Integrated Publishing Toolkit(IPT)

free and open access to biodiversity data

Marine Microbes from the Port Hacking National Reference Station (NRS), New South Wales, Australia (2012-2017)

Latest version published by CSIRO Oceans and Atmosphere on Jun 21, 2020 CSIRO Oceans and Atmosphere

The Australian Marine Microbial Biodiversity Initiative (AMMBI) provides methodologically standardized, continental scale, temporal phylogenetic amplicon sequencing data describing Bacteria, Archaea and microbial Eukarya assemblages. Sequence data is linked to extensive physical, biological and chemical oceanographic contextual information. Samples are collected monthly to seasonally from multiple depths at seven National Reference Stations (NRS) sites: Darwin Harbour (Northern Territory), Yongala (Queensland), North Stradbroke Island (Queensland), Port Hacking (New South Wales), Maria Island (Tasmania), Kangaroo Island (South Australia), Rottnest Island (Western Australia). The Integrated Marine Observing System (IMOS) NRS network is described at http://imos.org.au/facilities/nationalmooringnetwork/nrs/

Port Hacking NRS is located 3 nm offshore at 100 m depth over fine muddy sand, near the major city of Sydney, New South Wales (population 4.3 million). This is a sub-tropical to temperate location with strong seasonality. The site is just downstream of the EAC separation zone and is impacted by the dynamics of flow of EAC and its eddy field. The water column is very well mixed between May and Sept (although the duration of this mixing has decreased in recent years (Ingleton, T. unpublished observation)) and highly stratified between December and March. Upwelling can occur via eddies or wind driven slope water intrusions. There is a long historical oceanographic dataset from this site (with intermittent gaps in certain parameters) dating back to 1953. Site details from 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).

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 318 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)
    318
  • Occurrence 
    142084
  • ExtendedMeasurementOrFact 
    5715

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 318 records in English (3 MB) - Update frequency: not planned
Metadata as an EML file download in English (9 KB)
Metadata as an RTF file download in English (9 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:

Please see https://www.australianmicrobiome.com/protocols/acknowledgements/ for citation examples and links to the data policy.

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 (CC-BY) 4.0 License.

GBIF Registration

This resource has not been registered with GBIF

Keywords

Samplingevent

Contacts

Who created the resource:

Mark Brown
Principal Investigator
School of Environmental and Life Sciences, University of Newcastle 2308 Callaghan New South Wales AU

Who can answer questions about the resource:

Mark Brown
Principal Investigator
School of Environmental and Life Sciences, University of Newcastle 2308 Callaghan New South Wales AU

Who filled in the metadata:

Mark Brown
Principal Investigator
School of Environmental and Life Sciences, University of Newcastle 2308 Callaghan New South Wales AU

Who else was associated with the resource:

Publisher
Dave Watts
OBIS Australia Data Manager
CSIRO Oceans and Atmosphere Castray Esplanade 7000 Hobart Tasmania AU +61 3 6232 5062
http://www.obis.org.au

Geographic Coverage

Port Hacking, New South Wales

Bounding Coordinates South West [-34.119, 151.226], North East [-34.119, 151.226]

Temporal Coverage

Start Date / End Date 2012-02-13 / 2017-07-17

Project Data

The Australian Microbiome Initiative (https://www.australianmicrobiome.com) is an Australian wide collaboration founded on two established Bioplatforms Australia framework data initiatives: Marine Microbes and Biomes of Australian Soil Environments (BASE).

Title Australian Microbiome
Funding This nationally-inclusive and collaborative initiative supported by core partners Bioplatforms Australia and the Integrated Marine Observing System (IMOS) through the Australian Government’s National Collaborative Research Infrastructure Strategy (NCRIS), Parks Australia through the Bush Blitz program funded by the Australian Government and BHP, and the CSIRO, and led by researchers from various organisations across Australia.

The personnel involved in the project:

Point Of Contact
Andrew Bissett

Sampling Methods

Samples are typically from Niskin bottles from CTD's.

Study Extent Marine waters of Australia and adjacent seas

Method step description:

  1. The methods and procedures for the denoised data published here are described at https://data.bioplatforms.com/organization/pages/australian-microbiome/amplicon-datatypes

Bibliographic Citations

  1. 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).

Additional Metadata

marine, harvested by OBIS

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