K-Axis eukaryote Operational Taxonomic Units (OTU) table and contextual data
Sampling Samples were collected on board the RSV Aurora Australis between 22 January and 17 February 2016. The cruise surveyed the region south of the Kerguelen Plateau including the Princess Elizabeth Trough and BANZARE Bank in a series of eight transects covering 8165 km. Plankton communities were...
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Australian Ocean Data Network
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Online Access: | https://researchdata.ands.org.au/k-axis-eukaryote-table-contextual/1358656 https://data.aad.gov.au/metadata/records/AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/aadc/metadata/citation.cfm?entry_id=AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/eds/4810/download https://secure3.aad.gov.au/proms/public/projects/report_project_public.cfm?project_no=AAS_4313 |
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ftands:oai:ands.org.au::1358656 |
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record_format |
openpolar |
institution |
Open Polar |
collection |
Research Data Australia (Australian National Data Service - ANDS) |
op_collection_id |
ftands |
language |
unknown |
topic |
biota oceans PLANKTON EARTH SCIENCE BIOLOGICAL CLASSIFICATION PROTISTS CHLOROPHYLL OCEAN CHEMISTRY SALINITY SALINITY/DENSITY ILLUMINA MISEQ EUKARYOTE 18S RIBOSOMAL RNA ADS > Automated DNA Sequencer NISKIN BOTTLES CTD > Conductivity Temperature Depth LABORATORY R/V AA > R/V Aurora Australis ACE/CRC AMD/AU AMD CEOS GEOGRAPHIC REGION > POLAR CONTINENT > ANTARCTICA OCEAN > SOUTHERN OCEAN > BANZARE BANK PRINCESS ELIZABETH TROUGH |
spellingShingle |
biota oceans PLANKTON EARTH SCIENCE BIOLOGICAL CLASSIFICATION PROTISTS CHLOROPHYLL OCEAN CHEMISTRY SALINITY SALINITY/DENSITY ILLUMINA MISEQ EUKARYOTE 18S RIBOSOMAL RNA ADS > Automated DNA Sequencer NISKIN BOTTLES CTD > Conductivity Temperature Depth LABORATORY R/V AA > R/V Aurora Australis ACE/CRC AMD/AU AMD CEOS GEOGRAPHIC REGION > POLAR CONTINENT > ANTARCTICA OCEAN > SOUTHERN OCEAN > BANZARE BANK PRINCESS ELIZABETH TROUGH K-Axis eukaryote Operational Taxonomic Units (OTU) table and contextual data |
topic_facet |
biota oceans PLANKTON EARTH SCIENCE BIOLOGICAL CLASSIFICATION PROTISTS CHLOROPHYLL OCEAN CHEMISTRY SALINITY SALINITY/DENSITY ILLUMINA MISEQ EUKARYOTE 18S RIBOSOMAL RNA ADS > Automated DNA Sequencer NISKIN BOTTLES CTD > Conductivity Temperature Depth LABORATORY R/V AA > R/V Aurora Australis ACE/CRC AMD/AU AMD CEOS GEOGRAPHIC REGION > POLAR CONTINENT > ANTARCTICA OCEAN > SOUTHERN OCEAN > BANZARE BANK PRINCESS ELIZABETH TROUGH |
description |
Sampling Samples were collected on board the RSV Aurora Australis between 22 January and 17 February 2016. The cruise surveyed the region south of the Kerguelen Plateau including the Princess Elizabeth Trough and BANZARE Bank in a series of eight transects covering 8165 km. Plankton communities were collected at 45 conductivity temperature depth (CTD) stations and seven additional underway stations, with biological replicates collected at two stations (52 independent sites). Surface water was sampled from 4 plus or minus 2 m depth using the uncontaminated seawater line. Deep Chlorophyll Maximum (DCM, 10-74 m) water samples were obtained using 10 L Niskin bottles mounted on a Seabird 911+ CTD. Plankton communities were size-fractionated by sequentially filtering 10 L seawater through 25 mm 20 micron (nylon) and 5 micron filters (PVDF), and 0.45 micron Sterivex filters (PVDF). Filters were stored frozen at -80 °C. DNA extraction and high-throughput sequencing DNA was extracted from half of each filter using the MoBio PowerSoil DNA Isolation kit at the Australian Genome Research Facility (AGRF, Adelaide, Australia; http://www.agrf.org.au). The V4 region of the 18S rDNA (approximately 380 bp excluding primers) was PCR-amplified using universal eukaryotic primers from all extracts and sequenced on an Illumina MiSeq v2 (2 x 250 bp paired-end) following the Ocean Sampling Day protocol (Piredda et al. 2017). Amplicon library preparation and high-throughput sequencing were carried out at the Ramaciotti Centre for Genomics (Sydney, Australia). Sequence analysis, OTU picking and assignment followed the Biomes of Australian Soil Environments (BASE) workflow (Bissett et al. 2016). Taxonomy was assigned to OTUs based on the PR2 database using the ‘classify.seqs’ command in mothur version 1.31.2 with default settings and a bootstrap cut-off of 60%. OTUs representing any terrestrial contaminants (e.g. human) and samples with low sequencing coverage (less than 7000 reads) were removed from the dataset. The date of sea ice melt for each station was estimated from daily SSM/I-derived sea-ice spatial concentration from the National Snow and Ice Data Centre (NSIDC) at 25 x 25 km resolution. Days since melt was considered to be the number of days between the date on which sea ice concentration first fell below 15% and the date of sampling. Other environmental variables included are in situ chlorophyll a, as an indicator of biological production, and near-surface salinity (mean over the upper 10 m) as an indicator for recent sea ice melt. Both environmental measurements were taken from the associated CTD seawater samples. The surface chlorophyll a in seawater (1-2 L) collected in Niskin bottles was analysed by high performance liquid chromatography (HPLC, provided by Karen Westwood and Imojen Pearce, Australian Antarctic Division, doi:10.4225/15/5a94c701b98a8). Sampling times are given in UTC. Characterise the eukaryotic plankton community in the Kerguelen Axis region, and identify the ecological drivers of community composition. |
author2 |
AADC (originator) AU/AADC > Australian Antarctic Data Centre, Australia (resourceProvider) |
format |
Dataset |
title |
K-Axis eukaryote Operational Taxonomic Units (OTU) table and contextual data |
title_short |
K-Axis eukaryote Operational Taxonomic Units (OTU) table and contextual data |
title_full |
K-Axis eukaryote Operational Taxonomic Units (OTU) table and contextual data |
title_fullStr |
K-Axis eukaryote Operational Taxonomic Units (OTU) table and contextual data |
title_full_unstemmed |
K-Axis eukaryote Operational Taxonomic Units (OTU) table and contextual data |
title_sort |
k-axis eukaryote operational taxonomic units (otu) table and contextual data |
publisher |
Australian Ocean Data Network |
url |
https://researchdata.ands.org.au/k-axis-eukaryote-table-contextual/1358656 https://data.aad.gov.au/metadata/records/AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/aadc/metadata/citation.cfm?entry_id=AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/eds/4810/download https://secure3.aad.gov.au/proms/public/projects/report_project_public.cfm?project_no=AAS_4313 |
op_coverage |
Spatial: northlimit=-57.5929; southlimit=-66.6074; westlimit=68.76833333; eastLimit=93.57 Temporal: From 2016-01-22 to 2016-02-17 |
long_lat |
ENVELOPE(83.000,83.000,-64.167,-64.167) ENVELOPE(77.733,77.733,-58.833,-58.833) ENVELOPE(68.76833333,93.57,-57.5929,-66.6074) |
geographic |
Antarctic Southern Ocean Kerguelen Princess Elizabeth Trough Banzare Bank |
geographic_facet |
Antarctic Southern Ocean Kerguelen Princess Elizabeth Trough Banzare Bank |
genre |
Antarc* Antarctic Antarctica aurora australis Australian Antarctic Division Sea ice Southern Ocean |
genre_facet |
Antarc* Antarctic Antarctica aurora australis Australian Antarctic Division Sea ice Southern Ocean |
op_source |
https://data.aad.gov.au |
op_relation |
https://researchdata.ands.org.au/k-axis-eukaryote-table-contextual/1358656 8590e5e3-2fec-4215-a53c-45c438d295e8 https://data.aad.gov.au/metadata/records/AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/aadc/metadata/citation.cfm?entry_id=AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/eds/4810/download https://secure3.aad.gov.au/proms/public/projects/report_project_public.cfm?project_no=AAS_4313 |
_version_ |
1766247711197102080 |
spelling |
ftands:oai:ands.org.au::1358656 2023-05-15T13:47:42+02:00 K-Axis eukaryote Operational Taxonomic Units (OTU) table and contextual data AADC (originator) AU/AADC > Australian Antarctic Data Centre, Australia (resourceProvider) Spatial: northlimit=-57.5929; southlimit=-66.6074; westlimit=68.76833333; eastLimit=93.57 Temporal: From 2016-01-22 to 2016-02-17 https://researchdata.ands.org.au/k-axis-eukaryote-table-contextual/1358656 https://data.aad.gov.au/metadata/records/AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/aadc/metadata/citation.cfm?entry_id=AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/eds/4810/download https://secure3.aad.gov.au/proms/public/projects/report_project_public.cfm?project_no=AAS_4313 unknown Australian Ocean Data Network https://researchdata.ands.org.au/k-axis-eukaryote-table-contextual/1358656 8590e5e3-2fec-4215-a53c-45c438d295e8 https://data.aad.gov.au/metadata/records/AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/aadc/metadata/citation.cfm?entry_id=AAS_4313_KAXIS_EUK_OTUS https://data.aad.gov.au/eds/4810/download https://secure3.aad.gov.au/proms/public/projects/report_project_public.cfm?project_no=AAS_4313 https://data.aad.gov.au biota oceans PLANKTON EARTH SCIENCE BIOLOGICAL CLASSIFICATION PROTISTS CHLOROPHYLL OCEAN CHEMISTRY SALINITY SALINITY/DENSITY ILLUMINA MISEQ EUKARYOTE 18S RIBOSOMAL RNA ADS > Automated DNA Sequencer NISKIN BOTTLES CTD > Conductivity Temperature Depth LABORATORY R/V AA > R/V Aurora Australis ACE/CRC AMD/AU AMD CEOS GEOGRAPHIC REGION > POLAR CONTINENT > ANTARCTICA OCEAN > SOUTHERN OCEAN > BANZARE BANK PRINCESS ELIZABETH TROUGH dataset ftands 2020-01-05T22:19:52Z Sampling Samples were collected on board the RSV Aurora Australis between 22 January and 17 February 2016. The cruise surveyed the region south of the Kerguelen Plateau including the Princess Elizabeth Trough and BANZARE Bank in a series of eight transects covering 8165 km. Plankton communities were collected at 45 conductivity temperature depth (CTD) stations and seven additional underway stations, with biological replicates collected at two stations (52 independent sites). Surface water was sampled from 4 plus or minus 2 m depth using the uncontaminated seawater line. Deep Chlorophyll Maximum (DCM, 10-74 m) water samples were obtained using 10 L Niskin bottles mounted on a Seabird 911+ CTD. Plankton communities were size-fractionated by sequentially filtering 10 L seawater through 25 mm 20 micron (nylon) and 5 micron filters (PVDF), and 0.45 micron Sterivex filters (PVDF). Filters were stored frozen at -80 °C. DNA extraction and high-throughput sequencing DNA was extracted from half of each filter using the MoBio PowerSoil DNA Isolation kit at the Australian Genome Research Facility (AGRF, Adelaide, Australia; http://www.agrf.org.au). The V4 region of the 18S rDNA (approximately 380 bp excluding primers) was PCR-amplified using universal eukaryotic primers from all extracts and sequenced on an Illumina MiSeq v2 (2 x 250 bp paired-end) following the Ocean Sampling Day protocol (Piredda et al. 2017). Amplicon library preparation and high-throughput sequencing were carried out at the Ramaciotti Centre for Genomics (Sydney, Australia). Sequence analysis, OTU picking and assignment followed the Biomes of Australian Soil Environments (BASE) workflow (Bissett et al. 2016). Taxonomy was assigned to OTUs based on the PR2 database using the ‘classify.seqs’ command in mothur version 1.31.2 with default settings and a bootstrap cut-off of 60%. OTUs representing any terrestrial contaminants (e.g. human) and samples with low sequencing coverage (less than 7000 reads) were removed from the dataset. The date of sea ice melt for each station was estimated from daily SSM/I-derived sea-ice spatial concentration from the National Snow and Ice Data Centre (NSIDC) at 25 x 25 km resolution. Days since melt was considered to be the number of days between the date on which sea ice concentration first fell below 15% and the date of sampling. Other environmental variables included are in situ chlorophyll a, as an indicator of biological production, and near-surface salinity (mean over the upper 10 m) as an indicator for recent sea ice melt. Both environmental measurements were taken from the associated CTD seawater samples. The surface chlorophyll a in seawater (1-2 L) collected in Niskin bottles was analysed by high performance liquid chromatography (HPLC, provided by Karen Westwood and Imojen Pearce, Australian Antarctic Division, doi:10.4225/15/5a94c701b98a8). Sampling times are given in UTC. Characterise the eukaryotic plankton community in the Kerguelen Axis region, and identify the ecological drivers of community composition. Dataset Antarc* Antarctic Antarctica aurora australis Australian Antarctic Division Sea ice Southern Ocean Research Data Australia (Australian National Data Service - ANDS) Antarctic Southern Ocean Kerguelen Princess Elizabeth Trough ENVELOPE(83.000,83.000,-64.167,-64.167) Banzare Bank ENVELOPE(77.733,77.733,-58.833,-58.833) ENVELOPE(68.76833333,93.57,-57.5929,-66.6074) |