Location: Sugarcane Research
Project Number: 6052-21000-016-041-S
Project Type: Non-Assistance Cooperative Agreement
Start Date: Aug 1, 2018
End Date: Jul 31, 2023
The objective of this study is to assess sources of mosaic resistance in the sugarcane breeding population in Houma, Louisiana, and to identify genetic markers associated with resistance through a modified genotyping by sequencing (GBS) approach. The principle investigators aim to identify quantitative trait locus (QTL) markers for mosaic resistance through Genome Wide Association Studies (GWAS).
ARS and the Cooperator will assess mosaic susceptibility of sugarcane genotypes through mechanical inoculation testing. Genotypes will be visually assessed, and when needed, diagnosed through pathogen-based polymerase chain reaction (PCR) diagnostics, over a two month period and the percentage of infected plants will be calculated. Modified genotyping by sequencing (GBS) will be performed on the clones and compared against the recently-completed spontaneum/officinarum/hybrid reference genome to identify single nucleotide polymorphism markers (SNPs). The mosaic resistance/susceptible reaction (phenotype) data and identified SNPs will be used to detect QTLs associated with the trait. SNPS with significant association with the trait will be identified, and markers will be validated using clones with known resistance to mosaic.