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 1,573 features:
Feature NameUniquenameType
rs159236196rs159236196genetic_marker
rs159238870rs159238870genetic_marker
rs159238504rs159238504genetic_marker
rs159241047rs159241047genetic_marker
rs159235922rs159235922genetic_marker
rs159240031rs159240031genetic_marker
rs159239565rs159239565genetic_marker
rs159237970rs159237970genetic_marker
rs159237618rs159237618genetic_marker
rs159237869rs159237869genetic_marker
rs159236844rs159236844genetic_marker
rs159237689rs159237689genetic_marker
rs159239214rs159239214genetic_marker
rs159239866rs159239866genetic_marker
rs159237554rs159237554genetic_marker
rs159239033rs159239033genetic_marker
rs159236515rs159236515genetic_marker
rs159239987rs159239987genetic_marker
rs159240539rs159240539genetic_marker
rs159236650rs159236650genetic_marker
rs159240416rs159240416genetic_marker
rs159236734rs159236734genetic_marker
rs159241555rs159241555genetic_marker
rs159238127rs159238127genetic_marker
rs159237614rs159237614genetic_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