scholarly journals Three Portals, One Infrastructure: How to manage information with ALA tools

2019 ◽  
Vol 3 ◽  
Author(s):  
Fabien Cavière ◽  
Anne-Sophie Archambeau ◽  
Raoufou Radji ◽  
Christian Ahadji ◽  
Sophie Pamerlon
Keyword(s):  
Information Technologies ◽  
Its Region ◽  
Geographic Area ◽  
Transfer Of Knowledge ◽  
Global Biodiversity Information Facility ◽  
Support Programme ◽  
Management Procedure ◽  
The Creation ◽  
The University ◽  
Biodiversity Information

GBIF Togo, hosted at the University of Lomé, has published more than 62,200 occurrence records from 37 datasets and checklists. As a node participant of Global Biodiversity Information Facility (GBIF) since 2011, it has participated actively in several projects including the Biodiversity Information for Development (BID) programme. GBIF facilitates collaboration between nodes at different levels through its Capacity Enhancement Support Programme (CESP). One of the actions included in the CESP guidelines is called ‘Mentoring activities’. Its main goal is the transfer of knowledge between partners, such as information, technologies, experience, and best practices. Sharing architecture and development is the key solution to solving some the technical challenges and impediments (e.g. hosting, staff turnover, etc.) that GBIF nodes occasionally face. The Atlas of Living Australia (ALA) team have developed a feature called ‘data hub’, which allows the creation of a standalone website with a dedicated occurrence search engine that supports data discovery (e.g. specific genus, geographic area) published by particular GBIF nodes. In 2017, a CESP project between the GBIF Benin and the GBIF France led to the creation of a new portal: Atlas of Living Beninises. This portal shared the same back-end database as the Atlas of Living France portal, while at the same time, each portal displayed and managed information relevant only to its region. In 2018, another CESP project between GBIF France and GBIF Togo shared the same goal as the previous one: implement a new Atlas of Living Australia portal for Togo. This goal will be fulfilled using a similar implementation as the previous project: a shared back-end and different front-end. Togo will be the second African GBIF node to implement this kind of infrastructure. This poster will highlight the architecture specific to the Atlas of Living Togo, and present the management procedure that distinguishes data coming from the three different countries.

scholarly journals GBIF Benin's Data Portal

2018 ◽  
Vol 2 ◽  
pp. e25890
Author(s):  
Marie-Elise Lecoq ◽  
Anne-Sophie Archambeau ◽  
Fabien Cavière ◽  
Kourouma Koura ◽  
Sophie Pamerlon ◽  
...  
Keyword(s):  
Information Technologies ◽  
Geographic Area ◽  
Transfer Of Knowledge ◽  
Global Biodiversity Information Facility ◽  
Capacity Enhancement ◽  
Support Programme ◽  
Data Portal ◽  
The University ◽  
Different Levels ◽  
Biodiversity Information

GBIF Benin, hosted at the University of Abomey-Calavi, has published more than 338,000 occurrence records in 87 datasets and checklists. It has been a Global Biodiversity Information Facility (GBIF) node since 2004 and is a leader in several projects from the Biodiversity Information for Development (BID) programme. GBIF facilitates collaboration between nodes at different levels through its Capacity Enhancement Support Programme (CESP) [https://www.gbif.org/programme/82219/capacity-enhancement-support-programme]. One of the actions included in the CESP guidelines is called ‘Mentoring activities’. Its main goal is the transfer of knowledge between partners such as information, technologies, experience, and best practices. Sharing architecture and development is the key solution to solve some technical challenges or impediments (hosting, staff turnover, etc.) that GBIF nodes could face. The Atlas of Living Australia (ALA) team developed a functionality called ‘data hub’. It gives the possibility to create a standalone website with a dedicated occurrence search engine that seeks among a range of data (e.g. specific genus, geographic area). In 2017, GBIF Benin and GBIF France wanted to strengthen their partnership and started a CESP project. One of the core objectives of this project is the creation of the Atlas of Living Benin using ALA modules. GBIF France developers, with the help of the GBIF Benin team, are in the process of configuring a data hub that will give access to Beninese data only, while at the same time Atlas of Living France will give access to French data only. Both data portals will use the same back end, therefore the same databases. Benin is the first African GBIF node to implement this kind of infrastructure. On this poster, we will present the Atlas of Living Benin specific architecture and how we have managed to distinguish data coming from Benin and coming from France.

scholarly journals The Living Atlases community in action: the GBIF Benin data portal

2018 ◽  
Vol 2 ◽  
pp. e25488
Author(s):  
Anne-Sophie Archambeau ◽  
Fabien Cavière ◽  
Kourouma Koura ◽  
Marie-Elise Lecoq ◽  
Sophie Pamerlon ◽  
...  
Keyword(s):  
African Country ◽  
Biodiversity Data ◽  
Global Biodiversity Information Facility ◽  
Capacity Enhancement ◽  
Support Programme ◽  
Data Portal ◽  
Global Biodiversity ◽  
The University ◽  
Biodiversity Information ◽  
Occurrence Records

Atlas of Living Australia (ALA) (https://www.ala.org.au/) is the Global Biodiversity Information Facility (GBIF) node of Australia. They developed an open and free platform for sharing and exploring biodiversity data. All the modules are publicly available for reuse and customization on their GitHub account (https://github.com/AtlasOfLivingAustralia). GBIF Benin, hosted at the University of Abomey-Calavi, has published more than 338 000 occurrence records from 87 datasets and 2 checklists. Through the GBIF Capacity Enhancement Support Programme (https://www.gbif.org/programme/82219/capacity-enhancement-support-programme), GBIF Benin, with the help of GBIF France, is in the process of deploying the Beninese data portal using the GBIF France back-end architecture. GBIF Benin is the first African country to implement this module of the ALA infrastructure. In this presentation, we will show you an overview of the registry and the occurrence search engine using the Beninese data portal. We will begin with the administration interface and how to manage metadata, then we will continue with the user interface of the registry and how you can find Beninese occurrences through the hub.

U.InovAcelerator

2019 ◽  
pp. 377-394
Author(s):  
Fábio Goncalves ◽  
Maria Manuela Gomes de Azevedo Pinto ◽  
Alexandra Xavier
Keyword(s):  
Knowledge Transfer ◽  
Research And Development ◽  
Information Management ◽  
Value Chain ◽  
Science And Technology ◽  
Management Approach ◽  
Transfer Of Knowledge ◽  
Academic Context ◽  
The Creation ◽  
The University

Following the reflection around the emergence of “research university” in the context of the slow but progressive increase in value of science and technology and research and development in Portugal, a study applied to the knowledge transfer and the process of innovation in the university, in the context of a master dissertation in information science (IS), study area of information management, is presented. The university is one of the most important institutions in the context of the national innovation system (SNI), being part of its mission the creation and transfer of knowledge. At the University of Porto (U.Porto), projects, such as the University of Porto Innovation unit (U.Porto Inovação) and the Science and Technology Park of the University of Porto (UPTEC) seek to support the university's innovation value chain, promoting the reinforcement and solidification of knowledge transfer and of the relations between the university and companies, as well as the promotion and support to the creation of companies with a technological, scientific, and creative base, and the attraction of numerous innovation centers of national and international companies. This chapter points out an informational perspective on I&D+i (research and development and innovation) and entrepreneurship, based on the systemic theory and the quadripolar method, as theoretical and methodological guidance tools, and an information management/knowledge management approach of innovation models for the knowledge economy, the national and international referents, and corresponding set of indicators. An exploratory study, which allowed the identification of internal and external agents, the resources, the relations between actors and institutions, the processes and flows, and the main inputs and outputs, is presented. The most relevant result is embodied in a model of innovation indicators in an academic context and applied to the University of Porto.

scholarly journals No one-size-fits-all solution to clean GBIF

2020 ◽  
Author(s):  
Alexander Zizka ◽  
Fernanda Antunes Carvalho ◽  
Alice Calvente ◽  
Mabel Rocio Baez-Lizarazo ◽  
Andressa Cabral ◽  
...  
Keyword(s):  
Urban Areas ◽  
Geographic Area ◽  
Strict Sense ◽  
Global Biodiversity Information Facility ◽  
Marine Animals ◽  
Conservation Assessments ◽  
Richness Patterns ◽  
Taxonomic Groups ◽  
Biodiversity Information ◽  
Occurrence Records

ABSTRACTSpecies occurrence records provide the basis for many biodiversity studies. They derive from georeferenced specimens deposited in natural history collections and visual observations, such as those obtained through various mobile applications. Given the rapid increase in availability of such data, the control of quality and accuracy constitutes a particular concern. Automatic filtering is a scalable and reproducible means to identify potentially problematic records and tailor datasets from public databases such as the Global Biodiversity Information Facility (GBIF; www.gbif.org), for biodiversity analyses. However, it is unclear how much data may be lost by filtering, whether the same filters should be applied across all taxonomic groups, and what the effect of filtering is on common downstream analyses. Here, we evaluate the effect of 13 recently proposed filters on the inference of species richness patterns and automated conservation assessments for 18 Neotropical taxa, including terrestrial and marine animals, fungi, and plants downloaded from GBIF. We find that a total of 44.3% of the records are potentially problematic, with large variation across taxonomic groups (25 - 90%). A small fraction of records was identified as erroneous in the strict sense (4.2%), and a much larger proportion as unfit for most downstream analyses (41.7%). Filters of duplicated information, collection year, and basis of record, as well as coordinates in urban areas, or for terrestrial taxa in the sea or marine taxa on land, have the greatest effect. Automated filtering can help in identifying problematic records, but requires customization of which tests and thresholds should be applied to the taxonomic group and geographic area under focus. Our results stress the importance of thorough recording and exploration of the meta-data associated with species records for biodiversity research.

scholarly journals Revitalization of the University of Iowa's Bird Egg Collection after 100 Years of Dormancy

2018 ◽  
Vol 2 ◽  
pp. e26529
Author(s):  
Cody Crawford ◽  
Cindy Opitz ◽  
Trina Roberts
Keyword(s):  
Undergraduate Students ◽  
Web Application ◽  
Easy Access ◽  
Global Biodiversity Information Facility ◽  
University Of Iowa ◽  
Museum Staff ◽  
Global Biodiversity ◽  
The University ◽  
Private Collections ◽  
Biodiversity Information

The University of Iowa Museum of Natural History's egg collection spans many avian orders, 6 continents, and over 160 years. However, this collection of approximately 17,000 egg specimens has remained disorganized and underutilized for most of its history. Only in 2017 did the museum begin taking significant steps toward organizing the eggs, cataloging them, and making them and their data available for researchers. Like many museum egg collections, ours is composed mostly of donated private collections originally collected, purchased, or traded between 1870 and 1910, and with variable amounts of data associated with individual specimens. Since the time the eggs were collected, most of them have been separated from the cards on which collectors stored their data. Much of the current project revolves around reuniting eggs and data cards. We have scanned over 2,000 egg cards, crowdsourced transcriptions of the handwriting, verified the accuracy of each transcription, and added the scans and transcriptions to our database for easy access by museum staff and volunteers. We are using the egg cards, any data written on the eggs, and many books and websites to match eggs with egg cards and integrate the data into our database. The eggs are then placed in new cabinets and relabelled with newly generated database information. Each egg set will be photographed and georeferenced if possible, using the GEOLocate web application. At the end of this project, these specimen records will be integrated into biodiversity repositories such as GBIF (Global Biodiversity Information Facility), Integrated Digitized Biocollections (iDigBio), and VertNet, so they can be downloaded and used by researchers globally, as our bird, mammal and insect collections already are. Most of the work is carried out by a team of volunteers and interns, usually undergraduate students, without whom this project would not be possible at its current pace.

scholarly journals Reviving a Dormant Collection: Updating the Invertebrate Zoology Collection at the University of Kansas Biodiversity Institute for Future Use and Accessibility

2018 ◽  
Vol 2 ◽  
pp. e26716
Author(s):  
Vanessa Delnavaz ◽  
Kirsten Jensen ◽  
Kaylee Herzog
Keyword(s):  
The United States ◽  
Future Research ◽  
University Of Kansas ◽  
Global Biodiversity Information Facility ◽  
Label Data ◽  
Research Activities ◽  
The Caribbean ◽  
The University ◽  
Biodiversity Information ◽  
Invertebrate Zoology

The Invertebrate Zoology Collection at the University of Kansas (KU) Biodiversity Institute is one of KU’s smaller collections, with just over 2,000 lots. Its taxonomic strength are hexacorallians (Cnidaria: Anthozoa) from across the globe. Holdings also include earthworms primarily from Southeast Asia and the Caribbean, as well as crayfish and molluscs from the United States, notably from Kansas. The collection has seen little loan activity over the past decade, in part due to the fact that collection records are not digitally available. Moreover, the collection has been virtually untouched for several years as research activities on hexacorallians has ceased following curator retirement. In an initial inventory, physical holdings were checked against original catalog data, while simultaneously re-curating to ensure proper storage containers and maximal levels of either ethanol or formalin. Preliminary comparison of the catalogued data with original and secondary label data housed with the specimens suggest that across these sources, the captured and entered data is somewhat inconsistent and incomplete. In an attempt to remedy such issues, the next phase of the project will involve digitally capturing label data to verify collection information. Once the data has been validated, the working data in spreadsheet format will be imported into Specify, and published to a list of aggregators including Global Biodiversity Information Facility (GBIF), Integrated Digitized Biocollections (iDigBio), Biodiversity Information Serving Our Nation (BISON), and Ocean Biogeographic Information System (OBIS), for visibility and use outside of KU. The hope through such efforts is an accessible and easily searchable collection that is properly preserved for future research.

Catalogue of the type material in the entomological collection of the University of La Laguna (Canary Islands, Spain). I. Arachnida

Zootaxa ◽  
2012 ◽  
Vol 3556 (1) ◽  
pp. 61 ◽  
Author(s):  
ANA SOFIA P. S. REBOLEIRA ◽  
ANTONIO JOSÉ PÉREZ ◽  
HERIBERTO LÓPEZ ◽  
NURIA MACÍAS–HERNÁNDEZ ◽  
SALVADOR DE LA CRUZ ◽  
...  
Keyword(s):  
Canary Islands ◽  
Type Material ◽  
Type Specimens ◽  
Global Biodiversity Information Facility ◽  
Additional Information ◽  
Global Biodiversity ◽  
The University ◽  
Biodiversity Information

A catalogue of arachnid type specimens of the collection kept at the Department of Animal Biology, University of LaLaguna (Spain) is presented. It harbours type material of 104 species belonging to 23 families of arachnids, representedby 21 holotypes and 164 paratypes for 23 species of pseudoscorpions, and 49 holotypes, 218 paratypes and 3 syntypes for81 species of spiders. This collection is using the criteria and standards of the Global Biodiversity Information Facility(GBIF) for cataloguing and computerization of the specimens. Type specimens were checked with the original descriptions, and relevant additional information from original labels not included in GBIF was registered.

scholarly journals No one-size-fits-all solution to clean GBIF

PeerJ ◽  
2020 ◽  
Vol 8 ◽  
pp. e9916
Author(s):  
Alexander Zizka ◽  
Fernanda Antunes Carvalho ◽  
Alice Calvente ◽  
Mabel Rocio Baez-Lizarazo ◽  
Andressa Cabral ◽  
...  
Keyword(s):  
Urban Areas ◽  
Geographic Area ◽  
Strict Sense ◽  
Global Biodiversity Information Facility ◽  
Marine Animals ◽  
Conservation Assessments ◽  
Richness Patterns ◽  
Taxonomic Groups ◽  
Biodiversity Information ◽  
Occurrence Records

Species occurrence records provide the basis for many biodiversity studies. They derive from georeferenced specimens deposited in natural history collections and visual observations, such as those obtained through various mobile applications. Given the rapid increase in availability of such data, the control of quality and accuracy constitutes a particular concern. Automatic filtering is a scalable and reproducible means to identify potentially problematic records and tailor datasets from public databases such as the Global Biodiversity Information Facility (GBIF; http://www.gbif.org), for biodiversity analyses. However, it is unclear how much data may be lost by filtering, whether the same filters should be applied across all taxonomic groups, and what the effect of filtering is on common downstream analyses. Here, we evaluate the effect of 13 recently proposed filters on the inference of species richness patterns and automated conservation assessments for 18 Neotropical taxa, including terrestrial and marine animals, fungi, and plants downloaded from GBIF. We find that a total of 44.3% of the records are potentially problematic, with large variation across taxonomic groups (25–90%). A small fraction of records was identified as erroneous in the strict sense (4.2%), and a much larger proportion as unfit for most downstream analyses (41.7%). Filters of duplicated information, collection year, and basis of record, as well as coordinates in urban areas, or for terrestrial taxa in the sea or marine taxa on land, have the greatest effect. Automated filtering can help in identifying problematic records, but requires customization of which tests and thresholds should be applied to the taxonomic group and geographic area under focus. Our results stress the importance of thorough recording and exploration of the meta-data associated with species records for biodiversity research.

scholarly journals Vascular plants dataset of the herbarium (HSS) of Agrarian Research Institute Finca “La Orden-Valdesequera” (CICYTEX), Extremadura, Spain

PhytoKeys ◽  
2021 ◽  
Vol 171 ◽  
pp. 47-59
Author(s):  
Francisco Márquez-García ◽  
David García-Alonso ◽  
María Josefa Guerra-Barrena ◽  
Francisco María Vázquez-Pardo
Keyword(s):  
Iberian Peninsula ◽  
Vascular Plants ◽  
Vascular Plant ◽  
Geographic Area ◽  
Global Biodiversity Information Facility ◽  
Infraspecific Taxa ◽  
Global Biodiversity ◽  
Biodiversity Information ◽  
Research Institute

The HSS herbarium database includes 69,397 records of vascular plant taxa, representing 91.1% of the herbarium’s specimens as for December, 2019, which are available through the Global Biodiversity Information Facility (GBIF) website (accessible at https://doi.org/10.15468/siye1z). The database represents 4,343 species and 787 infraspecific taxa (530 subspecies, 130 varieties and 127 notho-species or hybrids) of 196 families and 1,164 genera, and 105 type sheets. So far, 97.7% of the databased records are georeferenced (geographic coordinates or MRGS coordinates) and the geographic area with the largest number of specimens is the southwest quadrant of the Iberian Peninsula (Spain and Portugal).

Incubation Infrastructure for Knowledge-Intensive Companies around the University of Twente

1999 ◽  
Vol 13 (4) ◽  
pp. 243-247 ◽  
Author(s):  
P.C. van der Sijde ◽  
G.A. van Driem
Keyword(s):  
The Netherlands ◽  
Its Region ◽  
Business Incubator ◽  
Science Park ◽  
Start Up ◽  
The Creation ◽  
Knowledge Intensive ◽  
The University

The University of Twente in The Netherlands actively encourages students to start up their own companies after graduation. This paper describes the incubation infrastructure that it has developed for start-up ventures. The authors discuss the BTC-Twente, the University's business incubator; the Business & Science Park Enschede, which has been established alongside the campus of the University of Twente; and the availability of funds in the region for new companies and the ways in which the sources of finance inter-relate to see an enterprise through the various stages of its development. This case study is presented to indicate how a university can play a key role in the creation of business and employment in its region.

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