Drosophilid transposon libraries

Semi-curated de-novo transposon libraries for 193 genome assemblies representing 119 Drosophilid species.

Content

A list of all species is provided in species_list.txt. The FASTA folder contains transposon consensus sequences for each species and the info folder contains the following information about each transposon:

1. Name
2. Class/Family
3. Predicted subfamily (95/80/98)
4. Predicted subfamily (90/80/90)
5. Predicted subfamily (80/80/80)
6. env ORF present
7. gag ORF present
8. pol ORF present
9. Count (buildSummary.pl)
10. Hits (blastn hits covering at least 80 nt and 50% of query length)
11. Coverage (buildSummary.pl)
12. Coverage (calcDivergenceFromAlign.pl)
13. Kimura divergence (calcDivergenceFromAlign.pl)
14. Length

Generation of transposon libraries

Description of how the transposon libraries were generated is available at https://github.com/susbo/Uni-strand_clusters.

Version

The current version is 0.99. For all versions, see the releases on this repository.

Authors

• Susanne Bornelöv - susbo
• Jasper van Lopik - Jvanlopik

License

This project is licensed under the GNU GPLv3 License - see the LICENSE file for details.

Citation

If you use these scripts and pipelines, please cite our preprint:
Unistrand piRNA clusters are an evolutionarily conserved mechanism to suppress endogenous retroviruses across the Drosophila genus
Jasper van Lopik, Azad Alizada, Maria-Anna Trapotsi, Gregory J. Hannon, Susanne Bornelöv, Benjamin Czech Nicholson
bioRxiv 2023.02.27.530199; doi: https://doi.org/10.1101/2023.02.27.530199