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Locus order was generally well conserved; however, the robustness of the locus order differed slightly depending on the linkage group and the accession-specific linkage map.
Subsequently, we computed map distances and refined the locus order with other purpose-built perl scripts.
Furthermore, marginal shifts in locus order were found in regions with highly dense markers.
In general, locus order was well maintained between the consensus linkage map and the component maps.
Three regions showing relatively good conservation of locus order between Lu. angustifolius and Lo.
However, there are lots of inversions in locus order between the sheep and goat chromosomes.
Locus order in the consensus map was well conserved for nearly all linkage groups.
Locus order is generally well maintained between the consensus map and the individual maps.
The locus order on the consensus map correlated highly with that of accession-specific maps.
The chromosomal position and locus order of all SNPs used in the present study was provided by the Monsanto Company and this a priori information was used as a reference for determining locus order in our mapping populations.
Linkage group–specific datasets with fewer than 8000 markers each were finally loaded into JoinMap to identify locus order.
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