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Pilot study for master’s degree leads to PhD

19 April 2024 | Story André Damons | Photo Supplied

A pilot study for his master’s degree not only ignited Dr Milton Mogotsi’s passion but he was also inspired by the fact that this was a newly emerging field of research in the discipline of virology at the time. This eventually led to him pursuing a PhD and ing on his research.

Dr Mogotsi graduated on Thursday (18 April) with the degree Doctor of Philosophy with specialisation in Virology during the Faculty of Health Sciences at the University of the Free State (UFS) autumn graduation ceremonies. Prof Martin Nyaga, Head of the Next Generation Sequencing Unit (UFS-NGS) and an associate professor in the Division of Virology, was his promotor and Prof Trudi O’Neill from the Department of Microbiology and Biochemistry his co-promotor.

“It feels great! It was exhausting and overwhelming at times, but that light at the end of the tunnel will start to be brighter. I feel so proud of myself and very free. Nothing beats that liberating feeling that I have successfully completed a doctoral degree and now a new chapter of my life begins. I believe this post-PhD period is an excellent time for reflecting on my attributes and revising my CV, and with a PhD degree under my belt, I look forward to an abundance of opportunities that will soon open up,” says Dr Mogotsi after graduating.

Research

According to him, he was first introduced into this research concept when he was doing his master’s degree in microbiology. “Although it was more of a pilot study aiming to assess the feasibility of conducting this type of research on a larger scale, we made some interesting findings which we published in an international journal.

“I obtained my degree with distinction, receiving an award for Best Master’s Dissertation in Microbiology. The findings of this research really ignited my passion, and I was also inspired by the fact that this was a newly emerging field of research in the discipline of virology at the time, and of course in my master’s research there were some gaps and limitations which needed to be addressed. I then took a decision to pursue a PhD and expand on that research, and working with new-born babies is always enjoyable,” says Dr Mogotsi.

With his thesis titled “Longitudinal characterisation of the enteric virome of infants from the Free State, South Africa, using viral metagenomics”, Dr Mogotsi’s research aimed to characterise the total assemblage of all viruses that colonise the gastrointestinal tract of newborns, often referred to as the gut virome, using metagenomics.

“We know that the human gut undergoes some changes as the new-born baby becomes exposed to the numerous microorganisms, such as viruses, from the immediate environment. This once-in-a-lifetime occurrence can have life-long effects on the health and disease state of humans. Viral intestinal infections are among the leading causes of childhood hospitalisations and deaths, especially in Africa, and infants are at a greater risk of suffering severe illnesses due to their immature immune system,” he explains.

According to him, previous research had focused more on the investigating the population of bacteria present in the gut of new-borns, therefore, there’s a huge knowledge gap about viruses colonising this part of the human body. In South Africa, more attention has been on assessing the effectiveness of currently available vaccines and surveillance of specific disease-causing viruses such as rotavirus.

The research he was conducting, he continues, therefore, sought to characterise all intestinal viruses in healthy new-borns individuals, their source of origin, the changes in diversity and composition occurring over time, as well as their potential implications on the health of infants. “The findings of my study have provided more insights into what is known or new viruses are colonising the infants’ gut, as well as their evolution over time”, he adds.

PhD journey

Even though he had to put his PhD on hold for a year due to COVID-19, but with the resilience, persistence, and his ability to clear the roadblocks that were in his way, he managed to complete it. He also credits his supportive mentors and a community of colleagues and friends for their unwavering support throughout his academic journey.

“After a year-long delay, I was able to go ahead with the project and everything went well from sample collection and sample processing in the lab. The challenging part was analysing and interpreting the data as this involved advanced bioinformatics, but in the end, I was able to find solutions and make sense out of the results I got. The study was a great success with two publications in peer-reviewed international journals emanating from this study.

“Furthermore, I had an opportunity to present my research in local and international conferences. I have been to Ghana, Nigeria and Indonesia. Locally, I presented in a conference in Johannesburg and in Cape Town. More exciting was participating in the Three Minute Thesis (3MT) competition in which I emerged victorious, winning the National 3MT competition. The other award I received was from the Faculty of Health Sciences Research Forum, winning the Dr Lehlohonolo Mathengtheng Trophy for best PhD presentation”, says Dr Mogotsi.

Motivation

Dr Mogotsi says the fact that he comes from the township and received his secondary education from a township school always kept him motivated. He is well aware that there are many who look up to him, who are also inspired by what he has achieved.

“More importantly, my supervisor, Prof Nyaga, was very supportive and he is very active in his research field with genuine interest in student projects, while making time to provide adequate supervision and mentorship. His high standards of ensuring that students graduate with a strong publication record is commendable.”

As a coordinator of wet lab activities at the UFS-NGS Unit, Dr Mogotsi is currently involved in several projects as the unit is a World Health Organisation Collaborating Center for Vaccine Preventable Diseases and Pathogen Genomics. They are doing collaborative projects with several partners across the continent on the genomic surveillance of enteric viruses such as rotavirus, norovirus, sapovirus, astrovirus and adenoviruses.

News Archive

Heart diseases a time bomb in Africa, says UFS expert

2010-05-17

Prof. Francis Smit

There are a lot of cardiac problems in Africa. Sub-Saharan Africa is home to the largest population of rheumatic heart disease patients in the world and therefore hosts the largest rheumatic heart valve population in the world. They are more than one million, compared to 33 000 in the whole of the industrialised world, says Prof. Francis Smit, Head of the Department of Cardiothoracic Surgery at the Faculty of Health Sciences at the University of the Free State (UFS).

He delivered an inaugural lecture on the topic Cardiothoracic Surgery: Complex simplicity, or simple complexity?

“We are also sitting on a time bomb of ischemic heart disease with the WHO (World Health Organisation) estimating that CAD (coronary artery disease) will become the number-one killer in our region by 2020. HIV/Aids is expected to go down to number 7.”

Very little is done about it. There is neither a clear nor coordinated programme to address this expected epidemic and CAD is regarded as an expensive disease, confined to Caucasians in the industrialised world. “We are ignoring alarming statistics about incidences of adult obesity, diabetes and endemic hypertension in our black population and a rising incidence of coronary artery interventions and incidents in our indigenous population,” Prof. Smit says.

Outside South Africa – with 44 units – very few units (about seven) perform low volumes of basic cardiac surgery. The South African units at all academic institutions are under severe threat and about 70% of cardiac procedures are performed in the private sector.

He says the main challenge in Africa has become sustainability, which needs to be addressed through education. Cardiothoracic surgery must become part of everyday surgery in Africa through alternative education programmes. That will make this specialty relevant at all levels of healthcare and it must be involved in resource allocation to medicine in general and cardiothoracic surgery specifically.

The African surgeon should make the maximum impact at the lowest possible cost to as many people in a society as possible. “Our training in fields like intensive care and insight into pulmonology, gastroenterology and cardiology give us the possibility of expanding our roles in African medicine. We must also remember that we are trained physicians as well.

“Should people die or suffer tremendously while we can train a group of surgical specialists or retraining general surgeons to expand our impact on cardiothoracic disease in Africa using available technology maybe more creatively? We have made great progress in establishing an African School for Cardiothoracic Surgery.”

Prof. Smit also highlighted the role of the annual Hannes Meyer National Registrar Symposium that culminated in having an eight-strong international panel sponsored by the ICC of EACTS to present a scientific course as well as advanced surgical techniques in conjunction with the Hannes Meyer Symposium in 2010.

Prof. Smit says South Africa is fast becoming the driving force in cardiothoracic surgery in Africa. South Africa is the only country that has the knowledge, technology and skills base to act as the springboard for the development of cardiothoracic surgery in Africa.

South Africa, however, is experiencing its own problems. Mortality has doubled in the years from 1997 to 2005 and half the population in the Free State dies between 40 to 44 years of age.

“If we do not need health professionals to determine the quality and quantity of service delivery to the population and do not want to involve them in this process, we can get rid of them, but then the political leaders making that decision must accept responsibility for the clinical outcomes and life expectancies of their fellow citizens.

“We surely cannot expect to impose the same medical legal principles on professionals working in unsafe hospitals and who have complained and made authorities aware of these conditions than upon those working in functional institutions. Either fixes the institutions or indemnifies medical personnel working in these conditions and defends the decision publicly.

“Why do I have to choose the three out of four patients that cannot have a lifesaving operation and will have to die on their own while the system pretends to deliver treatment to all?”

Prof. Smit says developing a service package with guidelines in the public domain will go a long way towards addressing this issue. It is also about time that we have to admit that things are simply not the same. Standards are deteriorating and training outcomes are or will be affected.

The people who make decisions that affect healthcare service delivery and outcomes, the quality of training platforms and research, in a word, the future of South African medicine, firstly need rules and boundaries. He also suggested that maybe the government should develop health policy in the public domain and then outsource healthcare delivery to people who can actually deliver including thousands of experts employed but ignored by the State at present.

“It is time that we all have to accept our responsibilities at all levels… and act decisively on matters that will determine the quality and quantity of medical care for this and future generations in South Africa and Africa. Time is running out,” Prof. Smit says.

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