Data

Representative species sets for vascular plants generated for the Biodiversity Indicator Program, first assessment: expected survival and state of all known species - supplementary data package

Commonwealth Scientific and Industrial Research Organisation
Nipperess, David ; Faith, Daniel ; Williams, Kristen ; King, Darran ; Manion, Glenn ; Ware, Chris ; Schmidt, Becky ; Love, Jamie ; Drielsma, Michael ; Allen, Stuart ; Gallagher, Rachel
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ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=info:doi10.25919/5e6618be700ca&rft.title=Representative species sets for vascular plants generated for the Biodiversity Indicator Program, first assessment: expected survival and state of all known species - supplementary data package&rft.identifier=10.25919/5e6618be700ca&rft.publisher=Commonwealth Scientific and Industrial Research Organisation (CSIRO)&rft.description=This collection contains the data, processes and descriptions of workflows required to produce the representative species sets for vascular plants used in the NSW Biodiversity Indicator Program first assessment. The labels given to the datasets in this collection are defined in the workflow diagram and data links spreadsheet. This is a supplementary dataset that was used as an input to the three derived indicators for vascular plants: 1.2a expected survival of all known species 2.1a within-species genetic diversity (for all known species) 2.1b extant area occupied (for all known species). Details are given in the explanatory notes attached with this package and the method implementation report (Nipperess DA, Faith DP, Williams KJ, King D, Manion G, Ware C, Schmidt R, Love J, Drielsma M, Allen S & Ware C 2019, Expected survival and state of all known species: Data packages for the Biodiversity Indicator Program, first assessment.) accessed through the NSW Biodiversity Indicator Program website (see related links).Biological data used in this collection are a list of vascular plant species for NSW, generated from all NSW occurrence records (kingdom Plantae) downloaded from the Atlas of Living Australia (https://www.ala.org.au). Taxa were excluded from this list if they were not from a major subclass of vascular plants (Cycadidae, Pinidae, Magnoliidae, or a fern subclass); not a species-level or subspecific taxon; not listed as a valid name in both the Australian Plant Census (https://biodiversity.org.au/nsl/services/APC) and NSW PlantNet (http://plantnet.rbgsyd.nsw.gov.au/); or not listed as native in either the Australian Plant Census or NSW PlantNet. Data cleaning reduced the original list of 16,501 unique names to 5,528 species. All available occurrence records for this set of 5,528 species of vascular plants were downloaded from the Atlas of Living Australia. Records were then removed if they were not a preserved specimen; if spatial (latitude / longitude) or temporal (year of collection) data were incomplete; if they were a cultivated specimen; if they occurred more than 5 km outside the coastline of Australia; if they were collected prior to 1950; or their coordinate uncertainty (if known) was greater than or equal to 3000 meters. Cleaning reduced the initial dataset of 7,802,849 records for 5,528 species to 1,243,554 records for 5,506 species. These included occurrences anywhere in Australia, of which 4,859 species were represented by at least one occurrence within NSW (including ACT and commonwealth properties). A project-specific unique ID was assigned to each species to enable traceability in subsequent analyses. For other datasets within this repository, the process of how they were derived is described in the method implementation report. An existing GDM for vascular plants was used to represent the diversity of ecological environments occupied by vascular plants in New South Wales. This model is based on vascular plant survey data from across south-eastern continental Australia (‘NARCliM Domain’) and used 25 environmental predictors (19 climate, 6 substrate). Representative sets of species to be selected were developed using the .NET Survey Gap Analysis Tool. Diagnostic measures of environmental representation and range size were used to select an optimal number of demand points (1149) which were equated with the names of the species selected as representative. These species were then used as an input to the three derived indicators for vascular plants: 1.2a expected survival of all known species 2.1a within-species genetic diversity (for all known species) 2.1b extant area occupied (for all known species). Details are given in the explanatory notes attached with this package&rft.creator=Nipperess, David &rft.creator=Faith, Daniel &rft.creator=Williams, Kristen &rft.creator=King, Darran &rft.creator=Manion, Glenn &rft.creator=Ware, Chris &rft.creator=Schmidt, Becky &rft.creator=Love, Jamie &rft.creator=Drielsma, Michael &rft.creator=Allen, Stuart &rft.creator=Gallagher, Rachel &rft.date=2020&rft.edition=v10&rft.coverage=northlimit=-28.15; southlimit=-37.5; westlimit=141.0; eastLimit=153.62; projection=WGS84&rft_rights=All Rights (including copyright) CSIRO, Office of Environment and Heritage, New South Wales, Macquarie University 2020.&rft_rights=Creative Commons Attribution https://creativecommons.org/licenses/by/4.0/&rft_subject=Biodiversity Outlook Report&rft_subject=Biodiversity Indicator Program&rft_subject=BIP&rft_subject=Expected survival&rft_subject=Expected Diversity&rft_subject=biodiversity indicator&rft_subject=Biodiversity Conservation Act 2016&rft_subject=baseline&rft_subject=biodiversity assessment&rft_subject=threatened species&rft_subject=plants&rft_subject=vascular plants&rft_subject=New South Wales&rft_subject=Genetic Diversity&rft_subject=Representative species&rft_subject=Generalised Dissimilarity Modelling&rft_subject=Demand Points&rft_subject=Survey Gap Analysis&rft_subject=ecological environments&rft_subject=Plant Systematics and Taxonomy&rft_subject=BIOLOGICAL SCIENCES&rft_subject=EVOLUTIONARY BIOLOGY&rft_subject=Environmental Monitoring&rft_subject=ENVIRONMENTAL SCIENCES&rft_subject=ENVIRONMENTAL SCIENCE AND MANAGEMENT&rft_subject=Conservation and Biodiversity&rft.type=dataset&rft.language=English Access the data
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All Rights (including copyright) CSIRO, Office of Environment and Heritage, New South Wales, Macquarie University 2020.

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Brief description

This collection contains the data, processes and descriptions of workflows required to produce the representative species sets for vascular plants used in the NSW Biodiversity Indicator Program first assessment. The labels given to the datasets in this collection are defined in the workflow diagram and data links spreadsheet. This is a supplementary dataset that was used as an input to the three derived indicators for vascular plants:
1.2a expected survival of all known species
2.1a within-species genetic diversity (for all known species)
2.1b extant area occupied (for all known species).
Details are given in the explanatory notes attached with this package and the method implementation report (Nipperess DA, Faith DP, Williams KJ, King D, Manion G, Ware C, Schmidt R, Love J, Drielsma M, Allen S & Ware C 2019, Expected survival and state of all known species: Data packages for the Biodiversity Indicator Program, first assessment.) accessed through the NSW Biodiversity Indicator Program website (see related links).

Lineage

Biological data used in this collection are a list of vascular plant species for NSW, generated from all NSW occurrence records (kingdom Plantae) downloaded from the Atlas of Living Australia (https://www.ala.org.au). Taxa were excluded from this list if they were not from a major subclass of vascular plants (Cycadidae, Pinidae, Magnoliidae, or a fern subclass); not a species-level or subspecific taxon; not listed as a valid name in both the Australian Plant Census (https://biodiversity.org.au/nsl/services/APC) and NSW PlantNet (http://plantnet.rbgsyd.nsw.gov.au/); or not listed as native in either the Australian Plant Census or NSW PlantNet. Data cleaning reduced the original list of 16,501 unique names to 5,528 species. All available occurrence records for this set of 5,528 species of vascular plants were downloaded from the Atlas of Living Australia. Records were then removed if they were not a preserved specimen; if spatial (latitude / longitude) or temporal (year of collection) data were incomplete; if they were a cultivated specimen; if they occurred more than 5 km outside the coastline of Australia; if they were collected prior to 1950; or their coordinate uncertainty (if known) was greater than or equal to 3000 meters. Cleaning reduced the initial dataset of 7,802,849 records for 5,528 species to 1,243,554 records for 5,506 species. These included occurrences anywhere in Australia, of which 4,859 species were represented by at least one occurrence within NSW (including ACT and commonwealth properties). A project-specific unique ID was assigned to each species to enable traceability in subsequent analyses. For other datasets within this repository, the process of how they were derived is described in the method implementation report. An existing GDM for vascular plants was used to represent the diversity of ecological environments occupied by vascular plants in New South Wales. This model is based on vascular plant survey data from across south-eastern continental Australia (‘NARCliM Domain’) and used 25 environmental predictors (19 climate, 6 substrate).
Representative sets of species to be selected were developed using the .NET Survey Gap Analysis Tool. Diagnostic measures of environmental representation and range size were used to select an optimal number of demand points (1149) which were equated with the names of the species selected as representative. These species were then used as an input to the three derived indicators for vascular plants:
1.2a expected survival of all known species
2.1a within-species genetic diversity (for all known species)
2.1b extant area occupied (for all known species).
Details are given in the explanatory notes attached with this package

Data time period: 1950-01-01 to 2017-01-01

This dataset is part of a larger collection

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Subjects
Biological Sciences | BIP | Biodiversity Conservation Act 2016 | Biodiversity Indicator Program | Biodiversity Outlook Report | Conservation and Biodiversity | Demand Points | Environmental Science and Management | Environmental Sciences | Evolutionary Biology | Environmental Monitoring | Expected Diversity | Expected survival | Generalised Dissimilarity Modelling | Genetic Diversity | New South Wales | Plant Systematics and Taxonomy | Representative species | Survey Gap Analysis | baseline | biodiversity assessment | biodiversity indicator | ecological environments | plants | threatened species | vascular plants |

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