DNA sequence data collected during the SIPEX II voyage of the Aurora Australis, 2012

Purpose of experiments:

Sequence data obtained to determine community structure of pack sea-ice microbial communities and whether it is effected by exposures to elevated CO2 levels.

Summary of Methods:

Cells in sea-ice brines were filtered onto 0.2 micron filters and material extracted using the MoBio Water DNA extraction kit. The DNA was analysed by Research and Testing Laboratories Inc. (Lubbock, Texas, USA) via 454 pyrosequencing. The bacteria were analysed using primers set 10F-519R, which targets 16S rRNA genes. 16S rRNA genes associated with chloroplast and mitochondria are included in this dataset but represent a minority of sequences in most samples. Eukaryotes were analysed using primers set 550F-1055R, which targets 18S rRNA genes. The 454 pyrosequencing analysis with the Titanium GS FLX+ kit used generates on average 3000 reads incorporating custom pyrotags for later stages of the data analysis. The specific steps used for subsequent data analysis are described in the attached PDF file (Data_Analysis_Methodology.PDF). This output was further refined by first determining consensus sequences at the 98% similarity level using Weizhong Li’s online software site CD-HIT ( http://weizhongli-lab.org/cd-hit/) Reference: Niu B, Fu L, Sun S, Li W. 2010. Artificial and natural duplicates in pyrosequencing reads of metagenomic data. BMC Bioinformatics 1:187 doi:10.1186/1471-2105-11-187. The consensus sequences were then checked for errors, manually curated, and aligned against closest matching sequences obtained from the NCBI database (www.ncbi.nlm.nih.gov) to finally obtained a list of consensus operational taxonomic entities and the number of reads obtained for each samples analysed.

File: SIPEXII_DNA_Sample_information.xlsx provides sampling and analysis information for the detailed results in the other two files

File: SCIPEXII__sea_ice_bacteria_OTUs.xlsx contains information on the number of 16S rRNA reads in bacteria Phylum/Class and OTUs

File: SCIPEXII_sea_ice_brines_eukaryote_community_OTU_data.xlsx contains information on the number of 16S rRNA reads in eukaryotic microbes: Phylum/Order/Closest taxon and OTUs

Identification info

Alternate title: DNA sequence data collected during the SIPEX II voyage of the Aurora Australis, 2012

Date (Publication): 2017-08-29

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:10.4225/15/59a4ecb67a216

Originator

Martin, A., Bowman, J. and McMinn, A.

Publisher

Australian Antarctic Data Centre

Principal investigator

MARTIN, ANDREW

Victoria University of Wellington

Wellington

New Zealand

Principal investigator

BOWMAN, JOHN

School of Agricultural Science

University of Tasmania

Private Bag 54

Hobart

Tasmania

7001

Australia

+61 3 6226 6380

+61 3 6226 2642 (facsimile)

Principal investigator

MCMINN, ANDREW

Institute of Marine and Antarctic Studies

University of Tasmania

Private Bag 77

Hobart

Tasmania

7001

Australia

+61 3 6266 2980

+61 3 6226 2973 (facsimile)

Collaborator

MARTIN, ANDREW

Victoria University of Wellington

Wellington

New Zealand

Collaborator

BOWMAN, JOHN

School of Agricultural Science

University of Tasmania

Private Bag 54

Hobart

Tasmania

7001

Australia

+61 3 6226 6380

+61 3 6226 2642 (facsimile)

Name: CAASM Metadata

Website: https://data.aad.gov.au/metadata/records/SIPEX_II_DNA_Sequences

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

+61 3 6232 3244

+61 3 6232 3351 (facsimile)

Topic category

Biota
Oceans

Extent