Computer Scientists Sequence Genome of African Domesticated CottonJune 29, 2023
Computer scientists at DePaul University in the United States used a bioinformatics workflow to reconstruct one of the most complete genomes of a top cotton species, the African domesticated Gossypium herbaceum cultivar Wagad, giving scientists a more complete picture of how wild cotton was domesticated over time.
The research team is led by Thiru Ramaraj, assistant professor of computer science at DePaul's Jarvis College of Computing and Digital Media and also the lead author of the publication in the journal G3: Genes, Genomes, Genetics. Their work began with crunching DNA sequence data. They reconstructed the Wagad genome by assembling high-quality long DNA sequence data generated using Pacific Biosciences sequencing technology. They then used whole genome maps from Bionano genomics to order and orient the initial assembly. Lastly, they used Hi-C sequence data from Phase genomics to construct chromosome level genome.
Computer science graduate student Azalea Mendoza helped the team and conducted research on the history of cotton to zoom out and understand “the big picture.” She found that everywhere cotton is grown, it is primarily used for fiber. Using comparative genomics, Mendoza looked for variations against its closest relative and to an outgroup. She also looked into annotated genes and noted their functions, finding that many genes were related to the content of fiber.
You might also like:
Biotech Updates is a weekly newsletter of ISAAA, a not-for-profit organization. It is distributed for free to over 22,000 subscribers worldwide to inform them about the key developments in biosciences, especially in biotechnology. Your support will help us in our mission to feed the world with knowledge. You can help by donating as little as $10.
See more articles:
- Current State and Opportunities for Biotechnology in International Trade and Technology Transfer
- Computer Scientists Sequence Genome of African Domesticated Cotton
- Targeted Mutagenesis by CRISPR Improves Grain Quality and Heat Resilience in Rice
- ISAAA Inc. to Hold ASCA6 on September 11-15 in Indonesia
- Gene Editing Reduces Anxiety-Related Behavior in Mice
- Animal Biotechnology Symposium and Stakeholder Consultation
- ISAAA Launches Animal Biotech Resource Page
- Cultivated Chicken from GOOD Meat and UPSIDE Foods Receive Full Approval from USDA
- ISAAA and DA Biotech Release New Resources on Biotech in the Philippines
Read the latest:
- Biotech Updates (February 28, 2024)
- Gene Editing Supplement (February 28, 2024)
- Gene Drive Supplement (February 22, 2023)
Subscribe to BU: