Tribolium castaneum Assembly and Gene Annotation

About Tribolium castaneum

The red flour beetle, Tribolium castaneum, is a common pest of stored agricultural products, and is also a genetic model for the Coleoptera. Tribolium castaneum can be found where grains or other dried foods are stored and has evolved a kidney-like organ to survive in such dry environments. It has demonstrated resistance to all classes of insecticides.

Picture credit (Creative Commons BY-SA 3.0): Wikimedia Commons 2007

Assembly

The latest genome assembly, Tcas 5.2 [2], improves the original 7x Sanger draft [1] with additional NGS data. 90% of the assembled sequence has been mapped to linkage groups.

Annotation

Ensembl Metazoa displays the OGS v3 gene set.

References

  1. The genome of the model beetle and pest Tribolium castaneum.
    Tribolium Genome Sequencing Consortium et al.. 2008. Nature. 452:949-955.
  2. Tools and pipelines for BioNano data: molecule assembly pipeline and FASTA super scaffolding tool.
    Shelton JM, Coleman MC, Herndon N, Lu N, Lam ET, Anantharaman T, Sheth P, Brown SJ. 2015. BMC Genomics. 16:734.
  3. The i5k Workspace@NAL - enabling genomic data access, visualization and curation of arthropod genomes.
    Poelchau M, Childers C, Moore G, Tsavatapalli V, Evans J, Lee CY, Lin H, Lin JW, Hackett K. 2015. Nucleic Acids Research. 43:D714-9.

Statistics

Summary

AssemblyTcas5.2, INSDC Assembly GCA_000002335.3,
Database version89.5
Base Pairs152,413,474
Golden Path Length165,928,604
Genebuild byBeetleBase
Genebuild methodImport
Data sourcei5k

Gene counts

Coding genes16,590
Non coding genes503
Small non coding genes502
Long non coding genes1
Pseudogenes2
Gene transcripts19,039

About this species