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Sequence information from the markers on the GGA25 RH map was used to develop genetic markers to build genetic maps.
We developed 79 STS (Sequence Tagged Site) markers to build a physical RH (radiation hybrid) map and 34 genetic markers to extend the genetic map of GGA16.
We then re-constructed component maps from seven quality-filtered datasets that had sufficient numbers of lines and markers to build a reliable linkage map.
X indicates those cases where there were not enough markers to build a genetic map and for which marker density could therefore not be calculated.
We used these markers to build a genetic profile associated with the cumulative genetic risk measured by the probability of an individual being a MS case.
To this end, we first developed new SNP markers specific to brook charr in coding gene regions and used them in combination with previously published microsatellite markers to build a linkage map.
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Next, we assessed the ability of the nested G-core samples to capture diversity unlinked to the SSR markers used to build the nested core collection.
† Number of markers used to build the core genetic map (SSR or SNP) [ 32]. ‡ Detected by Interval Mapping -IM- or Krustal Wallis -KW-.
The same 321 AFLP (Amplified Fragment Length Polymorphism) markers used to build the RIL map were used in the NIL breeding scheme.
Practically speaking, we used genome assembly as a common reference, having localized the position on the genome assembly (Additionnal file 2) of the STS genetic markers used to build the genetic maps (eQTL position reference).
Although most spruce gene markers used to build our framework linkage map lack consistent annotations (67% using TAIR7, 54% using Viridiplantae databases gave no hits), Additional File 2, for the few loci that are potential gene expression regulators located within eQTL hotspots and affect highly complex phenotypes, we further infer their putative gene function in spruce.
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