The process described here has the potential to be scaled to phenotype large numbers of rice breeding lines and mapping populations allowing the evaluation of the effect of different salt tolerant mechanisms on plant growth and yield.
The use of a common genotyping array across multiple mapping populations allowed us to investigate variation in local recombination rates among mapping populations.
Extensive characterization of morphological responses such as cotyledon-opening, when combined with genotyped structured mapping populations, allow identification of chromosomal loci and specific locus interactions important for control of the growth response.
This resource is useful across onion germplasm since the anchor markers used here have been tested in other mapping populations, allowing the linkage maps to be aligned for comparative mapping using the CMap tool [ 45] provided at http://alliumgenetics.org[ 41].
In a species where the whole genome sequence is available, Solexa sequences that are produced in a small mapping population allow anchoring SRAP markers in the genome.
Transcript expression levels measured for genes in a mapping population allow them to be treated as traits for gene expression QTL (eQTL) analysis.
The Champagne genotype was incorporated as a parent of the Champagne x Terese mapping population (allowing further genetic mapping) and potential resistance source to frost and ascochyta blight disease.
Association mapping, also called linkage disequilibrium (LD) mapping, utilizes the large number of historical recombination events that have occurred throughout the entire evolutionary history of the mapping population, allowing fine-scale QTL mapping [ 13, 14].
An association mapping study utilizes the higher number of historical recombination events that have occurred throughout the entire evolutionary history of the mapping population, allowing fine-scale QTL mapping.
In contrast, much higher rates of polymorphic SNPs can be achieved by transcriptome resequencing of parental genotypes in the target mapping population, allowing the design of customized OPAs containing SNPs that are segregating in the mapping pedigree.
