Genotyping by Sequencing for SNP-Based Linkage Map Construction and QTL Analysis of Chilling Requirement and Bloom Date in Peach [Prunus persica (L.) Batsch]

Publication Overview
TitleGenotyping by Sequencing for SNP-Based Linkage Map Construction and QTL Analysis of Chilling Requirement and Bloom Date in Peach [Prunus persica (L.) Batsch]
AuthorsBielenberg DG, Rauh B, Fan S, Gasic K, Abbott AG, Reighard GL, Okie WR, Wells CE
TypeJournal Article
Journal Name PLoS ONE
Volume10
Issue10
Year2015
CitationBielenberg DG, Rauh B, Fan S, Gasic K, Abbott AG, Reighard GL, Okie WR, Wells CE. Genotyping by Sequencing for SNP-Based Linkage Map Construction and QTL Analysis of Chilling Requirement and Bloom Date in Peach [Prunus persica (L.) Batsch]. PLoS ONE. 2015; 10(10).

Abstract

Low-cost, high throughput genotyping methods are crucial to marker discovery and markerassisted breeding efforts, but have not been available for many ‘specialty crops’ such as fruit and nut trees. Here we apply the Genotyping-By-Sequencing (GBS) method developed for cereals to the discovery of single nucleotide polymorphisms (SNPs) in a peach F2 mapping population. Peach is a genetic and genomic model within the Rosaceae and will provide a template for the use of this method with other members of this family. Our F2 mapping population of 57 genotypes segregates for bloom time (BD) and chilling requirement (CR) and we have extensively phenotyped this population. The population derives from a selfed F1 progeny of a cross between ‘Hakuho’ (high CR) and ‘UFGold’ (low CR). We were able to successfully employ GBS and the TASSEL GBS pipeline without modification of the original methodology using the ApeKI restriction enzyme and multiplexing at an equivalent of 96 samples per Illumina HiSeq 2000 lane. We obtained hundreds of SNP markers which were then used to construct a genetic linkage map and identify quantitative trait loci (QTL) for BD and CR.
Projects
This publication contains information about 1 projects:
Project NameDescription
Peach-chilling_requirement_and_bloom_date-Wells-2015
Features
This publication contains information about 232 features:
Feature NameUniquenameType
bloom dateqBD.HU-LG1-2010QTL
bloom dateqBD.HU-LG7-2010QTL
bloom dateqBD.HU-LG1-2011QTL
bloom dateqBD.HU-LG1-2012QTL
bloom dateqBD.HU-LG1-2012.2QTL
bloom dateqBD.HU-LG4-2012QTL
bloom dateqBD.HU-LG7-2012QTL

Pages

Featuremaps
This publication contains information about 1 maps:
Map Name
Peach-HU-F2
Stocks
This publication contains information about 3 stocks:
Stock NameUniquenameType
HakuhoHakuhocultivar
UFGoldUFGoldbreeding_research_material
Hakuho_x_UFGoldHakuho_x_UFGoldpopulation