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Microbiology publishes in high-impact journals

13 March 2020 | Story Leonie Bolleurs | Photo Leonie Bolleurs

Team from the UFS Microbiology department — From the Department of Microbiology and Biochemistry, were from the left, front: Dr Mariana Erasmus, Prof Martie Smit, Samantha McCarlie; back: Dr Carmien Tolmie; Samantha McCarlie, Prof Dirk Opperman, and Prof Robert Bragg. They believe publishing in high-impact factor journals reflects the quality of research delivered by the department.

Researchers in the Department of Microbial, Biochemical and Food Biotechnology at the University of the Free State (UFS) published their work in four impact factor eleven journals in 2019/2020, and a fifth was accepted for publication in a journal with impact factor twelve in 2020.

Two articles were published in Nature Communications, one in Drug Resistance Updates and one in Natural Product Reports. A fifth article is already available as an accepted article at Angewandte Chemie. Researchers in the department work on very diverse topics, as reflected in the titles of these articles: ‘A chemo-enzymatic oxidation cascade to activate C–H bonds with in situ generated H2O2’; ‘Native roles of Baeyer–Villiger monooxygenases in the microbial metabolism of natural compounds’; ‘The genome of a subterrestrial nematode reveals adaptations to heat’; ‘Molecular basis of bacterial disinfectant resistance’; and ‘CYP505E3 – a novel self‐sufficient ω‐7 in‐chain hydroxylase’.

Publishing in journals with a high impact factor is quite an achievement. Publishing in a journal with an impact factor of 3 is considered good and in most fields of study, publishing in journals with an impact factor of 10 or more is regarded as excellent. Impact factors are used to measure the importance of a journal by counting the number of times articles were cited in a certain time period.

According to Prof Martie Smit, Head of the department, this is a reflection of the quality of research delivered by the department. “It is difficult and takes a lot of time and resources to publish in such high-impact journals.”

Contributing to their success in the department, is the work of their collaborators as well as the quality international postdoctoral researchers the department manages to attract with their emphasis on quality research.

Another highlight in the publication of these articles was that members of the department were corresponding authors of four of the five articles – meaning that the research was conducted in and driven from their laboratories, with UFS researchers taking primary responsibility for the preparation of the manuscripts and communicating with the editors of the journals.

Impacting society

Besides publishing in journals with high impact factors, these researchers are also making a difference to society. Prof Robert Bragg contributed to the study focusing on quality disinfectants.

We are all aware of the danger of developing resistance to antibiotics. According to Prof Bragg, it is estimated that by 2050, 25 million people could be dying from antibiotic resistance-related bacterial infections per year. He says one of the best options to control diseases – not only bacterial diseases, but also viral diseases such as the Covid-19 outbreak – is good biosecurity and the use of good-quality disinfectants.

Researchers working on this study are trying to understand the development of resistance in bacteria to disinfectants. “This research group is currently investigating the ways in which bacteria become resistant to different high-quality disinfectants. The aim of this work is to discover new methods of resistance and then try to prevent bacteria from becoming resistant to commonly used disinfectants. One of the first aspects that needs investigation is to understand the methods of transfer of genetic information between bacteria. This work formed the basis of the review article written with master’s student Samantha McCarlie on transfer of genes that could code for disinfectant resistance in bacteria,” says Prof Bragg.

Studies about a nematode species discovered 1,3 km deep in a gold mine in Welkom and its ability to survive in extreme environments, made headlines about nine years ago. More extensive research has been performed on deep-space exploration of nematodes surviving extreme environments and were published in Nature Communications. Dr Mariana Erasmus, Assistant Director in the department and Technology Innovation Agency/UFS Saense Platform manager, says the study published in 2019 reveals these nematodes’ adaptation to heat and heat tolerance in an unusual ecosystem isolated from the surface biosphere. More studies on this can help humans learn how to adapt to a warming climate.

TIA is an agency of the Department of Science and Innovation.

Three of the articles are from the Biocatalysis and Structural Biology group of Prof Dirk Opperman, Prof Martie Smit, and Dr Carmien Tolmie. Biocatalysis is a form of green chemistry that aims to produce chemicals in an environmentally friendly and sustainable manner. The research of the group focuses on using enzymes (proteins performing specialised chemical reactions) to insert an oxygen atom at a specific position in a starting material. Such reactions are difficult to perform using purely organic chemistry.

The end products are value-added compounds of interest to, among others, the flavour and fragrance industry, which place a high premium on natural products. The work on the novel in‐chain hydroxylase was also patented internationally, because it can be used for the synthesis of a valuable flavour compound.

More to come

Besides the commitment of the team in Microbiology, it took multiple institutions, dedicated postdoctoral students, as well as time and money to publish this number of articles in high-impact journals in just over a year. With its 100-plus researchers varying from student researchers to NRF-rated scientists, everyone in the Department of Microbial, Biochemical and Food Biotechnology strives to produce high-quality research.

And they promise, there is more to come. Watch this space …

News Archive

“To forgive is not an obligation. It’s a choice.” – Prof Minow during Reconciliation Lecture

2014-03-05

“To forgive is not an obligation. It’s a choice.” – Prof Minow during the Third Annual Reconciliation Lecture entitled Forgiveness, Law and Justice.
Photo: Johan Roux

No one could have anticipated the atmosphere in which Prof Martha Minow would visit the Bloemfontein Campus. And no one could have predicted how apt the timing of her message would be. As this formidable Dean of Harvard University’s Law School stepped behind the podium, a latent tension edged through the crowded audience.

“The issue of getting along after conflict is urgent.”

With these few words, Prof Minow exposed the essence of not only her lecture, but also the central concern of the entire university community.

As an expert on issues surrounding racial justice, Prof Minow has worked across the globe in post-conflict societies. How can we prevent atrocities from happening? she asked. Her answer was an honest, “I don’t know.” What she is certain of, on the other hand, is that the usual practice of either silence or retribution does not work. “I think that silence produces rage – understandably – and retribution produces the cycle of violence. Rather than ignoring what happens, rather than retribution, it would be good to reach for something more.” This is where reconciliation comes in.

Prof Minow put forward the idea that forgiveness should accompany reconciliation efforts. She defined forgiveness as a conscious, deliberate decision to forego rightful grounds of resentment towards those who have committed a wrong. “To forgive then, in this definition, is not an obligation. It’s a choice. And it’s held by the one who was harmed,” she explained.

Letting go of resentment cannot be forced – not even by the law. What the law can do, though, is either to encourage or discourage forgiveness. Prof Minow showed how the law can construct adversarial processes that render forgiveness less likely, when indeed its intention was the opposite. “Or, law can give people chances to meet together in spaces where they may apologise and they may forgive,” she continued. This point introduced some surprising revelations about our Truth and Reconciliation Commission (TRC).

Indeed, studies do report ambivalence, disappointment and mixed views about the TRC. Whatever our views are on its success, Prof Minow reported that people across the world wonder how South African did it. “It may not work entirely inside the country; outside the country it’s had a huge effect. It’s a touchstone for transitional justice.”

The TRC “seems to have coincided with, and maybe contributed to, the relatively peaceful political transition to democracy that is, frankly, an absolute miracle.” What came as a surprise to many is this: the fact that the TRC has affected transitional justice efforts in forty jurisdictions, including Rwanda, Sierra Leone, Cambodia and Liberia. It has even inspired the creation of a TRC in Greensborough, North Carolina, in the United States.

There are no blueprints for solving conflict, though. “But the possibility of something other than criminal trials, something other than war, something other than silence – that’s why the TRC, I think, has been such an exemplar to the world,” she commended.

Court decision cannot rebuild a society, though. Only individuals can forgive. Only individuals can start with purposeful, daily decisions to forgive and forge a common future. Forgiveness is rather like kindness, she suggested. It’s a resource without limits. It’s not scarce like water or money. It’s within our reach. But if it’s forced, it’s not forgiveness.

“It is good,” Prof Minow warned, “to be cautious about the use of law to deliberately shape or manipulate the feelings of any individual. But it is no less important to admit that law does affect human beings, not just in its results, but in its process.” And then we must take responsibility for how we use that law.

“A government can judge, but only people can forgive.” As Prof Minow’s words lingered, the air suddenly seemed a bit more buoyant.

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