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This document summarizes the Australian Fauna Directory (AFD), an online taxonomic catalogue of all valid species names for the Australian fauna. It includes over 118,000 species/subspecies names, with nearly 30,000 added and 37,000 updated since 2010. The AFD provides biological and ecological details where available. It is a cooperative effort between scientists and the Australian Biological Resources Study (ABRS), hosted on a government server for public access. Users can search by name or taxonomic group, view checklists and species information, and download data. The online editor allows authorized users to update taxonomic information.
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- EOL is developing a TraitBank to aggregate trait data from various datasets, totaling over 128,000 data points for over 20,000 taxa so far. It aims to make this data easily accessible and analyzable.
- Challenges include standardizing data from different sources and filling gaps, but aggregated trait data could help answer questions about topics like species interactions, tissue
Remsen celebration of discovery
The document discusses transforming 150 years of scientific observations from the Woods Hole Marine Region into an integrated data platform to enable new research. It summarizes that consolidating existing data, publications, specimens and field observations from 1825 to present into interoperable, semantic datasets will create a knowledge base to ask new questions. This platform will support identifying new model species, generating rich ecological profiles of species interactions, distributions and traits to refine ecological models and further surveys. The integrated data will benefit students, researchers, and the public through applications like identification keys, refined habitat modeling, and improved characterization of non-model species for multi-disciplinary research opportunities.
20140317 pi b_nmbe_journal_club
Lecture presented at the Journals Club of the Naturhistorisches Museum Bern, March 17, 2014.
"Towards an (European) Open Biodiversity Knowledge Management System"
Saarela 2014 afca poster arctic change 2014
Saarela JM, LJ Gillespie, PC Sokoloff. The Arctic Flora of Canada and Alaska project. Arctic Change 2014, 8–12 December 2014, Ottawa, ON, Canada. [poster]
Atlas of Living Australia
The Atlas of Living Australia (ALA) is a collaborative project funded by the Australian Government to create an online resource of biodiversity data. It launched in 2010 and has since accumulated over 29 million occurrence records and images. The ALA aims to provide an integrated view of Australia's biodiversity through tools to support identification, taxonomy, biosecurity, conservation and research. However, funding for the ALA is set to end in 2012/2013 and securing ongoing support is a challenge.
Grassbase: the data volume challenge
Grassbase is a botanical database that contains information on grass taxonomy. It has over 11,000 accepted grass species and 700 accepted genera. Some strengths are its coherent classification system and complete, up-to-date data. Some weaknesses are its divided user community, outdated software, and limited functionality for species identification. The database contains morphological and taxonomic data that has been compiled over many years through the work of various grass experts at Kew Gardens.
Scanning Locally, Collaborating Globaly: The Biodiversity Heritage Library.
Scanning Locally, Collaborating Globaly: The Biodiversity Heritage Library. Martin R. Kalfatovic. VALA 2014. Melbourne, Australia. 6 February 2014.
CESAB-ACTIAS-sfe2018
Dealing with heterogeneous data to improve our knowledge of biodiversity dynamics and ecosystem function: perspectives from synthesis projects: presented by Liliana Ballesteros-Meija for ACTIAS (Global patterns of insect diversity, distribution and evolutionary distinctness - What can we learn from two of the best-documented families of moths?) at the sfécologie conference 2018.
more information on the group: http://www.cesab.org/index.php/fr/projets-en-cours/projets-2014/130-actias
Global Names Architecture - Remsen
The document summarizes a meeting about the Global Names Architecture (GNA) in Paris, France. It discusses developing common standards and services to enable global discovery of taxonomic and nomenclatural resources. This includes creating a Global Names Index and registry to reconcile names across resources and promote sharing data in consistent, integrated ways. The Integrated Publishing Toolkit and Darwin Core Archives are proposed as part of the architecture to publish and share species checklists and metadata.
Currsci Sep25 2004
The document summarizes the development of an electronic catalogue (IndFauna) of known Indian fauna. It discusses the importance of developing electronic catalogues to consolidate information on biodiversity. IndFauna collates baseline information on over 93% of India's approximately 90,000 known faunal species. The catalogue demonstrates collaboration between domain experts and IT managers to overcome taxonomic challenges and enable sustainable management and conservation of biotic resources.
Tony Rees IRMNG 2015 presentation
2015 presentation on IRMNG, the Interim Register of Marine and Nonmarine Genera (Biodiversity Informatics project)
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This document summarizes key points from a presentation given at the Entomological Collections Network meeting about the Biodiversity Information Standards (TDWG) Conference 2013. The presentation discussed iDigBio's goals of building an accessible database of US specimen data and facilitating digitization. It provided an overview of TDWG topics like data quality, semantics, and standards. Researchers, collections managers, and others were encouraged to get involved in TDWG to help bridge the gap between research data and databases and avoid duplicating efforts.
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This document provides an overview of CONABIO and BIOTICA, Mexico's biodiversity databases. CONABIO was established in 1992 to coordinate and promote knowledge and use of Mexico's biodiversity. It is funded primarily through federal funds and external sources. CONABIO operates the National Biodiversity Information System (SNIB) which integrates databases, geographic information, images, and other data from over 5 million specimens. SNIB captures data from major Mexican and international collections. CONABIO also supports biological inventories and data capture through its BIOTICA software. While data becomes publicly available after 5 years, users can request specific databases from CONABIO.
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The US Fish & Wildlife Service document provides information about their Office of Law Enforcement (OLE) which includes Special Agents who investigate wildlife crimes and Wildlife Inspectors who monitor wildlife trade at ports of entry. Special Agents conduct undercover operations and make arrests. Wildlife Inspectors monitor over $1 billion in annual wildlife trade at airports, seaports and land crossings. The document also provides guidance on importing and exporting wildlife including required permits, using their website to submit declarations electronically, and contact information for the Wildlife Inspector offices.
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This document summarizes an analysis of insect-host plant data derived from museum collections. It describes the development of an algorithm to assess the quality and confidence in insect-plant associations by evaluating factors like number of collecting events, host specificity, and presence of larvae. The algorithm was applied to data on aphids, plant bugs, and leafhoppers and their hosts. It identified high confidence associations and reasons for low scores, like mislabeling. The analysis concluded the data demonstrated a significant degree of host specificity and the algorithm provided a method to evaluate data quality on a large scale.
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This document summarizes an international working group on whole drawer digitization of biological collections. It lists the members of the working group and their affiliated institutions. It then discusses various issues the group is interested in, such as extracting specimen label data, inventory management, and equipment configurations for whole drawer imaging. It provides examples of different whole drawer imaging systems used by various members. It also discusses related topics like bulk sample digitization and a separate working group on fluid-preserved specimens and microscope slides. The overall purpose is to advance the digitization of biological collections at scale.
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The Fossil Insect Collaborative will digitize the collections of major fossil insect institutions in the US, creating records of over 500,000 specimens. The project aims to make these collections accessible online to further research on insect responses to environmental change. It involves partnerships between 7 institutions and will last 4 years, creating a central online hub called iDigPaleo to aggregate specimen data and images. This will allow researchers to interact with the dataset and further paleontological and biodiversity research.
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The document discusses the deactivation of collections at the National Museum of Natural History due to declining staff and resources. It provides statistics on the museum's collections and notes that staffing levels have fallen below ideal and minimum levels. Specifically, it summarizes that over 200 transactions involving over 180,000 specimens from deactivated groups occurred from 2005 to 2013. Additionally, it warns of worst case scenarios such as rotating deactivations of entire orders annually if resources continue declining.
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The document summarizes the history and transition of the Frost Entomological Museum at Pennsylvania State University. It details the museum's origins in the 1850s, growth of the collection over time, and current renovations to expand and modernize the facility. The summary highlights the museum's diverse insect collection of over 2 million specimens, efforts to digitize records and make the collection accessible online, and ongoing research collaborations.
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This document discusses the process of accessioning insect collections when they become part of a museum. Accessioning involves documenting where, when, and how specimens were obtained, as well as obtaining legal agreements transferring ownership. Cataloging then quantifies the collection contents. Entomological collections present unique challenges due to their large size and scope. The pros of museum inclusion are increased advocacy and funding opportunities, while the cons include added bureaucracy. Early involvement in setting standards can help mesh collection needs with museum responsibilities and expectations.
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1) The document discusses the need for unique identifiers for biological specimens to properly link specimens to data while allowing for sharing of specimens and data between institutions.
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Austin ecn2013
- 1. Everything you wanted to know about the Australian fauna: the on-line Australian Fauna Directory Andy Austin Australian Centre for Evolutionary Biology & Biodiversity The University of Adelaide Alice Wells and Christy Geromboux Australian Biological Resources Study Department of Sustainability, Environment, Water, Population & Communities, ACT
- 2. ABRS 2013 – Celebrating its 40th anniversary!
- 3. ABRS Printed Catalogues Zoological Catalogues of Australia
- 4. Australian Faunal Directory – History and Development • AFD was initiated in 2001 • Has grown slowly since then • Expanded by ABRS staff and short-term contracts with researchers to complete specific groups • In 2010 ABRS initiated a program to accelerated the AFD to bring it up to date • Funding support from the Atlas of Living Australia (ALA) • Oracle 11 database with two Java web applications (the editor and the public pages), and a web services layer
- 5. Total species/subspecies in AFD – last 3 years 140000 120000 80000 Currently 118,834 species/subspecies; 29,500 new species names added sine June 2010, and a further 37,000 updated : 35% increase 60000 40000 Sep… May… Jan… Sep… May… Sep… May… Jan… 0 Sep… 20000 Jan… Now more than 90%+ complete overall, and 98%+ for terrestrial invertebrates May… Number of species 100000
- 6. www.environment.gov.au/biodiversity/abrs/online-resources/fauna/afd/home 1. A taxonomic catalogue of all valid species names for the Australian fauna 2. Includes biological/ecological details for many groups 3. Co-operative effort by scientists and ABRS 4. Publicly accessible, free, maintained on an Australian Govt server 5. Online Editor for updating, controlled access 6. Allows for significant data analysis
- 10. The Checklist
- 12. Down-loads — Various forms Simple names list or complete catalogue CSV files (~Excel spreadsheet) Statistics Host-parasite or plant food lists Regional species lists (e.g. Lord Howe Is) Reference lists Potentially many more (Dist’n maps, images) BUT depends on what data are available
- 13. Generate statistics for any valid/accepted taxon
- 14. Generate host-parasite or food plant lists
- 16. The on-line editor Functions by: • ABRS assignment of section (taxon) to compiler • Compiler able to work anywhere with internet access • Once finished, section assigned back to ABRS • Checked by ABRS • Copied to the AFD Public web app. (replaces earlier section) • History of changes and compilers are stored in database
- 17. The Described Terrestrial Arthropod Fauna Myriapoda (700 spp.) (70 spp.) Onychophora Hexapoda (67,400 spp.) Arachnida (7,400 spp.)
- 18. The Described Hexapod Fauna Minor orders 1,050 spp. Blattodea 1,500 spp. Orthoptera Thysanoptera Hymenoptera 11,660 spp. Lepidoptera 10,800 spp. Diptera 8,500 spp. Trichoptera Hemiptera 5,700 spp.. 870 spp. Neuroptera 560 spp. Coleoptera 23,800 spp.
- 19. Total valid species for 5 major insect groups and mites in Australia 25000 20000 Total valid names Coleoptera 15000 Lepidoptera 10000 Hymenoptera 5000 Diptera Hemiptera Acari 0 1750 1800 1850 1900 Year 1950 2000
- 20. Applications of the AFD? First complete catalogue of a country/continental fauna • Primary data for taxonomic research – history, literature, type depositories, etc • Checking valid names (spelling) for Govt agencies (agriculture), biodiversity studies, journal editors, etc • Biosecurity issues • Distributional data for ecological research, conservation, etc
- 21. The future of AFD? • Depends on systematics community support for data entry • Perceived value to potential users including branches of Government • Input of $$$$ from Government, possibly from users?
- 22. Acknowledgements • ABRS staff Pam Beesley, Brigitte Kuchlmayr • AFD contributors/compilers/referees • ANBG/ABRS IT team • Australian Government • ALA for recent funding