Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples
Progress Code: completed Purpose Comparison between morphological taxonomy and DNA metabarcoding for processing continuous plankton recorder samples Data stored in a Dryad package (doi:10.5061/dryad.c75sj) associated with the publication: Genetic monitoring of open ocean biodiversity: an evaluation...
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Online Access: | https://researchdata.edu.au/data-initial-evaluation-recorder-samples/2823018 |
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ftands:oai:ands.org.au::2823018 2023-10-09T21:50:02+02:00 Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples Spatial: westlimit=155.03906; southlimit=-52.48278; eastlimit=155.03906; northlimit=-52.48278 Temporal: From 2015-04-06 to 2015-04-20 https://researchdata.edu.au/data-initial-evaluation-recorder-samples/2823018 unknown Australian Ocean Data Network https://researchdata.edu.au/data-initial-evaluation-recorder-samples/2823018 AAS_4313_Genetic_CPR Dataset DOI AU/AADC > Australian Antarctic Data Centre, Australia biota oceans EARTH SCIENCE > BIOSPHERE > ECOSYSTEMS > AQUATIC ECOSYSTEMS > PLANKTON > ZOOPLANKTON BIOLOGICAL CLASSIFICATION > ANIMALS/INVERTEBRATES > ARTHROPODS > CRUSTACEANS > EUPHAUSIIDS (KRILL) ECHINODERMS CNIDARIANS > HYDROZOANS DNA BARCODING DNA SEQUENCES CPR > Continuous Plankton Recorder R/V AA > R/V Aurora Australis AMD/AU AMD CEOS GEOGRAPHIC REGION > POLAR OCEAN > SOUTHERN OCEAN dataset ftands 2023-09-18T22:50:25Z Progress Code: completed Purpose Comparison between morphological taxonomy and DNA metabarcoding for processing continuous plankton recorder samples Data stored in a Dryad package (doi:10.5061/dryad.c75sj) associated with the publication: Genetic monitoring of open ocean biodiversity: an evaluation of DNA metabarcoding for processing continuous plankton recorder samples Authors: Bruce Deagle , Laurence Clarke , John Kitchener, Andrea Polanowski, Andrew Davidson. Molecular Ecology Resources. The Continuous Plankton Recorder (CPR) has been used to characterise zooplankton biodiversity along transects covering hundreds of thousands of kilometres in the Southern Ocean CPR survey. Plankton collected by the CPR is currently identified using is classical taxonomy (i.e. using a microscope and morphological features). We investigated the potential to use DNA metabarcoding (species identification from DNA mixtures using high-throughput DNA sequencing) as a tool for rapid collection of taxonomic data from CPR samples. In our study, zooplankton were collected on CPR silks along two transects between Tasmania and Macquarie Island. Plankton were identified using standard microscopic methods and by sequencing a mitochondrial COI marker. Data provided in the Dryad Data entry include the DNA sequences (Illumina MiSeq) recovered, the morphological identifications and the R-code used to analyse these data. The results from our study show that a DNA-based approach increased the number of metazoan species identified and provided high resolution taxonomy of groups problematic in conventional surveys (e.g. larval echinoderms and hydrozoans). Metabarcoding also generally produced more detections than microscopy, but this sensitivity may make cross-contamination during sampling a problem. In some samples, the prevalence of DNA from larger plankton (such as krill) masked the presence of smaller species. Overall, the genetic data represents a substantial shift in perspective, making direct integration into current long-term ... Dataset aurora australis Macquarie Island Southern Ocean Research Data Australia (Australian National Data Service - ANDS) Southern Ocean Davidson ENVELOPE(-44.766,-44.766,-60.766,-60.766) |
institution |
Open Polar |
collection |
Research Data Australia (Australian National Data Service - ANDS) |
op_collection_id |
ftands |
language |
unknown |
topic |
biota oceans EARTH SCIENCE > BIOSPHERE > ECOSYSTEMS > AQUATIC ECOSYSTEMS > PLANKTON > ZOOPLANKTON BIOLOGICAL CLASSIFICATION > ANIMALS/INVERTEBRATES > ARTHROPODS > CRUSTACEANS > EUPHAUSIIDS (KRILL) ECHINODERMS CNIDARIANS > HYDROZOANS DNA BARCODING DNA SEQUENCES CPR > Continuous Plankton Recorder R/V AA > R/V Aurora Australis AMD/AU AMD CEOS GEOGRAPHIC REGION > POLAR OCEAN > SOUTHERN OCEAN |
spellingShingle |
biota oceans EARTH SCIENCE > BIOSPHERE > ECOSYSTEMS > AQUATIC ECOSYSTEMS > PLANKTON > ZOOPLANKTON BIOLOGICAL CLASSIFICATION > ANIMALS/INVERTEBRATES > ARTHROPODS > CRUSTACEANS > EUPHAUSIIDS (KRILL) ECHINODERMS CNIDARIANS > HYDROZOANS DNA BARCODING DNA SEQUENCES CPR > Continuous Plankton Recorder R/V AA > R/V Aurora Australis AMD/AU AMD CEOS GEOGRAPHIC REGION > POLAR OCEAN > SOUTHERN OCEAN Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples |
topic_facet |
biota oceans EARTH SCIENCE > BIOSPHERE > ECOSYSTEMS > AQUATIC ECOSYSTEMS > PLANKTON > ZOOPLANKTON BIOLOGICAL CLASSIFICATION > ANIMALS/INVERTEBRATES > ARTHROPODS > CRUSTACEANS > EUPHAUSIIDS (KRILL) ECHINODERMS CNIDARIANS > HYDROZOANS DNA BARCODING DNA SEQUENCES CPR > Continuous Plankton Recorder R/V AA > R/V Aurora Australis AMD/AU AMD CEOS GEOGRAPHIC REGION > POLAR OCEAN > SOUTHERN OCEAN |
description |
Progress Code: completed Purpose Comparison between morphological taxonomy and DNA metabarcoding for processing continuous plankton recorder samples Data stored in a Dryad package (doi:10.5061/dryad.c75sj) associated with the publication: Genetic monitoring of open ocean biodiversity: an evaluation of DNA metabarcoding for processing continuous plankton recorder samples Authors: Bruce Deagle , Laurence Clarke , John Kitchener, Andrea Polanowski, Andrew Davidson. Molecular Ecology Resources. The Continuous Plankton Recorder (CPR) has been used to characterise zooplankton biodiversity along transects covering hundreds of thousands of kilometres in the Southern Ocean CPR survey. Plankton collected by the CPR is currently identified using is classical taxonomy (i.e. using a microscope and morphological features). We investigated the potential to use DNA metabarcoding (species identification from DNA mixtures using high-throughput DNA sequencing) as a tool for rapid collection of taxonomic data from CPR samples. In our study, zooplankton were collected on CPR silks along two transects between Tasmania and Macquarie Island. Plankton were identified using standard microscopic methods and by sequencing a mitochondrial COI marker. Data provided in the Dryad Data entry include the DNA sequences (Illumina MiSeq) recovered, the morphological identifications and the R-code used to analyse these data. The results from our study show that a DNA-based approach increased the number of metazoan species identified and provided high resolution taxonomy of groups problematic in conventional surveys (e.g. larval echinoderms and hydrozoans). Metabarcoding also generally produced more detections than microscopy, but this sensitivity may make cross-contamination during sampling a problem. In some samples, the prevalence of DNA from larger plankton (such as krill) masked the presence of smaller species. Overall, the genetic data represents a substantial shift in perspective, making direct integration into current long-term ... |
format |
Dataset |
title |
Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples |
title_short |
Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples |
title_full |
Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples |
title_fullStr |
Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples |
title_full_unstemmed |
Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples |
title_sort |
data from initial evaluation of dna metabarcoding for processing continuous plankton recorder samples |
publisher |
Australian Ocean Data Network |
url |
https://researchdata.edu.au/data-initial-evaluation-recorder-samples/2823018 |
op_coverage |
Spatial: westlimit=155.03906; southlimit=-52.48278; eastlimit=155.03906; northlimit=-52.48278 Temporal: From 2015-04-06 to 2015-04-20 |
long_lat |
ENVELOPE(-44.766,-44.766,-60.766,-60.766) |
geographic |
Southern Ocean Davidson |
geographic_facet |
Southern Ocean Davidson |
genre |
aurora australis Macquarie Island Southern Ocean |
genre_facet |
aurora australis Macquarie Island Southern Ocean |
op_source |
AU/AADC > Australian Antarctic Data Centre, Australia |
op_relation |
https://researchdata.edu.au/data-initial-evaluation-recorder-samples/2823018 AAS_4313_Genetic_CPR Dataset DOI |
_version_ |
1779313104004317184 |