AndreaBozzo/ceres-open-data-index huggingface dataset:
SAIMOS - Biological and Flow Cytometry data collected from CTD stations in South Australia, in September 2016

Flow cytometry data was collected in September 2016, in waters off South Australia. 
The general purpose of the study is to be able to establish background knowledge on the ecosystem on the continental shelf of South Australia and the impact of upwelling/saline outflow events on microbial communities to ultimately develop a biogeochemical model of the region. Sampling was carried out during cruises conducted on board the RV Ngerin as part of the Southern Australian Integrated Marine System (SAIMOS). During each cruise, the physical, chemical and biological properties of the chlorophyll fluorescence maximum (DCM) layer were investigated. Flow cytometry data has been collected for picophytoplankton, bacteria and viruses.
Six main stations have been sampled over the course of the study, five are located on the 100 m isobath, i.e. RS (35.508S, 136.278E), B2 (35.418S, 136.148E), B3 (35.258S, 136.048E), SAM2CP/B4 (35.168S, 135.418E) and SAM5CB/B5 (35.008S, 135.198E), and one from an offshore station (B1; 36.188S, 136.178E) located southwest of Kangaroo Island. Note that combining the distances between stations (14–25 nautical miles), the average component of the current velocity at middepth along the shelf (0.01 m s21) and the average speed of the vessel (i.e. 9 knots) indicate that different water masses were sampled at each station. Additional samples have on occasion been collected from the National Reference Station (NRS) at Kangaroo Island (35.832S, 136.447E) and the SA Spencer Gulf Mouth Mooring (SAM8SG, 35.25S, 136.690E), where the saline outflow occurs.

Tags: Biosphere | Microbiota | Bacteria, Biosphere | Vegetation | Phytoplankton, IMOS Node | SA-IMOS | Southern Australian Integrated Marine Observing System, Niskin Bottles, Oceans | Bathymetry | Water Depth, Oceans | Ocean Chemistry | Chlorophyll, Oceans | Ocean Chemistry | Inorganic Matter, Oceans | Ocean Chemistry | Nitrogen, Oceans | Ocean Chemistry | Organic Matter, Oceans | Ocean Chemistry | Phosphate, Oceans | Ocean Chemistry | Silicate, Oceans | Ocean Chemistry | Suspended Solids, Oceans | Ocean Temperature | Sea Surface Temperature, Oceans | Ocean Winds | Surface Winds, Picophytoplankton, Virus, amount_of_bacteria_in_sea_water, amount_of_picophytoplankton_in_sea_water, amount_of_virus_in_sea_water, concentration_of_chlorophyll_in_sea_water, depth, depth_of_chlorophyll_maximum, latitude, longitude, mass_concentration_of_particulate_inorganic_matter_in_sea_water, mass_concentration_of_particulate_organic_matter_in_sea_water, mass_concentration_of_suspended_matter_in_sea_water, mole_concentration_of_nitrogen_in_ammonium_in_sea_water, mole_concentration_of_nitrogen_in_nitrate_and_nitrite_in_sea_water, mole_concentration_of_phosphorus_in_phosphate_in_sea_water, mole_concentration_of_silicate_in_sea_water, sea_surface_temperature, wind_from_direction, wind_speed
Organization: Australian Ocean Data Network
Wilson Inlet (WA) Seagrass 2007

Aquatic flora surveys were conducted in Wilson Inlet in 2007 and 2008. This data is part of the 2013 report "Synthesis of seagrass mapping studies" conducted by the Water Science Branch of the Department of Water.
The 2007 survey was conducted to review any changes in seagrass distribution since the previous survey in 1996 (data not included in this record), and was funded internally by the Water Science branch. The 2008 survey was conducted by the WA Department of Water together with Geoscience Australia. The objective of the 2008 survey was to collect baseline data on seagrass composition and distribution in key estuaries of southern and south-western WA.
This data was acquired by the ACEAS Seagrass Group as part of the 2013 Australia-wide risk assessment of Seagrass.
Surveys were conducted again in December 2017, April 2018, December 2019, December 2020, December 2021 and December 2022 by the Department of Water and Environmental Regulation as "Wilson Inlet Seagrass Survey".
The datasets making up the 2007-2008 Wilson Inlet seagrass survey data are:
WA_WilsonInlet_seagrass_polygons - polygon dataset showing interpolated percentage cover of seagrass with species information (where available).
This record provides access to the initial WA DoW surveys. See associated DWER records in Data WA catalogue for access to newer surveys at this site.

Tags: Benthic habitat, WESTERN AUSTRALIA
Organization: Australian Ocean Data Network
Project A5 - Analysis of parasite communities of various shark species

This data describes various acanthocephalan, nematode and helminth parasites identified on elasmobranchs caught between 2015 and 2018 at a number of sites around Australian. All parasite and host data is contained with tables in publications linked to this record (see Supplementary Information and Online Resources section).

Tags: Chondrichthyes, connectivity, elasmobranchs, parasite community, shark
Organization: Australian Ocean Data Network
Microbial indicators of coral reef ecosystems

Metagenomic sequencing and 16S rRNA gene sequencing for 381 samples collected over the course of 16 months formed a new comprehensive microbial reference dataset of habitat specific coral reef microbiomes.
Originating from samples derived from three locations:
Geoffrey Bay, Magnetic Island, QLD (monthly samples)

Pioneer Bay, Orpheus Island, QLD (periodic)

Channel, Orpheus Island, QLD (periodic)

The dataset consists of sequenced bacterial 16S rRNA genes of 381 samples including seawater, sediment, sponge tissue (Coscinoderma matthewsi and Amphimedon queenslandica), coral tissue and mucus (Acropora tenuis and Acropora millepora) and macroalgal surfaces (Sargassum sp.).
Water quality parameters and sea surface temperatures were used to compare environmental sensitivity variation in assembly patterns. Results indicated that seawater microbial community data provide diagnostic value to infer shifts in the surrounding reef environment.
Sample handling, tissue preparation, DNA extraction procedures and methods of analysis, have been described in associated publications listed below.
Accessing the 16S rRNA and metagenome sequences, metadata and protocols are available at the Bioplatforms Australia data portal under the Australian Microbiome project (https://www.bioplatforms.com/australian-microbiome/). Full usage requires free registration. To search for the 16S rRNA sequencing data, navigate to &lsquo;Processed data&rsquo;, select &lsquo;Amplicon is 27f519r_bacteria&rsquo; and &lsquo;Environment is Marine&rsquo;. Add an additional contextual filter, such as select &lsquo;Sampling Site Location Description&rsquo; from the dropdown menu and search for &lsquo;Geoffrey Bay&rsquo;, &#39;Pioneer Bay&#39; and &#39;Channel&#39; or by &lsquo;Sample Type&rsquo; i.e. is &lsquo;Seaweed&rsquo;.

Organization: Australian Ocean Data Network
WAMSI 2 - Dredging Node - Project 6.4 - Defining Thresholds and Indicators of Filter-feeder Response to Dredging Related Pressures - LABORATORY EXPERIMENTS, Western Australia

Project 6.4 - Laboratory experiments: Determine relative responses of benthic filter feeders to elevated sediment deposition, TSS and light reduction in controlled laboratory experiments. These laboratory experiments will enable the identification of lethal and sub-lethal thresholds, the potential of filter feeders to recover from dredging pressures, and the key pressures for each organism (sedimentation vs. turbidity vs. light attenuation), and thereby facilitate the development of pressure:response relationships. The threshold data obtained during this study are intended to be compatible with sediment plume modelling, enabling improved spatial risk analyses for tropical nearshore filter feeders, presently only involving sponges. Laboratory experiments will identify both lethal and sub-lethal thresholds of dredging on adult sponges.
 Project 6.4 - Laboratory experiments: Controlled laboratory experiments will be performed at SeaSim in Townsville, where filter-feeding organisms will be exposed to different levels of TSS, sedimentation rates and light intensities that occur in dredging plumes. Sediment experiments will range from several days to several weeks, and will measure lethal and sub-lethal changes including alterations in pumping rates, symbiosis, photosynthesis, tissue damage and gene expression. The work will focus on sponges, which often dominate filter-feeding communities in WA. Sponge species and morphologies common to NWA and at the Wheatstone dredging site will be examined. Examples of different sponge morphologies include: massive, encrusting, cup, and erect. Morphologies assessed in experimental aquaria will be represented by different species as far as feasible, with targeted species shared between QLD and WA where possible. Species will include heterotrophic sponges that solely rely on filter feeding, and phototrophic sponges that obtain additional energy from photosynthetic symbionts.

Organization: Australian Ocean Data Network
Sediment Cell Exclusions

Sediment cells are spatially discrete areas of the coast within which marine and terrestrial landforms are likely to be connected through processes of sediment exchange, often described using sediment budgets. They include areas of sediment supply (sources), sediment loss (sinks), and the sediment transport processes linking them (pathways). Sediment transport pathways include both alongshore and cross-shore processes, and therefore cells are best represented in two-dimensions. They are natural management units with a physical basis and commonly cross jurisdictional boundaries. Further information can be found at the following website: http://www.transport.wa.gov.au/imarine/coastal-erosion-and-stability.asp

Tags: DoT, Downloadable Data, WA, australia, beach, beachface, blowout, cell, change, coast, coastal, coastal access, coastal engineering, department of transport, development, drift, dune, dynamic, ecosystem, foreshore, littoral, management, marine, movements, ocean, planning, protection, sand, sea, sediment, shift, shoreline, transport, vegetation, water, waterline, western australia, year
Organization: Australian Ocean Data Network
Passive acoustic recordings of marine megafauna within the Bremer Marine Park and adjacent areas (NESP Emerging Priorities EP2)

Long-term passive acoustic observations were made at the edge of the continental shelf south of Bremer Bay, Western Australia, from February 2015 to February 2016, in order to assess seasonal patterns in the presence of various baleen and toothed whales around the Bremer Canyon/Marine Park.
Further information is available in:
Gavrilov A, Erbe C. 2017. Assessment of marine megafauna found at the edge of the continental shelf off Bremer Bay using passive acoustic observations. Report to the National Environmental Science Programme Marine Biodiversity Hub (CMST 2017-3), 35 p.
For queries relating to access to raw acoustic files contact the Point of Contact listed in this record.

Tags: Antarctic blue whale, Fin whale, Humpback whale, Killer whale, Passive acoustic monitoring, Pygmy blue whale, Sea noise recorder, Sperm whale, Towed acoustic array
Organization: Australian Ocean Data Network
NESP TWQ Project 2.1.5 - What’s really damaging the Reef? Tracing the origin and fate of the environmentally detrimental sediment, 2016-2018 (JCU)

Recent research has shown that only a portion of the fine sediment fraction delivered from rivers draining into the Great Barrier Reef Lagoon (GBRL) reaches coral reefs and seagrass meadows. The specific sources of this sediment, which affects the health of corals and seagrasses, are as yet unresolved. This project will, for the first time characterise and trace the origin(s) and fate of this environmentally detrimental sediment using samples collected in flood plumes and during resuspension events. This will enable direct spatial targeting of the sources of this material to achieve maximum benefits to GBR health from catchment management actions.

Tags: National Environmental Science Programme Tropical Water Quality (NESP TWQ) hub, marine
Organization: Australian Ocean Data Network
IMOS - Ocean Gliders - Slocum glider deployment in Western Australia off Two Rocks (Feb-Mar 2012)

The dataset contains temperature, salinity and biological parameters including dissolved oxygen and turbidity data measured by a Slocum glider in the region of Two Rocks (Western Australia).
Slocum glider data from the oceans around Australia have been collected by the Ocean Gliders Facility (formerly known as the Australian National Facility for Ocean Gliders (ANFOG)), since June 2008 and are ongoing. The data are obtained from an onboard suite of instruments which include Seabird-SBE41 CTD (Conductivity, Temperature, Depth), WETLabs BBFL2SLO 3 parameter optical sensor (measuring Chlorophyll-a, CDOM and 700nm Backscatter) and an Aanderaa oxygen optode (measuring concentration of dissolved oxygen in seawater.

Tags: CTD (Conductivity-Temperature-Depth Profilers), Coloured Dissolved Organic Matter (CDOM), Countries | Australia, Fluorometers, Glider, IMOS Node | Bluewater and Climate, Oceans | Ocean Chemistry | Chlorophyll, Oceans | Ocean Chemistry | Oxygen, Oceans | Ocean Chemistry | Suspended Solids, Oceans | Ocean Circulation | Ocean Currents, Oceans | Ocean Optics | Fluorescence, Oceans | Ocean Optics | Turbidity, Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Conductivity, Slocum Glider, States, Territories (Australia) | Western Australia, concentration_of_coloured_dissolved_organic_matter, fluorescence_in_sea_water, mass_concentration_of_oxygen_in_sea_water, sea_water_electrical_conductivity, sea_water_pressure, sea_water_salinity, sea_water_temperature, volumetric_backscatter_coefficient
Organization: Australian Ocean Data Network
Bibliography of research and data relevant to marine environmental management of Australias North West Shelf.

The West Australia Department of Environmental Protection (DEP) initiated a North West Shelf (NWS) Marine Environmental Management Study in 1998 to develop and consolidate the technical information base, scientific understanding and predictive capabilities required to underpin environmental decision making in both the public and private sectors. Documents, reports and scientific publications pertinent to the North West Shelf are abundant, but vary widely in scope and the degree of relevance to environmental management. Much of the information is from industries and associated government departments involved in exploiting and managing resources, and much of it has been activity specific and/or site specific in nature. This has created rich pockets of specialist knowledge but, unfortunately, the information has not been integrated across industries, government departments or scientific disciplines. Such integration is attractive, but difficult to achieve. As an example, the petroleum industry initiated its own review in the early 1990s to coordinate the then state of knowledge among its members, but has recently identified the need to revisit the process. As a first step in the North West Shelf Marine Environmental Management Study, DEP commissioned the Australian Institute of Marine Science (AIMS) and the Commonwealth Scientific and Industrial Research Organisation (CSIRO) Division of Marine Research to conduct a compilation and review of scientific research and data related to the North West Shelf marine environment. This bibliography is one product of that effort; it provides a compilation of published and unpublished literature generally related to the North West Shelf marine environment and its management. The second product, a review of scientific research and identification of important knowledge gaps, appears as a separate report by Heyward, Revill, and Sherwood (2006), titled Review of Research and Data Relevant to Marine Environmental Management of Australias North West Shelf.

Organization: Australian Ocean Data Network
IMOS - Ocean Radar - Tannum Sands HF ocean radar station (Capricorn Bunker Group, Great Barrier Reef, Queensland, Australia)

The Tannum Sands (TAN) HF ocean radar site (-23.942 S, 151.371 E) is one of two HF ocean radars covering Heron Island in the Capricorn Bunker Group (CBG) in the southern region of the Great Barrier Reef Marine Park World Heritage Area.  The other HF ocean radar station is at Lady Elliot Island.  The HF ocean radar coverage is from the coast to beyond the edge of the continental shelf. 
The TAN HF ocean radar is a WERA phased array system with a 12-element receive array.  This radar operates at a frequency of 8.348 MHz, with a bandwidth of 33 KHz and a maximum range of 200 Km and a range resolution of 4.5 Km.  Azimuthally the radar covers a sweep 45 deg either side of a bore sight direction of 47 deg true east of north (approximately north-east).
Within the HF radar coverage area surface current radials are measured.  Data are also collected from which wind directions and significant wave height can be calculated.
This station was decommissioned in April 2017.

Tags: Atmosphere | Atmospheric Winds | Surface Winds, Doppler Frequency, Marine Features (Australia) | Great Barrier Reef, QLD, Oceans | Coastal Processes | Coral Reefs, Oceans | Ocean Circulation | Eddies, Oceans | Ocean Circulation | Ocean Currents, Oceans | Ocean Circulation | Upwelling, Oceans | Ocean Circulation | Wind-driven Circulation, Oceans | Ocean Waves | Sea State, Oceans | Ocean Waves | Significant Wave Height, Oceans | Ocean Waves | Swells, Oceans | Ocean Waves | Wave Frequency, Oceans | Ocean Waves | Wave Length, Oceans | Ocean Waves | Wave Period, Oceans | Ocean Waves | Wave Spectra, Oceans | Ocean Waves | Wave Speed/direction, Oceans | Ocean Waves | Wind Waves, Oceans | Ocean Winds | Surface Winds, Physical Oceanography, Radiance Or Imagery | Radio Wave | Radio Wave, Regional Seas | Coral Sea, States, Territories (Australia) | Queensland, WERA HF Radar | Phased Array
Organization: Australian Ocean Data Network
Effect of invasive tagging on the activity behaviour of Holothuria whitmaei (sea cucumber) at Ningaloo Reef, Western Australia

Data were collected to evaluate the practicality of marking the dorsal tegument as a tagging method for short-term mark-recapture studies of holothurians (Holothuria whitmaei, Bell 1887) and to compare the behaviour of 'marked' to 'unmarked' control animals.

Tags: 25 416033, Behavioural response, Biosphere | Ecological Dynamics | Range Changes, Holothuria whitmaei, Oceans | Marine Biology | Marine Invertebrates, Tagging method, black teatfish
Organization: Australian Ocean Data Network
Seagrass, sediment and infauna - a comparison of Posidonia australis, Posidonia sinuosa and Amphibolis antarctica, Princess Royal Harbour, South-Western Australia I. Seagrass biomass, productivity and contribution to sediments

The above- and below-ground biomass of three seagrass species, Posidonia australis, Posidonia sinuosa and Amphibolis antarctica, were measured within Princess Royal Harbour.  Three sites were used of varying water movement and eutrophication.  Sediment samples (to measure grain size and composition) were taken from below seagasses and from adjacent non-vegetated areas for comparsion and productivity measurements were carried out in situ.

Tags: 63 617002, 63 617003, 63 618004, Amphibolis antarctica, Biosphere | Ecological Dynamics | Biomass, Biosphere | Ecological Dynamics | Primary Production, Biosphere | Zoology | Invertebrates, Oceans | Marine Biology | Marine Plants, Oceans | Marine Sediments | Sediment Grain Size, Posidonia australis, Posidonia sinuosa, seagrasses
Organization: Australian Ocean Data Network
Oceanmaps 2.0 Behind Real Time Analysis - Forcing dataset (for MARVL)

OFAM2-AN is an archive of data from version 1 of OceanMAPS - the Ocean Modelling, Analysis, and Prediction System (Brassington et al. 2007; Sandery et al. 2011) "Australia's" operational, short-range ocean forecast system. OceanMAPS was developed under BLUElink, and first became operational at the Bureau of Meteorology in September 2007. Data includes daily mean fields of velocity, temperature, salinity, and sea-level on a 0.1 degree grid for the Australian region (90-180E, 60S-20N).
This is purely a description of the forcing dataset used within the MARine Virtual Laboratory (MARVL).

Tags: Oceans | Ocean Circulation | Ocean Currents, Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Salinity, Oceans | Sea Surface Height | Sea Surface Height
Organization: Australian Ocean Data Network
BRUVS (TM) - Fish and Benthic survey of Lord Howe Island 2004-02-22 to 2004-03-07

The dataset comprises 674 individuals from 56 species of fishes, sharks, rays and sea snakes observed at around Lord Howe Island using 22 baited remote underwater video stations (BRUVS(TM)). 
Approximately 3500 of the best images from all BRUVS (TM) projects are stored in a reference library.
Data recorded concern:
- classification of the habitat in the field of view (topography, sediments, benthos)
- the identity of fish and CAABCODES
- their time of arrival
- their behaviour (8 categories, including feeding on the bait)
- their maturity (adult or juvenile)
- their relative abundance (as MaxN = the maximum number visible at one time, or distinguishable at different times as separate individuals e.g. much larger/smaller, male/female)
- the time elapsed before MaxN and feeding occurs.
A custom interface has been developed by AIMS staff, using Microsoft Access, for reading and analysis of BRUVS(TM) tapes.

Organization: Australian Ocean Data Network
Coral Coast Marina Project - Vertebrate Fauna & Habitats Assessment

Coral Coast Marina Project - Vertebrate Fauna &amp; Habitats Assessment.
To be used as part of Coral Coast Marina Development's PER.
A desk top study documenting the terrestrial vertebrate fauna and habitats.

Tags: Bats, Biosphere | Zoology | Vertebrates, Fauna, Field Surveys | Biological Surveys, Lerista sp., Management, Pseudomys chapmani, Rattus tunneyi
Organization: Australian Ocean Data Network