Data: Genome-wide association study of cassava brown streak disease resistance in cassava germplasm conserved in South America

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Ospina Colorado, Jessica Alejandra; Lopez Alvarez, Diana Carolina; Gimode, Winnie Riziki Adu; Wenzl, Peter; Carvajal-Yepes, Monica, 2024, "Data: Genome-wide association study of cassava brown streak disease resistance in cassava germplasm conserved in South America", https://doi.org/10.7910/DVN/H4PDE5, Harvard Dataverse, V2, UNF:6:ILxU5oEWF+J+qUI7SpwgeA== [fileUNF]
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Description
Cassava (Manihot esculenta Crantz) is a vital carbohydrate source for over 800 million people globally, yet its production in East Africa is severely affected by cassava brown streak disease (CBSD). Genebanks, through ex-situ conservation, play a pivotal role in preserving crop diversity, providing crucial resources for breeding resilient and disease-resistant crops. This study genotyped 234 South American cassava accessions conserved at the CIAT genebank, previously phenotyped for CBSD resistance by an independent group, to perform a genome-wide association analysis (GWAS) to identify genetic variants associated with CBSD resistance. Our GWAS identified 35 single nucleotide polymorphism (SNP) markers distributed across various chromosomes, associated with disease severity or the presence/absence of viral infection. Markers were annotated within or near genes previously identified with functions related to pathogen recognition and immune response activation. Using the SNP candidates, we screened the world’s largest cassava collection for accessions with a higher frequency of favorable genotypes, proposing 35 accessions with potential resistance to CBSD. Our results provide insights into the genetics of CBSD resistance and highlight the importance of genetic resources to equip breeders with the raw materials needed to develop new crop varieties resistant to pests and diseases.

Methodology:DNA was extracted from 234 accessions of Manihot esculenta, conserved at the CIAT genebank, which had previously been phenotyped by an independent group for CBSD resistance. The DNA was sent to DArT P/L for genotyping with DArTseq. Using the generated SNP data, we conducted a diversity analysis, population structure analysis, and genome-wide association study (GWAS) to identify genetic variants associated with CBSD resistance. (2024-07)
Subject Earth and Environmental Sciences; Agricultural Sciences
Keyword cassava brown streak disease, genetic resources conservation, disease resistance, ex situ conservation, breeding, Americas, Crops for Nutrition and Health
Related Publication Carvajal-Yepes, M., Ospina, J. A., Aranzales, E., Velez-Tobon, M., Correa Abondano, M., Manrique-Carpintero, N. C., & Wenzl, P. (2024). Identifying genetically redundant accessions in the world's largest cassava collection. Frontiers in plant science, 14, 1338377. https://doi.org/10.3389/fpls.2023.1338377https://pubmed.ncbi.nlm.nih.gov/38304449/
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