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Published on: July 23, 2017
CattleTickBase: an integrated Internet-based bioinformatics resource for Rhipicephalus (Boophilus) microplus.
Matthew I Bellgard1, Paula M Moolhuijzen, Felix D Guerrero
1Centre for Comparative Genomics, Murdoch University, Perth, WA 6150, Australia.
International Journal for Parasitology
|December 20, 2011
Summary
Sequencing the complex Rhipicephalus microplus genome is challenging. CattleTickBase now provides a web resource with genomic and transcriptomic data, aiding future research on this important cattle tick.
Area of Science:
- Genomics
- Bioinformatics
- Parasitology
Background:
- The Rhipicephalus microplus (cattle tick) genome is large and complex, posing significant challenges for sequencing and bioinformatics analysis.
- High costs associated with genome sequencing and analysis necessitate collaborative efforts.
Purpose of the Study:
- To overcome the challenges of sequencing the Rhipicephalus microplus genome by pooling international resources.
- To establish a centralized, accessible bioinformatics resource for the scientific community.
- To facilitate the analysis of cattle tick genomic and transcriptomic data.
Main Methods:
- Formation of an international consortium to share resources for genome sequencing.
- Acquisition and assembly of genomic DNA into contigs, representing over 1.8 Gigabase pairs from gene-enriched regions.
- Generation of transcript sequence datasets from gene expression experiments.
- Development of a web-based bioinformatics environment (YABI) for data access and analysis.
- Establishment of the CattleTickBase resource to host and manage the data.
Main Results:
- Assembly of over 1.8 Gigabase pairs of genomic DNA contigs from gene-enriched regions of the Rhipicephalus microplus genome.
- Acquisition of genomic and transcriptomic sequence data with approximately 0.9X coverage of gene-coding regions.
- Development and launch of CattleTickBase, a web-based resource integrating genomic and transcriptomic data.
- Implementation of the YABI tool within CattleTickBase for user-friendly data analysis.
Conclusions:
- The CattleTickBase resource, powered by the YABI tool, provides crucial access to Rhipicephalus microplus genomic and transcriptomic data.
- This collaborative effort significantly advances the study of the cattle tick genome, facilitating future research and control strategies.
- CattleTickBase will be continuously updated as genome sequencing progresses, serving as a dynamic resource.
