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19 July 2018 Photo Supplied
AEVGI advances Next-Generation Sequencing in Africa
Prof George Armah, Noguchi Memorial Institute for Medical Research, Ghana; Prof Carl Kirkwood, Bill and Melinda Gates Foundation, USA; Cornelius Hagenmeier, Director: Internationalisation, UFS; Prof Gert van Zyl, Dean: Health Sciences; Dr Martin Nyaga, Senior Lecturer in the NGS Unit; Prof Joyce Tsoka-Gwegweni, Vice-Dean: Health Sciences; Dr Glen Taylor, Senior Director: Research and Development; Prof Jeffrey Mphahlele, Vice-President, South African Medical Research Council.

The inaugural edition of the University of the Free State (UFS) Next-Generation Sequencing (NGS) Data and Bioinformatics Workshop, hosted by the UFS-NGS Unit in the UFS Faculty of Health Sciences, marked a new beginning for the advancement of NGS in Africa under the auspices of the African Enteric Viruses Genome Initiative (AEVGI), which was recently funded by the Bill and Melinda Gates Foundation.

The AEVGI will generate rotavirus genomes at the UFS-NGS Unit to investigate the long-term effects of the introduction of the monovalent RV1 vaccine in three African countries – Ghana, Malawi, and South Africa.

The workshop attracted over 90 participants from 15 national and international institutions, with organisations from seven different countries as well as company representatives attending the event. The workshop kicked off with a courtesy call to the Rector and Vice-Chancellor, Prof Francis Petersen, followed by a stakeholder meeting with the executive management of the UFS.

The funding was secured through an award to the principal investigator, Dr Martin Nyaga, and sub-awards to co-investigators, Dr Khuzwayo Jere, Dr Francis Dennis, and Dr Valentine Ndze. According to attendee evaluations of the workshop, the remarkable performance of the workshop instructors was outstanding. Through practical sessions, participants were equipped with knowledge on how to apply several tools of genetic data analysis, using the rotavirus genome as a model to construct and interpret different genomic datasets.

A total of 65 students attended the hands-on workshop, the majority of which were from South African higher-education institutions. The organisers are grateful to the sponsors, particularly to the Bill and Melinda Gates Foundation and the University of the Free State, for making the workshop a success. Whitehead Scientific and the South African Medical Research Council also played a major role in the success of the workshop. The local organising committee consisted of Dr Martin Nyaga (host, convener and chair), Dr Saheed Sabiu (secretary), and Mr Stephanus Riekert (principal ICT support).

News Archive

Unconventional oil and gas extraction – study for Water Research Commission reveals possible impacts
2014-11-05

 

Photo: Legalplanet.org
The Centre for Environmental Management (CEM) at the University of the Free State (UFS) recently completed a three-year project for the Water Research Commission. The purpose was to develop an interactive vulnerability map and monitoring framework for unconventional oil and gas extraction (final report still to be published).

Due to the complexity of this field, a number of participants across different disciplines and universities were involved in this trans-disciplinary study. Contributors included the Departments of Sociology, Physics and Mathematical Statistics from the UFS, the University of Pretoria Natural Hazard Centre, Africa, as well as the Institute of Marine and Environmental Law from the University of Cape Town.

Unconventional oil and gas extraction, its related impacts and the management of this activity to ensure environmental protection, is a controversial issue in many countries worldwide. Since the extraction of oil and gas using unconventional techniques is an unprecedented activity in South Africa, the project focused on understanding this extraction process as well as hydraulic fracturing and identifying possible environmental and socio-economic impacts associated with this activity in the South African context. An understanding of the possible impacts could aid government during the development of policy aimed at protecting the environment.

The researchers subsequently identified indicators to develop an interactive vulnerability map for unconventional oil and gas in South Africa. The vulnerability map focuses on specific mapping themes, which include surface water, groundwater, vegetation, seismicity and socio-economics. In addition, the map provides information on the vulnerability of the specified mapping themes to unconventional gas extraction on a regional scale. This map is intended as a reconnaissance tool to inform decision-makers on areas where additional detail field work and assessments may be required. It can also be used during Environmental Impact Assessments and determining licensing conditions.

Lastly, a monitoring framework was developed, which describes monitoring requirements for specific entities – surface water, groundwater, vegetation, seismicity and socio-economics – for the different phases of unconventional oil and gas extraction. Such monitoring is an important part of environmental protection. It is especially important for South Africa to perform baseline monitoring before exploration starts to ensure that we will have reference conditions to identify what impact oil and gas extraction activities has on the biophysical and socio-economic environments.


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