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ARS Home » Southeast Area » Tifton, Georgia » Crop Genetics and Breeding Research » Research » Publications at this Location » Publication #368573

Research Project: Development of High-Yielding, High-Oleic Peanut Cultivars or Germplasm with Tolerance to Biotic and Abiotic Stresses

Location: Crop Genetics and Breeding Research

Title: Pod and seed trait QTL identification to assist breeding for peanut market preferences

item CHAVARRO, CAROLINA - University Of Georgia
item CHU, YE - University Of Georgia
item Holbrook, Carl - Corley
item ISLEIB, THOMAS - North Carolina State University
item BERTIOLI, DAVID - University Of Georgia
item HOVAV, RAN - Agricultural Research Organization Of Israel
item Butts, Christopher - Chris
item Lamb, Marshall
item Sorensen, Ronald - Ron
item JACKSON, SCOTT - University Of Georgia
item OZIAS-AKINS, PEGGY - University Of Georgia

Submitted to: Genes, Genomes, and Genomics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 5/1/2020
Publication Date: 5/12/2020
Citation: Chavarro, C., Chu, Y., Holbrook Jr, C.C., Isleib, T.G., Bertioli, D., Hovav, R., Butts, C.L., Lamb, M.C., Sorensen, R.B., Jackson, S.A., Ozias-Akins, P. 2020. Pod and seed trait QTL identification to assist breeding for peanut market preferences. Genes, Genomes, and Genomics. 10:2297-2315.

Interpretive Summary: The development of molecular markers for economically significant traits should greatly improve the speed and efficiency of all peanut breeding programs. The objective of this study was to genotype and phenotype a segregating population of peanut to attempt to identify genetic markers liked to genes controlling pod and seed traits. One hundred lines from the cross of Tifrunner x NC 3033 were evaluated for three years. Eight major genetic marker for pod and seed traits were identified. These results will enhance our ability to improve peanut seed quality and yield through molecular breeding by providing genetic markers for marker assisted selection.

Technical Abstract: Peanut seed and pod development are central to peanut improvement, but knowledge of the inheritance of component traits is sparse. A recombinant inbred line (RIL) populations of 156 lines from a cross of Tifrunner x NC 3033 was genotyped with the Axiom_Arachis1 SNP array and SSRs to generate a genetic map composed of 1524 markers in 29 linkage groups (LG). The genetic positions of markers were compared with chromosome-scale sequence scaffolds to confirm the genetic positions and explore the distribution of recombination and potential chromosomal rearrangements. This linkage map was used to identify Quantitative Trait Loci (QTL) for seed and pod traits that were phenotyped over three consecutive years for the purpose of developing trait-associated markers for breeding. Fourty-nine QTL were identified in 14 LG for seed size index, kernel percentage, seed weight, pod weight, single-kernel, double-kernel, pod area and pod density. Twenty QTL demonstrated phenotypic effects greater than 10% and eight had phenotypic effects more than 20%. Of note, seven of the eight major QTL for pod area, pod weight and seed weight (>20% variance) were attributed to NC 3033 and located in a single linkage group, LG B06_1. In contrast, the most consistent QTL for kernel percentage were located on A07/B07 and derived from Tifrunner.