AndreaBozzo/ceres-open-data-index huggingface dataset:
Chlamydia pecorum Strain Diversity and Koala Immune Response Data

These datasets are associated with the NSW Koala Research Plan project 2019_10: Impacts and drivers of chlamydial disease in the koala – relationships between the host, pathogen and environment. They comprise urogenital and ocular swab samples collected from koalas in the Liverpool Plains, Southern Highlands and Port Macquarie regions of New South Wales, together with associated clinical and health data.
The datasets include molecular characterisation of Chlamydia pecorum infections using genotyping of key virulence markers (incA, ORF663 and plasmid presence) and Multi‑Locus Sequence Typing (MLST) to assess strain diversity and emergence. In addition, immunological data are provided to investigate variation in koala immune responses in relation to chlamydial infection, co‑infection, and environmental stressors.
Further details on the datasets, analytical methods, and data access arrangements are available in the associated peer‑reviewed publications:
<ul>
<li>Fernandez et al. (2023). Genetic markers of Chlamydia pecorum virulence in ruminants support host–pathogen relationships in koalas. Infection, Genetics and Evolution, 116, 105527.</li>
<li>Fernandez et al. (2024). Novel typing scheme reveals emergence and genetic diversity of Chlamydia pecorum. Veterinary Microbiology, 293, 110085.</li>
<li>Kidd et al. (2024). Koala MHCII association with chlamydia infertility remains equivocal. Scientific Reports, 14, 31074.</li>
<li>Fernandez et al. (2024). A novel multivariate immunological approach reveals immune variation associated with environmental conditions and co‑infection in the koala (Phascolarctos cinereus). Scientific Reports, 14, 7260. https://doi.org/10.1038/s41598-024-07260-x</li>
</ul>

Tags: Chlamydia pecorum, Immune response, Koala, Strain diversity
Organization: The University of Sydney
Salinity Potential of Western Sydney

This map depicts the distribution and potential severity of dryland salinity based on biophysical factors that are known to cause dryland salinity. The mapping shows four classifications of salinity potential:;
1.Areas of Known Salinity ;
2.Areas of High Salinity Potential ;
3.Areas of Moderate Salinity Potential ;
4.Areas of Very Low Salinity Potential ;
The map and accompanying guidelines are an extension of (and incorporate) the previous work, Draft Salinity Hazard Map for Western Sydney. They cover the Wianamatta Shales geological group on the Cumberland Plain, which essentially covers the area of Western Sydney, north to Windsor and south to Campbelltown.

Tags: Land Degradation, Land Management, Salinity, Urban Planning, Urban Salinity
Organization: NSW Department of Climate Change, Energy, the Environment and Water
Fire Extent and Severity Mapping (FESM)

Fire severity is a metric of the loss of biomass caused by fire. In collaboration with the NSW Rural Fire Service, DCCEEW Remote Sensing &amp; Regulatory Mapping team has developed a semi-automated approach to mapping fire extent and severity through a machine learning framework based on sentinel 2 satellite imagery. The statewide severity map has standardised classes to allow comparison of different fires across the landscape. The FESM severity classes include: unburnt, low severity (burnt understory, unburnt canopy), moderate severity (partial canopy scorch), high severity (complete canopy scorch, partial canopy consumption), extreme (full canopy consumption).

Tags: Biodiversity Assessment, Burnt Area, Burnt Areas, Canopy, Environment, Fire Severity, Land Management and Biodiversity Conservation, Refugia, Rehabilitation, Wildfires
Organization: NSW Department of Climate Change, Energy, the Environment and Water
Fine-Scale Vegetation Mapping of the Coffs Harbour Local Government Area, 2012. VIS_ID 4189

This dataset represents fine-scale floristic vegetation mapping within the Coffs Harbour Local Government Area. Vegetation has been categorized into communities, classes and formations, with the composition of respective vegetation species identified. Mapping was conducted by vegetation mapping ‘experts’ (NSW Department of Environment and Heritage) between September 2009 and April 2012, and was based on 3-D PLANAR modelling, aerial photography interpretation, field floristic assessment, and PATN statistical analysis.

A nominal scale of use of 1:5,000 is recommended for dataset display and interpretation, as linework digitising was based on ADS40 (50cm resolution) and minimum polygon size of 0.2 ha, and was captured at screen scale of between 1:1000 and 1:1500.

The map is not to be used at a property level scale or for development applications where a scale of 1:1200 or greater may be required to determine the level variation of vegetation within a property.  Furthermore, DAs still need to undergo the rigour of planning laws in NSW including local assessment of impacts on flora and fauna.

Overall thematic accuracy is reported at 66% (independent assessment), with OEH reviewed overall accuracy being 77% weighted by total area of each vegetation class.

The dataset is to be considered a standalone layer.

VIS_ID 4189

Tags: vegetation map
Organization: NSW Department of Climate Change, Energy, the Environment and Water
Spatial Layer of Probable Vegetation Groundwater Dependent Ecosystems in NSW

The purpose of this project is to create a data set that identifies vegetation communities that have a probability of being a groundwater dependent ecosystem within NSW. Probability categories are high, medium, low and non GDE. The data is required to meet legislative requirements for water sharing plans and water resource plans. This is a base data layer that can be used to aid research projects, assessment of state significant development applications, licence applications and compliance issues. For ease of data modelling and management, the dataset was divided into the following catchment management areas; Border Rivers-Gwydir, Central Tablelands, Central West, Hawkesbury-Nepean, Hunter-Central Rivers, Lachlan, Lower Murray Darling, Murray-Murrumbidgee, Namoi, Northern Rivers, Southern Rivers, Sydney Metro and Western Division (Far West and Western MDBA). 

Please note: Groundwater Dependent Ecosystem mapping used the NSW DPE Environment and Heritage vegetation mapping product as the underlying data source. NSW DPE Water activities such as bore applications that are examined at a site specific scale may need subsequent verification to confirm.

Method report is available via the DoI Water website - https://water.dpie.nsw.gov.au/__data/assets/pdf_file/0010/151894/High-Probability-GDE-method-report.pdf

Tags: DCCEEW - Water, DCCEEW - Water Science, Groundwater, Groundwater Dependent Ecosystems, Remote Sensing, Vegetation
Organization: NSW Department of Climate Change, Energy, the Environment and Water
Bicycle count surveys

This dataset contains the results of the bicycle count survey in the City of Sydney. The City has conducted twice yearly intersection cycle counts at various sites in peak hours (6-9 am and 4-7 pm) on one day in March and October every year, since March 2010 (excluding March 2018). This data shows the total number of cyclists at the site during peak hours as well as individual survey hours.

Tags: Bicycle, City of Sydney, Yearly, transport and access
Organization: City of Sydney
FireTools Cloud Results - NPWS North Coast Branch

FireTools Cloud is a web-based GIS processing environment developed by the NSW Bushfire Risk Management Research Hub, a NSW focused research partnership between the NSW Department of Planning, Industry and Environment, the University of Wollongong, Western Sydney University, the University of NSW, the University of Tasmania, the University of Melbourne and the NSW Rural Fire Service. It is designed to replicate and replace the functionality of the FireTools II ArcGIS processing plugin to assist in fire management planning. Users upload a datapack containing the GIS files used to run a standard FireTools II analysis, configure the layers and fields that define the analysis, and submit the analysis for processing. After processing is complete, users can download a results pack containing GIS files with analysis results. Selected results are distributed for use as described below.

Results are true and correct only for the reserves within the NPWS North Coast Branch. Fire history outside the reserves is incomplete so results should not be relied upon.

Layers in this data package:
Heritage threshold status: Input vegetation classified into LongUnburnt, WithinThreshold, Vulnerable, TooFrequentlyBurnt, Unknown and NoFireRegime (raster and vector). This layer is used to monitor the status of vegetation across the study area with respect to its biodiversity-related impacts of fire.

Number of times burnt: The number of times any given point within the study area has been intersected by a burnt area polygon in the fire history (raster and vector)

Time Since Last Fire: The number of years since any given point within the study area has been intersected by a burnt area polygon in the fire history (raster and vector)

Time Since Last Fire SFAZ: The number of years since any given Strategic Fire Advantage Zone (SFAZ) within the study area has been intersected by a burnt area polygon in the fire history. This is then classified into 3 time slices whereby 0-6 years = Recently Treated, 7-10 years = Monitor OFH in the field and &gt;10 years = Priority for Assessment and Treatment. (raster and vector). This layer is used to find candidate burn blocks to assess for addition into a hazard reduction program of works.

Vegcode: A simple display layer showing the input vegetation groups over the study area. This is not a fully attributed vegetation layer – it is designed as a simple visual (raster only).

VegBase: This is a copy of the input veg used, showing just the VEG code, MIN, MAX. Can be used to analyse what is driving results in a given location.

Data is updated up to 4 times per year.

Tags: Fire Management, Fire Planning, bushfire
Organization: NSW Department of Climate Change, Energy, the Environment and Water
NSW BioNet Species Sightings Data Collection

The NSW BioNet Species Sightings data collection includes flora and fauna records maintained in the Species Sightings module of the NSW BioNet-Atlas application, at the Office of Environment and Heritage (OEH). This BioNet data collection consists of over 13 million observation records sourced from incidental sightings and systematic flora and fauna surveys. Observations include plants, mammals, birds, reptiles, amphibians, some fungi and invertebrates (such as insects and snails listed under the Threatened Species Conservation Act) and some fish. The BioNet Species Sightings data collection covers all areas of NSW and also includes some records from neighbouring states. BioNet includes records from agencies and organisations other than OEH, such as the Royal Botanic Gardens, Forests NSW, the Australian Museum and the Australian Bird and Bat Banding Scheme.

ACCESS: The Species Sightings data collection can be accessed via the BioNet application http://www.BioNet.nsw.gov.au/ or BioNet Species Sighting Web Service (an Open API) https://data.bionet.nsw.gov.au/

The BioNet-Atlas application comprises a number of data collections including: 1. Species sightings; 2. Systematic Flora and Fauna Survey; 3. Species Names List; and 4. Threatened Entity Profiles (i.e. Species/population/ecological community profiles). A BioNet-Atlas Species Search will return relevant records from both the sightings and survey modules. Each record contains details including species name, information about the source of the record, geographic coordinates, accuracy of the coordinates and date of the sighting.
BioNet Species Sighting data is made available in accordance with OEH's Sensitive Species Data Policy <a href="http://www.environment.nsw.gov.au/policiesandguidelines/SensitiveSpeciesPolicy.htm">http://www.environment.nsw.gov.au/policiesandguidelines/SensitiveSpeciesPolicy.htm</a>; for species categorised as "sensitive", location information may be generalised or withheld depending on the species' status under the policy, and on the access rights of the user.

Organization: NSW Department of Climate Change, Energy, the Environment and Water
Superb Parrot Sighting – BioNet

Superb Parrot (Polytelis swainsonii) species sightings in NSW.  Sightings are derived from the BioNet Species Sightings oData Web service, via an ETL process which generates geometries for use in the spatial web services listed below. Records are updated daily.

Supporting information: Superb Parrot - Threatened Species Profile https://www.environment.nsw.gov.au/threatenedspeciesapp/profile.aspx?id=10645

Organization: NSW Department of Climate Change, Energy, the Environment and Water
Water Modelling-Palaeo Stochastic Climate Data-Greater Sydney-Silo Station (xi of xi) ID 070101-070330

The palaeo stochastic climate data include 10,000 replicates of 130-yr daily data sets of rainfall and potential evapotranspiration generated using observed data sets without and with combined palaeo climate data. This work has been undertaken by researchers at the University of Newcastle and used in modelling for Greater Sydney Water Strategy.

This particular Asset (070101-070330) houses Silo Station IDs:
<ul>
<li>070105 - MOUNT FAIRY (MERIGAN)</li>
<li>070119 - BIG HILL (GLEN DUSK)</li>
<li>070124 - RICHLANDS (BOUVERIE)</li>
<li>070131 - WOODHOUSELEE (LEESTON)</li>
<li>070135 - MUMMELL (KANGAROOBIE)</li>
<li>070143 - BRAYTON (LONGREACH)</li>
<li>070144 - TARALGA (CIRCLE C)</li>
<li>070147 - GOULBURN (HILLWOOD)</li>
<li>070183 - WINDELLIMA (BUDJONG)</li>
<li>070261 - JERRABATTGULLA (GILSTON)</li>
<li>070263 - GOULBURN TAFE</li>
<li>070330 - GOULBURN AIRPORT</li>
</ul>



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

Tags: Climate Change perturbed, Climate Data, DCCEEW - Water, DCCEEW - Water Analytics, Observed Climate, Stochastic Climate, Water-Modelling, modelling
Organization: NSW Department of Climate Change, Energy, the Environment and Water
Identification of corridors of river recovery for NSW Northern Rivers catchments

By connecting corridors of river recovery, resilience can be built into river systems to mitigate against future floods and droughts driven by anthropogenic disturbance or climate extremes. This database can be used to systematically analyse where corridors of geomorphic river recovery could be created via conservation or rehabilitation. Analysis is undertaken in ArcGIS using the recovery potential layer of the Open Access NSW River Styles database that is available from DPIE (www.dpie.nsw.gov.au).  The River Styles database was accessed in January 2021. The database and associated workflow identifies reach and loci connections based on different combinations of recovery potential classes. Reach connections are defined as an upstream to downstream section of river that is connected end-to-end, and loci connections are defined as isolated sections of river from which recovery can be seeded and extended into adjacent reaches. This map for all freshwater stream length of the NSW Northern Rivers catchments, shows the spatial distribution of thirteen connections based on combinations and sequences of conservation, strategic and high recovery potential targets. Other connections of interest to river practitioners can be identified and &gt;80 different user-defined scenarios run using a workflow available at protocols.io.

Attribution to: Macquarie University, D Agnew and K Fryirs (2022) Corridors of river recovery database and workflow. Data accessed from The Sharing and Enabling Environmental Data Portal.

This work is funded by an Australian Research Council Linkage project based at Macquarie University with industry partners Landcare Australia and Hunter-Central Rivers Local Land Services. 

This work is published in two Open Access papers:
<ul>
<li>Agnew D, Fryirs K (2022) Identifying corridors of river recovery in coastal NSW Australia, for use in river management decision support and prioritisation systems. PLoS ONE 17(6): e0270285. https://doi.org/10.1371/journal.pone.0270285</li>
<li>Agnew D, Graves BP, Fryirs K (2022) A GIS workflow for the identification of corridors of geomorphic river recovery across landscapes. PLoS ONE 17(12): e0278831. https://doi.org/10.1371/journal.pone.0278831 </li>
</ul>

The workflow is available at: https://www.protocols.io/view/a-gis-workflow-for-the-identification-of-corridors-n2bvj8625gk5/v1

Tags: prioritisation, recovery potential, river condition, river rehabilitation
Organization: Macquarie University
Endangered ecological communities (EECs) of the Shoalhaven, Eurobodalla and Bega Valley local government areas. VIS ID 3901

This project collated EEC information from a series of EEC specific and broader vegetation mapping projects to produce a composite EEC map for the Shoalhaven, Eurobodalla and Bega Valley local government areas.

The spatial data is closely correlated with the Biometric vegetation map (refer to Appendix C1). However there may be some minor differences in extent based on the addition of EEC specific datasets which were not able to be correlated with a specific Biometric vegetation type. As such, both the Biometric and EEC layer should be used together as required. EEC is a category of threatened ecological Community (TEC). EECs in this map are listed under the NSW Threatened Species Conservation Act, 1995.

Version 2, with amendments based on field verification and external review. VIS_ID 3901

Tags: BV Map, NVR Map, TEC, Vegetation
Organization: NSW Department of Climate Change, Energy, the Environment and Water
Water Modelling-Palaeo Stochastic Climate Data-Greater Sydney-Silo Station (ii of xi) ID 063001-063070

The palaeo stochastic climate data include 10,000 replicates of 130-yr daily data sets of rainfall and potential evapotranspiration generated using observed data sets without and with combined palaeo climate data. This work has been undertaken by researchers at the University of Newcastle and used in modelling for Greater Sydney Water Strategy.

This particular Asset (063001-063070) houses Silo Station IDs:
<ul>
<li>063009 - BLACKHEATH (LAWRENCE ST)</li>
<li>063012 - RUNNING STREAM (BROOKLYN)</li>
<li>063013 - BERAMBING</li>
<li>063028 - FAULCONBRIDGE (ST GEORGES CRESCENT)</li>
<li>063030 - OBERON (GINGKIN)</li>
<li>063033 - GURNANG STATE FOREST (OBERON (YOUNG ADULT CORRECTIONAL CENTRE))</li>
<li>063036 - OBERON (JENOLAN CAVES)</li>
<li>063039 - KATOOMBA (MURRI ST)</li>
<li>063043 - KURRAJONG HEIGHTS (BELLS LINE OF ROAD)</li>
<li>063044 - LAWSON (WILSON STREET)</li>
<li>063049 - LOWTHER PARK</li>
<li>063062 - LITHGOW (NEWNES FOREST CENTRE)</li>
</ul>



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

Tags: Climate Change perturbed, Climate Data, DCCEEW - Water, DCCEEW - Water Analytics, Observed Climate, Stochastic Climate, Water-Modelling, modelling
Organization: NSW Department of Climate Change, Energy, the Environment and Water
Freshwater threatened species distribution maps

Freshwater threatened species distribution maps
The indicative (or known and expected) distributions for a number of NSW freshwater threatened species has been modelled and maps can accessed from links provided.

The indicative distribution means there is a high probability that the species will occur in a stream segment, given the species has been recorded there or the environmental conditions are the same as a stream segment where the species is already known to occur.

Modelled indicative distribution maps are currently not available for the other NSW freshwater threatened species that are not listed due to the limited number of records, or the limited number of correlated environmental attributes and/or limitations of the modelling to produce accurate and reliable mapping.

Distribution maps for those freshwater species not listed are provided in the Primefacts for individual threatened species at https://www.dpi.nsw.gov.au/fishing/species-protection/what-current

To help us improve the accuracy of the species distribution maps, please report any sightings of these species in NSW with photos to confirm their identification, using the online reporting form at  https://www.dpi.nsw.gov.au/fishing/species-protection/report-it

Limitations
Please note the following limitations related to the data, methods and techniques used to produce the above indicative distribution maps.

The data and records are not comprehensive. The information contained in the maps is based on the best available knowledge and understanding at the time of production. However, because of advances in knowledge, users are reminded of the need to ensure that information upon which they rely is up to date and to check currency of the information.

Recognising that some of the information in the maps are provided by third parties, the State of New South Wales the author and the publisher take no responsibility for the accuracy, currency, reliability and correctness of any information included in the document provided by thirds parties.

The indicative distribution maps are only available for the above listed freshwater threatened species and populations in NSW. Modelled indicative distribution maps are not currently available for the other listed freshwater threatened species in NSW due to the limited number of records, or the limited number of correlated environmental attributes and/or limitations of the modelling to produce accurate and reliable mapping.

The maps do not indicate entire species distributions, and there may be errors or omissions. The maps are limited to NSW; however species may have distributions that extend beyond State borders.

https://www.dpi.nsw.gov.au/fishing/species-protection/threatened-species-distributions-in-nsw/freshwater-threatened-species-distribution-maps

Tags: Ecology, FISHERIES, Freshwater, Habitat, Threatened species
Organization: Department of Primary Industries and Regional Development (DPIRD)