AndreaBozzo/ceres-open-data-index huggingface dataset:
Fast Repetition Rate Fluorometry (FRRF) data collected on the RV L'Astrolabe from 28/12/2002 to 02/01/2003 (Hobart - Dumont d'Urville)

These data were collected on the RV L'Astrolabe (platform code: FHZI) from 28/12/2002 to 02/01/2003 on a trip from Hobart to Dumont D'Urville.
Maximum photochemical efficiency of photosystem II (PSII), also called maximum quantum yield of PSII (Fv/Fm), has become one of the most widely utilized fluorescence parameters in phytoplankton research. It represents the potential photochemical efficiency, which is the probability that the light energy captured by the photosynthetic apparatus is being utilized as photochemistry. Fv/Fm has been shown to have an instant response to variations in physical and chemical properties and is interpreted as a diagnostic of the overall health or competence of phytoplankton. Together with the absorption cross section area of PSII and chlorophyll concentration, it can be used to measure primary production (Cheah et al. 2011, Deep Sea Research).
Seawater from 3 m depth was supplied continuously from the ship’s clean seawater line. FRR fluorescence yields were measured continuously at 1 minute intervals in dark-adapted state (! 15 minutes dark-adaptation) using a flash sequence consisting of a series of 100 subsaturation flashlets (1.1 μs flash duration and 2.8 μs interflash period) and a series of 20 relaxation flashlets (1.1 μs flash duration and 51.6 μs interflash period).

Tags: Continents | Antarctica, Countries | Australia, Fast Repetition Rate Fluorometer (FRRF), Global/Oceans | Southern Ocean, Instrument's photomultiplier electronic sensitivity (1-256), Latitude, Longitude, Maximum quantum yield (Fv/Fm), Minimum fluorescence in the light chamber of the FRRF (also used as a proxy for biomass), Oceans | Ocean Temperature | Sea Surface Temperature, Oceans | Salinity/density | Salinity, Photosynthesis, connectivity between PSII reaction centres under actinic light, functional absorption cross section of PSII (measure of the proportion of light harvested for photoc, maximum fluorescence in the light chamber of the FRRF, maximum quantum yield of photosystem II ( (FmL - FoL) / FmL), primary production, time constant of electron transport from PSII to PSI, variable fluorescence (FmL - FoL)
Organization: Australian Ocean Data Network
IMOS - Ocean Gliders - Slocum glider deployment in Western Australia off Two Rocks (April 2011 - June 2011)

The dataset contains temperature, salinity and biological parameters like for example dissolved oxygen and turbidity data measured by a Slocum glider in the region of Two Rocks (Western Australia).
The Ocean Gliders Facility (formerly known as the Australian National Facility for Ocean Gliders (ANFOG)), manages Slocum gliders to be deployed on the continental shelf.
The variables available in this dataset are:
Temperature, salinity, conductivity, density, pressure, chromophoric dissolved oxygen matter, dissolved oxygen, fluorescence and backscatter coefficient at 660nm.

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
Molecular approach to biomedicinals from photosymbionts of marine invertebrates

A phylogenetic tree was generated that illustrates the affiliation of the partial 16S rRNA gene sequence from a clone of the uncultured cyanobacterium symbiont of the sponge Ircinia ramosa. The partial 16S rRNA gene sequence derived from this clone is available from the EMBL/GenBank/DDBJ nucleotide sequences database under Accession No. EF467662.
 To consider the use of molecular techniques for searching and identifying key biosynthetic genes from the currently non-culturable microbial consortia.To examine the ecological role and metabolic cost to the algal producer for the biosynthesis of such a vast array of often complex secondary metabolites.
 Prochlorococcus marinus (AE017162, AF001469, AF001470, AF001471, AF001474, AF053397, AF053399, AF115268, AF115270, AF180967, AF311217, AF311220, BX572095, BX572090, BX572100, X63140); Synechococcus sp. (AF001480, AF216950, AF317073, AF330249, AF330250, AF330251, AF448060, AF448063, AF448067, AY172801, AY172802, AY172803, AY172804, AY172806, AY172807, AY172808, AY172809, AY172810, AY172832, AY210409, AY224198, BX569694); Cyanobacterium symbiont of Ircinia ramosa (EF467662); Cyanobacterium symbionts of Xestopongia exigua (AY692243, AY692244, AY692245); Cyanobacterium symbiont of Aplysina aerophoba (AJ347056).

Organization: Australian Ocean Data Network
Factors affecting the distribution and abundance of Grapsid crabs in the Murray River estuary, north Queensland

Pitfall traps were used to sample crab populations at five sites along a 17km reach of the Murray River, Queensland in May 1987. Sites were located along a gradient in salinity and in the dominant mangrove vegetation. Two 2x2 m trapping grids were set up at each site with a trap in each corner and one in the centre and were checked daily for 4 days. Each captured crab was identified to species (where possible), sexed, measured (carapace width), marked and released. Crabs with carapace widths of At each site three sediment cores were collected. Porewater salinity was measured on water that percolated into the core holes. Porewater pH and Eh were measured at 5, 25 and 45 cm depths along each core. Subsamples of cores were also taken at these depths for determination of organic matter content and grain size analysis (percent sand, silt and clay) in the laboratory.In the laboratory, individuals of the four dominant grapsid species (Sesarma semperi-longicristatum, Sesarma messa, Sesarma brevicristatum and Sesarma brevipes) were totally immersed in separate 200 ml containers of water at one of the following salinities: 0%, 2.5%, 5%, 10%, 20%, 30%, 40%, 50% or 60%. Survival was monitored for 7 days. Two 5 µl blood samples were taken from each surviving crab and one 5 µl sample from the water in its container was collected. These samples were analysed for sodium content.
 Field studies were undertaken to investigate the effects of intertidal location, sediment characteristics and salinity on the distribution and abundance of grapsid crabs. Laboratory studies were used to investigate salinity tolerances and the osmoregulatory ability of grapsid crabs.

Organization: Australian Ocean Data Network
ERIN Dual-processed Landsat TM tiles in Western Australia - Perenjori tile

A Landsat TM image was cut using a NATMAP Geoscience Australia 1:250 000 scale map named Perenjori (Map number SH50-6) and was saved in GeoTIFF format.
The image was geometrically rectified to GDA94 (Datum) and MGA50 (Projection) and a dual enhancement technique was conducted to Landsat TM satellite data where land was enhanced using bands 741 (RGB) and water was enhanced using bands 321 (RGB).  This is one of a series of tiles processed by ERIN from Coastal Atlas project in the 1990's.

Organization: Australian Ocean Data Network
Historical February / September sea-ice concentration and annual sea-ice cover estimation at the location of core MD88-787 in the Southeast Indian Ocean

Variations in microfossil records in sediments over time are used as proxies for changes in the ocean. One important record determined from microfossils is sea-ice cover which influences, and is influenced by, wind and ocean circulation, atmospheric conditions, and heat balance. Increasing emphasis is being placed on the predictive capabilities diatoms may bear in estimating Antarctic sea-ice, one of the important modulators of Southern Hemisphere climate. The purpose of this study was to estimate past sea-ice concentration and annual coverage at the site of core MD88-787 in the Southeast Indian Ocean. The accumulation of diatom microplankton assemblages in sediments being the proxy for these records of climatic change. 
A new method for sea-ice concentration and cover estimation from CABFAC derived factor analysis was developed during this project. Previous estimations of sea-ice have relied on other avenues of deriving limits to the maximum sea-ice edge, while the model developed here made use of modern sea-ice satellite observations combined with diatom distributions that are considered more closely linked to the sea-ice cover.
Three models were proposed which estimated sea-ice concentration in February and September, and annual sea-ice cover.

Tags: Biosphere | Microbiota | Diatoms, Cryosphere | Sea Ice | Sea Ice Concentration, Oceans | Sea Ice | Ice Extent, core_depth, estimate_sea-ice_concentration, estimate_sea-ice_cover, extrapolated_age_scale, latitude, longitude, sea-ice_concentration_standard_error, sea-ice_cover_standard_error, taxonomic_group_count, taxonomic_name
Organization: Australian Ocean Data Network
s4 Current Meter data sets for Middle Reef - 1993

This is data collected during dredging by the Townsville Port Authority in Cleveland Bay in 1993.  Data are divided into a number of main groups: Wind, tide gauge, wave rider, S4, sediment traps, water samples and nephelometers.
Unique site numbers were assigned within Cleveland Bay at which data were collected.  Some of these sites were named, and others were unnamed.

Tags: Current Meter, Oceans | Bathymetry | Water Depth, Oceans | Ocean Circulation | Ocean Currents, depth, direction_of_sea_water_velocity, sea_water_speed
Organization: Australian Ocean Data Network
Coastalwatch: Coastal Condition Monitoring System - Sunshine Beach

Since its launch in 1998, Coastalwatch has become Australia's most popular water sports website, and is consistently ranked in the top eight sporting websites. The site displays live vision from over 90 coastal locations around Australia and overseas. It also provides daily surf reports, swell forecasting, weather information and news; as well as video, photographic and editorial content. 
Coastalwatch has also developed a Coastal Conditions Monitoring System, which utilises the camera network to make a significant contribution to safer coastal use and more efficient and cost effective coastal management.  To this end, Coastalwatch has partnered with Surf Life Saving Australia and Surfing Australia; and supports Volunteer Rescue organisations, community groups, and charities such as SurfAid International and the Surfrider Foundation Australia.  
Coastalwatch is committed to bringing the coast to all Australians and overseas visitors, and becoming the premier reference site for all coastal user groups. With this in mind, Coastalwatch is dedicated to assisting with sound coastal zone research and management through the use of all its resources.

Tags: Oceans | Coastal Processes | Beaches, Oceans | Coastal Processes | Erosion, Oceans | Coastal Processes | Intertidal Zone, Oceans | Coastal Processes | Longshore Currents, Oceans | Coastal Processes | Shoreline Displacement, Oceans | Coastal Processes | Shorelines, Oceans | Coastal Processes | Tidal Height, Oceans | Ocean Waves | Wave Frequency, Oceans | Ocean Waves | Wave Height
Organization: Australian Ocean Data Network
Growth models, age frequency and size frequency distributions of sea urchin populations (Heliocidaris erythrogramma) in native macroalgal beds and sea urchin barrens

Growth models were constructed for two sea urchin populations over a two-year period using a tag-recapture study in the Mercury Passage, Tasmania. Sea urchins were tagged using tetracycline and calcein and growth models constructed using measurements taken from sea urchin jaws.

Tags: 25 247001, Growth, Heliocidaris erythrogramma, Jaw length, Oceans | Marine Biology | Marine Invertebrates, Test diameter
Organization: Australian Ocean Data Network
Future Reef MAP - August 2013 (Northbound)

Data were collected as part of the FutureReef MAP project, a three-year project designed to monitor ocean chemistry along the entire length of the Great Barrier Reef. The Future Reef MAP project is funded by Rio Tinto Alcan and administered by the Great Barrier Reef Foundation, with an equal co-investment by CSIRO. The project is the first large-scale CO2 observing system established on the Great Barrier Reef using the Rio Tinto ship, RTM Wakmatha. The research is targeted at providing information on the CO2 uptake and the controls on ocean acidification change in the region. It is providing foundation data needed to assess the vulnerability of the GBR reefs to ocean acidification. This dataset contains quality controlled underway measurements of the fugacity of CO2, atmospheric pressure, and sea surface temperature and salinity. The data management and distribution of these data were supported by the CSIRO Carbon Collaboration Cluster and the Australian Coastal Ecosystem Facility.

Organization: Australian Ocean Data Network
Tasmania - National Intertidal-Subtidal Benthic NISB Habitat Map (PLUS)

The NISB Habitat Map was created by the University of Tasmania for a partnership between the Department of Climate Change and the National Land and Water Resources Audit. It supports the DCC/Audit partnership by providing a nationally consistent set of the available mapping data for those habitats that occur between the approximate position of the highest astronomical tide mark (HAT) and the location of the outer limit of the photic benthic zone (approximately at the 50-70 m depth contour). This area is broadly equivalent to the 'inner' and 'mid-shelf' regions identified by Geoscience Australia. The resulting map data set forms a core component of the ECM National Habitat Map Series. The habitat classes include: coral reef, rock dominated habitat, sediment dominated habitat, mangroves, saltmarsh, seagrass, macroalgae and filter feeders (e.g. sponges), as defined in the NISB Habitat Classification Scheme. The scheme is designed to support the development of marine 'ecoregions' or bioregional subregions. Details of the scheme and the process of its development are available in National Intertidal/Subtidal Benthic (NISB) Habitat Classification Scheme Version 1 (Mount, Bricher and Newton, 2007). The NISB Habitat Map consists of two layers for each state. _NISB.shp consists of the entire available habitat mapping at a resolution finer than 1:50 000 (with a few exceptions, outlined in the data quality section below). _NISB_PLUS.shp consists of all the data in _NISB.shp along with coarser resolution data, including NVIS and OzEstuaries data. These layers were used to produce the National ECM Key Habitat Distribution Map Series 10 km and 50 km tile maps.
Note: This data is labelled as “NISB_plus”, indicating that it is the NISB Habitat layer plus other lower quality layers.

Tags: Australia, Tasmania
Organization: Australian Ocean Data Network
Hermatypic corals of Ashmore Reef and Cartier Island, north-western Australia

In September 1986, the hermatypic corals at 20 sites at Ashmore Reef and 4 sites at Cartier Island were surveyed. Sites were selected to encompass the range of habitats available, which included reef flat, sand flat, lagoon, outer reef slope and deep reef areas.Surveys were primarily undertaken using SCUBA, which was supplemented by snorkelling and reef walking.
 The purpose of this research was to compile an accumulative species inventory, with the aim of reaching a complete list for Ashmore Reef and Cartier Island.
 The hermatypic coral surveys were a component of marine fauna surveys conducted by the Western Australian Museum.

Organization: Australian Ocean Data Network
WAMSI Kimberley tri-colour scanner data - 22nd September 2008

On the 22nd of September 2008 a tricolour scanner (Airborne Research Australia/AWI Airborne Tri-spectral Scanner System) collected data from part of the Kimberley (Coulomb Point, Quondong Point and Gourdon Bay).  The bands collected were red, green, near infra-red (NIR) (wavelengths ~450nm to ~825nm)
Flight lines are shown in the thumbnail above.  Further information is available through the contacts below.

Tags: Tri-colour Scanner
Organization: Australian Ocean Data Network
Chemical oceanography sites (Western Australia)

The first oceanographic instruments were deployed in situ at Scott Reef and Rowley Shoals from 1993 to 2003.
The measurements began at Scott Reef during July 1993.  The full array of instruments was deployed at Scott Reef and Rowley Shoals in August 1994 and remained in place until the end of 1998.  Gaps in the individual records reflect losses of data due to instrument failures in situ or incorrect instrument operation.
A tide gauge which also recorded near-surface water temperatures was maintained at Scott Reef near-continuously from August 1993 to February 1999.
Instruments were also deployed at Mermaid Reef where two years worth of useful sea level and near-surface water temperature data were recorded. 
In the NW Cape region, productivity and biomass measurements were largely made  during the summers of 1997&ndash;1998, 1998&ndash;1999 and in April 2002 The study made repeated measurements of primary and bacterial production, with associated measurements of hydrographic structure, nutrient stocks, plankton biomass and community structure.

Organization: Australian Ocean Data Network
NESP MaC Project 4.9 - Assessing the vulnerability of southern right whale and blue whale populations to disturbance from windfarm developments

This record provides an overview of the NESP Marine and Coastal Hub Research Plan 2024 project "Assessing the vulnerability of southern right whale and blue whale populations to disturbance from windfarm developments". For specific data outputs from this project, please see child records associated with this metadata.
Australia is entering a phase of rapid offshore renewable energy development, with several marine regions earmarked for wind farms. Underwater noise generated by the construction and operation of large wind turbines may affect species such as whales that rely on their acoustic environment to feed, breed and survive.
This desktop study used available data and expert elicitation to develop an interim Population Consequences of Disturbance (iPCoD) model for blue whales and southern right whales in relation to one or multiple offshore wind farm developments off Portland and Gippsland, Victoria. This method has been used internationally to assess the impacts of offshore wind farm developments, including for harbour porpoises in British waters. The model follows a decision pathway to consider factors such as:
• when and where development activities overlap with populations;
• the proportion of populations affected;
• the life stages and reproductive phases affected; and
• the chances of repeated disturbance.
The model was used to predict the timing and location of cumulative impacts of the proposed activities at a regional scale, identifying which species are at ‘high-risk’ and are a priority for further research; noise levels mitigation measures required to adequately reduce the risk of compromised population viability; what research is needed to better understand population-level consequences of noise; and
which mitigation measures can substantially reduce the risk of population-level effects.
The iPCoD model will be able to be updated as new data become available, and is relevant for assessment against other ocean-based activities such as oil and gas infrastructure and carbon capture and storage.
Outputs
• iPCoD model outputs [dataset]
• Species distribution maps, as derived for existing observational data [spatial visualisation/story]
• Final Project Report [written]

Tags: National Environmental Science Program (NESP) Marine and Coastal Hub, Offshore renewable energy (ORE), anthropogenic noise, offshore renewables, pygmy blue whale, right whale, windfarm
Organization: Australian Ocean Data Network
Polymorphic microsatellite markers from the coral Seriatopora hystrix, from Western Australia and the Great Barrier Reef

10 novel, polymorphic microsatellite loci were developed from herbicide-bleached tissues of the brooding pocilloporid coral Seriatopora hystrix from the Great Barrier Reef. Algal symbiont-free coral tissue was obtained by bleaching coral with a herbicide, Diuron. A DNA library was generated using hybridization capture for enrichment of microsatellites.Linker-ligated restriction fragments were heat-denatured and hybridized to biotinylated probes that included the dimers (AC)13 and (AG)12, trimers (AAC)6 and (ATC)8, and tetramers (AATG)6 and (ACAG)6. Positive colonies (180) containing putative microsatellite repeats were picked and sequenced with M13 forward and reverse primers on an automatic DNA sequencer. Out of 89 microsatellite sequences that were found, PCR primers were designed for 36 loci (those with the largest numbers of uninterrupted repeats). Those primer pairs that amplified well were assessed for polymorphism on 16-30 colonies from Scott Reef in Western Australia, and Flora Reef on the Great Barrier Reef in East Australia. In addition, testing was conducted on 5 primer pairs developed from Red Sea S. hystrix, and 3 primer pairs developed for Pocillopora from French Polynesia. For some loci that did not amplify well, new primers were redesigned and tested. Thus a total of 68 primer pairs were investigated and, from these, 9 and 10 primer pairs were incorporated into 2 multiplex reactions that reliably amplified polymorphic microsatellites in populations from the west and the east coast of Australia, respectively. Number of alleles ranged from 3 to 22 per locus. Respectively, 49 and 51 colonies were genotyped from Scott and Flora Reefs.The novel loci were named using the prefix Sh (for the species name) and 2, 3 or 4 according to repeat motif type (di-, tri-, or tetramer), followed by a number (001 to 010). GenBank Accession numbers: DQ131572 (Sh4-001), DQ131573 (Sh2-002), DQ131574 (Sh3-003), DQ131575 (Sh3-004), DQ131576 (Sh2-005), DQ131577 (Sh2-006), DQ131578 (Sh3-007), DQ131579 (Sh3-008), DQ131580 (Sh3-009), DQ131581 (Sh4-010).
 To report the isolation of 44 microsatellites from the brooding, pocilloporid coral, Seriatopora hystrix, developed from a partial genomic DNA library using a repeat enrichment protocol. To test a further 8 previously published microsatellites; 5 of these had been developed for S. hystrix, and 3 had been isolated from corals of the closely related genus Pocillopora.
 Red Sea S. hystrix primers were developed by Maier E et al, 2001; and French Polynesia Pocillopora primers were developed by Magalon et al., 2003. For futher information on methods and to view the references in detail, see:

Organization: Australian Ocean Data Network
Subterranean Fauna of the Gorgon Gas Development EIS/ERMP-Technical appendix C5

Subterranean fauna sampling program records to date confirm that the habitats under both the proposed gas processing facility and the adjacent parts of the island support stygofauna and troglofauna. However, these assemblages may not be as diverse as those recorded from caves and more developed karstic areas in other parts of Barrow Island.
Baseline surveys for subterranean fauna will continue on Barrow Island until construction of the proposed Development commences. The results of subsequent sampling, concluded prior to construction, will be published separately. This will provide a species level analysis of subterranean fauna distribution, along with a more complete analysis of the physical nature of the subterranean environment.

Tags: Environmental Impact Statement, Environmental Risk Management Plan, Fauna, Field Surveys | Biological Surveys, Gorgan Gas Development, Marine Features (Australia) | Barrow Island, WA, Stygofauna, Subterranean Fauna, Troglofauna
Organization: Australian Ocean Data Network