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Supplemental Material for Smith et al., 2020

dataset
posted on 13.04.2020 by Seth Smith, Stephen J. Amish, Louis Bernatchez, Jérémy Le Luyer, Chris Wilson, Olivia Boeberitz, Gordon Luikart, Kim T. Scribner

Document S1: Detailed description of library preparation, RNA bait design, and targeted sequence capture methods.

Document S2: Map information, phenotypes, and genotypes used for QTL and sex locus mapping.

Table S1: The lake trout linkage map and sequences of mapped RAD loci.

Table S2: Centromere mapping intervals for each linkage group

Table S3: Candidate genes identified for significant QTL peaks.

Table S4: Estimated recombination rates for each linkage group

Figure S1: Alignments of lake trout linkage groups with Arctic char chromosomes.

Figure S2: Alignments of lake trout linkage groups with rainbow trout chromosomes.

Figure S3: Alignments of lake trout linkage groups with Atlantic salmon chromosomes.

Figure S4: Dot plot grid comparing the lake trout linkage map with the Arctic char genome assembly.

Figure S5: Dot plot grid comparing the lake trout linkage map with the rainbow trout genome assembly.

Figure S6: Dot plot grid comparing the lake trout linkage map with the Atlantic salmon genome assembly.

Figure S7: MapComp dot plot grid comparing the lake trout linkage map with the brook trout linkage map from Sutherland et al. (2016).

Figure S8: Centromere mapping using half tetrad analysis.

Figure S9: Boxplots of recombination rate estimated for each linkage group for males and females.


History

Article title

Mapping of Adaptive Traits Enabled by a High-Density Linkage Map for Lake Trout

Manuscript #

G3/2020/401184

Article DOI

10.1534/g3.120.401184

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