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Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing

Created 13/03/2025

Updated 13/03/2025

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This restriction site associated DNA sequencing (RAD-seq) dataset for Antarctic krill (Euphausia superba) includes raw sequence data and summaries for 148 krill from 5 Southern Ocean sites. A detailed README.pdf file is provided to describe components of the dataset. DNA library preparation was carried out in two separate batches by Floragenex (Eugene, Oregon, USA). RAD fragment libraries (SbfI) were sequenced on an Illumina HiSeq 2000 using single-end 100 bp chemistry. As there is no reference genome for Antarctic krill, a set of unique 90 bp sequences (RAD tags) was assembled from 17.3 million single-end reads from an individual krill. We obtained over a billion raw reads from the 148 krill in our study (a mean of 6.8 million reads per sample). The reference assembly contained 239,441 distinct RAD tags. The core genotype dataset exported for downstream data filtering included just those SNPs with genotype calls in at least 80% of the krill samples and contained 12,114 SNPs on 816 RAD tags. Sample collection table (comma separated): Southern Ocean Location, Sample Size, Austral Summer, Latitude, Longitude, ID East Antarctica (Casey), 21, 2010/2011, 64S, 100E, Cas East Antarctica (Mawson), 22, 2011/2012. 66S, 70E, Maw Lazarev Sea, 38, 2004/2005 and 2007/2008, 66S, 0E, Laz Western Antarctic Peninsula, 16, 2010/2011, 69S, 76W, WAP Ross Sea, 23, 2012/2013, 68S, 178E, Ross

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Title Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing
Language eng
Licence notspecified
Landing Page https://devweb.dga.links.com.au/data/dataset/4e93c96a-02a7-4811-8434-725e54d78ffe
Contact Point
CSIRO Oceans & Atmosphere
metadata@aad.gov.au
Reference Period 01/01/2012 - 31/12/2013
Geospatial Coverage {"type": "Polygon", "coordinates": [[[-76.0, -69.0], [178.0, -69.0], [178.0, -64.0], [-76.0, -64.0], [-76.0, -69.0]]]}
Data Portal data.gov.au

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This dataset was originally found on data.gov.au "Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing". Please visit the source to access the original metadata of the dataset:
https://devweb.dga.links.com.au/data/dataset/population-genetics-dataset-for-antarctic-krill-euphausia-superba-restriction-site-associated-d

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