AndreaBozzo/ceres-open-data-index huggingface dataset:
Benthic decomposition rates in mangroves of the Mekong Delta, Vietnam

Rates and pathways of organic matter decomposition were estimated in sediments of Rhizophora apiculata plantations (6, 8 and 35 years old) in the lower Mekong delta, Vietnam.Rates of total carbon oxidation were assessed. Sediment cores for pore water and solid-phase elements and for redox potential and pH were taken at each site. Sediment temperature, Eh, and pH were measured to a depth of 40 cm. The water content of samples was determined as difference in weight loss of wet sediment dried at 80°C for 16 h. The percentage of sand, silt and clay was determined by sieve and pipette analysis on duplicate bulk samples.Pore water samples were analyzed for sulphate, chlorine, Fe, Mn, DOC, phosphate, ammonium, nitrite, nitrate and hydrogen sulphide. Dissolved inorganic nutrients were determined by standard automated techniques. Solid-phase elements (TOC, total N, P, S, Fe, Mn, FeS2) were determined in the same sediment slices squeezed for pore water. Methane concentration in the pore water was determined.Above ground biomass and average net primary production for each forest was assessed. Net rates of iron and manganese reduction were estimated with a core-incubation method.Denitrification was measured from replicate cores. Fluxes of Total CO2, DOC, Fe, Mn, DON, DOP, ammonium, nitrite, nitrate and phosphate across the sediment-water interface were made. Three opaque-glass chambers per site were used to measure CO2, O2, and methane fluxes across the air-sediment interface.
 To assess nutrient cycling in mangroves in Mekong Delta.

Organization: Australian Ocean Data Network
Larval precompetency and settlement behaviour in 25 Indo-Pacific coral species

What is the importance of the dataset/research? Here we provide data used to estimate the precompetency periods, the competency durations and larval settlement preferences for 25 coral taxa from the Great Barrier Reef. Knowledge of these early life history dynamics are fundamental to predicting reef recovery following disturbances and for describing population dynamics, biogepgraphy and species connectivity.
Why were the data collected? Time series data were collected to track larval settlement behaviour post spawning, through time, and in response to a number of potential settlement cues.

Where and when was the data set collected? The data were collected between November 2017 and February 2020, in the National Sea Simulator at AIMS, Townsville, during summer and autum coral spawning periods on the Great Barrier Reef.

How was it collected? Data were collected from replicated 24-36 hour settlement assays performed in 6-well plates with randomized settlement treatments, and maintained under standard light and tempreature conditions.

How are you interpreting or analysing the collected data? Data were analysed as per the uploaded html code file.


Organization: Australian Ocean Data Network
Scott Reef, Seringapatam and Rowley Shoals LTM 2017, WESTERN AUSTRALIA (WEL)

The coral and communities at the AIMS Long Term Monitoring (LTM) sites at Scott Reef, Seringapatam and Rowley Shoals were re-surveyed, following periodic surveys since 1994.
In addition to the Proposed Field Program, the following work was completed:
Benthic LTM surveys at three additional sites at Scott Reef.

Coral species diversity surveys at four additional sites at Scott Reef.

Benthic LTM surveys of coral communities at 13 sites in the deep lagoon (20-60m) at South Reef using ROV.

Colony size-frequency surveys at six sites at Scott Reef.

Genetic samples of surviving Seriatopora hystrix from 7 sites at Scott Reef.

Additional temperature loggers and current metres deployed at Rowley Shoals.

Video and photographic documentation of the Rowley Shoals, in water and from air using drones

This project is a co-investment between Woodside Energy Ltd (WEL) and AIMS, in order to build scientific knowledge at Scott Reef, Seringapatam and Rowley Shoals and was undertaken between 4th &ndash; 25th November 2017.

Organization: Australian Ocean Data Network
Variability of nutrients in a lagoonal patch reef at Davies Reef, Great Barrier Reef

Two field trips were undertaken to examine variability in nutrient concentrations in cavities on the vertical face of a patch reef in the lagoon at Davies Reef. In November 1980, a specifically designed sampling apparatus was used to sample water at four distances within three closed caves, and two cavities connected to the reef flat by chimneys. The caves and cavities were located around the perimeter of the patch reef at approximately 6m depth. Samples were extracted four times between 0800 and 2200 hours on the 6th November 1980 and analysed for phosphate, nitrate and ammonia within an hour, using an autoanalyser onboard the research vessel.Residence time of water was investigated in one cave and one chimney by the injection of Rhodomine B dye through the sampling apparatus and then sampling water over a period of 6 hours. Samples were analysed using a Turner fluorometer. The absorption of Rhodomine by cavity sediments was measured separately. During December 1981, a second field trip was undertaken to investigate the observed changes in spatial patterns of nutrients over time. Samples were extracted from only a single cave at two sampling points, one at the entrance and one as deep as possible into the cave. Samples were drawn with a peristaltic pump through PTFE tubing to a small vessel on the surface and then transferred to the research vessel for analysis. Measurements of phosphate, nitrate, nitrite and ammonia were obtained on the hour for 48 hours. To obtain data on far field tidal currents, which force circulation within the permeable reef, a Q15 current meter was suspended 20 m out from the patch reef in the middle of the water column. Light readings were taken each hour at mid depth into the cave using a quantum light meter attached to the sampling apparatus.Background nutrient concentrations at 2 m depth were determined during both field trips using a Niskin bottle deployed upstream of the patch reef.
 This study was initiated to:1. investigate the concentrations of nutrients, regenerated and released by microbial activity in cavities on the vertical face of a lagoonal patch reef at different spacial and time scales.2. determine if nutrient residence times are large enough to produce significantly elevated concentrations before being advected away by currents3. use this information to model the physical mechanisms for nutrient export from a patch reef
 The patch reef used for this study is described in:Duke NC and Strickler JR (1983) Mapping of facial cavities on a lagoonal patch reef. AIMS Data Report RS-83-2. Australian Institute of Marine Science. 32p.which is documented in the metadata record: Mapping facial cavities on a lagoonal patch reef on Davies Reef, Great Barrier Reef

Organization: Australian Ocean Data Network
Demersal Gillnet and Longline Fishery Sustainability

Sharks are taken off WA's south and west coasts in gillnet and longline fisheries, controlled by management which limits the length of net or number of hooks on the line. The majority of the sharks taken by these fisheries (about 75 pe cent) are of four species - gummy shark (Mustelus antarcticus), dusky whaler (Carcharhinus obscurus), sandbar, also called thickskin, shark (Carcharhinus plumbeus) and whiskery (Furgaleus macki).
Between 10 and 20 per cent of the overall retained catch are scalefish such as snapper, groper, WA dhufish, Samson fish and Australian salmon. Sharks, including sandbar, are increasingly being taken in the State's north coast shark fisheries.
Based on recent research findings, new management arrangements for the fisheries are being developed with industry to ensure that the higher risk shark and ray species involved (e.g. lemon and pig-eye sharks) are not overfished.
The project will:
* Develop detailed quantitative assessments of elasmobranch stocks in WA.
* Improve understanding of the biology of elasmobranch species in WA.
* Provide scientific advice for management of shark and scalefish stocks taken by WA demersal gillnet, demersal longline and northern shark fishers.
* Improve management of fisheries exploiting demersal finfish in southern Western Australia by the provision of data on the current status and sustainable yields of key species.

Time: Ongoing

Organization: Australian Ocean Data Network
The physical environment of Scott Reef, Western Australia (2003): Mooring S2 (D)

Six instruments were deployed on mooring S2 (D)Depth: 5m; Instrument: Odyssey; Serial #: 6545;Depth: 7.5m; Instrument: Odyssey; Serial #: 6546; Depth: 10m; Instrument: Odyssey; Serial #: 6547; Depth: 20m; Instrument: SBE39; Serial #: 759; File Name: S2i3tDepth: 35m; Instrument: RDI ADCP; Serial #: 1673; File Name: S2i2uvm Depth: 36m; Instrument: SBE39; Serial #: 676; File Name: S2i1t
 This deployment was a component of the "Physical Environment" sub-project of the project "Biological and Physical Environment at Scott Reef 2003"

Organization: Australian Ocean Data Network
Coastalwatch: Coastal Condition Monitoring System - Noosa

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
Recovery of algal communities from human disturbance

This data is from an experiment investigating the recovery of disturbed areas of Hormosira banskii. This experiment was done at 3 sites within Bunurong Marine Park from May 1990 to December 1991. Quadrats were disturbed by removing as much H.banksii as possible by hand and then scuffing the area to remove most remaining fronds. Variables measured in each quadrat were the percent cover of H.banksii and other non-turfing algae and the number of gastropods.

Tags: 54 100001, Biosphere | Aquatic Habitat | Benthic Habitat | rocky intertidal, Biosphere | Aquatic Habitat | Coastal Habitat, Biosphere | Vegetation | Macroalgae, Bunurong Marine Park, Hormosira banksii, Marine Protected Areas, Oceans | Marine Biology | Marine Invertebrates | gastropods, taxonomic_group_count
Organization: Australian Ocean Data Network
IMOS - Ocean Gliders - Slocum glider deployment in Western Australia off Pilbara (March - April 2013)

The dataset contains temperature, salinity and biological parameters like for example dissolved oxygen and turbidity data measured by a Slocum glider in the region off Pilbara (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
IMOS - Ocean Gliders - Slocum glider deployment in Western Australia off Two Rocks (August 2012)

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

Tags: CTD (Conductivity-Temperature-Depth Profilers), Coloured Dissolved Organic Matter (CDOM), Countries | Australia, Fluorometers, Glider, IMOS Node | Bluewater and Climate, Oceans | Ocean Chemistry | Chlorophyll, Oceans | Ocean Chemistry | Oxygen, Oceans | Ocean Chemistry | Suspended Solids, Oceans | Ocean Circulation | Ocean Currents, Oceans | Ocean Optics | Fluorescence, Oceans | Ocean Optics | Turbidity, Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Conductivity, Slocum Glider, States, Territories (Australia) | Western Australia, concentration_of_coloured_dissolved_organic_matter, fluorescence_in_sea_water, mass_concentration_of_oxygen_in_sea_water, sea_water_electrical_conductivity, sea_water_pressure, sea_water_salinity, sea_water_temperature, volumetric_backscatter_coefficient
Organization: Australian Ocean Data Network
IMOS - Autonomous Underwater Vehicles - SIRIUS CAMPAIGN: WESTERN AUSTRALIA, APRIL 2010

Temperate WA (Kendrick, Babcock, Smale): A cruise was undertaken in collaboration with the University of Western Australian and CSIRO to document benthic assemblages on temperate reefs off the coast of Western Australia in April, 2010. This cruise was the first in a 3 year series of IMOS Autonomous Underwater Vehicles (AUV) Facility cruises intended to establish a benthic habitat timeseries along the Eastern and Western coasts of Australia. The expectation is that these surveys will be repeated annually for at least the next two years. Surveys were conducted off Rottnest Island, Jurien Bay, and the Abrolhos Islands. Six sites were surveyed at each location spanning three depths (15 m, 25 m, 40 m), both inside and outside MPAs, with three 25 m x 25 m full photo coverage quadrants devoted to each site. Site locations targeted kelp beds and were provided by the science party. The locations of individual quadrants within each site were decided on‐site, based on bathymetric or depth sounder information. Additional scientific operations carried out during the cruise consisted of CTD casts, HOBO logger equipped moorings deployments, and SCUBA.

Tags: AUV | Autonomous Underwater Vehicle, CTD (Conductivity-Temperature-Depth Profilers), Cameras | Still Cameras - underwater, Coloured Dissolved Organic Matter (CDOM), Countries | Australia, Current Meters/Profilers | Acoustic Doppler Current Profiler (ADCP), Data Loggers, Digital Imaging (acquisition and/or analysis), Field Surveys | Underwater Surveys, Fluorometers, Marine Planning Regions (Australia) | South-east, Oceans | Bathymetry | Seafloor Topography, Oceans | Bathymetry | Water Depth, Oceans | Ocean Chemistry | Chlorophyll, Oceans | Ocean Chemistry | Organic Matter, Oceans | Ocean Chemistry | Oxygen, Oceans | Ocean Optics | Fluorescence, Oceans | Ocean Optics | Turbidity, Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Conductivity, SONAR, Seabed Vehicles, States, Territories (Australia) | Tasmania, Turbulence Sensors, altitude, concentration_of_coloured_dissolved_organic_matter, depth, heading, latitude, longitude, mass_concentration_of_chlorophyll_in_sea_water, optical_backscatter, platform_pitch_angle, platform_roll_angle, sea_water_salinity, sea_water_temperature
Organization: Australian Ocean Data Network
NERP TE Project 7.1 - Fire and rainforests, 2011-2014 (CSIRO)

Little is known about the impacts of fire on rainforest vegetation or  the animals which depend on it. This project will investigate the positive and negative impacts of fire on rainforest vegetation and wildlife.  In collaboration with NPRSR rangers, and where possible with local NGOs and Indigenous Rangers, we propose to establish vegetation and faunal monitoring sites across the rainforest/woodland boundaries and associated vegetation types in key areas of the Mission Beach, Tully lowlands and Hinchinbrook Channel areas to assess faunal and floral status and trends. This project will produce maps and assess the impact of fire in of areas of greatest concern, including littoral rainforest and coastal vine thickets and riparian forest. We will assess the impacts of Tropical Cyclone Yasi on mahogany glider habitat, levels of rainforest invasion, and impacts of fire on new vegetation.

Tags: National Environmental Research Program Tropical Ecosystems Hub, marine
Organization: Australian Ocean Data Network
Adaptive variation for reef resilience

Larval biophysical dispersal modelling was used to estimate levels of natural connectivity in warm-adapted northern corals and  investigate if barriers for larval dispersal exist between the warmer northern GBR and the cooler central and southern regions. These models were run using:
single larval release site

multiple reefs with similar biophysical parameters

Biophysical larval dispersal models were run in Connie2 using the Great Barrier Reef larval connectivity model at 1 m depth (version date range: 02/11/2008&ndash;30/03/2009).
Larval connectivity was modelled during peak spawning times (both days and month), with simulated larvae released from November 15 19:00 to November 15 20:50, 2008 over 25 replicate runs originating from Tijou Reef. Larval dispersal time was set at 96 days.
For multiple release sites, 10 reefs were selected that had similar biophysical characteristics using the eReefs Hydrodynamic models (for a total of 15 release sites). An additional site was selected at Wilkie Reef, along with three reefs identified as robust sources of larvae in the Far North (Hock 1, 2 &amp; 3).
See Quigley et al. (2019) for more details.

Organization: Australian Ocean Data Network
Herbert River near the Jetty Secchi disk Sampling 10 July 2002

The objective of the research reported in this thesis was to develop a technique to monitor the dynamics of sediments and nutrients entering the coastal ocean with river plumes associated with high intensity low frequency events (e.g. floods), using ocean colour remote sensing. The data collected included Secchi disk measurements.

Tags: Oceans | Ocean Optics | Secchi Depth, conductivity, depth, salinity, sea_water_electrical_conductivity, sea_water_salinity, sea_water_temperature, secchi disk depth, secchi_depth_of_sea_water, wind_speed
Organization: Australian Ocean Data Network
WAMSI 2 - Kimberley Node - Project 1.2.2 - Key biological indices required to understand and manage nesting sea turtles along the Kimberley coast

The main components of the project were:
1) to map the distribution of nesting beaches across the Kimberley in space and time; 
2) define nesting stocks of green and flatback turtles; 
3) develop understanding of their thermal biology and the implications of climate change; and 
4) ensure Indigenous involvement through engagement, employment, participation, planning and training. 
Data includes (TBC)

Turtle track counts (onground) Cape Domett flatback; Raw geo referenced counts
Turtle track counts (onground) Eighty Mile Beach; Raw geo-referenced
Turtle track counts (onground) Multiple locations; Raw geo-referenced
Aerial Survey – turtle track counts (Jan 2014); Unprocessed images
Aerial Survey – turtle track counts (Jan 2014); Turtle track locations
Aerial Survey – turtle track counts (Jul 2014); Unprocessed images
Aerial Survey – turtle track counts (Jul2014); Turtle track locations
Priority nesting beaches by species; Processed locations
Weather Data – Cape Domett; Raw 
Weather Data – Location 2 UWA (WAMSI) Eighty Mile Beach; Raw
Weather Data –3 Raw UWA (WAMSI)                 Short Term Deployments; Raw
Physiological datasets for flatback embryos
Genetic Samples for green, flatback and other marine turtles
DNA sequences (mitochondrial DNA for green turtles). Will be deposited on Genbank (http://www.ncbi.nlm.nih.gov/genbank
Genotypes for flatback and green turtles ; Single Nucleotide Polymorphisms (genotype – by–sequencing) will deposit on DRYAD digital repository (http://datadryad.org)
Genotypes of flatback and green turtles; Microsateliite DNA polymorphisms, will deposit on DRYAD digital repository (http://datadryad.org)


Tags: Biosphere | Ecological Dynamics | Survival, Oceans | Marine Biology | Marine Reptiles, Turtle track counts
Organization: Australian Ocean Data Network