Integrated Publishing Toolkit(IPT)

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Marine Microbes from RV Investigator voyage IN2016_V03, 170W, Pacific Ocean (2016)

Latest version published by CSIRO Oceans and Atmosphere on Oct 12, 2018 CSIRO Oceans and Atmosphere

A dataset describing the microbial pro- and eukaryotic diversity along a 7,000-km transect from the Antarctic ice edge to the equator in the South Pacific Ocean. Water samples were collected from Niskin bottles from CTD deployments reaching depths of 6000m.

Using the World Register of Marine Species (WoRMS), the identification data has been tested and resolved to the lowest possible rank. Occurrence records where the taxa have only been resolved to kingdom have been removed from this dataset on advice from BioPlatforms as the identifications are not very robust.

Data Records

The data in this sampling event resource has been published as a Darwin Core Archive (DwC-A), which is a standardized format for sharing biodiversity data as a set of one or more data tables. The core data table contains 1,045 records. 2 extension data tables also exist. An extension record supplies extra information about a core record. The number of records in each extension data table is illustrated below.

  • Event (core)
    1045
  • Occurrence 
    190361
  • ExtendedMeasurementOrFact 
    11284

This IPT archives the data and thus serves as the data repository. The data and resource metadata are available for download in the downloads section. The versions table lists other versions of the resource that have been made publicly available and allows tracking changes made to the resource over time.

Downloads

Download the latest version of this resource data as a Darwin Core Archive (DwC-A) or the resource metadata as EML or RTF:

Data as a DwC-A file download 1,045 records in English (5 MB) - Update frequency: not planned
Metadata as an EML file download in English (12 KB)
Metadata as an RTF file download in English (11 KB)

Versions

The table below shows only published versions of the resource that are publicly accessible.

How to cite

Researchers should cite this work as follows:

When using Australian Microbiome Initiative data, please acknowledge the Consortium and Bioplatforms Australia support using the following wording: We would like to acknowledge the contribution of the Marine Microbes (MM) and Biomes of Australian Soil Environments (BASE) projects, through the Australian Microbiome Initiative in the generation of data used in this publication. The Australian Microbiome Initiative is supported by funding from Bioplatforms Australia through the Australian Government National Collaborative Research Infrastructure Strategy (NCRIS).

Rights

Researchers should respect the following rights statement:

The publisher and rights holder of this work is CSIRO Oceans and Atmosphere. This work is licensed under a Creative Commons Attribution Non Commercial (CC-BY-NC) 4.0 License.

GBIF Registration

This resource has not been registered with GBIF

Keywords

Occurrence

Contacts

Who created the resource:

Eric Raes
Principal Investigator
CSIRO Oceans and Atmosphere PO Box 1538 7001 Hobart Tasmania AU

Who can answer questions about the resource:

Eric Raes
Principal Investigator
CSIRO Oceans and Atmosphere PO Box 1538 7001 Hobart Tasmania AU

Who filled in the metadata:

Eric Raes
Principal Investigator
CSIRO Oceans and Atmosphere PO Box 1538 7001 Hobart Tasmania AU

Who else was associated with the resource:

Publisher
Dave Watts
OBIS Australia Node manager
CSIRO Oceans and Atmosphere PO Box 1538 7001 Hobart Tasmania AU +61 (3) 6232 5062
http://www.obis.org.au

Geographic Coverage

P15S GO-SHIP transect, Pacific Ocean

Bounding Coordinates South West [-66.3, -174.7], North East [0, -168.6]

Taxonomic Coverage

microbial pro- and eukaryotes

Kingdom  Archea

Temporal Coverage

Start Date / End Date 2016-05-04 / 2016-06-24

Project Data

Marine microbes play a critical role in our oceans’ health—making up the bulk of ocean biomass they directly control the majority of the oceans’ energy production and are ultimately responsible for regulating the marine food-web—however, little is known about the dynamic nature of these organisms. The Bioplatforms Australia Framework Data Initiative will establish how Australia’s marine microbial communities change over time in various locations and habitats. The consortium of researchers will investigate the microbial communities of seawater, sediment, sponges, seaweeds, corals and seagrasses utilising the extensive sequencing capability of Bioplatforms Australia and support from Australia’s Integrated Marine Observing System (IMOS).

Title Australian Microbiome Initiative - Marine Microbes Project
Identifier MM
Funding The Marine Microbes Project is supported by funding from Bioplatforms Australia and Integrated Marine Observing System through the Australian Government National Collaborative Research Infrastructure Strategy (NCRIS) and the Education Investment Fund Super Science Initiative.
Study Area Description Waters around Australia and adjacent seas
Design Description 1) Sustain the establishment of the genomic resource by maintaining and growing the sampling effort of the consortium whilst strengthening the standardisation of the associated contextual data. 2) Extend and diversify the initiative’s resource with the inclusion of broader available dataset of value from confluent programs/studies established outside of the umbrella of the Australian Microbiome consortium. This will expand the consortium network to other national and international collaborators. 3) Innovate by driving functionalisation of the resource to respond to the needs of end users. Provide access to the data that will cater for a broad range of end users including, but not limited to management consultants; government departments such as the Dept. of the Environment and Energy or Dept. of Agriculture and Water Resources; law enforcement agencies; research and development corporations such as the Fisheries RDC; and the gas and mining industry.

The personnel involved in the project:

Principal Investigator
Torsten Thomas
Principal Investigator
Lev Bodrossy
Principal Investigator
Anna Fitzgerald

Sampling Methods

Biophysical and chemical parameters were collected at 140 stations at 36 depths. Samples for dissolved inorganic nutrient concentrations included Si, PO4, NO3, NO2 and NH4. For DNA analysis 2 L of seawater from the surface and just below the MLD (SI Appendix, Fig. S5) were filtered through a 0.22-μm pore Sterivex GP filter (catalog no. SVGPL10RC; Millipore) with a peristaltic pump.

Study Extent Samples were collected along the latitudinal P15S GO-SHIP transect, a 7,000-km decadally repeated transect from the ice edge (∼66°S) to the equator (0°S) (Fig. 1A), from 23 April to 29 June (late austral autumn/ early winter) in 2016 (www.go-ship.org/; voyage 096U20160426). The four main oceanographic provinces along the transect are defined by Orsi et al. (56) and Longhurst (25). In this dataset we refer to these oceanic provinces as (i) Southern Ocean waters between 66°S and 52°S, including the PF at 60°S; (ii) the STF between 52°S and 40°S; (iii) tropical oligotrophic waters between 40°S and 10°S; and (iv) equatorial upwelling, between 10°S and 0°S.

Method step description:

  1. See Brown, M. V. et al. Continental scale monitoring of marine microbiota by the Australian Marine Microbial Biodiversity Initiative. Sci. Data 5:180130 doi: 10.1038/sdata.2018.130 (2018).

Bibliographic Citations

  1. Oceanographic boundaries constrain microbial diversity gradients in the South Pacific Ocean. Eric J. Raes, Levente Bodrossy, Jodie van de Kamp, Andrew Bissett, Martin Ostrowski, Mark V. Brown, Swan L. S. Sow, Bernadette Sloyan, Anya M. Waite. Proceedings of the National Academy of Sciences Aug 2018, 201719335; doi: 10.1073/pnas.1719335115
  2. Brown, M. V. et al. Continental scale monitoring of marine microbiota by the Australian Marine Microbial Biodiversity Initiative. Sci. Data 5:180130 doi: 10.1038/sdata.2018.130 2018). doi: 10.1038/sdata.2018.130

Additional Metadata

marine, harvested by iOBIS

Alternative Identifiers http://ogc-act.csiro.au/ipt/resource?r=bioplatforms_mm_in2016_v03