Acyrthosiphon pisum Assembly and Gene Annotation
About Acyrthosiphon pisum
Aphids are common agricultural pests that feed on sap from the phloem vessels of a wide range of host plants. The pea aphid Acyrthosiphon pisum has co-evolved with an obligate bacterial symbiont (Buchnera aphidicola), which provides essential amino acids that are rare in phloem and would otherwise be missing from the aphids' diet. The co-evolution of the aphid and Buchnera has led to extensive gene loss from the genome, including immunity related pathways, purine salvage and the urea cycle. At the same time over 2000 gene families are duplicated, including miRNA synthesis and sugar transport.
Picture credit (Creative Commons BY 2.5): Shipher Wu (photograph) and Gee-way Lin (aphid provision), National Taiwan University 2010
The A. pisum genome was sequenced by the Baylor College of Medicine as part of the International Aphid Genomics Consortium. The 464 Mb draft genome and annotations were published in February 2010 . Ensembl Metazoa uses version 2.1 of the assembly.
Genes were annotated with EST-based approaches and the NCBI Gnomon pipeline, and combined using GLEAN. These gene models have been refined by manual annotation, and Ensembl Metazoa uses version 2.1b of the offical gene set, imported from AphidBase .
BLAST hits, protein features, and cross-references have been computed by Ensembl Metazoa.
- Genome sequence of the pea aphid Acyrthosiphon pisum.
The International Aphid Genomics Consortium. 2010. PLoS Biology. 8:e1000313.
- AphidBase: a centralized bioinformatic resource for annotation of the pea aphid genome.
Legeai F, Shigenobu S, Gauthier JP, Colbourne J, Rispe C, Collin O, Richards S, Wilson AC, Murphy T, Tagu D. 2010. Insect Molecular Biology. 19 Suppl 2:5-12.
General information about this species can be found in Wikipedia.
|Assembly||Acyr_2.0, INSDC Assembly GCA_000142985.2, Jun 2010|
|Golden Path Length||541,675,471|
|Non coding genes||583|
|Small non coding genes||579|
|Long non coding genes||4|