Mapping and characterization QTLs for phenological traits in seven pedigree-connected peach families.

Publication Overview
TitleMapping and characterization QTLs for phenological traits in seven pedigree-connected peach families.
AuthorsRawandoozi ZJ, Hartmann TP, Carpenedo S, Gasic K, da Silva Linge C, Cai L, Van de Weg E, Byrne DH
TypeJournal Article
Journal NameBMC genomics
Volume22
Issue1
Year2021
Page(s)187
CitationRawandoozi ZJ, Hartmann TP, Carpenedo S, Gasic K, da Silva Linge C, Cai L, Van de Weg E, Byrne DH. Mapping and characterization QTLs for phenological traits in seven pedigree-connected peach families.. BMC genomics. 2021 Mar 16; 22(1):187.

Abstract

BACKGROUND
Environmental adaptation and expanding harvest seasons are primary goals of most peach [Prunus persica (L.) Batsch] breeding programs. Breeding perennial crops is a challenging task due to their long breeding cycles and large tree size. Pedigree-based analysis using pedigreed families followed by haplotype construction creates a platform for QTL and marker identification, validation, and the use of marker-assisted selection in breeding programs.

RESULTS
Phenotypic data of seven F1 low to medium chill full-sib families were collected over 2 years at two locations and genotyped using the 9 K SNP Illumina array. Three QTLs were discovered for bloom date (BD) and mapped on linkage group 1 (LG1) (172-182 cM), LG4 (48-54 cM), and LG7 (62-70 cM), explaining 17-54%, 11-55%, and 11-18% of the phenotypic variance, respectively. The QTL for ripening date (RD) and fruit development period (FDP) on LG4 was co-localized at the central part of LG4 (40-46 cM) and explained between 40 and 75% of the phenotypic variance. Haplotype analyses revealed SNP haplotypes and predictive SNP marker(s) associated with desired QTL alleles and the presence of multiple functional alleles with different effects for a single locus for RD and FDP.

CONCLUSIONS
A multiple pedigree-linked families approach validated major QTLs for the three key phenological traits which were reported in previous studies across diverse materials, geographical distributions, and QTL mapping methods. Haplotype characterization of these genomic regions differentiates this study from the previous QTL studies. Our results will provide the peach breeder with the haplotypes for three BD QTLs and one RD/FDP QTL to create predictive DNA-based molecular marker tests to select parents and/or seedlings that have desired QTL alleles and cull unwanted genotypes in early seedling stages.

Projects
This publication contains information about 2 projects:
Project NameDescription
Peach-phenological_trait-Rawandoozi-2021
Peach-phenological_trait-Rawandoozi-Haplotype-2021
Features
This publication contains information about 26 features:
Feature NameUniquenameType
bloom dateqBD.RB-4K-2019-LG1-CA11QTL
bloom dateqBD.RB-4K-2019-LG1-CA12QTL
bloom dateqBD.RB-4K-2019-LG1-TX12QTL
bloom dateqBD.RB-4K-2019-LG1-TX13QTL
bloom dateqBD.RB-4K-2019-LG1-meanQTL
bloom dateqBD.RB-4K-2019-LG4-CA12QTL
bloom dateqBD.RB-4K-2019-LG4-TX12QTL
bloom dateqBD.RB-4K-2019-LG4-TX13QTL
bloom dateqBD.RB-4K-2019-LG4-meanQTL
bloom dateqBD.RB-4K-2019-LG7-CA12QTL
bloom dateqBD.RB-4K-2019-LG7-TX12QTL
bloom dateqBD.RB-4K-2019-LG7-meanQTL
ripening timeqRPT.RB-4K-2019-LG4-CA11QTL
ripening timeqRPT.RB-4K-2019-LG4-CA12QTL
ripening timeqRPT.RB-4K-2019-LG4-TX12QTL
ripening timeqRPT.RB-4K-2019-LG4-TX13QTL
ripening timeqRPT.RB-4K-2019-LG4-meanQTL
fruit development periodqFDP.RB-4K-2019-LG4-CA11QTL
fruit development periodqFDP.RB-4K-2019-LG4-CA12QTL
fruit development periodqFDP.RB-4K-2019-LG4-TX12QTL
fruit development periodqFDP.RB-4K-2019-LG4-TX13QTL
fruit development periodqFDP.RB-4K-2019-LG4-meanQTL
Ppe-HB-qBD1Ppe-HB-qBD1haplotype_block
Ppe-HB-qBD4Ppe-HB-qBD4haplotype_block
Ppe-HB-qBD7Ppe-HB-qBD7haplotype_block

Pages

Featuremaps
This publication contains information about 1 maps:
Map Name
Peach-RosBREED-4K-2019
Cross References
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DatabaseAccession
PMID: PubMedPMID:33726679