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...
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Australian Antarctic Data Centre
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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 |
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ftands:oai:ands.org.au::698947 2023-05-15T13:46:57+02:00 Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing DEAGLE, BRUCE (hasPrincipalInvestigator) DEAGLE, BRUCE (processor) Australian Antarctic Data Centre (publisher) Spatial: northlimit=-64.0; southlimit=-69.0; westlimit=-76.0; eastLimit=178.0; projection=WGS84 Temporal: From 2012-01-01 to 2013-12-31 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 unknown Australian Antarctic Data Centre https://researchdata.ands.org.au/population-genetics-dataset-mtdna-sequencing/698947 fab59858-0d32-4709-ab33-fa9f776ce3b7 doi:10.4225/15/556FAB354BE19 AAS_4015_Population_Genetics https://data.aad.gov.au/metadata/records/AAS_4015_Population_Genetics http://nla.gov.au/nla.party-617536 Australian Antarctic Data Centre biota oceans EUPHAUSIIDS (KRILL) EARTH SCIENCE BIOLOGICAL CLASSIFICATION ANIMALS/INVERTEBRATES ARTHROPODS CRUSTACEANS Genome DNA ADS > Automated DNA Sequencer LABORATORY SHIPS CONTINENT > ANTARCTICA OCEAN > SOUTHERN OCEAN GEOGRAPHIC REGION > POLAR dataset ftands https://doi.org/10.4225/15/556FAB354BE19 2020-01-05T21:15:41Z 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 Dataset Antarc* Antarctic Antarctic Krill Antarctic Peninsula Antarctica East Antarctica Euphausia superba Lazarev Sea Ross Sea Southern Ocean Research Data Australia (Australian National Data Service - ANDS) Antarctic Antarctic Peninsula Austral East Antarctica Lazarev ENVELOPE(12.917,12.917,-69.967,-69.967) Lazarev Sea ENVELOPE(7.000,7.000,-68.000,-68.000) Ross Sea Southern Ocean ENVELOPE(-76.0,178.0,-64.0,-69.0) |
institution |
Open Polar |
collection |
Research Data Australia (Australian National Data Service - ANDS) |
op_collection_id |
ftands |
language |
unknown |
topic |
biota oceans EUPHAUSIIDS (KRILL) EARTH SCIENCE BIOLOGICAL CLASSIFICATION ANIMALS/INVERTEBRATES ARTHROPODS CRUSTACEANS Genome DNA ADS > Automated DNA Sequencer LABORATORY SHIPS CONTINENT > ANTARCTICA OCEAN > SOUTHERN OCEAN GEOGRAPHIC REGION > POLAR |
spellingShingle |
biota oceans EUPHAUSIIDS (KRILL) EARTH SCIENCE BIOLOGICAL CLASSIFICATION ANIMALS/INVERTEBRATES ARTHROPODS CRUSTACEANS Genome DNA ADS > Automated DNA Sequencer LABORATORY SHIPS CONTINENT > ANTARCTICA OCEAN > SOUTHERN OCEAN GEOGRAPHIC REGION > POLAR Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing |
topic_facet |
biota oceans EUPHAUSIIDS (KRILL) EARTH SCIENCE BIOLOGICAL CLASSIFICATION ANIMALS/INVERTEBRATES ARTHROPODS CRUSTACEANS Genome DNA ADS > Automated DNA Sequencer LABORATORY SHIPS CONTINENT > ANTARCTICA OCEAN > SOUTHERN OCEAN GEOGRAPHIC REGION > POLAR |
description |
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 |
author2 |
DEAGLE, BRUCE (hasPrincipalInvestigator) DEAGLE, BRUCE (processor) Australian Antarctic Data Centre (publisher) |
format |
Dataset |
title |
Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing |
title_short |
Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing |
title_full |
Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing |
title_fullStr |
Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing |
title_full_unstemmed |
Population genetics dataset for Antarctic krill (Euphausia superba): Restriction site-associated DNA sequencing (RAD-seq) and mtDNA sequencing |
title_sort |
population genetics dataset for antarctic krill (euphausia superba): restriction site-associated dna sequencing (rad-seq) and mtdna sequencing |
publisher |
Australian Antarctic Data Centre |
url |
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 |
op_coverage |
Spatial: northlimit=-64.0; southlimit=-69.0; westlimit=-76.0; eastLimit=178.0; projection=WGS84 Temporal: From 2012-01-01 to 2013-12-31 |
long_lat |
ENVELOPE(12.917,12.917,-69.967,-69.967) ENVELOPE(7.000,7.000,-68.000,-68.000) ENVELOPE(-76.0,178.0,-64.0,-69.0) |
geographic |
Antarctic Antarctic Peninsula Austral East Antarctica Lazarev Lazarev Sea Ross Sea Southern Ocean |
geographic_facet |
Antarctic Antarctic Peninsula Austral East Antarctica Lazarev Lazarev Sea Ross Sea Southern Ocean |
genre |
Antarc* Antarctic Antarctic Krill Antarctic Peninsula Antarctica East Antarctica Euphausia superba Lazarev Sea Ross Sea Southern Ocean |
genre_facet |
Antarc* Antarctic Antarctic Krill Antarctic Peninsula Antarctica East Antarctica Euphausia superba Lazarev Sea Ross Sea Southern Ocean |
op_source |
Australian Antarctic Data Centre |
op_relation |
https://researchdata.ands.org.au/population-genetics-dataset-mtdna-sequencing/698947 fab59858-0d32-4709-ab33-fa9f776ce3b7 doi:10.4225/15/556FAB354BE19 AAS_4015_Population_Genetics https://data.aad.gov.au/metadata/records/AAS_4015_Population_Genetics http://nla.gov.au/nla.party-617536 |
op_doi |
https://doi.org/10.4225/15/556FAB354BE19 |
_version_ |
1766245788237692928 |