Department of Genetics

From Lecture Halls to Vineyards: Celebrating the Retirement of Prof Johan Burger

Prof. Johan Burger – a plant virologist has been a cornerstone of the Stellenbosch University Department of Genetics for the last 29 years. As a lecturer, he designed and taught foundational molecular genetics courses that shaped the scientific grounding of thousands of undergraduate students. As a former Head of Department, he provided steady leadership during pivotal years of growth and transitioning. As a supervisor, he trained and mentored hundreds of postgraduate students who now contribute to academia, industry and global scientific communities. Beyond his scientific work, Prof. Burger also served on numerous committees and advisory boards across academic, government and private sectors, contributing his expertise to national policy discussions, scientific review panels and industry collaborations. These roles extended his influence far beyond the laboratory, helping shape decision making in plant health, biotechnology and agricultural innovation.

Yet for all his accomplishments, it is his mentorship thoughtfulness, patience and deep humanity that has shaped a generation of scientists whose careers continue to reflect his influence. As he now steps into retirement, the Department reflects on the career of a professor whose teaching, research, and service have left an enduring mark on Stellenbosch University.

When asked what first drew him into plant virology, one might expect a carefully planned academic trajectory.

Instead, as Prof. Burger explained with a smile, his journey into the field happened “by chance.” His father wanted him to study medicine, consequently he applied and was accepted into medical school in Pretoria, as expected he boarded the train heading north but somewhere around De Aar, he realised with sudden clarity that this path was not truly his. So he did something remarkably bold: he got off the train, turned back to Cape Town (Stellenbosch), and abandoned medicine before it ever began.

From there, he enrolled in Food Science at Stellenbosch university (1983), where an unlikely mentor changed everything: a lecturer remembered less for his teaching and more for his love of motorbikes. Their shared enthusiasm for motorcycles grew into a friendship, and this same lecturer became the first person to introduce him to plant viruses. “I was thoroughly hooked on virology after that,” he recalled. That early fascination ultimately led him to shift his academic path from Food Science to a BSc in Plant Pathology.

After completing his a BSc in Plant Pathology he fulfilled the compulsory national service required of young men in South Africa, a period he describes as “formative.” Noting that the leadership responsibilities he took on in a 33-year (part-time) military career, including eventually serving as a commanding officer of 3 Field Engineer regiment, helped shape his maturity and confidence rather than influencing his scientific direction. He later joined the University of Cape Town to study under Prof Barbara von Wechmarand Prof Ed Rybicki plant virology, where he entered a Master’s programme that eventually upgraded into a PhD focusing on “The characterisation of Ornithogalum mosaic virus”. With characteristic humour, he often notes, “You know, I actually only have two degrees to my name, a BSc and a PhD.”

Teaching Across Generations

When asked what it was like teaching generation after generation of students from millennials to Gen Z to early Gen Alpha Prof. Burger simply smiled and shrugged. “The labels never mattered”, he insisted. “Students are students.” they wanted to learn genetics. For him, that curiosity bridged every supposed generational divide.

One of his greatest joys was Genetics 244, an undergrad module he built entirely from scratch during his very first year (1997) in the department as a young academic. At the time, the module did not exist, and its creation marked his first real opportunity to shape how genetics would be taught to future cohorts. When he started, about40 students filled the lecture hall; today, the class sits at around 500. “It still astonishes me,” he said. The growth was never about prestige – it was affirmation that he had made the learning feel possible, accessible and exciting.

Yet the moments that meant the most to him came much later, often quietly, in the form of thank-you emails from former students. During our interview, he picked up one such email (the image below) and read it aloud. As he spoke, his voice softened and trembled ever so slightly. He paused, clearing his throat, clearly moved, though not quite to tears. “There is nothing more rewarding,” he said gently.

And of course, decades of teaching delivered its share of humour. One story he recalls with particular amusement is the day an UberEats courier walked straight into his lecture with a McDonald’s order  “right there, during class!” he laughed. The moment was so unexpected and absurd that a student captured it on TikTok, where the clip quickly gained 8 254 likes, and 447 shares (click here to view the video). It became one of many stories that entered his personal folklore.

Research: From Vineyard Viruses to Old-Vine Mysteries

One of the most defining eras of Prof. Burger’s research took shape at Stellenbosch University through a collaboration with the renowned Kanonkop Wine Estate. Rather than highlighting a problem, the partnership reflected Kanonkop’s forward-thinking commitment to understanding one of the wine industry’s oldest questions: why do old vines produce wines with such exceptional depth and character? It is a question many vineyards in Stellenbosch and across the world continue to explore.

This curiosity set the stage for a pioneering study that became a cornerstone of Prof. Burger’s career. Working alongside his PhD student  at that time (Dr Beatrix Coetzee) and collaborators, he helped generate one of the first comprehensive “viral maps” of a vineyard, a way of identifying the natural community of viruses that live quietly in vines and soils. As described in their publication, it was the first time a South African vineyard’s viral profile had been sequenced in such detail using advanced technology. Prof. Burger still recalls the moment they saw the results: “It was extraordinary,” he said, delighted by how quickly winemakers recognised the value of this new insight into vine health.

But the project didn’t stop at mapping. To understand how age influences flavour, the team compared the older, established vines (53 years old) with newly planted young vines (7 years old) growing right beside them under the same conditions. They collected leaves, stems and berries/grapes, studied how the plants developed over the season, and looked at the subtle biological differences between the two. One of the most striking findings was that the older vines ripened nearly two weeks later than the young vines, a small shift with potentially big implications for the layered, nuanced wines that old vineyards are celebrated for.

Through this collaboration, Kanonkop demonstrated the kind of curiosity and scientific openness that has long shaped its reputation: a willingness to invest in research that reveals, rather than hides, the quiet complexities of winemaking. And for Prof. Burger, it became a project that not only advanced the science of South African viticulture but also showed the power of partnership between industry and academia.

From Mentorship to Collaboration to Legacy of his lab

When Prof. Burger speaks about mentorship, his voice softens in a way that reveals just how deeply he valued it. “There is nothing more rewarding than supervising a student,” he said. Guiding them through uncertainty, watching them grow, and eventually stand confidently in their own scientific abilities was, for him, the true heart of academic life. His hope was always simple: that once they completed their degree in genetics, they would use it to do something meaningful. Many did, leading research teams, shaping national policy, and driving innovation across industry.

The moment that captured his legacy most clearly came on 12 November 2025. As he recounted it during this interview, his eyes filled and he paused, unable to hide the emotion. Without his knowledge, his former MSc and PhD students including post-doctorals and colleagues , some he had not seen in decades, had organised a surprise celebration in his honour. Several travelled long distances just to be there. When he walked into the room and saw all the faces of people he had once guided, he was overcome. “It was truly amazing,” he said quietly, wiping his eyes as he remembered it.

In that moment, it became clear that his greatest contribution was never a single experiment or publication. It was the people he had helped shape, and the scientists who now carry his influence into the world.

For Prof. Burger, collaboration was the lifeblood of his science. “One cannot progress in science without collaboration,” he said. Working with others not only strengthened the rigour of his research,it opened doors to new ideas, new techniques, and entire scientific worlds he might never have reached alone.

His career carried him across continents for workshops, conferences, and collaborations that often grew into lasting friendships. Among those he remembers most fondly are Prof. Assunta Bertaccini in Italy, ValerianDolja in the United States, and Prof. Giovanni Martelli of the University of Bari a towering figure in grapevine virology. He also spoke warmly of Prof. Marc Fuchs from Cornell University, whose expertise and partnership helped elevate the international standing of the Vitis group.

These were not merely professional connections; they were relationships built on trust, respect, and a shared love of discovery. “Science becomes better when done together,” he said a simple truth.

And perhaps nothing captures this better than the sprawling collection of lanyards in his office: badges from dozens of conferences, institutes, and countries. Each one marks a place he travelled, a talk he gave, a collaboration formed, a student met, a question asked.

 

When asked about the future of his research group, Prof. Burger responded with quiet certainty. There was no hesitation, only genuine pride in what the team had become. “I am excited to see where it will go,” he said, speaking with the ease of someone who has spent decades building not just a laboratory, but a scientific home.

What stood out most was his complete trust in the new leadership. He expressed deep confidence that those stepping into his place are capable, forward thinking, and ready to guide the group into its next chapter. “Such is the nature of science,” he reflected. “You work on discovery and impact, and when it is time to let go, you must do so with confidence.”

The Companions Who Shaped the Man Behind the Science

Behind every accomplished scientist stands a circle of support, and for Prof. Burger that support includes his companion Karin. She is central to this chapter of his life, and when he speaks of her his tone softens immediately. He describes her as “an amazing lady,” a phrase offered with unmistakable admiration. However his affection is just as evident when he speaks of his two sons. Having them, he says, was “a blessing,” and the pride he carries for them is unmistakable. His eldest son became a solar engineer working in sustainable energy technology, while his younger son pursued geochemistry and now works internationally for an exploration company in the USA. As he shares small stories about them, the ordinary details only a father remembers, a quiet joy settles into his voice. Their influence was never planned, yet it shaped him deeply, giving him perspective, resilience, and the grounding that only family can provide. As he reflects on them, he adds with heartfelt sincerity, “I am really honoured to have raised such wonderful sons together with my ex wife, who is also a strong academic.

Recognition From the University Community

Prof. Burger’s contributions have also been formally recognised within Stellenbosch University. He received the 2025 Chancellor’s Award for research, acknowledging the depth and quality of his work over many years. The department later hosted a warm farewell celebration (see photos below), offering an opportunity for colleagues and former students to thank him, share memories and enjoy the moment together before he steps into this next phase of his life.

Looking Back, Standing Present, Moving Forward

As your departmental scribe and as a former undergrade student in Prof. Burger’s Gen 244 class and now his colleague,I can say without hesitation that he was and remains an eclectic lecturer with a rare ability to connect across generations. Even now, as a colleague, that same calm and grounded presence endures. Nothing seems to ruffle him; he brings humour, humility and an ease that has long made him one of the department’s most memorable figures.

When asked what comes next, he answered with characteristic steadiness. “I am not disappearing,” he said. “I will still be connected, just in a different way.” Retirement for him is a shift rather than a departure: continued affiliation with the research environment, balanced with long awaited time for family, golf and the freedom academia seldom allows.

As our conversation ended, Prof. Burger shared a few final reflections on teaching, science and the journey ahead. You can watch his message in the video below

Composed by M. Le Roux

Annual BSc Honours Interdepartmental Recruitment Event

Written by Dr Christel van der Vyver
A spirit of collaboration and scientific curiosity filled the air as approximately 130 third-year BSc students gathered for the annual BSc Honours Interdepartmental Recruitment Event on Friday, 16 May. The event was hosted by the Departments of Genetics, Microbiology and Biochemistry on Stellenbosch campus and brought together students interested in the different fields of Life Sciences, including Medical Virology and Microbiology, and Molecular Biology, postgraduate students, and academic staff members from the various Departments.

The event, which aimed to guide students toward postgraduate opportunities and research interests, served as a unique platform for third-year undergraduates to explore potential Honours pathways and immerse themselves in the exciting research culture of their future departments. Information regarding program structure, the online application process, application deadlines, prerequisite requirements, bursary opportunities etc, was communicated to the attendees.

What set this year’s event apart was direct engagement with postgraduate students currently pursuing Honours, MSc and PhD degrees within the various Departments. These postgraduate students led lab tours and introduced participants to the various research groups within the Departments. Promotional stalls were set upby the postgraduate, showcasing some ongoing Departmental research, which gave the attendees an inside look at the research activities and programs within each department. Many also shared personal anecdotes and advice on navigating the transition from undergraduate to postgraduate studies.

“The goal is to give students real insight, not just into what each field entails academically, but what it feels like to be part of a research team,” said Drs. Christell van der Vyver and Justin Lashbrook, event coordinators from the Department of Genetics. “This kind of exposure is invaluable when students are deciding where their passion and skills best align.”

The interdepartmental nature of the event encouraged cross-disciplinary exploration. Attending students also had the opportunity, while enjoying some refreshments and finger food, to interact with academic staff members in an informal setting, which could address questions and provide guidance regarding academic program choices.

As the research landscape continues to evolve, events like this are instrumental in shaping the next generation of scientists, not just by informing them about their choices but by inspiring them to take the first confident step into a scientific career.

 

 

Honours class 2024 Shines

Genetics Research Explores Conservation, Food Security, and Human Health Challenges

In the prestigious Jan Mouton Building, the honours students in our Genetics Department showcased their final research projects on November 20, 2024, marking the completion of a challenging and transformative year. The modern lecture hall, with its state-of-the-art design and warm ambiance, provided the perfect setting for a day filled with intellectual curiosity and academic achievement.

The day began with a motivating speech by our Head of Department, Mr. Willem Botes, who inspired the students to reflect on their academic journey and the significance of their contributions to genetics research. The presentations that followed reflected the broad scope and impact of the department’s work. Some students focused on population genetics, studying species like sharks and dusky kob to better understand genetic diversity and conservation strategies. Others tackled challenges in agriculture and food security, working on crops such as wheat, beans, citrus, mushrooms, and grapevine to improve yields, resilience, and nutritional value. Meanwhile, human genetics research brought vital insights into health issues, focusing adolescent obsessive-compulsive disorder (OCD) and intervertebral disc degeneration (IDD) in Southern African populations.

Over the past six months, these students immersed themselves in complex research, bridging theoretical knowledge with practical applications. From acquiring bioinformatics skills (Sequence analysis, phylogenetics, AlphaFold, MEGA, etc.) to conducting wet-lab experiments such as PCR, qPCR, RNA, DNA extraction, and gene cloning, they honed a diverse set of technical and analytical skills. This rigorous research phase followed an intense first semester of theoretical training, covering advanced modules such as Molecular Techniques, Human and Animal Genetics, Genetic Data Analysis, Statical analysis, Scientific Writing, Plant Genetics + Crop Improvers, and Genomics.

As the day progressed, the initial nerves and tension in the room gave way to growing confidence and excitement. The professionalism displayed by the students was evident, and their passion for their work shone through with every presentation. By the afternoon, the atmosphere was vibrant and celebratory. While some of these graduates have expressed a strong interest in pursuing Master’s degrees to further their academic careers, others are eager to apply their skills and knowledge in the working world, stepping into industries where their expertise will make a meaningful impact. Both paths are a testament to their dedication and the solid foundation they have built here in the Genetics Department. The day concluded with a speech by our Honours Coordinator, Dr. J. Lashbrook, who commended the students for their hard work. The honours class of 2024 has proven their commitment to excellence, overcoming challenges and growing as a scientist but also as an individual.

Congratulations to the honours class of 2024! Your journey has been a challenging one, but you have emerged stronger, more skilled, and ready to take on the next chapter. The Genetics Department is immensely proud of you and looks forward to seeing all that you will achieve in the future.

Composed by The Department Scribe – M. le Roux

 

Master’s Students Showcase Expertise in Genetics Research

Master’s Students Showcase Expertise in Genetics Research Ahead of December Graduation

On the morning of November 21, 2024, the Genetics Department hosted the defense presentations of MSc students preparing for their December graduation. The atmosphere in the venue was a mix of anticipation and pride, as each candidate confidently stepped forward to present the culmination of two years of dedicated research. Their presentations were a testament to their hard work, expertise, and deep understanding of their respective fields.

The presentations began with M O’Meara, who presented their research on identifying optimal genetic markers for predicting quantitative measures in neuropsychiatric disorders. This research was conducted under the supervision of Dr Nathaniel McGregor, the project showcased indeed contributed to our current understanding complex traits related to mental health. Following this, J Dove took the stage to present their work on developing a CRISPR-based detection system for Candidatus Liberibacter africanus, a critical advancement for tackling diseases affecting the agricultural industry. This research was conducted under the supervision of Professor Johan Burger.  HC van der Westhuizen followed with an impressive presentation on the assembly and annotation of the genome of the sea urchin, Tripneustesgratilla. Supervised by Professor Clint Rhode, their work highlighted the importance of genomic tools in understanding marine biodiversity and its implications for environmental and evolutionary research. Concluding the session, K Haridass presented their study on exploring the abiotic resistance traits of the local wild wheat relative, Thinopyrum distichum–supervised by our head our head department Mr Willem  Botes, this research contributed valuable insights to improving crop resilience in the face of climate challenges.

Throughout the session, the students demonstrated a remarkable command of their research, confidently explaining complex methodologies, findings, and implications. At the end of each presentation, they faced a series of advanced genetic questions from the audience and examination panel, designed to test their depth of understanding and ability to think critically. With poise and precision, they answered these questions, further reinforcing their status as emerging experts in their respective fields.

These defense presentations were not only an academic milestone but also a celebration of the journey each student had undertaken. The Genetics Department is immensely proud of their achievements and looks forward to the impact they will undoubtedly make in their future endeavors.

Composed by The Department Scribe – M. le Roux

 

High Office and Awards for Genetics Staff and Students

Academic staff and students of the Department of Genetics have been attending several scientific meetings and receiving honours and awards, reaffirming the quality and standing of research in the Department.

At the Aquaculture Association of Southern Africa’s conference, hosted at Stellenbosch (9- 13 September 2024), Ms Samantha Joao (PhD candidate in Genetics, Supervisor Prof. Clint Rhode) received the Best Student Oral Presentation Award for her talk, entitled: “Examining growth in dusky kob (argyrosomus japonicus) via differential transcriptomic analysis of gill tissue”.

Doctoral candidate Ms Jessica Winn (Supervisor: Prof. Aletta Bester-van der Merwe) and recent doctoral graduate Dr Kelvin Hull (Supervisor: Prof. Clint Rhode) was awarded the South African Genetics Society’s(SAGS) Postgraduate Award for Best Published Paper in the categories for Population & Evolutionary Genetics, and Functional & Developmental Genetics, respectively.

Ms Winn for her paper, “A comprehensive phylogenomic study unveils evolutionary patterns and challenges in the mitochondrial genomes of Carcharhiniformes: A focus on Triakidae” published in the journal Genomics this year; and Dr Hull for his work entitled, “Gene expression differentials driven by mass rearing and artificial selection in black soldier fly colonies”, published in the journal Insect Molecular Biology last year.

The awards where formally presented at the gala dinner of the joint conference of the South African Genetics Society and the South African Society for Bioinformatics (SASBi), Bio2024, hosted by the University of Pretoria (23-25 September 2024).

The SAGS Postgraduate Awards entails a cash prize, free conference registrations, and the prestigious Hofmeyr-Van Schaick Medal (Bronze). Prof. Clint Rhode was also re-elected, for a second term in office, as the President of the SAGS at the society’s general meeting, also held during the conference.

The Agrication Programme (Pilot)

The Agrication Programme was piloted in 2023 as a programme exposing learners to agricultural research environments and technologies. Two agricultural research environments hosted 125 learners over four practical demonstrations which linked curriculum topics teachers from participating schools were struggling with (figure 1). A Community of Practice for Agricultural Educators was also initiated as an evaluator platform for relevant learner and teacher development programmes (figure 2).

Figure 1: From left to right: Agricultural Sciences and Agricultural Management Practices learners from Kayamandi High School undergoing a practical demonstration on soil properties and greenhouse production (hosted by the Department of Agronomy, HortiDemo Centre); Kayamandi High School Agricultural Sciences learners exposed to a tissue culture demonstration; Soneike High School participating in a tissue culture demonstration. All tissue culture demonstrations were hosted at the Institute for Plant Biotechnology and facilitated through the Plant Growth Promoting Substances Research Group led by Dr Paul Hills.

Figure 2: The initiated Community of Practice of Agricultural Educators. From left to right SU Collaborative workshop facilitators (Mhlengi Khambule, Dr. Estelle Kempen, Ms. Olianda Zhuwawo) and agricultural sciences educators, Ms. Akhtari Abbas, Ms. Sinako Matshoba, Mr. Sinethemba Mdlambuzi from Soneike , Kwamfundo and Iqhayiya High Schools. Picture by Mr. Cobus Rabe (Longacres
High School).

A. Sustainable Agriculture mini-lecture
Four mini lectures were presented to a total of 120 grade 11 students from Kayamandi High School and Soneike High School. The presentations were used to introduce demonstrations (Objective B and C) hosted by the Institute for Plant Biotechnology (tissue culture programme) and the Department of Agronomy (soil and crop management) respectively. Learners were varyingly engaged in the minilecture, some stating that they had covered some of the topics in class while others were seemingly more interested in engaging with the practical elements to follow. A suggestion was to have the minilecture recorded and shared with the teachers and learners beforehand, in so doing using this as a
preparatory tool as well as allow for more time for the demonstrations.

B. Tissue culture programme
The institute for Plant Biotechnology hosted grade 11s from Kayamandi High School and Soneike High School for tissue culture demonstrations on the 28th July and 25th August 2023 respectively. An article descriptively reported on the demonstrations and can be found here. Two out of the three intended schools were able to attend. We were unable to confirm a date with Somerset College despite numerous attempts. A third school will however be hosted, depending on progress made on the other objectives.

C. Industry exposure sessions
The department of Agronomy hosted two grade 11 cohorts from Kayamandi High School in December 2022 and 26th May 2023 respectively. The HortiDemo Centre was the primary demonstration site following the mini-lecture presented in the AgroHub. An article descriptively reported on the exposure sessions and demonstrations. The article can be found here. The latest demonstration also showcased the DIVAGRI solar desalination greenhouse demo unit. Prospects for on-farm exposure visits to DIVAGRI participating farms around Stellenbosch are currently being discussed.

D. Parent and teacher inquiry workshops
A collaborative workshop was held at the AgroHub in October 2023. Teachers from 7 High Schools in the Western Cape participated in the workshop. The workshop sought to identify challenges faced by the teachers in the delivery of the Agricultural Sciences subject, and how our programme can best support them. The teachers identified several challenges and collaborative support approaches. An
outcome was the initiation of the Community of Practice (CoP) for Agricultural Educators (currently hosted on WhatsApp) which will serve as a useful knowledge and perspective-sharing platform as well as a school-based programme critique. The CoP will also serve as an ideal platform to identify teacher training needs. It was difficult to attain parent perspectives, teachers however recommended using Grade 9 subject selection meetings to interact with parents on this topic.

E. Community of Practice in Sustainable Development Policy
The initiation of the senior and postgraduate student focused Community of Practice (CoP) was challenged by the graduation of the early adopting students. However, students from the Department of Agronomy and Institute for Plant Biotechnology showed interest in getting involved, particularly in the demonstrations and exposure sessions. Developing terms of reference for the different CoP working groups is currently under way, we hope to use these as part of a call to students to join. This way interested students are aware of what to expect beforehand. Progress has also been made with collaborating with the Education Faculty, with two senior staff from different departments and a
student teacher society interested to getting involved.