ArticlePDF Available

South Africa's Initiative Towards an Integrated Biodiversity Data Portal

Authors:

Abstract

Biodiversity Advisor, developed by the South African National Biodiversity Institute (SANBI), is a system that will provide integrated biodiversity information to a wide range of users who will have access to geospatial data, plant and animal species distribution data, ecosystem-level data, literature, images and metadata. It aims to deliver a centralized location with open access to information to enable research, assessment and monitoring; to support policy development; to foster collaboration and advance governance. Data are aggregated from multiple, diverse data partners across South Africa including, CapeNature, the FitzPatrick Institute of African Ornithology, Iziko South African museum, the National Herbarium of South Africa and the South African Institute for Aquatic Biodiversity. This newly developed and integrated system promotes a shift from tactically-based information systems, aimed at delivering products for individual project initiatives to a strategic system that promotes the building of capacity within organisations and networks. It has been developed by integrating SANBI’s existing authoring layers through a service-orientated architecture approach, which enables seamless cross-platform integration. Some of the key authoring layers that will be integrated are, the Botanical Database of Southern Africa (BODATSA), the Zoological Database of Southern Africa (ZODATSA), the Biodiversity Geographic Information System (BGIS) and SANBI's institutional repository (Opus). Biodiversity Advisor will provide users, policy and decision makers, environmental impact practitioners and associated organizations with free access to view, query and download any of South Africa's biodiversity data available on the system, providing them with everything needed to make decisions around conservation and biodiversity planning in South Africa. All sensitive species data, which are those that are vulnerable to collecting, over-exploitation, commercial and/or medicinal use, will be redacted and only granted access upon application. Biodiversity Advisor will encourage more effective management of data within SANBI, but also encourage the sharing of data by the biodiversity community to provide integrated products and services, which are needed to address complex environmental issues.
Biodiversity Information Science and Standards 5: e75638
doi: 10.3897/biss.5.75638
Conference Abstract
South Africa's Initiative Towards an Integrated
Biodiversity Data Portal
Kiara Ricketts , Brenda Daly , Fhatani Ranwashe , Carol Lefakane
‡ SANBI, Cape Town, South Africa
Corresponding author: Kiara Ricketts (k.ricketts@sanbi.org.za), Brenda Daly (b.daly@sanbi.org.za), Fhatani
Ranwashe (f.ranwashe@sanbi.org.za)
Received: 22 Sep 2021 | Published: 23 Sep 2021
Citation: Ricketts K, Daly B, Ranwashe F, Lefakane C (2021) South Africa's Initiative Towards an Integrated
Biodiversity Data Portal. Biodiversity Information Science and Standards 5: e75638.
https://doi.org/10.3897/biss.5.75638
Abstract
Biodiversity Advisor, developed by the South African National Biodiversity Institute
(SANBI), is a system that will provide integrated biodiversity information to a wide range of
users who will have access to geospatial data, plant and animal species distribution data,
ecosystem-level data, literature, images and metadata. It aims to deliver a centralized
location with open access to information to enable research, assessment and monitoring;
to support policy development; to foster collaboration and advance governance. Data are
aggregated from multiple, diverse data partners across South Africa including,
CapeNature, the FitzPatrick Institute of African Ornithology, Iziko South African museum,
the National Herbarium of South Africa and the South African Institute for Aquatic
Biodiversity.
This newly developed and integrated system promotes a shift from tactically-based
information systems, aimed at delivering products for individual project initiatives to a
strategic system that promotes the building of capacity within organisations and networks.
It has been developed by integrating SANBI’s existing authoring layers through a service-
orientated architecture approach, which enables seamless cross-platform integration.
Some of the key authoring layers that will be integrated are, the Botanical Database of
Southern Africa (BODATSA), the Zoological Database of Southern Africa (ZODATSA), the
Biodiversity Geographic Information System (BGIS) and SANBI's institutional repository
(Opus). Biodiversity Advisor will provide users, policy and decision makers, environmental
© Ricketts K et al. This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY
4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are
credited.
impact practitioners and associated organizations with free access to view, query and
download any of South Africa's biodiversity data available on the system, providing them
with everything needed to make decisions around conservation and biodiversity planning in
South Africa. All sensitive species data, which are those that are vulnerable to collecting,
over-exploitation, commercial and/or medicinal use, will be redacted and only granted
access upon application.
Biodiversity Advisor will encourage more effective management of data within SANBI, but
also encourage the sharing of data by the biodiversity community to provide integrated
products and services, which are needed to address complex environmental issues.
Keywords
biodiversity data repository, decision support system, policy support
Presenting author
Kiara Ricketts
Presented at
TDWG 2021
2Ricketts K et al
... Native ligneous species of Southern Africa are distributed across more than 100 families, 500 genera, and 3000 species, according to the data extracted from the Botanical Database of Southern Africa (BODATSA, available here https://posa.sanbi.org/), which is maintained by the South African National Biodiversity Institute (SANBI), using Botanical Research & Herbarium Management System (BRAHMS) software (Le Roux et al. 2017;Klopper et al. 2021;Ricketts et al. 2021). Figure 1 illustrates this high diversity (explanation of the dataset extraction and detailed list available in Appendix A and B at 10.6084/m9.figshare.27888720). ...
Article
Full-text available
Since the 1980s, the field of anthracology has continued to expand in Southern Africa to study the interaction between past human societies and their environments, including plant resources and forest management from prehistoric times. To answer such questions, the need for comparative wood anatomy analyses of the local taxa is of particular relevance in this rich species environment to perform rigorous taxonomic identification. This paper introduces the first computer-assisted identification tool specifically designed for the analysis of archaeological charcoals from Southern Africa. This online database, called SACHA for Southern African CHArcoals, is accessible via the following link: https://sacha.identificationkey.org/ . It currently includes anatomical descriptions, as well as ecological and ethnobotanical information for 68 taxa of modern specimens collected in the Savanna Biome. An identification key is available on the Xper ³ online platform, which is designed for descriptive data management and interactive identification. This article presents a survey of the existing reference collections on Southern African woods and charcoals and proposes an overview of the development of computerised tools for systematic wood descriptions and identification keys. The SACHA database can be easily updated and enriched without requiring computer science skills. Furthermore, it can serve as a training tool for beginners in wood anatomy. The database offers an online interactive key option, a fact sheet catalogue, and conventional dichotomous and tabular keys for offline or printed versions. These functions are facilitated by the various export formats that are available in the database.
... In particular, for geospatial data integration, many architectures have been proposed and documented. Service-Oriented Architectures (SOA) that leverage standardised geospatial services (Daly andRanwashe, 2023, Xie andLi, 2018). Federated Systems for multi-source data management and integration (Cinquini et al., 2014). ...
Article
Full-text available
The wide availability of geospatial data from different sources makes it necessary to create systems that are able to use and integrate the data to generate added value. We propose a system architecture following FAIR principles (Findable, Accessible, Interoperable, Reusable) and state-of-the-art methodologies for a server-side web-based application that performs virtual data integration over data sources that implement geospatial information standards. The architecture extends the mediator-wrapper design pattern with additional components that provide the system with additional flexibility and modularity, much needed for modern web applications. The architecture is composed of the mask, which acts as the interface of the system towards external users; a mediator that handles processing and data integration logic; a set of wrappers that communicate with the external data sources; persistent storage to provide flexible configuration and metadata capabilities to the system; and messaging queue for enabling asynchronous processing. At the same time, the architecture’s components are divided into four layers, each one with a specific role: presentation, configuration, processing, and communication.
Article
Full-text available
South Africa’s National Biodiversity Assessment (NBA) is the primary tool for monitoring and reporting on the state of biodiversity, with a focus on spatial information and key indicators. The NBA distills information that informs policies and strategies, meets national and international reporting requirements, and helps prioritize limited resources for managing and conserving biodiversity. The three previous versions of the NBA (2004, 2011 and 2018) are in the form of detailed thematic technical reports and a synthesis report, served on a simple, static web page. Selected spatial products from the report are available via a dedicated web platform (http://nba.sanbi.org.za/). While all methods and data are clearly described in the technical reports, most of the underlying analyses are inaccessible, lacking reproducibility and transparency. This makes iterative updates to indicators or metrics challenging and inefficient, complicates version control, and exacerbates the risk of capacity, knowledge and data loss during staff turnover. To move the assessment process into the information age we aim to develop well documented and reproducible workflows, and to serve the indicators and their accompanying synthesis on an interactive web platform that facilitates uptake. Achieving these aims will deliver efficiency, greater transparency and trust in future NBA products and will strengthen communication and engagement with the content by the many different users of those products. While these visions will not be realized overnight, the skills and systems required to achieve them can be adaptively built towards an improved NBA that better serves the needs of our society.
ResearchGate has not been able to resolve any references for this publication.