Data

Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples

Australian Antarctic Data Centre
DEAGLE, BRUCE
Viewed: [[ro.stat.viewed]] Cited: [[ro.stat.cited]] Accessed: [[ro.stat.accessed]]
ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=info:doi10.5061/dryad.c75sj&rft.title=Data from initial evaluation of DNA metabarcoding for processing continuous plankton recorder samples&rft.identifier=10.5061/dryad.c75sj&rft.publisher=Australian Antarctic Data Centre&rft.description=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 time-series challenging. We discuss a number of hurdles that exist for progressing this powerful DNA metabarcoding approach from the current snapshot studies to the requirements of a long-term monitoring program.&rft.creator=DEAGLE, BRUCE &rft.date=2017&rft.coverage=northlimit=-52.48278; southlimit=-52.48278; westlimit=155.03906; eastLimit=155.03906; projection=WGS84&rft.coverage=northlimit=-52.48278; southlimit=-52.48278; westlimit=155.03906; eastLimit=155.03906; projection=WGS84&rft_rights=This data set conforms to the CCBY Attribution License (http://creativecommons.org/licenses/by/4.0/). Please follow DRAYD guidelines when using these data.&rft_subject=biota&rft_subject=oceans&rft_subject=ZOOPLANKTON&rft_subject=EARTH SCIENCE&rft_subject=BIOSPHERE&rft_subject=AQUATIC ECOSYSTEMS&rft_subject=PLANKTON&rft_subject=EUPHAUSIIDS (KRILL)&rft_subject=BIOLOGICAL CLASSIFICATION&rft_subject=ANIMALS/INVERTEBRATES&rft_subject=ARTHROPODS&rft_subject=CRUSTACEANS&rft_subject=ECHINODERMS&rft_subject=HYDROZOANS&rft_subject=CNIDARIANS&rft_subject=DNA BARCODING&rft_subject=DNA SEQUENCES&rft_subject=CPR > Continuous Plankton Recorder&rft_subject=R/V AA > R/V Aurora Australis&rft_subject=GEOGRAPHIC REGION > POLAR&rft_subject=OCEAN > SOUTHERN OCEAN&rft_place=Hobart&rft.type=dataset&rft.language=English Access the data
Cite Saved to MyRDA Save to MyRDA

Licence & Rights:

view details

This data set conforms to the CCBY Attribution License (http://creativecommons.org/licenses/by/4.0/). Please follow DRAYD guidelines when using these data.

Access:

Other view details

These data are available from DRYAD at the provided URL.

Brief description

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 time-series challenging. We discuss a number of hurdles that exist for progressing this powerful DNA metabarcoding approach from the current snapshot studies to the requirements of a long-term monitoring program.

Issued: 2017-11-20

Data time period: 2015-04-06 to 2015-04-20

This dataset is part of a larger collection

Click to explore relationships graph
Help

Related Data

Related Organisations

Related People

155.03906,-52.48278

155.03906,-52.48278

text: northlimit=-52.48278; southlimit=-52.48278; westlimit=155.03906; eastLimit=155.03906; projection=WGS84

Subjects
ANIMALS/INVERTEBRATES | AQUATIC ECOSYSTEMS | ARTHROPODS | BIOLOGICAL CLASSIFICATION | BIOSPHERE | CNIDARIANS | CPR > Continuous Plankton Recorder | CRUSTACEANS | DNA BARCODING | DNA SEQUENCES | EARTH SCIENCE | ECHINODERMS | EUPHAUSIIDS (KRILL) | GEOGRAPHIC REGION > POLAR | HYDROZOANS | OCEAN > SOUTHERN OCEAN | PLANKTON | R/V AA > R/V Aurora Australis | ZOOPLANKTON | biota | oceans |

User Contributed Tags    

Login to tag this record with meaningful keywords to make it easier to discover

Other Information

AU-ANL:PEAU : http://nla.gov.au/nla.party-617536

Identifiers
Similar data you may be interested in: