A nanopore based chromosome-level assembly representing Atlantic cod from the Celtic Sea.

File S1: Bioinformatics methods, tools and pipelines used to generate gadMor_Celtic and other information complementing the materials and methods section can be found here. Table S1: Linkage map of gadMor_Celtic: SNPs, position in gadMor_Celtic, genetic linkage of male, female in centimorgan (cM) an...

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Bibliographic Details
Main Authors: Graceline Tina Kirubakaran (4965799), Matthew Peter Kent (3292377)
Format: Dataset
Language:unknown
Published: 2019
Subjects:
Molecular Biology
Gadus morhua
genome assemby
chromosomal rearrangements
linkage map
centromere repeats
nanopore
atlantic cod
Online Access:https://doi.org/10.6084/m9.figshare.10252919.v3
Description
Summary:File S1: Bioinformatics methods, tools and pipelines used to generate gadMor_Celtic and other information complementing the materials and methods section can be found here. Table S1: Linkage map of gadMor_Celtic: SNPs, position in gadMor_Celtic, genetic linkage of male, female in centimorgan (cM) and SNP flank sequence from gadMor1 (NEAC). Table S2: Predicted function of open reading frames were found with TransDecoder and homology search using blastp against zebrafish and stickleback protein databases. Figure S1: Plots showing collinearity between genetic maps for males (red) and female (blue) and the frequency of a 258bp tandem repeat structure (histogram) predicted to be related to centromeres in all 23 chromosomes. Table S3: This contains the list of genes in LGs 1, 2, 7 and 12. File S2: The putative 258bp centromere repeat sequence. gadMor_celtic_repeat_Library.fa.txt - Repeat library gadMor_Celtic.fa.txt -Genome assembly

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