AndreaBozzo/ceres-open-data-index huggingface dataset:
Fast Repetition Rate Fluorometry (FRRF) data collected on the RV L'Astrolabe from 04/11/2008 to 11/11/2008 (Dumont d'Urville - Hobart)

These data were collected on the RV L'Astrolabe (platform code: FHZI) from 04/11/2008 to 11/11/2008 on a trip from Dumont D'Urville to Hobart.

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
Using stylet elemental signatures to determine the population structure of Octopus maorum

A novel method was used to investigate the population structure and dispersal patterns of Octopus maorum, an octopus species with a planktonic larval stage, which forms a distinct and large aggregation in southeast Tasmania. Single and multi-elemental signatures within the ‘early life history’ region of the stylet (an internal ‘shell’) were used to determine levels of connectivity and the common origins of individuals collected from 5 locations across Tasmania, South Australia and New Zealand.

Tags: Biosphere | Zoology | Mollusks, Dispersal, Element concentration, Laser ablation, Mantle weight, Octopus maorum, Population structure, Sex, Stage of maturity, Stylet, Whole wet weight
Organization: Australian Ocean Data Network
Estuarine Habitats of South Australia

This dataset contains habitat mapping and outer boundaries for estuaries of South Australia. These estuaries were identified in the draft 'Estuaries Policy and Action Plan.'

Used to identify the estuarine habitats within South Australia for use in natural resource management and conservaton planning. Description of attributes in related Inventory and Water Quality tables can be found in report: 'Working Towards a State-wide Inventory of Estuaries 2009 - Advancing the inventory of estuaries in five Natural Resource Management Regions of South Australia', DEH and Adelaide Mounty Lofty Ranges NRM Board.

Tags: Australia, Benthic habitat, SOUTH AUSTRALIA
Organization: Australian Ocean Data Network
CSIRO-Mk3-6-0 model output prepared for CMIP5 rcp85

rcp85 is an experiment of the CMIP5 - Coupled Model Intercomparison Project Phase 5 ( http://cmip-pcmdi.llnl.gov/cmip5/ ). CMIP5 is meant to provide a framework for coordinated climate change experiments for the next five years and thus includes simulations for assessment in the AR5 as well as others that extend beyond the AR5.

4.2 rcp85 (4.2 RCP8.5) - Version 1: Future projection (2006-2100) forced by RCP8.5. RCP8.5 is a representative concentration pathway which approximately results in a radiative forcing of 8.5 W m-2 at year 2100, relative to pre-industrial conditions. RCPs are time-dependent, consistent projections of emissions and concentrations of radiatively active gases and particles.

Experiment design: http://cmip-pcmdi.llnl.gov/cmip5/docs/Taylor_CMIP5_design.pdf
List of output variables: http://cmip-pcmdi.llnl.gov/cmip5/docs/standard_output.pdf
Output: time series per variable in model grid spatial resolution in netCDF format
Earth System model and the simulation information: CIM repository

Entry name/title of data are specified according to the Data Reference Syntax ( http://cmip-pcmdi.llnl.gov/cmip5/docs/cmip5_data_reference_syntax.pdf ) as activity/product/institute/model/experiment/frequency/modeling realm/MIP table/ensemble member/version number/variable name/CMOR filename.nc .

Tags: 0399 - Other Chemical Sciences, 0401 - Atmospheric Sciences, 0405 - Oceanography, 0406 - Physical Geography and Environmental Geoscience, Atmospheric Sciences, National Computational Infrastructure (NCI), Oceanography, Other Chemical Sciences (Environmental Chemistry), Physical Geography and Environmental Geoscience
Organization: Australian Ocean Data Network
CSIRO-Mk3-6-0 model output prepared for CMIP5 rcp26

rcp26 is an experiment of the CMIP5 - Coupled Model Intercomparison Project Phase 5 ( http://cmip-pcmdi.llnl.gov/cmip5/ ). CMIP5 is meant to provide a framework for coordinated climate change experiments for the next five years and thus includes simulations for assessment in the AR5 as well as others that extend beyond the AR5.

4.3 rcp26 (4.3 RCP2.6) - Version 1: Future projection (2006-2100) forced by RCP2.6. RCP2.6 is a representative concentration pathway which approximately results in a radiative forcing of 2.6 W m-2 at year 2100, relative to pre-industrial conditions.

Experiment design: http://cmip-pcmdi.llnl.gov/cmip5/docs/Taylor_CMIP5_design.pdf
List of output variables: http://cmip-pcmdi.llnl.gov/cmip5/docs/standard_output.pdf
Output: time series per variable in model grid spatial resolution in netCDF format
Earth System model and the simulation information: CIM repository

Entry name/title of data are specified according to the Data Reference Syntax ( http://cmip-pcmdi.llnl.gov/cmip5/docs/cmip5_data_reference_syntax.pdf ) as activity/product/institute/model/experiment/frequency/modeling realm/MIP table/ensemble member/version number/variable name/CMOR filename.nc .

Tags: 0399 - Other Chemical Sciences, 0401 - Atmospheric Sciences, 0405 - Oceanography, 0406 - Physical Geography and Environmental Geoscience, Atmospheric Sciences, National Computational Infrastructure (NCI), Oceanography, Other Chemical Sciences (Environmental Chemistry), Physical Geography and Environmental Geoscience
Organization: Australian Ocean Data Network
Denman Terrestrial Campaign rock properties (magnetic susceptibility, heat production, density) from the Bunger Hills area, East Antarctica

These datasets compile rock physical properties from outcrops across the Bunger Hills oasis, Wilkes Land, East Antarctica, observed during the 2023–24 austral summer. Records include magnetic susceptibility (κ), radiogenic element concentrations (K, U, Th), and dry bulk density (rho), with station/sample identifiers, WGS84 coordinates, and per-record uncertainties. The compilation is intended to support regional geophysical interpretation and modeling, e.g., gravity-magnetic integration, crustal property mapping, and geothermal assessment. Data are provided as point observations without spatial interpolation.

Dataset 'Petro_chem.xlsx' contains all insitu measurements in the field including calibration measurements (Start of the day: SOD, and End of day: EOD). 

Dataset 'DTC34-24_Sus_Density_HP.xlsx' contains density measurements on selected rock samples together with re-measured susceptibility and insitu co-located heat production measurements.

Tags: (Dry) Bulk Density, Heat Production, Magnetic Susceptibility, Potassium, Thorium, Uranium
Organization: Australian Ocean Data Network
Mangrove Mapping Bynoe Harbour, 1998

This polygon spatial dataset describes the mangrove communities for Bynoe Harbour and its environs. The original field survey was undertaken in 1998 at a mapping scale of 1:25,000. The associated report notes an area of approximately 24,000 hectares of mangroves in Bynoe Harbour and describes ten main mangrove associations or communities. The data provides a basis for identifying the extent and distribution of mangrove communities for Bynoe Harbour and its environs.

Mangrove mapping was updated over this area in a 2016 survey. See metadata record for Mangrove Community Mapping - Charles Point to Gunn Point. www.ntlis.nt.gov.au/metadata/export_data?type=html&amp;metadata_id=87F656131848A609E050CD9B214417E1

Tags: Benthic habitat
Organization: Australian Ocean Data Network
Ludmilla Creek Vegetation Survey

This is a high resolution survey (1:5,000 scale dataset) describing mapped vegetation communities for the Ludmilla Creek catchment area (within the City of Darwin, Northern Territory).
(Vegetation Unit - A reasonably homogeneous part of the land surface, distinct from surrounding terrain with constant properties in landform and vegetation)

This vegetation survey was undertaken in 1996. This dataset represents the vegetation on the ground at the time of the survey and reflects the data and methods used to create the mapped polygons. The dataset has been revised in 2015 to include community descriptions but has not been updated to reflect the vegetation on the ground. The Darwin Remnant Vegetation Survey is considered a more up-to-date representation of vegetation for this area.

Tags: Benthic habitat
Organization: Australian Ocean Data Network
Upper Tamar Tidal Height Data

Two OneTemp HOBO pressure data loggers were installed at the Seaport Marina in central Launceston in June 2014 by Dr Ian Kidd, measuring water depth at 1-hr intervals as well as water temperature. Depth is calculated from temperature, total pressure, and barometric pressure, based on fresh water density. The height of the gauge relative to AHD was measured 23 March 2018 by Launceston City Council surveyor Leigh Cornwell, and a correction applied to the data to give water level in metres AHD. The gauge was installed for the purpose of Dr Kidd's PhD research into sediment transport processes in the upper Tamar, and remains open with data collected monthly by Karen Palmer (IMAS honours student). Both projects were supervised by Dr Andrew Fischer.

Tags: HOBO U20L-04 Water level Data Logger
Organization: Australian Ocean Data Network
Wellstead Estuary (WA) Seagrass 2009

This data is part of the 2013 report "Synthesis of seagrass mapping studies" conducted by the Water Science Branch of the Department of Water.

Surveys were conducted by the WA Department of Water together with Geoscience Australia. The objective of these surveys 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.

The datasets making up the Wellstead Estuary seagrass survey data are:
WA_Wellstead_SAV_sites - point dataset of species presence/absence and survey methodology at each site.
WA_Wellstead_SAV_polygons - polygon dataset showing interpolated percentage cover in polygons derived from site points.

Tags: Benthic habitat, WESTERN AUSTRALIA
Organization: Australian Ocean Data Network
Developing an estuary monitoring program in North-West Tasmania

We implemented a monitoring program developed by Crawford and White (2006), which was designed to assess the current condition of six key estuaries in NW Tasmania: Port Sorell, the Leven, Inglis, Black, Montagu and Arthur River estuaries. This study considered a range of water quality and ecological indictors commonly used to monitor estuaries. These included: salinity, temperature, dissolved oxygen, turbidity, pH, nutrients (nitrate + nitrite, dissolved reactive phosphorus and ammonia), silica molybdate reactive and chlorophyll a for the water column; chlorophyll a and macroinvertebrate community structure amongst the sediments.

Tags: Benthic macroinvertebrates, Degradation, Human impact, Monitoring program, Temperate Reef
Organization: Australian Ocean Data Network
Redmap (Queensland) - Sightings of Bony Fish Species

Redmap is a primarily a website that invites the community to spot, log and map marine species that are uncommon in their region, or along particular parts of their coast. The information collected is mapped and displayed on the site, demonstrating, in time, how species distributions may be changing.

Sightings are divided into two categories – those with a photo that can be ‘verified’ by a marine biologist, and sightings without photos that we call community sightings (anecdotal). All the information collected, with and without photos, is mapped and will be used in the following years to map out a ‘story’ of changes occurring in our marine environment.

The main data collected includes the species sighted (normally selected from a list comprising preselected species of interest), the location, date/time and activity being undertaken.  Other optional information gathered include biological data such as sex, size and weight and environmental data such as water depth and temperature and habitat.

This record is associated with live data (and will subsequently change over time) and spatial elements have reduced accuracy.  It is also subject to a three year embargo (ie. does not contain data less than three years old).  If you wish to discuss obtaining a citable, static dataset, that is current and/or contains accurate spatial elements, please see Point of Contact.

Tags: Hand Sampling, body_length, body_weight, climate change, range shift, species distribution, fishing, latitude, longitude
Organization: Australian Ocean Data Network
Benthic Invertebrate Community Distribution (Impacted & Unimpacted) 2004 - 2008

This data is primarily benthic invertebrate community information including species abundance &amp; distribution collected by diver coring/grab.  Spatial information is available for D'Entrecasteaux Channel, Huon River, North West Bay and Port Esperance sites.

Associated physical chemical parameters (sediment grain size, redox, sulphide, depth) were also collected and, in most cases, includes spatial GPS references.

Tags: Depth, Oceans | Marine Biology | Marine Invertebrates, Oceans | Marine Sediments | Sediment Characteristics, Oceans | Marine Sediments | Sediment Grain Size, Redox potential, Sediment grain size, Species abundance, Sulphide concentration
Organization: Australian Ocean Data Network
Hardy Inlet (WA) Seagrass 2008

Aquatic flora surveys of the Hardy Inlet were conducted from the top of Molloy Island and the Scott River Basin to the mouth of the Inlet. 

Surveys were initially conducted in 2008 by Murdoch University’s Marine and Freshwater Research Laboratory (MAFRL) and forms part of the 2013 report "Synthesis of seagrass mapping studies" conducted by the Water Science Branch of the Department of Water.

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 2018, 2020 &amp; 2023 by the Department of Water and Environmental Regulation as "Hardy Inlet Seagrass Survey".

The datasets making up the 2008 Hardy Inlet seagrass survey data are:
WA_MAFRL_Hardy_seagrass_polygons - polygon dataset showing interpolated percentage cover of Ruppia spp.

This record provides access to the initial MAFRL 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
EcoRRAP Digital Surface Models

The current digital surface models (DSMs) represent scaled, 3D, representations of benthic communities at EcoRRAP study sites. DSMs are generated from raw imagery collected by divers (see SOP #14, Reef monitoring sampling methods | AIMS) and processed using photogrammetry software Agisoft Metashape. DSMs can be used to extract a range of data describing 3D habitat characterstics at both plot and colony scale, including: rugosity, surface area, and volume. Comparison of DSMS between years can also be used to quantify changes in the above metrics at plot scales and to measure 3D demographic rates of individual colonies (e.g. 3D growth and partial mortality).

Organization: Australian Ocean Data Network
Great Barrier Reef Genomics Database: Seawater Illumina Reads

This dataset comprises of microbial metagenomics sequencing reads of seawater collected across 48 reef sites across the Great Barrier Reef. Samples were collected across four Long Term Monitoring Program (LTMP) field trips between November 2019-July 2020, combining water chemistry data, LTMP field surveys and microbial metagenomics data. This data collection was a major part of the QRCIF IMOS GBR microbial genomic database project, which aims to generate a comprehensive open access repository of microbial genomic data from across the region. Seawater was collected in quadruplicate either by SCUBA or using Niskin Bottles at each reef site, 5L of seawater was pre-filtered using a 5&micro;m filter and applied to a 0.22&micro;m sterivex filter, snap frozen and stored at -20&deg;C in preparation of DNA extraction. DNA was extracted from sterivex filters using phenol:chloroform:Iso-amyl alcolol extraction, ethanol precipitation and cleanup using the Zymo Clean and Concentrator&reg; kit before submission for sequencing at the Australian Centre for Ecogenomics sequencing facility, Illumina. The data presented as illumina paired-end shotgun metagenomics sequencing runs, in fastq format, generated by Microba Life Sciences, Brisbane, QLD, Australia. Each downloadable archive contains forward and reverse reads for all replicate sampling performed at that particular site. Water quality particulate and dissolved nutrient data was generated as previously described (https://doi.org/10.25845/5c09b551f315b) from water samples collected simultaneously at each reef site.

Zip files are available through the spatial layer under each site&#39;s &#39;illumina.seawater.zip&#39; - please note these are large downloads (between 6 - 14 GB).

Tags: Microbial Genomic Database Sub-Facility, Integrated Marine Observing System (IMOS), diver
Organization: Australian Ocean Data Network
Hydrologic Modelling of Connectivity Expert Panel Recommendations 2025–Scenario 6–Combination

Combination of the extended resumption of flow rule inclusive of additional trigger sites, end of system flow target translucency releases and connectivity environmental water allowance Bourke flow trigger.



Note: See <em>Analysis of the Connectivity Expert Panel Recommendations: Hydrologic modelling assessment.pdf</em> (attached) for more details. 

Note: If you would like to ask a question, make any suggestions, or tell us how you are using this dataset, please visit the <a href="https://water-hub.seed.nsw.gov.au/thread/search">NSW Water Hub which has an online forum</a> you can join.

Tags: Analytics, Connectivity, DCCEEW - Water, DCCEEW - Water Analytics, Modelling, Models
Organization: NSW Department of Climate Change, Energy, the Environment and Water
Fertile Hybrids Could Aid Coral Adaptation

Fertile hybrids can enhance the adaptive capacity and resilience of species under stress by increasing genetic diversity within populations, masking the effects of deleterious recessive alleles, and facilitating the introgression of beneficial genetic variants into parental species. However, many hybrids are infertile. We compared the fertility of aquarium-reared F1 hybrid and purebred corals of the species Acropora loripes and Acropora kenti and examined the viability of early life stages of second-generation (F2) hybrid and back-crossed planula larvae and recruits. The F1 hybrids spawned viable gametes and the F2 hybrid and back-crossed embryos developed into planula larvae and settled to become sessile coral recruits. The F1 hybrids had greater reproductive fitness than the F1 A.&thinsp;loripes purebred stock in an aquarium environment based on their probability of spawning and their fertilization success in crosses using their gametes. Interspecific coral hybrids can therefore be fertile and have high reproductive fitness, which could benefit the persistence of threatened coral reefs.

Organization: Australian Ocean Data Network
One-off swim surveys recording total macroalgal cover in the Great Barrier Reef, and their spatial and environmental predictors

Macroalgae are an important component of coral reef ecosystems. We identified the spatial patterns, environmental drivers and long-term trends of total cover of upright fleshy and calcareous coral reef inhabiting macroalgae in the Great Barrier Reef. The spatial study comprised of one-off surveys of 1257 transects at 324 sites on 163 reefs between latitude 11.0&deg; to 23.6&deg;S, coastal to offshore, at 0-18 m depth. The surveys were conducted between 1997 and 2008. Although not recent, the data are ecologically valuable due to their large spatial coverage along complex environmental gradients.
Environmental predictors were obtained for each transect from in situ data, and from eReefs, a coupled hydrodynamic-biochemical model.

The study found that macroalgae dominated the benthos (&ge;50% cover) on at least one sites onf 40.4% of surveyed inshore reefs. Spatially, macroalgal cover increased steeply towards the coast, with latitude away from the equator, and towards shallow (&le;3 m) depth. Environmental conditions associated with macroalgal dominance were: high tidal range, wave exposure and irradiance, and low aragonite saturation state, Secchi depth, total alkalinity and temperature. Evidence of space competition between macroalgal cover and hard coral cover was restricted to shallow inshore sites. Our extensive empirical data and relationships may serve to parameterize ecosystem models, and to optimize refine reef condition indices based on macroalgal data for Pacific coral reefs.

This dataset underpins the study: Fabricius KE, Crossman K, Jonker M, Mongin M, Thompson A . (2023) Macroalgal cover on coral reefs: spatial and environmental predictors, and decadal trends in the Great Barrier Reef. PLOS One.

We acknowledge the Traditional Owners of the Sea Country of the Great Barrier Reef, and pay our respects to their Elders past, present and emerging. We acknowledge their continuing spiritual connection to their Sea Country.

Organization: Australian Ocean Data Network