High density SNP mapping and QTL analysis for fruit quality characteristics in peach (Prunus persica L.)

Publication Overview
TitleHigh density SNP mapping and QTL analysis for fruit quality characteristics in peach (Prunus persica L.)
AuthorsMartínez-García PJ, Parfitt DE, Ogundiwin EA, Fass J, Chan HM, Ahmad R, Lurie S, Dandekar A, Gradziel TM, Crisosto CH
TypeJournal Article
Journal NameTree Genetics and Genomes
Volume9
Issue1
Year2013
Page(s)19-36
CitationMartínez-García PJ, Parfitt DE, Ogundiwin EA, Fass J, Chan HM, Ahmad R, Lurie S, Dandekar A, Gradziel TM, Crisosto CH. High density SNP mapping and QTL analysis for fruit quality characteristics in peach (Prunus persica L.). Tree Genetics and Genomes. 2013; 9(1):19-36.

Abstract

Single nucleotide polymorphisms (SNPs) were used to construct an integrated SNP linkage map of peach (Prunus persica (L.) Batsch). A set of 1,536 SNPs were evaluated with the GoldenGate Genotyping assay in two mapping populations, Pop-DF, and Pop-DG. After genotyping and filtering, a final set of 1,400 high quality SNPs in Pop-DF and 962 in Pop-DG with full map coverage were selected and used to construct two linkage maps with JoinMapÂ4.0. The Pop-DF map covered 422 cM of the peach genome and included 1,037 SNP markers, and Pop-DG map covered 369 cM and included 738 SNPs. A consensus map was constructed with 588 SNP markers placed in eight linkage groups (n = 8 for peach), with map coverage of 454 cM and an average distance of 0.81 cM/marker site. Placements of SNPs on the “peach v1.0” physical map were compared to placement on the linkage maps and several differences were observed. Using the SNP linkage map of Pop-DG and phenotypic data collected for three harvest seasons, a QTL analysis for fruit quality traits and chilling injury symptoms was carried out with the mapped SNPs. Significant QTL effects were detected for mealiness (M) and flesh bleeding (FBL) QTLs on linkage group 4 and flesh browning (FBr) on linkage group 5. This study represents one of the first examples of QTL detection for quality traits and chilling injury symptoms using a high-density SNP map in a single peach F1 family.
Projects
This publication contains information about 1 projects:
Project NameDescription
Peach-Fruit_quality_characteristics-Crisosto-2013
Features
This publication contains information about 1,594 features:
Feature NameUniquenameType
rs159242011rs159242011genetic_marker
rs159237831rs159237831genetic_marker
rs159240335rs159240335genetic_marker
rs159239711rs159239711genetic_marker
rs159238777rs159238777genetic_marker
rs159237594rs159237594genetic_marker
rs159238180rs159238180genetic_marker
rs159237521rs159237521genetic_marker
rs159239602rs159239602genetic_marker
rs159237736rs159237736genetic_marker
rs159237360rs159237360genetic_marker
rs159237812rs159237812genetic_marker
rs159237021rs159237021genetic_marker
rs159240850rs159240850genetic_marker
rs159237938rs159237938genetic_marker
rs159241017rs159241017genetic_marker
rs159236977rs159236977genetic_marker
rs159236274rs159236274genetic_marker
rs159237871rs159237871genetic_marker
rs159236383rs159236383genetic_marker
rs159236850rs159236850genetic_marker
rs159235674rs159235674genetic_marker
rs159238257rs159238257genetic_marker
rs159237522rs159237522genetic_marker
rs159236027rs159236027genetic_marker

Pages

Featuremaps
This publication contains information about 3 maps:
Map Name
Peach-DF-F1-2013
Peach-DG-F1-2013
Peach_DGxDF_Consensus-2013
Properties
Additional details for this publication include:
Property NameValue
URLhttp://dx.doi.org/10.1007/s11295-012-0522-7
Language Abbreng
Publication Date2013
Publication Model[electronic resource].
Publication TypeJournal Article
URLhttps://link.springer.com/article/10.1007/s11295-012-0522-7
KeywordsPrunus persica, chilling injury, chromosome mapping, fruit quality, genotyping, linkage groups, peaches, quantitative trait loci, single nucleotide polymorphism
Cross References
This publication is also available in the following databases:
DatabaseAccession
AGL: USDA National Agricultural LibraryAGL:4786098