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
Ppe_v1_2_26390607Ppe_v1_2_26390607genetic_marker
Ppe_v1_2_26246609Ppe_v1_2_26246609genetic_marker
Ppe_v1_2_26394363Ppe_v1_2_26394363genetic_marker
Ppe_v1_2_25966483Ppe_v1_2_25966483genetic_marker
Ppe_v1_10_00342599Ppe_v1_10_00342599genetic_marker
Ppe_v1_3_00401784Ppe_v1_3_00401784genetic_marker
Ppe_v1_3_01075826Ppe_v1_3_01075826genetic_marker
Ppe_v1_3_01399348Ppe_v1_3_01399348genetic_marker
Ppe_v1_3_02041363Ppe_v1_3_02041363genetic_marker
Ppe_v1_3_02307415Ppe_v1_3_02307415genetic_marker
Ppe_v1_3_02349393Ppe_v1_3_02349393genetic_marker
Ppe_v1_3_03132326Ppe_v1_3_03132326genetic_marker
Ppe_v1_3_02963099Ppe_v1_3_02963099genetic_marker
Ppe_v1_3_04944521Ppe_v1_3_04944521genetic_marker
Ppe_v1_3_07372536Ppe_v1_3_07372536genetic_marker
Ppe_v1_4_15162656Ppe_v1_4_15162656genetic_marker
Ppe_v1_4_1594319Ppe_v1_4_1594319genetic_marker
Ppe_v1_3_13379284Ppe_v1_3_13379284genetic_marker
Ppe_v1_3_15126859Ppe_v1_3_15126859genetic_marker
Ppe_v1_3_16264188Ppe_v1_3_16264188genetic_marker
Ppe_v1_3_17267167Ppe_v1_3_17267167genetic_marker
Ppe_v1_3_17267193Ppe_v1_3_17267193genetic_marker
Ppe_v1_3_17988339Ppe_v1_3_17988339genetic_marker
Ppe_v1_3_19388409Ppe_v1_3_19388409genetic_marker
Ppe_v1_3_19386640Ppe_v1_3_19386640genetic_marker

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