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

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 carr...

Full description

Bibliographic Details
Other Authors: DEAGLE, BRUCE (hasPrincipalInvestigator), DEAGLE, BRUCE (processor), Australian Antarctic Data Centre (publisher)
Format: Dataset
Language:unknown
Published: Australian Antarctic Data Centre
Subjects:
biota
oceans
EUPHAUSIIDS (KRILL)
EARTH SCIENCE
BIOLOGICAL CLASSIFICATION
ANIMALS/INVERTEBRATES
ARTHROPODS
CRUSTACEANS
Genome
DNA
ADS &gt
Automated DNA Sequencer
LABORATORY
SHIPS
CONTINENT &gt
ANTARCTICA
OCEAN &gt
SOUTHERN OCEAN
GEOGRAPHIC REGION &gt
POLAR
Antarctic
Antarctic Peninsula
Austral
East Antarctica
Lazarev
Lazarev Sea
Ross Sea
Southern Ocean
Antarc*
Antarctic Krill
Antarctica
Euphausia superba
Online Access:https://researchdata.ands.org.au/population-genetics-dataset-mtdna-sequencing/698947
https://doi.org/10.4225/15/556FAB354BE19
https://data.aad.gov.au/metadata/records/AAS_4015_Population_Genetics
http://nla.gov.au/nla.party-617536
Description
Summary: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

Similar Items