AndreaBozzo/ceres-open-data-index huggingface dataset:
Fast Repetition Rate Fluorometry (FRRF) data collected on the RV L'Astrolabe from 19/02/2008 to 19/02/2008 (Hobart - Dumont d'Urville)

These data were collected on the RV L'Astrolabe (platform code: FHZI) from 19/02/2008 to 19/02/2008 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 - Satellite Remote Sensing Facility

The aim of the Satellite Remote Sensing facility is to provide access to a range of satellite derived marine data products covering the Australian region.
The facility has established a new X-Band reception facility at the Australian Institute of Marine Research near Townsville and upgraded the Tasmanian Earth Resource Satellite Station near Hobart.  
These stations and facilities in Perth, Melbourne, Alice Springs and Darwin form a network supplying the facility with near real-time data.  These data are combined and processed to a number of products which are placed on disk storage systems in Melbourne, Canberra and Perth.
The Bureau of Meteorology has developed a sea surface temperature (SST) product in GHRSST-PP (http://ghrsst-pp.metoffice.com/)  L3P format. The Bureau is developing some other SST products including daily and skin SSTs.
These new products and some "ocean colour" products from MODIS will  gradually become available.
Scientific users can access these data products are available through OPeNDAP and THREDDS supported technology and also through interfaces provided by AODN and the facility (www.imos.org.au and www.imos.org.au/srs).

Tags: Biosphere | Microbiota | Phytoplankton, Biosphere | Microbiota | Plankton, Buoys | Moored Buoys, CTD (Conductivity-Temperature-Depth Profilers), Coloured Dissolved Organic Matter (CDOM), Current Meters/Profilers | Acoustic Doppler Current Profiler (ADCP), Fluorometers, IMOS Facility | SRS | Satellite Remote Sensing, Imaging Radar Systems, Oceans | Bathymetry | Water Depth, Oceans | Ocean Chemistry | Alkalinity, Oceans | Ocean Chemistry | Carbon Dioxide, Oceans | Ocean Chemistry | Chlorophyll, Oceans | Ocean Chemistry | Inorganic Carbon, Oceans | Ocean Chemistry | Nutrients, Oceans | Ocean Chemistry | Oxygen, Oceans | Ocean Circulation | Ocean Currents, Oceans | Ocean Optics | Fluorescence, Oceans | Ocean Optics | Ocean Color, Oceans | Ocean Optics | Photosynthetically Active Radiation, Oceans | Ocean Optics | Turbidity, Oceans | Ocean Pressure | Water Pressure, Oceans | Ocean Temperature | Sea Surface Temperature, Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Conductivity, Oceans | Sea Surface Height | Sea Surface Height
Organization: Australian Ocean Data Network
CAMRIS Seagrass Dataset

This data contains information about the distribution of seagrass around the Australian coastline. It was prepared by Dr. Hugh Kirkman (CSIRO Division of Fisheries) from a review of published and unpublished sources, and updated by Dr. Ian Hahmdorf, (Bureau of Rural Sciences).
General info:
CAMRIS, standing for the Coastal and Marine Resources Information System, is a small-scale spatial analysis system developed in collaboration by several divisions of Australia's Commonwealth Scientific and Industrial Research Organisation (CSIRO), as part of the CSIRO Coastal Zone Program. CSIRO Division of Wildlife and Ecology was the custodian of the 'coastal' subset of the Australian Resources Information System (ARIS). Coastal ARIS became the core dataset of the CAMRIS project. The Coastal ARIS database was developed from a coastal inventory developed by Galloway et al. This inventory contained relatively large scale data including landform, geology, vegetation, soil, land use, climate and population information for each of 3027 3x10km sections around the coastline of mainland Australia and Tasmania, but excluding offshore islands.

Tags: Australia, Benthic habitat, CAMRIS, Coastal and Marine Resources Information System, Environmental Sciences not elsewhere classified, Geospatial Information Systems, Marine and Estuarine Ecology (incl. Marine Ichthyology), coast, coastal
Organization: Australian Ocean Data Network
Great Barrier Reef Ocean Observing System - GBROOS

The Great Barrier Reef Ocean Observing System ( GBROOS) is an observation network that seeks to understand the influence of the Coral Sea on continental shelf ecosystems in north-east Queensland including the Great Barrier Reef (GBR) Marine Park. In the next decade, GBROOS will monitor the effect of rising ocean temperatures on the incidence of coral bleaching, and on the frequency of regional upwelling that fuels productivity in sections of the GBR. In the longer term. GBROOS will monitor the impact of global climate change upon ocean chemistry that threatens the survival of calcifying organisms.
 This record is a parent record for the various components within GBROOS. Please see these other records for more information about that component.
 GBROOS is made up of five components that are directly managed within GBROOS as well as equipment from other IMOS Facilities that may be deployed in the Great Barrier Reef such as the HF Radar (ACORN Facility). The components are:- An up-grade to the Townsville Remote Sensing Receiving Station, located at AIMS; - The installation of under-way sampling systems on a number of Ships of Opportunity; - The installation of a Townsville and Darwin Reference Mooring as part of the Australian National Mooring Network facility under IMOS; - The installation of a Mooring Array along the GBR to measure and monitor the movement of oceanic water onto the GBR; - The installation of sensor networks at seven reef sites along the GBR.

Organization: Australian Ocean Data Network
Sandwave Movement, Currents and Sedimentation in Torres Strait: HMAS Cook Cruise April 1990

Torres Strait is one of Australia's most important seaways in terms of shipping and defence. It forms Australia's only true international boundary. It is a shipping focal area and major seaway for Australian and foreign merchant vessels. This is the third report, in a series of four (four cruises represented in image), outlining the results of investigations into sandwave movement, currents and sedimentation in the main shipping channels of Torres Strait.

Tags: Oceans | Marine Sediments | Sedimentation, Oceans | Ocean Circulation | Ocean Currents, Oceans | Ocean Optics | Turbidity, Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Salinity
Organization: Australian Ocean Data Network
RAN CTD Profile Data - HMAS LEEUWIN ProjectID: HI461LEE_M From: 2009-05-16 To: 2009-05-28

This dataset contains quality controlled vertical profiles of pressure, temperature and salinity measured by a Conductivity, Temperature and Depth (CTD) probe. The dataset contains 64 CTD profiles (casts) obtained during RAN Hydrographic Survey cruise HI461LEE_M from HMAS LEEUWIN.
The CTD was manufactured by Applied Microsystems Limited and is the "Micro CTD" model. This CTD type is referred to operationally as the MVP200_CTD. This CTD is fitted with a 4 electrode platinized conductivity cell, thermistor temperature sensor and a semiconductor strain gauge pressure sensor.
The CTD sensors are calibrated at the manufacturer Applied Microsystems Limited on a 12-18 month schedule. The CTD temperature sensor is calibrated against 'Hart' temperature standards. The pressure sensor is calibrated using 'Budenburg Deadweight' standards. The conductivity sensor is calibrated using 'Hart' temperature standards and seawater samples of known conductivity.
The CTD sensors are mounted to a fish-shape probe. The probe is controlled by an electric winch (MVP200 type). For downcasts the fish is allowed to free-fall (winch is in 'free-wheel' mode) under its own weight at about 2-3 ms-1 and then is winched back. Data is recorded in downcast and usually in upcast direction at a sampling rate of 25 Hz. The downcast data is of higher quality because sensors encounter undisturbed seawater that flows through the nose of the fish. On the upcast the fish is flipped around (tail first) and the sensors in the nose encounter disturbed flow from the fish tail.
This type of CTD is prone to a phenomenon called 'salinity spiking' caused by a mismatch between the response times of the temperature and conductivity sensor. Data undergoes a salinity de-spiking routine to correct for this. See the history metadata for further details on the salinity de-spiking process.
Raw CTD pressure data is not always monotonic due to transient up/down motion of winch/ship. Raw pressure data is subsetted to give a monotonic (increasing) sequence and then linearly interpolated to 1 decibar pressure intervals. Data is then flagged with quality control flags after visual inspection and comparison to average climatology and historical CTD casts.

Tags: Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Salinity, sea_water_practical_salinity, sea_water_temperature
Organization: Australian Ocean Data Network
Sediment Sample and Core Database

The data contained in this database corresponds to the radiochemical and chemical analysis for the sediment profile samples collected by AIMS&#39; biogeochemistry team between 1988 and 2005. The collection spans different regions within Australia, Malaysia, Timor Leste and Timor Sea region, Papua New Guinea, China, Thailand and Indonesia. Samples were collected from offshore, coastal and river areas, using a variety of methods over the timeframe.
The data has contributed to studies in sediment mass balance in rivers, estuaries, deep water shelf and slopes to determine the environmental impact in tropical systems, nutrient budgets and dynamics. Research in both organic and inorganic carbon biomarkers and fluxes have developed carbon budget and carbon cycling dynamics for marine environments.  
The databases includes sediment descriptions of samples, measurements for geochemical mass balance, and analysis for trace elements including Aluminium, Carbon and Nitrogen and calculated ratios of Aluminium/Calcium, Carbonate Carbon and in some locations Arsenic and suspended sediment. Radiochemical analysis of some sediment core samples and surface water samples for natural isotopes of radium.
Sampling equipment included Kasten Corer, Piston/Gravity Corer, Box Corer, Smith Macintyre Grab, Van Veen Grab, hand collection SCUBA, soil profile and Suspended Sediment samples, and sediment traps.

Organization: Australian Ocean Data Network
Reef features on the Australian continental shelf derived and aggregated from Australian Hydrographic Service's (AHS) seabed area features (sbdare_a) from the 1 degree S57 file series [for NESP D3]

Reef features were derived by aggregating and dissolving the boundaries of the 1 degree S57 file series for the Australian continental shelf (200 m). These are reefs defined by the Australian Hydrographic Service (AHS) that could potentially be a navigational hazard  .

Tags: COASTLINE, INTERTIDAL
Organization: Australian Ocean Data Network
Population genetics of Zoanthid species from the Great Barrier Reef and Torres Strait

A study of the population genetics of Zoanthid species in the Great Barrier Reef and Torres Strait. Variations in gene frequencies of allozymes and common proteins were used to estimate connectivity and dispersal between populations, and to determine their phylogeny (discrete species identities). Zoanthus coppingeri was studied in greater detail.In 1992-1993, 1261 samples of Palythoa sp. were collected from 2 backreef sites at each of 19 reefs (at least 30 individuals per site) and one site at Hope Island (analysis suggested that all samples were Palythoa caesia). Seven enzymes (GPI, EST-D, MPI, MDH, ME, PGM, HK) were used in the analysis. BIOSYS-1 was used to calculate gene frequencies and genetic variablity.355 specimens were collected from 19 locations 1992-1994. 7 species were identified (Palythoa caesia, Protopalythoa mutuki, Pro. sp.2, Pro. sp.3, Sphenopus marsupialis, Zoanthus coppingeri and Z. vietnamensis) form the samples. Gene frequencies at 13 enzyme loci (ENO, EST-D, GP, HK,LGG-1, LGG-2, LP, LT-1, LT-2, MDH-1, MDH-2, ME, PGM) were analysed. UPGMA cluster analysis was carried out and a phylogenic tree constructed for assessing genetic variablity. A taxonomic key was created for Great Barrier Reef and Torres Strait Zoanthidae, as well as a table of diagnostic features for 10 morphological groupings of Zoanthidae and one species (Parazoanthus dichroicus) of Parazoanthidae.During 1992-1993, 319 samples of intertidal Zoanthus coppingeri were collected from Kissing Point, Townsville and 2 sites each at Cockle Bay on Magnetic Island and Low Island (Low Isles). Six polymorphic enzymes (ENO, MDH, EST-D, HK, PGM, LGG) were used in the analysis at site level, subsite level and locality level. Values of genetic differentiation were calculated.
 To estimate connectivity and dispersal between populations, and to determine discrete species identities.To examine patterns of clonal structure within populations of Z. coppingeri.
 Collection locations: 11087, 11102, 21299, 21491, 21551, Border Island, Bowden, Cape Cleveland, Cockle Bay (Magnetic Island), Endeavour, Goods Island, Heron Island, Hope Island, Hyde, John Brewer, Kissing Point (Townsville), Low Isles, Mabuiag Island, Magnetic Island, Myrmidon, Orpheus Island, Pandora, Pelorus, Pith, Rib, Ross, Ruby, Stucco, Tuesday Island, Turtle, Wistari Reefs.

Organization: Australian Ocean Data Network
WAMSI 2 - Kimberley Node - Project 2.2.3 - Benthic community production and response to environmental forcing

The goal of Project 2.2.3 was to understand how benthic primary production on fringing reefs in the Kimberley is related to the physical environment (e.g. light, temperature, water motion) as well as biogeochemical conditions (e.g. nutrient inputs).  Community-scale rates of production and nutrient uptake will be estimated based on changes in water column oxygen and nutrients over 100s of meters at a representative site in the west Kimberley (Tallon Island, Sunday Island group).
Data is stored and managed via the 3 fieldwork trips.
1) 2nd to 22nd October 2013
2) 3rd to 10th February 2014
3) 22nd March to 12th April 2014

Tags: Biosphere | Aquatic Habitat | Benthic Habitat, Biosphere | Ecological Dynamics | Primary Production, CTD (Conductivity-Temperature-Depth Profilers), Concentration of chlorophyll per unit volume of the water body, Concentration of oxygen {O2} per unit volume of the water body, Current Meters/Profilers, Current direction in the water body, Depth, Downwelling vector irradiance as photons (PAR wavelengths) in the water body, Nutrients, Oceans | Coastal Processes | Coral Reefs, Oceans | Ocean Chemistry | Oxygen, Temperature of the water body, Tide Gauges, Turbidity of the water body
Organization: Australian Ocean Data Network
2016 SoE Marine Chapter - State and Trends - Primary productivity

The Marine chapter of the 2016 State of the Environment (SoE) report incorporates multiple expert templates developed from streams of marine data. This metadata record describes the Expert Assessment "The state and trends of ecological processes – primary productivity". The full Expert Assessment, including figures and tables (where provided), is attached to this record. Where available, the Data Stream(s) used to generate this Expert Assessment are accessible through the "On-line Resources" section of this record.

DESCRIPTION OF ECOLOGICAL PROCESS FOR EXPERT ASSESSMENT
Satellite data for ocean colour provides the most comprehensive assessment of phytoplankton biomass (PB) and primary production (PP). The method works very well in oceanic waters but PB and PP can be overestimated in regions where runoff or resuspension affects water colour (near land, especially near large tropical rivers).  In general phytoplankton biomass and primary production (PP) are low around Australia. Typically both BP and PP are greatest near the coast tending to decline with distance from shore. Offshore oceanic waters north of ~30°S generally have low rates of PP, &lt; 0.2g C m-3 d-1. From 1997 to 2015 the greatest rates of PP have been found near shore, in the marginal Arafura Sea and southern Tasman Sea. 
The biomass and productivity of the oceans is dependent upon the magnitude and timing of nutrient supply. The more tropical oceans of northern Australia tend to be strongly stratified restricting nutrient resupply from depth (Chavez et al. 2011). Australia is one of the driest continents with very low and highly erratic runoff (McMahon, 1982) so nutrient supply from the land is also low.
DATA STREAM(S) USED IN EXPERT ASSESSMENT
Data used in this assessment are computed from the level 3 (L3) daily global products using one merging method. PP was computed from merged monthly L3 products using the algorithms developed by Antoine and Morel (1996). Details can be found at http://www.globcolour.info/products_description.html

2016 SOE ASSESSMENT SUMMARY [see attached Expert Assessment for full details]
• 2016 •
Assessment grade: Good
Assessment trend: Improving
Confidence grade: Adequate high quality evidence and high level of consensus
Confidence trend: Adequate high quality evidence and high level of consensus
Comparability: Grade and trend are comparable to the 2011 assessment
• 2011 •
Assessment grade: Very good
Assessment trend: Stable
Confidence grade: Limited evidence or limited consensus
Confidence trend: Limited evidence or limited consensus

CHANGES SINCE 2011 SOE ASSESSMENT
This assessment uses observations from a range of spatial and temporal scales that allows a much better assessment of current state and trends to be made.

Tags: chlorophyll, expert assessment, photosynthesis, primary productivity
Organization: Australian Ocean Data Network
Assemblages of fish along a mangrove-mudflat gradient in temperate Australia

Mangroves are considered to support rich assemblages of fish and invertebrates. Fishes inhabiting mangrove habitats and at various distances from mangroves across mudflats were sampled to: (1) compare fish assemblages between habitats; and (2) determine the influence of mangrove proximity on fish abundance and diversity in three southern Australian estuaries between November 2005 and January 2006. Based on their distribution, fish species were classified as mangrove residents, mudflat residents, generalists or rare species. The assemblage structure of fish in mangroves differed from assemblages 500m away; however, neither total abundance nor species richness differed significantly between mangroves and mudflats. Mangrove residents and Aldrichetta forsteri (yellow-eyed mullet) displayed strong associations with mangrove habitats, whereas mudflat residents were associated with mudflat habitats. No other fish groups or individual species occurred in higher abundances in either habitat. Total fish abundance, mangrove residents and A. forsteri were positively correlated with pneumatophore density, indicating that the structural complexity of the mangroves might influence the distributions of certain fish species. The current study demonstrated that mangrove habitats in temperate Australia support no greater abundance or diversity of fish than adjacent mudflat habitats and that mangrove proximity does not influence fish distribution at a habitat scale.

Tags: Aldrichetta forsteri, Atherinosoma microstoma, Biosphere | Aquatic Habitat | Estuarine Habitat, Biosphere | Ecological Dynamics | Feeding Habitat, Fish Nursery, Global/Oceans | Southern Ocean/ Australia extension, King George whiting, Marine Features (Australia) | Gulf St. Vincent, SA, Marine Features (Australia) | Port Broughton, SA, Marine Features (Australia) | Port Pirie, SA, Marine Features (Australia) | Port Wakefield, SA, Marine Features (Australia) | Spencer Gulf, SA, Marine Features (Australia) | Yorke Peninsula, SA, Mudflats, Nets, Nets | Fyke nets, Oceans | Coastal Processes | Estuaries, Oceans | Coastal Processes | Intertidal Zone, Oceans | Coastal Processes | Mangroves, Oceans | Marine Biology | Fish, Pelates octolineatus, Sillaginodes punctata, Smallmouth hardyhead, Striped perch, Yellow-eyed mullet, count, height, taxonomic_group_count, taxonomic_name
Organization: Australian Ocean Data Network
Datasets relating to samples collected from the sanded reef flats on Wistari Reef

Wistari Reef is a lagoonal platform reef, situated on the Tropic of Capricorn, within the Capricorn and Bunker region of the southern Great Barrier Reef. Surface samples were taken from the sanded reef-flat to determine the mean grainsize and the sorting coefficient and also the proportion of aragonite to calcite within the samples. In this area the average mean grainsize is ~0.46phi, with an average sorting coefficient of 0.91phi. These sediments tend to consist of broken and reworked material that is derived and transported from the high energy windward reef flat. The sediments are moderately sorted  coarse sand, and vary from moderately to well rounded. Increasing maturity of the sediment is observed, as one moves from the windward sanded reef flats (sample S57) toward the leeward region (sample CE). XRD analysis reveals that the proportion of aragonite varies across the sanded reef flats, with decreasing aragonite as you move from the windward margin (70%), towards the leeward margin (43%).

Tags: Oceans | Coastal Processes | Coral Reefs, Oceans | Marine Sediments | Sediment Grain Size
Organization: Australian Ocean Data Network