A linkage map of cultivated cucumber (Cucumis sativus L.) with 248 microsatellite marker loci and seven genes for horticulturally important traits

Abstract

A genetic map was developed with microsatellite (simple sequence repeat, SSR) markers and 148 recombinant inbred lines (RILs) derived from a cross between two cultivated cucumber (Cucumis sativus L.) inbred lines 9110Gt and 9930, which was also segregating for seven horticulturally important traits including bitterfree foliage (bi)

A Sequencing-Based Linkage Map of Cucumber

“…We reported the draft genome assembly of the North China type cucumber line 9930 in 2009 (Huang et al, 2009a) and constructed a single-base resolution map of cucumber genomic variation by resequencing of the genomes of 115 core germplasm lines (Qi et al, 2013), which enabled genome-wide association studies of important traits in cucumber (Shang et al, 2014). The genome sequences available for cucumber facilitated the development of PCR-based markers and the construction of the genetic linkage maps (Ren et al, 2009;Miao et al, 2011). However, the density and resolution of these linkage maps are insufficient for accurately mapping genes or quantitative trait loci (QTLs) of interest.…”

“…All SNPs were imported into a hidden Markov model (HMM) to infer recombination events, and thus we detected 2084 recombination events ( Figure 1A) with an average of 2.0 crossovers per chromosome. The crossovers were delimited into an average 207-kb interval, which was substantially refined compared with the current resolution of 788 kb based on SSR markers for the same population (Miao et al, 2011) (Supplemental Figure 2). By aligning the recombination maps of all RILs, we defined the block of the same genotype across the entire population as a raw bin ( Figure 1B) and constructed a genetic linkage map spanning 1384.4 cM with bin markers.…”

“…To assess the efficiency of the bin map for genetic mapping, we re-mapped qualitative genes that had been mapped with SSR markers (Miao et al, 2011). In all cases, the genes were localized into smaller intervals indicating improved precision of the bin map.…”

Genetic analysis of molecular markers for propamocarb residue in Cucumis sativus using quantitative trait locus mapping

“…The detection of QTLs is limited by population size, threshold, marker number, and heritability of target traits (Takagi et al, 2013). Taking recombinant inbred populations, and F 2 and F 2:3 segregation populations for mapping, QTLs with a contribution of 15% can be considered as major (LOD > 2.0); but others with a contribution of 5%, was considered as a micro-effect QTL (Miao, et al, 2011;. The F 2 population was used in this study and a QTL related to pesticide residue (LOD > 2.5) with a contribution of 13.63% was detected, indicating that the locus can control the level of pesticide residue in cucumber.…”

Next generation sequencing and omics in cucumber ( Cucumis sativus L.) breeding directed research

“…Finally 966 SSR markers were used for development of linkage map divided in 7 groups. In 2011 linkage map based on RILs derived from lines gynoecious 9110Gt and monoecious 9930 was constructed [45]. For this project SSR markers developed from whole genome sequence [26] and SSR database [44].…”