Winter diet of Gentoo penguins in South Georgia

See spreadsheets - Gentoo Experiment Details 18s

Each number corresponds to each worksheet

1. Samples and Date

Gentoo penguin scats were collected from Cumberland Bay, South Georgia (from the Maiviken colony). Visits were made weekly between 3 April and 19 Sep 2018 (one visit in June was missed owing to avalanche risk). During each of the 24 visits, 25 fresh scats were collected, producing a total of 600 samples. Samples were scooped into a 2 ml plastic screw-top tube containing 80% ethanol with a clean spatula and frozen at -20 degrees.


DNA was extracted from ~30 mg of faecal material using the Promega Maxwell RSC Tissue DNA Kit.

Each extraction contained a soft part or ~500ml of EtOH slurry. The samples were spun down, the EtOH was poured off, the sample was re-suspended in 120ul of S.T.A.R buffer and homogenised. 100ul of the supernatant was added to well number 1 and samples were eluted in 100ul of TE.

2. Plate Layout

Samples were diluted 1/10 and plated out on 96 well plates. Each plate had a positive control (fish, squid, shrimp DNA mix) and a negative PCR control.

3. 1st Round PCR.

All samples were analysed using a highly conserved metazoan primer set that amplifies a region of the nuclear 18S gene ( McInnes et al. 2017a). The first round PCR is to amplify the target marker and add sample-specific (7bp) multiplex-identifier (MID) tags (forward and reverse primer) and Illumina sequencing primers. See sheet for PCR conditions.

4. 2nd Round PCR

The second round PCR is to add sequencing adapters and additional 8 bp MIDs. See sheet for PCR conditions.

5. Miseq

MiSeq genome sequencer (Illumina), using the MISEQ V2 reagent kits (300 cycles).

See sheet for sample layout, i5 and i7 adapters and first round MID tags

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See spreadsheet - Gentoo Experiment Details Fish and Krill

The scat samples containing prey DNA sequences from the 18S analysis (n=222) were characterised with two other primer pairs allow species-level identification for fish and krill.

1. Samples

The samples positive for prey DNA and their plate layout

2. and 3. 1st Round PCR Krill /Degenerate

The first round PCR is to amplify the target marker and add sample-specific (6bp) multiplex-identifier (MID) tags (forward and reverse primer) and Illumina sequencing primers. See sheet for PCR conditions.

4. 2nd Round PCR

The second round PCR is to add sequencing adapters and additional 10 bp MIDs. See sheet for PCR conditions.

5. Miseq

MiSeq genome sequencer (Illumina), using the MISEQ V2 reagent kits (300 cycles).

See sheet for sample layout, R and F adapters and first round MID tags.


This work was completed as part of AAS project 4556.

Simple

Identification info

Alternate title
Winter diet of Gentoo penguins in South Georgia
Date (Publication)
2020-12-03
Edition
1
Citation identifier
Dataset DOI

Title
Information and documentation - Digital object identifier system
Date (Publication)
2012-04-23
Citation identifier
ISO 26324:2012

Citation identifier
doi:10.26179/5eafa8a6bcf22

Originator

Polanowski, A., Deagle, B. and Ratcliffe, N.

Publisher

Australian Antarctic Data Centre

Principal investigator

POLANOWSKI, ANDREA
Australian Antarctic Division
203 Channel Highway
Kingston
Tasmania
7050
Australia

Principal investigator

DEAGLE, BRUCE
Australian Antarctic Division
203 Channel Highway
Kingston
Tasmania
7050
Australia

Principal investigator

RATCLIFFE, NORMAN
British Antarctic Survey
High Cross, Madingley Road
CAMBRIDGE
CB3 0ET
United Kingdom

Collaborator

POLANOWSKI, ANDREA
Australian Antarctic Division
203 Channel Highway
Kingston
Tasmania
7050
Australia

Collaborator

DEAGLE, BRUCE
Australian Antarctic Division
203 Channel Highway
Kingston
Tasmania
7050
Australia
Name
CAASM Metadata
Website
https://data.aad.gov.au/metadata/records/BAS_Gentoo_Diet

Purpose
This study uses tracking data and DNA analysis of scats during the 2018 winter to evaluate spatial and dietary overlap of gentoo penguins with the krill fishery.
Status
Completed

Custodian

AU/AADC > Australian Antarctic Data Centre, Australia - AADC, DATA OFFICER (DATA CENTER CONTACT)
Australian Antarctic Division
203 Channel Highway
Kingston
Tasmania
7050
Australia
Topic category
  • Biota
  • Oceans

Extent

N
S
E
W


Extent

Description
Temporal Coverage

Temporal extent

TimePeriod
2019-04-03 2019-09-19
Title
Changes in prey fields increase the potential for spatial overlap between gentoo penguins and a krill fishery within a marine protected area
Date (Publication)
2020
Citation identifier
DOI:10.1111/ddi.13216

Author

Norman Ratcliffe, Bruce Deagle, Kieran Love, Andrea Polanowski, Andy Wood, Simeon Hill, Susie Grant, Mark Belchier and Jonathan Hall.
Name
Biodiversity Research
NASA/GCMD Earth Science Keywords
  • EARTH SCIENCE > OCEANS > AQUATIC SCIENCES > FISHERIES
  • EARTH SCIENCE > BIOSPHERE > ECOLOGICAL DYNAMICS > SPECIES/POPULATION INTERACTIONS > SPECIES COMPETITION
  • EARTH SCIENCE > BIOSPHERE > ECOLOGICAL DYNAMICS > SPECIES/POPULATION INTERACTIONS > USE/FEEDING HABITATS
  • EARTH SCIENCE > BIOLOGICAL CLASSIFICATION > ANIMALS/VERTEBRATES > BIRDS > PENGUINS
Keywords
  • DNA DIET ANALYSIS
  • GENTOO PENGUIN
NASA/GCMD Earth Science Keywords
  • SSTI > Satellite-to-Satellite Tracking Instrument
  • ADS > Automated DNA Sequencer
NASA/GCMD Earth Science Keywords
  • LABORATORY
  • FIELD INVESTIGATION
NASA/GCMD Earth Science Keywords
  • AMD
  • AMD/AU
  • CEOS
NASA/GCMD Earth Science Keywords
  • OCEAN > ATLANTIC OCEAN > SOUTH ATLANTIC OCEAN > SOUTH GEORGIA ISLAND > CUMBERLAND BAY
  • GEOGRAPHIC REGION > POLAR
  • OCEAN > ATLANTIC OCEAN > SOUTH ATLANTIC OCEAN > SOUTH GEORGIA ISLAND > OCEAN HARBOUR
  • OCEAN > ATLANTIC OCEAN > SOUTH ATLANTIC OCEAN > SOUTH GEORGIA ISLAND > BARFF PENINSULA
  • OCEAN > SOUTHERN OCEAN

Resource constraints

Use limitation
This metadata record is publicly available.

Resource constraints

Access constraints
licence
Other constraints
These data are publicly available for download from the provided URL.

Resource constraints

File type
Portable Network Graphic
Linkage
Creative Commons by Attribution logo

Title
Attribution 4.0 International (CC BY 4.0)
Website
https://creativecommons.org/licenses/by/4.0/legalcode

Legal code for Creative Commons by Attribution 4.0 International license

Use constraints
licence
Other constraints
This data set conforms to the CCBY Attribution License (http://creativecommons.org/licenses/by/4.0/). Please follow instructions listed in the citation reference provided at http://data.aad.gov.au/aadc/metadata/citation.cfm?entry_id=BAS_Gentoo_Diet when using these data.
Language
English
Character encoding
UTF8

Distribution Information

Distributor

Distributor

AU/AADC > Australian Antarctic Data Centre, Australia - AADC, DATA OFFICER (DATA CENTER CONTACT)
Australian Antarctic Division
203 Channel Highway
Kingston
Tasmania
7050
Australia

Distributor

Fees
Free
Planned available datetime
2020-12-03T00:00:00
Units of distribution
GB
Transfer size
6
Distribution format
  • fastq

OnLine resource
GET DATA > DIRECT DOWNLOAD

Download the dataset.

OnLine resource
PROJECT HOME PAGE

Public information for AAS project 4556

OnLine resource
VIEW RELATED INFORMATION

Citation reference for this metadata record and dataset.

Maintenance and update frequency
As needed
Maintenance note
2020-04-23 - record created by Andrea Polanowski. 2020-05-12 - record updated by Dave Connell to add spatial coordinates. 2020-06-10 - record updated by Dave Connell to remove a duplicate instrument. 2021-01-18 - record updated by Dave Connell to publicly release the data.

Metadata

Metadata identifier
string/BAS_Gentoo_Diet

Language
English
Character encoding
UTF8

Author

POLANOWSKI, ANDREA
Australian Antarctic Division
203 Channel Highway
Kingston
Tasmania
7050
Australia

Sponsor

Australian Antarctic Division

Owner

AADC

Type of resource

Resource scope
Dataset

Alternative metadata reference

Title
gov.nasa.gsfc.gcmd
Citation identifier
ad7bebee-1bd9-4dcf-addd-dd7c420b0bd5

Alternative metadata reference

Title
gov.nasa.gsfc.gcmd
Date (Last Revision)
2021-01-18T14:13:31

Identifier

Description
metadata.extraction_date

Alternative metadata reference

Title
gov.nasa.gsfc.gcmd
Citation identifier
8.6

Metadata linkage
http://data.aad.gov.au/metadata/records/BAS_Gentoo_Diet

Point of truth for the metadata record

Date info (Creation)
2020-04-23T00:00:00
Date info (Last Update)
2021-01-18

Metadata standard

Title
ISO 19115-3
Edition
2014
Other citation details
Version 1
Title
DIF to ISO 19115-1 Profile
 
 

Overviews

Spatial extent

N
S
E
W


Keywords


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