Data

Short Tailed Shearwater DREAM gene sequencing fastq files

Australian Antarctic Division
Polanowski, A., Deagle, B.E. and De Paoli-Iseppi, R. ; DEAGLE, BRUCE E. ; DE PAOLI-ISEPPI, RICARDO ; POLANOWSKI, ANDREA
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=http://data.aad.gov.au/metadata/AAS_4014_shearwater_DREAM&rft.title=Short Tailed Shearwater DREAM gene sequencing fastq files&rft.identifier=http://data.aad.gov.au/metadata/AAS_4014_shearwater_DREAM&rft.publisher=Australian Antarctic Data Centre&rft.description=This data set includes unprocessed sample .fastq files from two separate Illumina NextSeq runs, labelled as 'Run_1' and 'Run_2', respectively.Sample names: e.g. STS15059, 'STS' is the abbreviation of Short-tailed shearwater. The first two digits of the numeric refer to the year of collection e.g. '15' = 2015. Finally, the following number refers to the sequential unique ID for that year, e.g. '059' is the fifty-ninth sample for the years' collection.Leg bands are also recorded and are generally a 5-digit number and are unique to the individual bird. Longitudinal samples can be identified using these band IDs. E.g. in Run_2, an individual with the band number: 52196, was collected in 2015 as 'STS15065' and again in 2017 as 'STS17044'.Run_1: N = 35 individual samples are split across 4 lanes e.g. 'STS16020_S35_L001(/L002/L003/L004)_R1_001/fastq' and need to be merged before conversion to .fasta format and downstream analysis.Run_2: N = 36 individual samples were provided as a single merged file from the service provider, e.g. 'STS15059_S34_R1_001.fastq'.Sample_info: This excel spreadsheet has information on samples as follows: 'Band': 5-digit number on leg band.'Sample': Sample number within run. 'UID': The unique ID for collection year e.g. STS15007.'Age': The known-age of the animal rounded to whole year.'Index (NebNext)': The NEB index used for NGS sample identification.'Note': Additional information on if a sample was a between or within run replicate or longitudinal replicate.Analysis of these data were published in: R. De Paoli-Iseppi et al. 2019. Age estimation in a long-lived seabird (Ardenna tenuirostris) using DNA methylation-based biomarkers, Molecular Ecology ResourcesProgress Code: completed&rft.creator=Polanowski, A., Deagle, B.E. and De Paoli-Iseppi, R. &rft.creator=DEAGLE, BRUCE E. &rft.creator=DE PAOLI-ISEPPI, RICARDO &rft.creator=POLANOWSKI, ANDREA &rft.date=2018&rft.coverage=westlimit=148.08609; southlimit=-40.31723; eastlimit=148.34579; northlimit=-40.20825&rft.coverage=westlimit=148.08609; southlimit=-40.31723; eastlimit=148.34579; northlimit=-40.20825&rft_rights=These data are publicly available for download from the provided URL.&rft_rights=Attribution 4.0 International (CC BY 4.0) https://creativecommons.org/licenses/by/4.0/legalcode&rft_rights=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=AAS_4014_shearwater_DREAM when using these data.&rft_rights=This metadata record is publicly available.&rft_subject=biota&rft_subject=oceans&rft_subject=EARTH SCIENCE > BIOLOGICAL CLASSIFICATION > ANIMALS/VERTEBRATES > BIRDS > ALBATROSSES/PETRELS AND ALLIES&rft_subject=DREAM&rft_subject=DNA&rft_subject=SHORT-TAILED SHEARWATER&rft_subject=CHRONOLOGICAL AGE&rft_subject=DNA METHYLATION&rft_subject=ADS > Automated DNA Sequencer&rft_subject=LABORATORY&rft_subject=AMD&rft_subject=AMD/AU&rft_subject=CEOS&rft_subject=GEOGRAPHIC REGION > POLAR&rft_subject=OCEAN > SOUTHERN OCEAN&rft_subject=CONTINENT > AUSTRALIA/NEW ZEALAND > AUSTRALIA > Tasmania&rft_subject=CONTINENT > AUSTRALIA/NEW ZEALAND > AUSTRALIA > Flinders Island&rft.type=dataset&rft.language=English Access the data
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CC-BY

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

These data are publicly available for download from the provided URL.

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=AAS_4014_shearwater_DREAM when using these data.

This metadata record is publicly available.

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Full description

This data set includes unprocessed sample .fastq files from two separate Illumina NextSeq runs, labelled as 'Run_1' and 'Run_2', respectively.

Sample names: e.g. STS15059, 'STS' is the abbreviation of Short-tailed shearwater. The first two digits of the numeric refer to the year of collection e.g. '15' = 2015. Finally, the following number refers to the sequential unique ID for that year, e.g. '059' is the fifty-ninth sample for the years' collection.

Leg bands are also recorded and are generally a 5-digit number and are unique to the individual bird. Longitudinal samples can be identified using these band IDs. E.g. in Run_2, an individual with the band number: 52196, was collected in 2015 as 'STS15065' and again in 2017 as 'STS17044'.

Run_1: N = 35 individual samples are split across 4 lanes e.g. 'STS16020_S35_L001(/L002/L003/L004)_R1_001/fastq' and need to be merged before conversion to .fasta format and downstream analysis.

Run_2: N = 36 individual samples were provided as a single merged file from the service provider, e.g. 'STS15059_S34_R1_001.fastq'.

Sample_info: This excel spreadsheet has information on samples as follows:
'Band': 5-digit number on leg band.
'Sample': Sample number within run.
'UID': The unique ID for collection year e.g. STS15007.
'Age': The known-age of the animal rounded to whole year.
'Index (NebNext)': The NEB index used for NGS sample identification.
'Note': Additional information on if a sample was a between or within run replicate or longitudinal replicate.

Analysis of these data were published in: R. De Paoli-Iseppi et al. 2019. Age estimation in a long-lived seabird (Ardenna tenuirostris) using DNA methylation-based biomarkers, Molecular Ecology Resources

Lineage

Progress Code: completed

Notes

Purpose
Raw .fastq sequence files for replication of published results or other genomic analyses.

Data time period: 2015-11-01 to 2017-12-31

This dataset is part of a larger collection

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148.34579,-40.20825 148.34579,-40.31723 148.08609,-40.31723 148.08609,-40.20825 148.34579,-40.20825

148.21594,-40.26274

text: westlimit=148.08609; southlimit=-40.31723; eastlimit=148.34579; northlimit=-40.20825

Subjects
ADS > Automated DNA Sequencer | AMD | AMD/AU | CEOS | CHRONOLOGICAL AGE | CONTINENT > AUSTRALIA/NEW ZEALAND > AUSTRALIA > Flinders Island | CONTINENT > AUSTRALIA/NEW ZEALAND > AUSTRALIA > Tasmania | DNA | DNA METHYLATION | DREAM | EARTH SCIENCE > BIOLOGICAL CLASSIFICATION > ANIMALS/VERTEBRATES > BIRDS > ALBATROSSES/PETRELS AND ALLIES | GEOGRAPHIC REGION > POLAR | LABORATORY | OCEAN > SOUTHERN OCEAN | SHORT-TAILED SHEARWATER | biota | oceans |

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Other Information
Download the dataset (GET DATA > DIRECT DOWNLOAD)

url : http://data.aad.gov.au/eds/4791/download

Public information for AAS project AAS_4014 (PROJECT HOME PAGE)

url : https://projects.aad.gov.au/report_project_public.cfm?project_no=AAS_4014

Citation reference for this metadata record and dataset. (VIEW RELATED INFORMATION)

url : https://data.aad.gov.au/aadc/metadata/citation.cfm?entry_id=AAS_4014_shearwater_DREAM

Identifiers
  • global : AAS_4014_shearwater_DREAM