Data from: RAD-Seq derived markers flank the shell colour and banding loci of the Cepaea nemoralis supergene

 

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Title Linkage map marker sequence assemblies
Downloaded 43 times
Description RAD-tag sequences and paired-end contig assemblies for 11 RAD loci, which were used to develop a linkage map of genetic markers flanking the shell colour (C) and banding presence (B) loci of the Cepaea nemoralis supergene. The sequences were generated by Illumina sequencing of three RAD-Seq libraries comprising both parents and a total 24 F1 offspring from a single cross (C100 x C101) that segregated for shell colour (C) and presence or absence of banding (B). De novo assembly of RAD loci was performed using RADtools 1.2.4 (http://www.RAD-Seq.info). A combination of Unix and Excel commands were then used to identify candidate RAD loci that cosegregate with colour and banding. Paired-end reads were assembled into contigs using VelvetOptimiser version 2.1.7, separately for each of the three RAD libraries. For the RAD markers shown, the corresponding contigs were concatenated and then manually aligned into longer, high-quality contigs. Each sequence is labelled: RAD marker ID – allelic phase with the supergene loci – sequence type – length – coverage. Contigs that could not be aligned are labelled as such.
Download Cepaea nemoralis RAD markers RAD-tag and ...es.fas (39.51 Kb)
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Title Linkage mapping genotypes dataset
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Description Genotypes used to produce a linkage map of 11 RAD-Seq derived markers flanking the shell colour (C) and banding presence (B) loci of the Cepaea nemoralis supergene. Data for two crosses are shown: C100 x C101 was a cross between a double homozygous recessive yellow-banded mother and a heterozygous father, resulting in either yellow-unbanded or pink-banded F1 offspring (n = 102). C118 x C119 was a cross between a double homozygous recessive yellow-banded parent and a pink-banded parent heterozygous for colour, but not banding. Full details of the crosses and the genotype assays are provided in the paper. Marker genotypes are provided in CRIMAP formatting.
Download Cepaea linkage map genotypes dataset.xlsx (24.32 Kb)
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Title Shell colour and banding phenotype data from 6 Cepaea nemoralis crosses
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Description Phenotype data for the shell ground colour (C)and banding presence (B) supergene loci, scored in 398 individuals from 6 crosses of Cepaea nemoralis. As C. nemoralis is a simultaneous hermaphrodite, offspring from both parents were used, except for crosses C100 x C101 and C108 x C109, where a non-virgin snail (C100 and C108 respectively) was removed after mating. Full details of the crosses, rearing of the snails and analysis of the data are provided in the paper.
Download Cepaea crosses colour and banding phenotyp....xlsx (23.30 Kb)
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When using this data, please cite the original publication:

Richards PM, Liu MM, Lowe N, Davey JW, Blaxter ML, Davison A (2013) RAD-Seq derived markers flank the shell colour and banding loci of the Cepaea nemoralis supergene. Molecular Ecology 22(11): 3077–3089. http://dx.doi.org/10.1111/mec.12262

Additionally, please cite the Dryad data package:

Richards PM, Liu MM, Lowe N, Davey JW, Blaxter ML, Davison A (2013) Data from: RAD-Seq derived markers flank the shell colour and banding loci of the Cepaea nemoralis supergene. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.560r4
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