Metatranscriptomics analysis reveals the cotton virome in the southern United States
Cesar Escalante, Anyi M. Reyes, Chaoyang Zhao, Kipling S. Balkcom, Alana L. Jacobson, Amanda Strayer-Scherer, Kathleen M. Martin, Jenny Koebernick, Anders Huseth, Edmund Kozieł, Ian Small, Jeremy K. Greene, Katarzyna Otulak-Kozieł, Michael J. Mulvaney, Paul P. Price
TL;DR
This study used high-throughput sequencing to identify viruses infecting cotton plants in the southern US, finding a diverse virome including a common virus and several RNA and DNA virus families.
Contribution
The study provides a comprehensive catalog of cotton-infecting viruses and highlights the prevalence of co-infections in cotton fields.
Findings
Cotton leafroll dwarf virus genome was detected in all tested cotton samples.
29 putative virus families were identified, with seven RNA virus families being more prevalent.
The findings may help understand how virus co-infections affect cotton plant health and yield.
Abstract
High-throughput sequencing (HTS) has expanded our perspective on the distribution and diversity of plant viruses. Furthermore, improvements in HTS and decreasing sample costs have enabled the discovery of novel plant viruses in field-collected samples. This study examined the putative virome of cotton samples collected from fields across the southern United States. Leaf samples were collected, and total RNA was extracted. Library preparation was performed from pooled samples within locations before sequencing on an Illumina platform. Sequenced libraries were mapped to the cotton reference genome, and the resulting sequences were de novo assembled. A metatranscriptomics analysis revealed complete genome contigs of cotton leafroll dwarf virus in all tested samples. Additionally, 29 putative families of RNA and DNA plant viruses co-infecting cotton were found. Seven families of RNA viruses…
Genes, proteins, chemicals, diseases, species, mutations and cell lines named across the full text — each resolved to its canonical identifier and authoritative record.
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Taxonomy
TopicsPlant Virus Research Studies · Plant and Fungal Interactions Research · Research in Cotton Cultivation