Acyrthosiphon pisum (AL4f) (pea_aphid_22Mar2018_4r6ur)

Acyrthosiphon pisum (AL4f) 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 [1,2].

Picture credit (Creative Commons BY 2.5): Shipher Wu (photograph) and Gee-way Lin (aphid provision), National Taiwan University 2010

Assembly

The assembly presented is the pea_aphid_22Mar2018_4r6ur assembly[3] submitted to INSDC with the assembly accession GCA_005508785.1 .

Annotation

Ensembl Metazoa displays the genes from NCBI Acyrthosiphon pisum Annotation Release 103. Small RNA features, protein features and cross-references have been annotated by Ensembl Metazoa.

References

  1. Genome sequence of the pea aphid Acyrthosiphon pisum.
    The International Aphid Genomics Consortium. 2010. PLoS Biology. 8:e1000313.
  2. 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.

    AphidBase

  3. Gene Family Evolution in the Pea Aphid Based on Chromosome-Level Genome Assembly.
    Li Y, Park H, Smith TE, Moran NA. Molecular Biology and Evolution. 2019 Oct; 36(10):2143-2156. DOI: 10.1093/molbev/msz138.

Statistics

Summary

Assemblypea_aphid_22Mar2018_4r6ur, INSDC Assembly GCA_005508785.1,
Database version107.3
Golden Path Length541,137,574
Genebuild byNCBI
Genebuild methodImport
Data sourceDepartment of Integrative Biology, The University of Texas at Austin

Gene counts

Coding genes18,277
Non coding genes2,351
Small non coding genes706
Long non coding genes1,630
Misc non coding genes15
Pseudogenes300
Gene transcripts32,445