and is predicted to have approximately 32,670 genes.

Links

References

  1. The Arabidopsis lyrata genome sequence and the basis of rapid genome size change.
    Hu TT, Pattyn P, Bakker EG, Cao J, Cheng JF, Clark RM, Fahlgren N, Fawcett JA, Grimwood J, Gundlach H et al. 2011. Nat. Genet.. 43:476-481.

More information

General information about this species can be found in Wikipedia.

Statistics

Summary

Assemblyv.1.0, INSDC Assembly GCA_000004255.1, Dec 2008
Database version90.10
Base Pairs206,667,935
Golden Path Length206,667,935
Genebuild byJGI
Genebuild methodImported from JGI-Phytozome
Data sourceJGI

Gene counts

Coding genes32,667
Non coding genes834
Small non coding genes818
Long non coding genes16
Gene transcripts33,501

Other

FGENESH gene prediction30,044

About this species