Data from: Genomic divergence between the migratory and stationary ecotypes of Atlantic cod ...
Atlantic cod displays a range of phenotypic and genotypic variations, which includes the differentiation into coastal stationary and offshore migratory types of cod that co-occur in several parts of its distribution range and are often sympatric on the spawning grounds. Differentiation of these ecot...
| Main Authors: | , , , , , , , , , |
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| Format: | Dataset |
| Language: | English |
| Published: |
Dryad
2013
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| Subjects: | |
| Online Access: | https://dx.doi.org/10.5061/dryad.b9p8v https://datadryad.org/stash/dataset/doi:10.5061/dryad.b9p8v |
| Summary: | Atlantic cod displays a range of phenotypic and genotypic variations, which includes the differentiation into coastal stationary and offshore migratory types of cod that co-occur in several parts of its distribution range and are often sympatric on the spawning grounds. Differentiation of these ecotypes may involve both historical separation and adaptation to ecologically distinct environments, the genetic basis of which is now beginning to be unravelled. Genomic analyses based on recent sequencing advances are able to document genomic divergence in more detail and may facilitate the exploration of causes and consequences of genome-wide patterns. We examined genomic divergence between the stationary and migratory types of cod in the Northeast Atlantic, using next-generation sequencing of pooled DNA from each of two population samples. Sequence data was mapped to the published cod genome sequence, arranged in more than 6000 scaffolds (611 Mb). We identified 25 divergent scaffolds (26 Mb) with a higher than ... : GMAP of mRNA to cod reference genomeEnsemble mRNA is mapped to cod reference with GMAPcod_wg_mapping_mrna.gff3R script calculates Fst from SNP dataThis script calculates Fst from CLC genomics parsed SNP's2011-09-17-Fst.from.SNP.RDatagmgH_onstallo_barents SNP Detection_TablegmgH_onstallo_holand_SNP Detection_Table ... |
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