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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

Good quality wheat essential for bread production
2016-11-29

Description: Robbie Lindeque Tags: Robbie Lindeque 

Robert Lindeque, wheat breeder at the ARC
Small Grain Institute in Bethlehem.
Photo: Supplied

“Wheat quality, specifically grain protein, is of the most crucial components determining the profitability of wheat farmers.”

This is according to Robbie Lindeque, wheat breeder at the ARC Small Grain Institute in Bethlehem. As a wheat breeder, one of his primary aims is to make a contribution to sustainable wheat production in the inland of South Africa.

A closer analysis of bread wheat protein

With his PHD thesis, "Protein quality versus quantity in South African commercial bread wheat cultivars”, Lindeque answered critical questions regarding the South African wheat industry. The major question of his PhD, which he received on 30 June 2016, was whether protein quality could compensate for protein quantity as a measure of bread quality in South Africa.

The three main wheat-producing areas in South Africa, the dryland summer rainfall region (Free State), dryland winter rainfall region (Western Cape), and the cooler irrigation regions (Northern Cape), were used as a starting point for the study.

Proteins are essential for the baking of good quality bread. Worldwide, the utilisation of wheat flour shipments in the baking industry is determined by the protein proportion of the shipment.

Lindeque says the aim of his thesis was to determine whether a closer analysis of bread wheat protein would provide a better indication of good or bad bread quality. “The conclusion from this study was that both protein quantity and protein quality from all three production areas in South Africa varies constantly in accuracy regarding the estimation of bread volume, mainly as a result of environmental factors,” says Lindeque.

Results relevant to the wheat industry

In 2012, application was made to the Winter Cereal Trust for funding of the project. After funding was approved – thus making the Winter Cereal Trust the main partner – seed samples were collected from the 2012 and 2013 national cultivar adaptation trials.

“After this, the seed underwent protein and flour analyses, which added a third year to the study, with the fourth year consisting of statistical processing and documenting of the results,” says Lindeque.

Funding by the Winter Cereals Trust contributed to the fact that the study constantly attempted to keep issues and results as relevant as possible to the wheat industry.

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