AndreaBozzo/ceres-open-data-index huggingface dataset:
Future ocean conditions induce necrosis, microbial dysbiosis and nutrient cycling imbalance in the reef sponge Stylissa flabelliformis

The health of the sponge Stylissa flabelliformis under ocean warming and ocean accidification conditions was assessed using a combination of meagenomics and targeted genomics. The study aimed to assess:
to what extent changes in the sponge health upon exposure to both stressors are reflected in the microbial compositions of S. flabelliformis

how ocean warming and ocean acidification affect the ocerall microbial functional repertoire

if specific functional sugnatures originating from the microbial communities could explain potential effects on the sponge holobiont.

Sponges were collected on Davies Reef on the Great Barrier Reef in 2014, between June and September.

Organization: Australian Ocean Data Network
Bicheno region urchin barrens from AUV imagery

This data set consists of a scored time-series of Autonomous Underwater Vehicle (AUV) images from the Bicheno region on the east coast of Tasmania. Surveys were conducted between 2011 and 2016 within the Governor Island Marine Reserve and nearby sites outside the reserve. Governor Island was surveyed in 2011, 2013, 2014 and 2016. The outside sites of Trap Reef, Cape Lodi and Butlers Point were surveyed in 2011, 2013 and 2016. Imagery across all surveys was scored for the presence of Centrostephanus rodgersii urchin barrens across rocky reef at each site. Prior to analysis the data was subsetted to every fifth image to avoid overlapping images. The data set also contains depth information for each image and a measure of rugosity (Vector Rugosity Measure) computed in ArcGIS software from a one metre resolution bathymetric map covering the survey sites. Analysis was conducted to examine the trend in the presence of barrens through time and to compare the occurrence of barrens inside the Governor Island Marine Reserve with sites outside the reserve. A spatio-temporal model incorporating both spatial and temporal correlation in the time-series of data was used. This data set contains the scored data used in the analysis.
Further details of the methods used and results are contained in the following article. Please cite any use of the data or code by citing this article:
Perkins NR, Hosack GR, Foster SD, Monk J, Barrett NS (2020) Monitoring the resilience of a no-take marine reserve to a range extending species using benthic imagery. PLOS ONE 15(8): e0237257. https://doi.org/10.1371/journal.pone.0237257

Tags: Centrostephanus rodgersii, Depth, Marine protected area status, Temperate Reef, Vector rugosity measure, autonomous underwater vehicle, benthic imagery, climate change, ecosystem resilience, marine protected areas, marine reserves
Organization: Australian Ocean Data Network
Manly Hydraulics Laboratory - Real Time Data: 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. 
MHL measures the latest wave height, ocean tides, sea surface temperature, water level, rainfall and barometric pressure off the coast and within NSW. 
Please note that 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
Effects of sewage effluent on 'reference' infaunal assemblages.

This experiment tested the effects of secondary treated sewage effluent on infauna assemblages that were collected 2km from a sewage outfall ('reference' assemblage). Twelve intact sediment cores were collected from this site on the Western Treatment Plant foreshore (Port Phillip Bay, Victoria) and brought back to the laboratory. Four cores were assigned to each of three treatments, which were low dose (3.5mls effluent per minute), high dose (7mls effluent per minute) or no dose of effluent. The experiment ran for 14 days in October 1997. 
Throughout the experimental period, dissolved oxygen levels were measured and animals that migrated from the sediment were collected, counted and identified. At the end of the experiment, sediment chlorophyll levels were measured and infauna remaining in the sediment were counted and identified.

Tags: 22 002000, 22 096000, 24 486001, 28 546000, 28 551000, Biosphere | Aquatic Habitat | Benthic Habitat | soft sediment | mudflat, Biosphere | Ecological Dynamics | Migratory Rates/routes | vertical migration, Biosphere | Ecological Dynamics | Oxygen Demand | hypoxia, Biosphere | Ecological Dynamics | Survival, Biosphere | Zoology | Invertebrates, Capitellidae, Corophiidae, Gammaropsis sp., Oceans | Marine Biology | Marine Invertebrates | infauna, Port Phillip Bay, Salinator fragilis, Spionidae, Western Treatment Plant
Organization: Australian Ocean Data Network
Megabenthos, fish, shark and ray surveys on the Ningaloo shelf

A total of 18 BRUVS sets were made at Mandu, Point Cloates and Mauds Landing in depths ranging from 66-96 metres. Most of the sets were made where the habitats in the immediate field of view were flat sediments, with or without visible bioturbation for the activities of small burrowing animals. Three of the six sets made off Point Cloates had significant cover of benthic sponges, fan and whip gorgonians, and other biotic or abiotic structures. Only two of the nine sets made offshore from Mauds Landing had such cover, and it was much sparser in the field of view of the cameras. All sets at Mandu were in flat, sandy habitats. All the BRUVS sets deeper than 80m provided very gloomy, grainy footage that could be interrogated only by adjusting the brightness and colour balance of the screen on the tape player. At this time of year, and in these coastal waters, these depths are at the lower limit of penetration of daylight. Beyond them artificial lighting must be employed to obtain useful footage. There were 409 individuals from 52 taxa in 25 fish and elasmobranch families recorded on the 18 BRUVS sets (Table 2). Most taxa were identified to species level, with the notable exception of the very small juveniles of threadfin breams (Nemipterus sp), and the small (&lt;60cm total length) sharpnose or sliteye sharks (R. taylori or L. macrorhinos). Published diagnostic features for these species could not be resolved on the footage. The diversity and abundance of fish differed greatly amongst the coarse habitat types recognised on the BRUVS footage (Table 3). The sets in megabenthos had more than twice as many species and individuals as the sandy habitats, even though fewer sets occurred in such habitat types. There appeared to be a trend in increasing diversity and abundance in habitats with increasing grain size for the sets off Point Cloates, but not for the sets off Maud?s Landing. The increase in species diversity and fish abundance apparent in Table 3 may reflect the larger number of sites visited at Mauds Landing. The measures of the various depths, the habitat classes, and the fish species abundance were analysed from multiple BRUVS sites, or sets. Multivariate analyses are required to examine the multidimensional relationships among the sites, the environmental variables and fish species. These analyses allowed us to describe the major groupings in the BRUVS data, measure the strength of fish-habitat associations, and identify indicator species defining these patterns.

Organization: Australian Ocean Data Network
Effects of periodic trampling on the abundance of mobile animals within Hormosira banksii dominated rocky intertidal communities

This study assesses the effects of  trampling on Hormosira banksii dominated rocky intertidal algal beds within Point Nepean National Park over six summers between 1991 and 1996. This dataset gives the number of mobile animals (N per m2) within beds of Hormosira banksii after exposure to four levels of  experimental trampling for 3 and 5 years.  Sites were located at Cheviot Beach (Harry's pool, Cheviot Mid) or at Grenade Range, ~ 1 km apart.  The number of mobile animals were sampled in the Autumn of 1993 and 1995, after 3 and 5 years of summer trampling,  respectively. Trampling increased the abundance of a number of herbivorous molluscs, particularly limpet abundance. The effect of trampling on the abundance of mollusks may be indirect as changes in the abundance of mollusks occurred only after changes in the cover of Hormosira.

Tags: 24 002002, 24 010020, 24 045004, 24 046007, 24 095010, 24 488002, 54 100001, Austrocochlea constricta, Bembicium nanum, Biosphere | Aquatic Habitat | Benthic Habitat, Biosphere | Ecological Dynamics | Adaptation, Biosphere | Vegetation | Macroalgae, Biosphere | Zoology | Mollusks, Hormosira banksii, Human Dimensions | Environmental Impacts | Civil Disturbance, Mornington Peninsula, Victoria, Oceans | Marine Biology | Marine Invertebrates, Oceans | Marine Biology | Marine Plants, Patelloida alticostata, Patelloida latistrigata, Point Nepean National Park, Siphonaria zelandica, Turbo undulata, coverage, experimental_method, periodic, taxonomic_group_count
Organization: Australian Ocean Data Network
Checklist of corals from the Daintree Reefs, Great Barrier Reef

Scleractinian corals were recorded from the fringing reefs offshore from the Daintree National Park during a three day study in November 1985. The field study was supplemented by examination of coral specimens collected by other researchers from these reefs. The checklist produced also includes an assessment of the abundance of each coral species.
 The aim of this study was to produce an inventory of the scleractinian corals on reefs in the Daintree region of north Queensland.

Organization: Australian Ocean Data Network
WAMSI Kimberley and Pilbara hyper-spectral, tri-spectral and aerial photo data - September 2008 - Summary

On the 18th, 19th, 21st, 22nd, 23rd and 25th of September 2008, Jorg Hacker flew parts of the Kimberley (Montgomery Reef, Packer Island, Perpendicular Head, North Head, Gourdon Bay, Coulomb Point and Quondong Point) and Pilbara (Regnard Bay) for a WAMSI project.  Data was collected with a hyper-spectral scanner (AISA+ Airborne Hyperspectral System from Specim - Spectral Imaging Ltd.), a tri-spectral scanner (TSLS/TSS - built locally by ARA) and a digital camera (Canon EOS 1Ds). 
Detailed flight lines and information are included in the .kmz files attached to child metadata records.

Tags: Cameras | Aerial Cameras, Hyper-Spectral Scanner, Radiance Or Imagery | Visible Wavelengths | Visible Flux
Organization: Australian Ocean Data Network
*Draft*Movement behaviours and habitat usage of West Kimberley dugongs: A community based approach

Project 0809/14: Movement behaviours and habitat usage of West Kimberley dugongs: A community based approach
Four dugong tagged in Beagle Bay 16-19 July 2009 Western Australia.  Results showed a high degree of 
fidelity to Beagle Bay, but one dugong travelled 500 km south.
Dugong in the West Kimberley were tagged for this study in two locations on the Dampier Peninsula. These animals showed a variety of foraging behaviours and movement patterns, in some ways similar to other populations of dugong studied throughout Australia. Dugong were observed to move over large distances (100s of kms) but also to exhibit a high level of foraging site fidelity. Foraging ranges were similar in size to other areas around Australia but appeared to be smaller within the Beagle Bay area than for other places along the Dampier Peninsula. Dugong in this area appear to travel along the sea bottom by preference and combine periods of foraging in restricted areas in between periods of migration/movement. Dugong utilised shallow water habitats (&lt; 5metres) throughout the study area, but were observed to dive to maximum depths of approximately 20 metres. The tide and diel periods exerted a strong influence on the micro-scale patterns of habitat use, with use of the inter-tidal seagrass habitats only occurring at high waters periods during the night. These micro-scale patterns of habitat use may be influenced by avoidance of daytime predators, including traditional indigenous hunters. There was no systematic migration of animals from one area to another, however this may be due to the limited period of the deployments throughout the seasons. This study identified important foraging habitat within embayments but also along the open coastal margin of the Dampier Peninsula, suggesting that these habitats are important conservation areas for dugong. Further research to better understand the patterns of habitat use, the distribution of foraging effort and the patterns of seagrass distribution are needed to help design effective conservation programmes in this area. Studies designed to determine the seasonal migration patterns of this metapopulation of dugong are also important to understanding the links between populations of dugong throughout the north-west of WA. These data will also contribute to the development of community-led management plans for the sustainable use of dugong and the development of future research programmes to address knowledge gaps to achieve sustainable hunting outcomes. These data area also valuable in contributing to the knowledge and understanding of the likely impacts of large-scale industrial developments throughout areas identified as foraging locations for dugong in the West Kimberley.

Organization: Australian Ocean Data Network
Shifts in coralline algae, macroalgae, and coral juveniles in the Great Barrier Reef due to present-day ocean acidification

The data presented here were used in the manuscript:
&quot;Shifts in coralline algae, macroalgae, and coral juveniles in the Great Barrier Reef due to present-day ocean acidification&quot;
The objective of this study was to understand the impacts of present-day ocean acidification on key benthic groups (macroalgae, coralline algae, and coral juveniles) using data from independent large-scale monitoring programs and ecosystem modelling.
The data include ecological information on key benthic groups (macroalgae, coralline algae, coral juveniles) combined with eReefs (CSIRO) modelled data on carbonate chemistry (aragonite saturation state), water quality (suspended fine sediment), and other environmental parameters (temperature, benthic light, and chlorophyll a). Ecological datasets are from AIMS&#39; monitoring programs the Long-Term Monitoring Program (LTMP) and the Marine Monitoring Program (MMP). The two ecological datasets were combined to cover across the continental shelf of the Great Barrier Reef and are this combined dataset is referred to as the LTMMP dataset. An additional ecological dataset is also included, the Rapid Ecological Assessment (REA) dataset. The environmental drivers are modelled data from CSIRO&#39;s publically available eReefs biogeochemical 2.0 models.

Organization: Australian Ocean Data Network
IMOS - Satellite Remote Sensing - MODIS - 01 day - Picoplankton fraction (OC3 model and Brewin et al 2010 algorithm)

The Aqua satellite platform carries a MODIS sensor that observes sunlight reflected from within the ocean surface layer at multiple wavelengths. These multi-spectral measurements are used to infer the concentration of chlorophyll-a (Chl-a), most typically due to phytoplankton, present in the water. An empirical relationship is then used to compute an estimate of the relative abundance of three phytoplankton size classes (micro, nano and picoplankton). 
The methods used to decompose chl_oc3 are described by Brewin et al in two papers in 2010 and 2012. The two methods, denoted Brewin2010at and Brewin2012in, used calibration data from the Atlantic and Indian Oceans respectively.  Users should note that these are unvalidated experimental products and they should familiarise themselves with the underlying algorithms and methodologies described in the published literature before making use of them.
The data are produced from the same data stream as the MODIS Chla_oci data set (https://catalogue-imos.aodn.org.au:443/geonetwork/srv/api/records/d7a14921-8f3f-4522-9a54-e7d1df969c8a). 
Data are provided as two files per day, one with the percentage of nanoplankton, and one for picoplankton. The percentage of microplankton is computed as the balance to 100%, that is %micro = 100 - %nano - %pico.
This collection was removed from the AODN Portal in March 2023, please refer to the Brewin 2012 collection which supersedes this one - https://catalogue-imos.aodn.org.au:443/geonetwork/srv/api/records/bc428d0b-eff7-41b9-8d4c-10e666ee1312

Tags: Countries | Australia, Countries | Fiji, Countries | Indonesia, Countries | Malaysia, Countries | New Caledonia, Countries | New Zealand, Countries | Papua New Guinea, Countries | Philippines, Countries | Singapore, Countries | Thailand, Countries | Timor-Leste, Countries | Vanuatu, Countries | Vietnam, Global / Oceans | Indian Ocean, Global / Oceans | Pacific Ocean, Global / Oceans | Southern Ocean, Marine Features (Australia) | Bass Strait, TAS/VIC, Marine Features (Australia) | Great Australian Bight, SA/WA, Marine Features | Strait of Malacca, Oceans | Ocean Chemistry | Chlorophyll, Oceans | Ocean Optics | Ocean Color, Regional Seas | Andaman Sea, Regional Seas | Arafura Sea, Regional Seas | Banda Sea, Regional Seas | Celebes Sea, Regional Seas | Coral Sea, Regional Seas | Gulf of Thailand, Regional Seas | Java Sea, Regional Seas | Philippine Sea, Regional Seas | Solomon Sea, Regional Seas | South China Sea, Regional Seas | Tasman Sea, Regional Seas | Timor Sea, States, Territories (Australia) | New South Wales, States, Territories (Australia) | Northern Territory, States, Territories (Australia) | Queensland, States, Territories (Australia) | South Australia, States, Territories (Australia) | Tasmania, States, Territories (Australia) | Victoria, States, Territories (Australia) | Western Australia
Organization: Australian Ocean Data Network
Fast Repetition Rate Fluorometry (FRRF) data collected on the RV L'Astrolabe from 22/10/2006 to 25/10/2006 (Hobart - Dumont d'Urville)

These data were collected on the RV L'Astrolabe (platform code: FHZI) from 22/10/2006 to 25/10/2006 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
Herbert River near the Jetty Secchi disk Sampling 21 February 2003

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, depth, secchi disk depth, secchi_depth_of_sea_water
Organization: Australian Ocean Data Network
OSU Buoy Group: NW African Shelf

Data from moorings that were in place for at least 6 months in deep water and include meteorological data, pressure records and temperature records gathered by the Oregon State University (OSU) Buoy Group over a span of more than 35 years. In addition, included are a number of electronic (i.e., browser-formatted) data reports.
This link relates specifically to the Atlantic Ocean: NW Africian Shelf.
Other links available on this site will take you to the collection of data reports, an historical retrospective of the Buoy Group and instructions on how to download the data for the following:
* Pacific Ocean data
* Indian Ocean data
* Southern Ocean data 
* Electronic data reports
* History of the Group
* How to use this disk


Tags: ATLANTIC OCEAN, Buoy world ocean, Deep water mooring, Oceans | Bathymetry | Water Depth, Oceans | Ocean Pressure | Sea Level Pressure, Oceans | Ocean Pressure | Water Pressure, Oceans | Ocean Temperature | Sea Surface Temperature, Oceans | Ocean Temperature | Water Temperature, Oceans | Salinity/density | Conductivity, Oceans | Salinity/density | Salinity, beam_attenuation_coefficient, direction_of_sea_water_velocity, sea_water_electrical_conductivity, sea_water_pressure, sea_water_speed, sea_water_temperature, sea_water_u_velocity, sea_water_v_velocity
Organization: Australian Ocean Data Network