High-density genetic linkage map construction and identification of fruit-related QTLs in pear using SNP and SSR markers

Publication Overview
TitleHigh-density genetic linkage map construction and identification of fruit-related QTLs in pear using SNP and SSR markers
AuthorsWu J, Li LT, Li M, Khan MA, Li XG, Chen H, Yin H, Zhang SL
TypeJournal Article
Journal NameJournal of experimental botany
Year2014
CitationWu J, Li LT, Li M, Khan MA, Li XG, Chen H, Yin H, Zhang SL. High-density genetic linkage map construction and identification of fruit-related QTLs in pear using SNP and SSR markers. Journal of experimental botany. 2014 Aug 16.

Abstract

Pear (Pyrus spp) is an important fruit crop, grown in all temperate regions of the world, with global production ranked after grape and apples among deciduous tree crops. A high-density linkage map is a valuable tool for fine mapping quantitative trait loci (QTL) and map-based gene cloning. In this study, we firstly constructed a high-density linkage map of pear using SNPs integrated with SSRs, developed by the rapid and robust technology of restriction-associated DNA sequencing (RADseq). The linkage map consists of 3143 SNP markers and 98 SSRs, 3241 markers in total, spanning 2243.4 cM, with an average marker distance of 0.70 cM. Anchoring SSRs were able to anchor seventeen linkage groups to their corresponding chromosomes. Based on this high-density integrated pear linkage map and two years of fruit phenotyping, a total of 32 potential QTLs for 11 traits, including length of pedicel (LFP), single fruit weight (SFW), soluble solid content (SSC), transverse diameter (TD), vertical diameter (VD), calyx status (CS), flesh colour (FC), juice content (JC), number of seeds (NS), skin colour (SC), and skin smooth (SS), were identified and positioned on the genetic map. Among them, some important fruit-related traits have for the first time been identified, such as calyx status, length of pedicel, and flesh colour, and reliable localization of QTLs were verified repeatable. This high-density linkage map of pear is a worthy reference for mapping important fruit traits, QTL identification, and comparison and combination of different genetic maps.

Projects
This publication contains information about 1 projects:
Project NameDescription
Pear-fruit_phenotype-Wu-2014
Features
This publication contains information about 3,175 features:
Feature NameUniquenameType
pedicel lengthqPL.BD-LG14.2008QTL
pedicel lengthqPL.BD-LG2.2009QTL
pedicel lengthqPL.BD-LG17.2009QTL
fruit weightqFRW.BD-LG17.2008QTL
fruit weightqFRW.BD-LG13.2009QTL
total water soluble contentqSSC.BD-LG10.2008QTL
total water soluble contentqSSC.BD-LG5.2009QTL
total water soluble contentqSSC.BD-LG14.2009QTL
fruit transverse diameterqFRTDIA.BD-LG17.2008QTL
fruit transverse diameterqFRTDIA.BD-LG3.2009QTL
fruit transverse diameterqFRTDIA.BD-LG11.2009QTL
fruit vertical diameterqFRVDIA.BD-LG17.2008QTL
fruit vertical diameterqFRVDIA.BD-LG11.2009QTL
fruit vertical diameterqFRVDIA.BD-LG17.2009QTL
russet-calyxqRC.BD-LG6.2008QTL
russet-calyxqRC.BD-LG6.2009QTL
mesocarp colorqMCCL.BD-LG9.2008QTL
mesocarp colorqMCCL.BD-LG9.2009QTL
fruit juicinessqFRJUC.BD-LG1.2008QTL
fruit juicinessqFRJUC.BD-LG5.2009QTL
fruit seed numberqSDNB.BD-LG5.2008QTL
fruit seed numberqSDNB.BD-LG14.2008QTL
fruit seed numberqSDNB.BD-LG17.2008QTL
fruit seed numberqSDNB.BD-LG5.2009QTL
fruit seed numberqSDNB.BD-LG9.2009QTL

Pages

Featuremaps
This publication contains information about 1 maps:
Map Name
Pear-BD-F1-2014-genetic
Stocks
This publication contains information about 3 stocks:
Stock NameUniquenameType
DangshansuliDangshansulicultivar
Bayuehong_x_DangshansuliBayuehong_x_Dangshansulipopulation
BayuehongBayuehongcultivar
Cross References
This publication is also available in the following databases:
DatabaseAccession
PMID: PubMedPMID:25129128
AGL: USDA National Agricultural LibraryAGL:4893819