Generally, large AFLP linkage groups were associated with linkage groups assigned to macrochromosomes (e.g. CJA01 – CJA07) while small AFLP groups were linked to integrated linkage groups assigned to microchromosomes (e.g. CJA09 – CJA09).
Finally, as the phenotype of resistance to BPMV was polymorphic between the two parental lines of a population of 77 recombinant inbred lines (RILs) used to set up the integrated linkage map of common bean [ 29], we aimed to investigate the segregation of resistance to BPMV in this RILs population using a BPMV-GFP construct, with the aim of mapping the corresponding gene(s).
Of the 1743 loci mapped onto the white clover integrated linkage map, 951 showed sequence similarities to the ESTs or genome sequences of markers mapped onto the integrated linkage map of red clover.
Of significant interest are JaloEEP558 and BAT93, the two parental lines of a RILs population used to set up the integrated linkage map of P. vulgaris [ 29], and BAT93 and G19833 whose complete genomes have been sequenced [ 2].
Most recently, Vukosavljev et al.14 and Bourke et al.15 both created integrated linkage maps using the WagRhSNP 68K Axiom SNP array23.
Development of a white clover integrated linkage map required matching and alignment of homoeologues between populations.
In the present study, the consensus map integrated linkage data of only 87 shared SNP loci from two mapping populations of about 90 offsprings, the 267 other SNPs segregating in only one pedigree.
The resulting EST-SSR markers, integrated linkage map, and observed macrosynteny produced by this work will be valuable resources for genetic mapping, QTL analysis, and molecular breeding of white clover in the future.
In order to simultaneously integrate linkage and syntenic groups to the ovine chromosomal map, a sheep bacterial artificial chromosome (BAC) library was screened with previously assigned microsatellites using a sheep-hamster hybrid panel and genetic linkage.
In addition, bioinformatic tool such as TEAM (a tool for the integration of expression and linkage and association maps) is designed to integrate linkage, association and expression data, together with functional annotations however currently it is not implemented to handle GWAS data [ 8].
