AndreaBozzo/ceres-open-data-index huggingface dataset:
Impacts of individual aromatics on larvae of the coral Acropora millepora

This collection consists of a series of data sets assessing the sensitivity of planula larvae of the coral Acropora millepora to dissolved, individual aromatic compounds under two light conditions: visible light in the absence of ultraviolet radiation and visible light in the presence of ultraviolet radiation. Data was collected on the sensitivity of larval survival, larval fragmentation and larval metamorphosis success through laboratory experiments performed at the Australian Institute of Marine Science Townsville site during the mass coral spawning events in November and December of 2016-2019. The data was analysed using Bayesian dose-response modelling using the package bayesnec in the software R.
Parameters in this study: Larval survival, Larval fragmentation, Larval metamorphosis success
For full methodological and analytical details please refer to the full research report: Nordborg et al. 2023, Effects of aromatic hydrocarbons and evaluation of oil toxicity modelling for larvae of a tropical coral (Marine Pollution Bulletin, Vol. 196, 115610, https://doi.org/10.1016/j.marpolbul.2023.115610) and its supplementary materials.

Organization: Australian Ocean Data Network
IMOS - Ocean Gliders - Slocum glider deployment in Tasmania in Storm Bay (October - November 2012)

The dataset contains temperature, salinity and biological parameters measured by a Slocum glider in Storm Bay (Tasmania). 
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, 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, States, Territories (Australia) | Tasmania, 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
IMOS - Ocean Gliders - Slocum glider deployment in New South Wales off Port Stephens (March - April 2010)

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 Port Stephens (New South Wales).
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) | New South Wales, 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
Manly Hydraulics Laboratory - Major Data Collection Programs: NSW Department of Commerce

The Manly Hydraulics Laboratory (MHL) manages and operates the New South Wales coastal environmental data programs. This involves a quality assured, holistic approach to the collection, collation, analysis and delivery of a continuous time series of environmental data. MHL provides specialist services in the area of water, coastal and environmental solutions. MHL is a business unit within the NSW Department of Commerce. MHL has a quality system certified to AS/NZS ISO 9001: 1994-2000. 
Areas of expertise include: investigation of oceanographic, coastal, estuarine and riverine processes; environmental and water quality studies, data aquisition and field surveys; design and testing of water engineering structures and equipment; and development and operation of physical and numerical models. 
NHL measures the latest wave height, ocean tides, sea surface temperature, water level, rainfall and barometric pressure off the coast and within NSW. 
Please note not all data is available online, latest observations only.

Tags: Atmosphere | Atmospheric Pressure | Atmospheric Pressure, Atmosphere | Precipitation | Rain, NEW SOUTH WALES, Oceans | Ocean Temperature | Sea Surface Temperature, Oceans | Ocean Waves | Wave Height, Oceans | Sea Surface Height | Sea Surface Height, Oceans | Tides | Tidal Height, air_pressure, rainfall_amount, sea_surface_temperature, sea_surface_wave_significant_height, tide_height, water_level
Organization: Australian Ocean Data Network
Movements, recapture patterns and factors affecting the return rate of Carcharhinid and other sharks tagged off northern Australia

Between February 1983 and May 1985, ~10 500 sharks of 23 species were fin-tagged off northern Australia.  Tagging concentrated on the commercially important Carcharhinus tilstoni  and  C. sorrah. Most recaptures were made in 1984 and 1985 but returns continued until May 1997.  In all, 579 tages (5.5%) were recovered.  Tag shedding was estimated to be low (0.025 per year for C. tilstoni) and tagging mortality was significantly lower for sharks caught by hand line than by gill-net.  Australia gill-netters, Taiwanese gill-netters (fishing in the Australian Fishing Zone) and Australian prawn trawlers accounted for most of the returns.  THe maximum distance between the release and recapture positions was &gt; 1100 km, but most returns were made within 50 km of the tagging site.  Nearly all the releases were in inshore waters fished by Australian vessels.  Although many recaptures were made by the offshore Taiwanese fisher, the Taiwanese fishing effort was much higher than for the inshore Australian fishery, so that releative to fishing effort, relative few sharks moved from inshore to offshore waters.

Tags: Agriculture | Agricultural Aquatic Sciences | Fisheries, Biosphere | Ecological Dynamics | Population Dynamics, Movement, Sharks, Tags and Tracking Devices
Organization: Australian Ocean Data Network
RAN CTD Profile Data - HMAS LEEUWIN ProjectID: HI496LEE_M From: 2011-04-25 To: 2011-05-28

This dataset contains quality controlled vertical profiles of pressure, temperature and salinity measured by a Conductivity, Temperature and Depth (CTD) probe. The dataset contains 11 CTD profiles (casts) obtained during RAN Hydrographic Survey cruise HI496LEE_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
Investigator Strait CTD Survey August 1986

A total of 34 conductivity-temperature-depth (CTD) stations were collected in Investigator Strait from 21-22  August 1986, from the ship the Wave Dancer (cruise IS08), and analysed for water temperature, salinity and sediment data. The data were digitised from the reference below.

Tags: Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Salinity, depth, sea_water_salinity, sea_water_temperature, sediment_size
Organization: Australian Ocean Data Network
RAN CTD Profile Data - HMAS LEEUWIN ProjectID: HI404LEE_H From: 2005-04-04 To: 2005-05-25

This dataset contains quality controlled vertical profiles of pressure, temperature and salinity measured by a Conductivity, Temperature and Depth (CTD) probe. The dataset contains 45 CTD profiles (casts) obtained during RAN Hydrographic Survey cruise HI404LEE_H from HMAS LEEUWIN. 
The CTD was manufactured by Falmouth Scientific and is the "2-inch Micro CTD" model. This CTD type is referred to operationally as the HS_CTD. This CTD is fitted within an inductive type conductivity cell, a platinum thermometer and silicon pressure sensor.
The CTD temperature sensor is calibrated on the ITS-90 temperature scale against a master CTD using a controlled temperature bath. The pressure sensor is calibrated using a Druck Pressure Calibrator. The conductivity sensor is calibrated in a temperature controlled bath against seawater samples of known conductivity.
The HS_CTD is lowered and raised by a hand winch sampling at a rate of 1.83 Hz. Data files were recorded in the downcast and upcast direction but most data is from downcasts due to higher quality. 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 and converted to netCDF format files. 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
Larval transport of the introduced Northern Pacific Seastar (Asterias amurensis) in the Derwent Estuary, SE Tasmania

This study assessed the spatial and temporal (horizontal and vertical) distribution of Asterias amurensis larvae in the Derwent Estuary and adjacent Storm Bay, SE Tasmania.
Horizontal transport and development was assessed by collecting plankton samples at 2 or 4 week intervals, from July to December 2001, at 4 sites in the Derwent Estuary and 6 sites in Storm Bay.
The effects of light and salinity on vertical distribution of larvae was examined over a 24 hour tidal and diel cycle.

Tags: 25 154001, Asterias amurensis, Biosphere | Aquatic Habitat | Reef Habitat, Biosphere | Zoology | Echinoderms, Introduced species, Larval abundance, Larval distribution, Relative frequency of larval stages
Organization: Australian Ocean Data Network
Antioxidant activity in extracts of marine organisms screened by microtiter plate assay

A novel microtiter plate assay was developed to determine the total peroxyl radical-trapping activity of antioxidants extracted from marine organisms by measuring the inhibition rate of dye-substrate oxidation. The 96-well microtiter plate format afforded multisample throughput.Dihydrorhodamine-123 (DHR), dihydrofluorescein (DHR), and dichlorodihydrofluorescein (DCDHF) were used as reduced substrates for oxidation by peroxyl radicals generated from 2,2'-azobis(2-amidinopropane) dihydrochloride (AAPH).The antioxidant inhibition rates for uric acid and trolox were measured on addition of antioxidant reagents to the aqueous portion of the reaction mixture. Other comparative data were obtained by adjusting concentrations of the reduced substrates or concentrations of the AAPH peroxyl initiator.Data were prepared for graphic presentation, and reaction rates were determined by linear regression using Kaleida-Graph software (Synergy Software, Reading, Pa.).The inaugural test examined 166 methanolic extracts obtained from a selection of coral reef organisms and commensal microbes cultured on marine agar. Extracts included the marine sponges Paramyxilla n.sp. and Lissodendoryx isodicryalis; and the halophilic algae, Dampier Salt #1A.
 To determine a simple, robust, and reliable method for screening antioxidant activity in extracts of marine organisms using microtiter plate technology to perform concurrent multi-sample analyses.To demonstrate a chromatographic strategy for examining the antioxidant composition of active extracts for novel lead selection, based on the principle of electrochemical detection.To design and test suitable procedures for shipboard analysis of freshly prepared extracts obtained from marine organisms.

Organization: Australian Ocean Data Network
BRUVS (TM) - Fish and Benthic survey of Port Hedland 2012-07-11 to 2012-07-22

The dataset comprises 8895 individuals from 155 species of fishes, sharks, rays and sea snakes observed at around Port Hedland using 218 baited remote underwater video stations (BRUVS(TM)). 1561 images were captured from these cameras.
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
Control by fiddler crabs and plant roots on biogeochemistry in mangrove sediment, north Queensland

The experiment examined the influence of mangrove saplings (Avicennia marina) and fiddler crabs (Uca vocans) on carbon, iron and sulfur biogeochemistry in mangrove sediment. Four mesocosms represented 4 treatments: without crabs and with plants; without crabs and plants; with crabs and plants; with crabs and without plants.Air and water temperature were recorded.Flux measurements:Benthic primary production was determined as carbon (CO2) exchange across the sediment-water interface of inundated sediment (total CO2 and DOC analyses) and across the sediment-air interface of air-exposed sediment. O2 production in the light and O2 demand in the dark were measured. Anaerobic carbon oxidation and iron respiration were quantified in the sediment. Porewater concentrations of total CO2, DOC and Fe2+ were determined. Sediment remaining after porewater extraction was homogenised under N2 for reactive Fe(II) extraction by an HCl technique.Iron reduction was measured as Fe(II) generation.Sulfate reduction was measured by the core injection technique.Chlorophyll a concentrations were used as a measure of microalgal abundance.Samples for enumeration of bacterial populations were taken in parallel with Chl a.
 To examine the influence of mangrove roots and crabs on carbon, iron and sulfur biogeochemistry in mangrove sediment.

Organization: Australian Ocean Data Network
Fine sediment budget on an inner shelf island of the Great Barrier Reef

The deposition and removal budget of fine sediments on the windward and leeward sides of an inner-shelf coral-fringed island (High Island) of the central Great Barrier Reef was examined.Oceanographic instruments were deployed at 3, 7, and 12 m depths during 3-15 January 2005, along two transects (windward=seaward, leeward=landward side). At each of the 6 stations, 2 sediment traps and an Analite nephelometer were mounted 0.8 m above the reef substratum. A current meter was deployed at the two 7 m depths (windward and leeward sides), with the sensors located 0.5 m above the substratum. The current meters measured 1 min-averaged currents and tides every 10 min, as well as a 20-min long burst of wave height data every hour. The nephelometers recorded 10 s averaged data (sampled every 0.5 s) every 5 min and had wipers to prevent biofouling. The sediment traps were replaced daily 3-7 January, then left for one week during a storm.The amount of sediment resuspended was measured using an Analite nephelometer using the upper 90 percentile of the nephelometer readings fromeach 3 min run. The resuspender was run at 3 replicate patches of bare substratum near each mooring site in the week before the storm.
 To determine how much riverine sediment is deposited on the windward and leeward sides reef and whether this sediment is flushed out during resuspension events.
 The data show that total sedimentation rates were about 2000 mg cm-2 yr-1 at all depths, with 30% to 60% imported from the reef-surrounding waters during calm periods, and the remaining material locally resuspended during storms. Storms resuspended fine sediment at depths less than ~ 5.5 m on the leeward reef side and ~12 m on the windward side. In these shallow waters there appeared to be a net annual sediment balance between import and export by resuspension events. Below these depths, there was no resuspension during storms; further there was a ten-fold increase of the sedimentation rate during storms and most of this additional mud originated from resuspended material from shallower waters on the island slopes. The mud had accumulated on these deeper coral reefs to levels of about 9000 mg DW cm-2, equivalent to ~ 4 years of sediment deposition that is presumably flushed out only during tropical cyclones. The data show that increased rates of advection of fine suspended sediments from soil erosion on land can result in increased sediment accumulation on inshore coral reefs below the depth of storm resuspension.

Organization: Australian Ocean Data Network
Discharge data of the GBR region

These products are focused on the catchment area discharging into the marine environment, which impacts the Great Barrier Reef, excluding part of the northern region and inclusive of the southern region in the North-East Coast. This broadly covers the area from Currumbin Creek in the South to Hann River in the North, excluding a few catchments located within the Geofabric North-East Coast region.
The stakeholder requirement is for continuous streamflow data at the reporting nodes for marine
modelling. Gauging sites were selected based on:
 * Distance from coast in the catchment, taking tidal effects into consideration and minimising the ungauged area;
 * The availability of data from 1993-2016 with at least 5 years of operational observed streamflow;
 * Availability of daily and hourly models to gap fill missing and discarded data;
A total of 64 most downstream gauge locations were selected through the process and other locations which did not meet the above criteria were rejected.
Continuous gap-filled streamflow time series were created for all 60 CSIRO marine reporting nodes that include: 
(i) most downstream observed data, gap filled through the application of SWIFT or G2G model, and 
(ii) estimates of ungauged catchment discharge though G2G model application.
Gap-filled daily data is provided between 1993-2006 whilst gap-filled hourly data is provided between 2007-2016.
Data provided as part of the gauged region were sourced from the catchments along the coast where coastal nodes had accompanying gauging stations.

Tags: 040503 - Physical Oceanography
Organization: Australian Ocean Data Network
FishBase

FishBase (31 000 Species, 270 600 Common names, 46 900 Pictures, 42 400 References, 1620 Collaborators, 33 million Hits/month). FishBase is an information system with key data on the biology of all fishes. Similar to an encyclopedia, FishBase contains different things for different people. For example, fisheries managers will dive into the largest existing compilation of population dynamics data; teachers and students will find numerous graphs illustrating basic concepts of fish biology; taxonomists will enjoy access to the November 2000 update of Eschmeyers (1998) Catalog of Fishes databases; conservationists will use the lists of threatened fishes for any given country (Hilton-Taylor 2000); policymakers may be interested in a chronological, annotated list of introductions to their country; research scientists, as well as funding agencies, will find it useful to gain a quick overview of what is known about a certain species; zoologists and physiologists will have the largest existing compilations of fish morphology, metabolism, gill area, brain size, eye pigment, or swimming speed at their fingertips; ecologists will likewise use data on diet composition, trophic levels, food consumption and predators as inputs for their models; geneticists will find the largest compilation of allele frequencies; the fishing industry will find proximate analyses, as well as processing recommendations for many marine species; anglers will enjoy a listing of all game fishes occurring in a particular country (IGFA 1994); and scholars interested in local knowledge will find more than 100,000 common names of fishes together with the language/culture in which they are used and comments on their etymology.

Tags: Diet, Predators, Disease, Ecotoxicology, Distribution, Fish Biology, Fish Ecology, Genetics, Allele Frequencies, Heritability, Morphology, Physiology, Metabolism, Morphometrics, Oceans | Marine Biology | Fish, Population Dynamics, Reproduction, Maturity, Spawning, Eggs, Larvae, Size, Growth, WORLD OCEAN, body_length, swimming_speed
Organization: Australian Ocean Data Network