Table of Contents
Pachypsylla venusta is a gall-forming psyllid (Insecta: Hemiptera) specializing on hackberry trees, which are widely distributed in the United States.
Like many closely-related hemipterans such as whiteflies, aphids, and mealybugs, psyllids have a nutritionally imbalanced diet consisting primarily of plant sap. To compensate for the paucity of essential amino acids and other required nutrients in their diets, these insects have evolved ancient and intimate symbiotic relationships with intracellular bacteria that are capable of synthesizing these compounds.
The genome of the bacterial symbiont Carsonella from Pachypsylla venusta has been sequenced and represents one of the most extreme cases of genome reduction ever identified. At only 160 kb in size, this bacterial genome lacks many genes thought to be essential for cellular life, making this system an important model for elucidating the genomic mechanisms of host-symbiont interactions.
A complete genome from this gall-forming psyllid will also provide a valuable resource for investigating plant-insect interactions and gall-induction.
Please cite the following publication when using this dataset: Sloan, D. B., Nakabachi, A., Richards, S., Qu, J., Murali, S. C., Gibbs, R. A., & Moran, N. A. (2014). Parallel histories of horizontal gene transfer facilitated extreme reduction of endosymbiont genomes in sap-feeding insects. Molecular biology and evolution, 31(4), 857-871. doi.org/10.1093/molbev/msu004
Data were generated by the Baylor College of Medicine's i5k pilot project.
View the Baylor College of Medicine's data sharing policy.
- Analysis Name
- Whole genome assembly of Pachypyslla venusta
- Baylor College of Medicine genome assembly pipeline (NA)
- Pachypyslla venusta Gpsy02072013 assembly
- Date performed
- Materials & Methods
Sequence generation for assembly. For this project we are generating fairly high coverage in a number of different insert sized libraries. The assembly strategy is based around a seed allpaths assembly (the Broad Allpaths assembler) followed by seed assembly improvement using homegrown tools, Atlas-link and Atlas-GapFill, which can significantly improve the results. Thus we generate sequence data to enable the Allpaths assembly. As of Nov 2011 this is: - 40X genome coverage in 180bp insert library (100bp reads forward and reverse); and 40X 3kb insert data. To enable better scaffolding and local gap filling we additionally generate 500bp, 1kb, 2kb, and 8kb insert sizes at > 20X coverage.Source: Baylor College of Medicine i5K Project Summary
- Contig N50
- Scaffold N50
- GC Content