Browsing Research Articles (Biochemistry) by Title

Browsing Research Articles (Biochemistry) by Title

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  • Reconsideration of species boundaries and proposed DNA barcodes for Calonectria 
    Liu, QianLi; Li, JieQiong; Wingfield, Michael J.; Duong, Tuan A.; Wingfield, Brenda D.; Crous, Pedro W.; Chen, S.F. (Fungal Biodiversity Centre (CBS), 2020-09)
    Calonectria represents a genus of phytopathogenic ascomycetous fungi with a worldwide distribution. In recent years, there has been an increase in the number of taxonomic studies on these fungi. Currently, there are 169 ...
  • Redefining species limits in the Fusarium fujikuroi species complex 
    Yilmaz, Neriman; Sandoval-Denis, Marcelo; Lombard, L.; Visagie, Cobus M.; Wingfield, Brenda D.; Crous, Pedro W. (Naturalis Biodiversity Center, 2021-06)
    The Fusarium fujikuroi species complex (FFSC) includes more than 60 phylogenetic species (phylospecies) with both phytopathological and clinical importance. Because of their economical relevance, a stable taxonomy and ...
  • Repeat-induced point mutations drive divergence between Fusarium circinatum and its close relatives 
    Van Wyk, Stephanie; Wingfield, Brenda D.; De Vos, Lieschen; Van der Merwe, Nicolaas Albertus (Albie); Santana, Quentin C.; Steenkamp, Emma Theodora (MDPI, 2019-12)
    The Repeat-Induced Point (RIP) mutation pathway is a fungal-specific genome defense mechanism that counteracts the deleterious effects of transposable elements. This pathway permanently mutates its target sequences by ...
  • Reproducible microbial community dynamics of two drinking water systems treating similar source waters 
    Potgieter, Sarah; Dai, Zihan; Havenga, Minette; Vosloo, Solize; Sigudu, Makhosazana; Pinto, Ameet; Venter, S.N. (Stephanus Nicolaas) (American Chemical Society, 2021-06)
    Understanding whether the spatiotemporal dynamics of the drinking water microbiome are reproducible in full-scale drinking water systems is an important step in devising engineering strategies for effectively managing and ...
  • Research in COVID-19 times : the way forward 
    Pepper, Michael Sean; Burton, Stephanie G. (Health and Medical Publishing Group, 2020-08)
    The COVID-19 pandemic has had a major impact on research at universities. Universities around the world, including in South Africa, have been or are still closed as part of national lockdown strategies. Students have not ...
  • A reservoir of ‘historical’ antibiotic resistance genes in remote pristine Antarctic soils 
    Van Goethem, Marc W.; Pierneef, Rian Ewald; Bezuidt, Keoagile Ignatius Oliver; Van de Peer, Yves; Cowan, Don A.; Makhalanyane, Thulani P. (BioMed Central, 2018-02-23)
    BACKGROUND : Soil bacteria naturally produce antibiotics as a competitive mechanism, with a concomitant evolution, and exchange by horizontal gene transfer, of a range of antibiotic resistance mechanisms. Surveys of ...
  • Residual effects caused by a past mycovirus Infection in Fusarium circinatum 
    Zamora-Ballesteros, Cristina; Wingfield, Brenda D.; Wingfield, Michael J.; Martin-Garcia, Jorge; Diez, Julio J. (MDPI, 2021-01)
    Mycoviruses are known to be difficult to cure in fungi but their spontaneous loss occurs commonly. The unexpected disappearance of mycoviruses can be explained by diverse reasons, from methodological procedures to ...
  • Resistance related metabolic pathways for drug target identification in mycobacterium tuberculosis 
    Cloete, Ruben; Oppon, Ekow; Murungi, Edwin; Schubert, Wolf-Dieter; Christoffels, Alan (BioMed Central, 2016-02-08)
    BACKGROUND : Increasing resistance to anti-tuberculosis drugs has driven the need for developing new drugs. Resources such as the tropical disease research (TDR) target database and AssessDrugTarget can help to ...
  • Resistance sniffer : an online tool for prediction of drug resistance patterns of Mycobacterium tuberculosis isolates using next generation sequencing data 
    Muzondiwa, Dillon; Mutshembele, Awelani; Pierneef, Rian Ewald; Reva, Oleg N. (Elsevier, 2020-02)
    The effective control of multidrug resistant tuberculosis (MDR-TB) relies upon the timely diagnosis and correct treatment of all tuberculosis cases. Whole genome sequencing (WGS) has great potential as a method for ...
  • Resisting resistance : is there a solution for malaria? 
    Verlinden, Bianca K.; Louw, Abraham Izak; Birkholtz, Lyn-Marie (Taylor and Francis, 2016-02)
    INTRODUCTION : Currently, widely used antimalarial drugs have a limited clinical lifespan due to parasite resistance development. With resistance continuously rising, antimalarial drug discovery requires strategies to ...
  • Reverse transcription recombinase polymerase amplification assay for rapid detection of canine associated rabies virus in Africa 
    Coertse, Jessica; Weyer, Jacqueline; Nel, Louis Hendrik; Markotter, Wanda (Public Library of Science, 2019-07)
    Rabies is a neglected disease mostly affecting the developing world. Accurate and reliable diagnostic and surveillance data forms the foundation for the formulation and monitoring of control strategies. Although various ...
  • Revisiting the phenomenon of cellulase action : not all endo-and exo-cellulase interactions are synergistic 
    Thoresen, Mariska; Malgas, Samkelo; Mafa, Mpho Stephen; Pletschke, Brett Ivan (MDPI, 2021-01)
    The conventional endo–exo synergism model has extensively been supported in literature, which is based on the perception that endoglucanases (EGs) expose or create accessible sites on the cellulose chain to facilitate ...
  • Rhizosheath microbial community assembly of sympatric desert speargrasses is independent of the plant host 
    Marasco, Ramona; Mosqueira, María J.; Fusi, Marco; Ramond, Jean-Baptiste; Merlino, Giuseppe; Maggs-Kölling, Gillian; Booth, Jenny M.; Cowan, Don A.; Daffonchio, Daniele (BMC, 2018-12)
    Background The rhizosheath-root system is an adaptive trait of sandy-desert speargrasses in response to unfavourable moisture and nutritional conditions. Under the deserts’ polyextreme conditions, plants interact with ...
  • The RIPper, a web-based tool for genome-wide quantification of repeat-induced point (RIP) mutations 
    Van Wyk, Stephanie; Harrison, Christopher H.; Wingfield, Brenda D.; De Vos, Lieschen; Van der Merwe, Nicolaas Albertus (Albie); Steenkamp, Emma Theodora (PeerJ, 2019-08)
    BACKGROUND. The RIPper (http://theripper.hawk.rocks) is a set of web-based tools designed for analyses of Repeat-Induced Point (RIP) mutations in the genome sequences of Ascomycota. The RIP pathway is a fungal genome ...
  • Roadmap for naming uncultivated Archaea and Bacteria 
    Murray, Alison E.; Freudenstein, John; Gribaldo, Simonetta; Hatzenpichler, Roland; Hugenholtz, Philip; Kampfer, Peter; Konstantinidis, Konstantinos T.; Lane, Christopher E.; Papke, R. Thane; Parks, Donovan H.; Rossello-Mora, Ramon; Stott, Matthew B.; Sutcliffe, Iain C.; Thrash, J. Cameron; Venter, S.N. (Stephanus Nicolaas); Whitman, William B.; Acinas, Silvia G.; Amann, Rudolf I.; Anantharaman, Karthik; Armengaud, Jean; Baker, Brett J.; Barco, Roman A.; Bode, Helge B.; Boyd, Eric S.; Brady, Carrie Louise; Carini, Paul; Chain, Patrick S.G.; Colman, Daniel R.; DeAngelis, Kristen M.; De los Rios, Maria Asuncion; Estrada-de los Santos, Paulina; Dunlap, Christopher A.; Eisen, Jonathan A.; Emerson, David; Ettema, Thijs J.G.; Eveillard, Damien; Girguis, Peter R.; Hentschel, Ute; Hollibaugh, James T.; Hug, Laura A.; Inskeep, William P.; Ivanova, Elena P.; Klenk, Hans-Peter; Li, Wen-Jun; Lloyd, Karen G.; Loffler, Frank E.; Makhalanyane, Thulani P.; Moser, Duane P.; Nunoura, Takuro; Palmer, Marike; Parro, Victor; Pedrós-Alio, Carlos; Probst, Alexander J.; Smits, Theo H.M.; Steen, Andrew D.; Steenkamp, Emma Theodora; Spang, Anja; Stewart, Frank J.; Tiedje, James M.; Vandamme, Peter; Wagner, Michael; Wang, Feng-Ping; Yarza, Pablo; Hedlund, Brian P.; Reysenbach, Anna-Louise (Nature Research, 2020-06-08)
    The assembly of single-amplified genomes (SAGs) and metagenome-assembled genomes (MAGs) has led to a surge in genome-based discoveries of members affiliated with Archaea and Bacteria, bringing with it a need to develop ...
  • Robust forensic matching of confiscated horns to individual poached African rhinoceros 
    Harper, Cindy Kim; Ludwig, Anette; Clarke, Amy B.; Makgopela, Kagiso; Yurchenko, Andrey; Guthrie, Alan John; Dobrynin, Pavel; Tamazian, Gaik; Emslie, Richard; Van Heerden, Marile; Hofmeyr, Markus; Potter, Roderick; Roets, Johannes; Beytell, Piet; Otiende, Moses; Kariuki, Linus; Du Toit, Raoul; Anderson, Natasha; Okori, Joseph; Antonik, Alexey; Koepfli, Klaus-Peter; Thompson, P.N. (Peter N.); O’Brien, Stephen J. (Elsevier (Cell Press), 2018)
    Black and white rhinoceros (Diceros bicornis and Ceratotherium simum) are iconic African species that are classified by the International Union for the Conservation of Nature (IUCN) as Critically Endangered and ...
  • The role of aDNA in understanding the coevolutionary patterns of human sexually transmitted infections 
    Pimenoff, Ville N.; Houldcroft, Charlotte J.; Rifkin, Riaan F.; Underdown, Simon (MDPI, 2018-07)
    Analysis of pathogen genome data sequenced from clinical and historical samples has made it possible to perform phylogenetic analyses of sexually transmitted infections on a global scale, and to estimate the diversity, ...
  • Role of the horizontal gene exchange in evolution of pathogenic Mycobacteria 
    Reva, Oleg N.; Korotetskiy, Ilya S.; Ilin, A. (BioMed Central, 2015-02)
    BACKGROUND : Mycobacterium tuberculosis is one of the most dangerous human pathogens, the causative agent of tuberculosis. While this pathogen is considered as extremely clonal and resistant to horizontal gene exchange, there ...
  • Roles of plant volatiles in defence against microbial pathogens and microbial exploitation of volatiles 
    Hammerbacher, Almuth; Coutinho, Teresa A.; Gershenzon, Jonathan (Wiley, 2019-10)
    Plants emit a large variety of volatile organic compounds during infection by pathogenic microbes, including terpenes, aromatics, nitrogen‐containing compounds, and fatty acid derivatives, as well as the volatile plant ...
  • Rosellinia necatrix infection induces differential gene expression between tolerant and susceptible avocado rootstocks 
    Zumaquero, Adela; Martınez-Ferri, Elsa; Matas, Antonio J.; Reeksting, Bianca J.; Olivier, Nicholas Abraham; Pliego-Alfaro, Fernando; Barcelo, Araceli; Van den Berg, Noelani (Public Library of Science, 2019-02)
    Rosellinia necatrix is the causal agent of avocado white root rot (WRR). Control of this soilborne disease is difficult, and the use of tolerant rootstocks may present an effective method to lessen its impact. To date, ...