Genotyping-by-Sequencing to Predict Resistance to Lima Bean Downy Mildew in a Diversity Panel

Lima bean is affected by severe downy mildew epidemics caused by the oomycete Phytophthora phaseoli. There are six documented races of P. phaseoli (A to F). Race F is currently predominant in the mid-Atlantic region, creating the need for resistant lima bean cultivars with desirable agronomic charac...

Full description

Saved in:
Bibliographic Details
Published in:Phytopathology 2016-10, Vol.106 (10), p.1152-1158
Main Authors: Mhora, T T, Ernest, E G, Wisser, R J, Evans, T A, Patzoldt, M E, Gregory, N F, Westhafer, S E, Polson, S W, Donofrio, N M
Format: Article
Language:English
Subjects:
Alleles
Computational Biology
Genetic Linkage
Genetic Markers - genetics
Genotype
Genotyping Techniques - methods
Haplotypes
Oomycetes
Phaseolus - genetics
Phaseolus - immunology
Phaseolus - parasitology
Phenotype
Phytophthora
Phytophthora - physiology
Plant Diseases - immunology
Plant Diseases - parasitology
Seedlings - genetics
Seedlings - immunology
Seedlings - parasitology
Sequence Analysis, DNA
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Lima bean is affected by severe downy mildew epidemics caused by the oomycete Phytophthora phaseoli. There are six documented races of P. phaseoli (A to F). Race F is currently predominant in the mid-Atlantic region, creating the need for resistant lima bean cultivars with desirable agronomic characteristics. In order to develop markers for detecting race F resistance, bulked segregant analysis (BSA) using genotyping-by-sequencing (GBS) was used on a biparental F population comprised of 216 lima bean progeny segregating for a dominant race F resistance phenotype. Data were analyzed using a custom bioinformatic analysis pipeline (redrep). Kompetitive allele-specific polymerase chain reaction assays were developed using 12 GBS markers associated with the race F resistance phenotype. Using these assays, the F population was used to map the race F resistance locus. Seven markers were in linkage and significantly associated with race F resistance that mapped between two markers located approximately 4.88 centimorgan (cM) apart. These assays were successfully used to genotype a newly acquired lima bean diversity panel consisting of 256 landraces, cultivars, and wild germplasm, and a haplotype consisting of two of the seven linked markers was demonstrated to accurately predict race F resistance. This confirmed the ability of our customized methods to accurately predict phenotypes in diverse lines of lima bean.
ISSN:0031-949X
1943-7684
DOI:10.1094/PHYTO-02-16-0087-FI