Research Articles (Forestry and Agricultural Biotechnology Institute (FABI))

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Advancements in Spongospora subterranea : current knowledge, management strategies, and research gaps
(Springer, 2024-12) Strydom, R.F.; Wilson, C.R.; Tegg, R.S.; Balendres, M.A.; Van der Waals, Jacqueline Elise
Powdery scab was first documented on locally sampled potatoes in Braunschweig, Germany. A hundred and eighty-one years later, the disease has spread globally to most potato-producing regions and is considered one of the most destructive potato diseases. Here, we review the knowledge of powdery scab and causative agent, Spongospora subterranea f. sp. subterranea, highlighting research progress made in the last 7 years. Much work has been done to increase our understanding of how zoospores respond to their environment (e.g. root exudates, Ca2C signalling, and root metabolites) and the management of the disease by chemical and biological control agents. Recent research has utilised omics approaches — metabolomics, proteomics, and genomics — to gain a deeper understanding of the host–pathogen interaction in the powdery scab pathosystem. The management of powdery scab can be achieved using a combination of strategies that include (1) the planting of resistant potato varieties, (2) strategies that avoid disease (field selection and planting date), those that (3) reduce initial soil inoculum (crop rotation, organic soil amendments, and soil fumigation), and (4) in-crop approaches (soil chemical applications, biological control, proper field, fertility, crop, irrigation management, and crop sanitation). Lastly, we discuss research gaps for future research, including the disease’s interaction with other potato diseases that may be impacting disease expression and opportunities to enable a greater understanding of the powdery scab pathosystem.
Development of a molecular genetics and cell biology toolbox for the filamentous fungus Diplodia sapinea
(Public Library of Science, 2024-12-27) Oostlander, Anne Geertje; Brodde, Laura; Von Bargen, Miriam; Slippers, Bernard; Becker, Yvonne; Brandt, Ulrike; Klawonn, Frank; Grobler, Christiaan; Well, Lucas; Stenlid, Jan; Oliva, Jonas; Elfstrand, Malin; Fleissner, Andre
Diplodia sapinea (Fr.) Fuckel is a widespread fungal pathogen affecting conifers worldwide. Infections can lead to severe symptoms, such as shoot blight, canker, tree death, or blue stain in harvested wood, especially in Pinus species. Its impact on forest health is currently intensified, likely due to climate change, posing an increasing threat to global ecosystems and forestry. Despite extensive and successful research on this pathogen system, fundamental questions about its biology and plant-associated lifestyle remain unanswered. Addressing these questions will necessitate the development of additional experimental tools, including protocols for molecular genetics and cell biology approaches. In this study, we continue to address this need by establishing an Agrobacterium-mediated genetic transformation protocol for D. sapinea, enabling targeted mutagenesis and heterologous gene expression. We utilized this methodology to localize the histone H2B by tagging it with the fluorescent protein mCherry. Additionally, we established a time- and space-efficient laboratory-scale infection assay using two-week-old Pinus sylvestris seedlings. Integrating these tools in a proof-of-concept study enabled the visualization of D. sapinea in planta growth through the fluorescently labeled reporter strain.
Ecosystems managed for wildlife and livestock : contrasting herbivore impacts in a heavily grazed African savanna
(Elsevier, 2024-12) Voysey, Michael D.; Archibald, Sally; Harris, Mathew Andrew; Hempson, Gareth P.; Greve, Michelle
Replacement of diverse wild herbivore assemblages by livestock across expansive regions of African savanna grassland is predicted to modify tree-grass interactions. Yet, despite the ubiquity of this herbivore regime change, consequences of shifting from wildlife to livestock for savanna ecosystems are poorly resolved. We assessed the effects of livestock grazing on the herbaceous community of a nutrient rich, semi-arid savanna. Direct and indirect impacts - moderated via differences in tree cover - of intensive cattle grazing in communal rangelands, on the herbaceous community were contrasted with heavily utilized wild herbivore grazing systems. Communal rangelands showed a more than two-fold increase in woody cover compared to wildlife areas. Herbaceous differences between wildlife and livestock areas were driven primarily by changes in the area beneath trees, and differences in how densely wooded areas are used by wildlife and livestock. In wildlife systems, grazing intensity was much lower below than away from tree canopies, whereas in livestock systems grazing intensity was high irrespective of tree canopy presence. Away from trees, structure and functional traits of herbaceous vegetation were markedly similar between the two herbivory systems. In our study area, communal rangelands used by livestock, predominantly cattle, are not a degraded subset of wildlife areas but support near equivalent diversity, although with different grass and forb species, and warrants consideration when evaluating their contribution to biodiversity conservation in the region. Nonetheless, higher bare ground cover and the lack of tall-grass reserves mean that communally managed rangelands with low grazer diversity might be more sensitive to intra- and inter-annual climate variability since they are associated with lower forage variability.
Bacterial Isolation from natural grassland on nitrogen-free agar yields many strains without nitrogenase
(MDPI, 2025-01) Koirala, Amrit; Alshibli, Nabilah Ali; Das, Bikram K.; Brözel, Volker Siegfried
Nitrogen inputs for sustainable crop production for a growing population require the enhancement of biological nitrogen fixation. Efforts to increase biological nitrogen fixation include bioprospecting for more effective nitrogen-fixing bacteria. As bacterial nitrogenases are extremely sensitive to oxygen, most primary isolation methods rely on the use of semisolid agar or broth to limit oxygen exposure. Without physical separation, only the most competitive strains are obtained. The distance between strains provided by plating on solid media in reduced oxygen environments has been found to increase the diversity of culturable potential diazotrophic bacteria. To obtain diverse nitrogen-fixing isolates from natural grasslands, we plated soil suspensions from 27 samples onto solid nitrogen-free agar and incubated them under atmospheric and oxygen-reducing conditions. Putative nitrogen fixers were confirmed by subculturing in liquid nitrogen-free media and PCR amplification of the nifH genes. Streaking of the 432 isolates on nitrogen-rich R2A revealed many cocultures. In most cases, only one community member then grew on NFA, indicating the coexistence of nonfixers in coculture with fixers when growing under nitrogen-limited conditions. To exclude isolates able to scavenge residual nitrogen, such as that from vitamins, we used a stringent nitrogen-free medium containing only 6.42 μmol/L total nitrogen and recultured them in a nitrogen-depleted atmosphere. Surprisingly, PCR amplification of nifH using various primer pairs yielded amplicons from only 17% of the 442 isolates. The majority of the nifH PCR-negative isolates were Bacillus and Streptomyces. It is unclear whether these isolates have highly effective uptake systems or nitrogen reduction systems that are not closely aligned with known nitrogenase families. We advise caution in determining the nitrogen fixation ability of plants from growth on nitrogen-free media, even where the total nitrogen is very limited.
Effects of exogenous application of methyl jasmonate and salicylic acid on the physiological and molecular response of ‘Dusa’ avocado to Rosellinia necatrix
(American Phytopathological Society, 2024-07) Moreno-Pérez, Ana; Martínez-Ferri, Elsa; Van den Berg, Noelani; Pliego, Clara
Methyl jasmonate (MeJA) and salicylic acid (SA) are important in mediating plant responses to abiotic and biotic stresses. MeJA and SA can act as elicitors by triggering plant defense responses similar to those induced by pathogens and may even provide long-term protection against them. Thus, exogenous application of MeJA and SA could protect susceptible avocado plants against white root rot (WRR) disease caused by the necrotrophic fungus Rosellinia necatrix, one of the main diseases affecting avocado orchards. This work evaluates the effects of MeJA or SA on the physiological and molecular response of susceptible ‘Dusa’ avocado rootstock and their ability to provide some protection against WRR. The application of MeJA and SA in avocado increased photoprotective mechanisms (nonphotochemical chlorophyll fluorescence quenching) and upregulated the glutathione S-transferase, suggesting the triggering of mechanisms closely related to oxidative stress relief and reactive oxygen species scavenging. In contrast to SA, MeJA’s effects were more pronounced at the morphoanatomical level, including functional traits such as high leaf mass area, high stomatal density, and high root/shoot ratio, closely related to strategies to cope with water scarcity and WRR disease. Moreover, MeJA upregulated a greater number of defense-related genes than SA, including a glu protease inhibitor, a key gene in avocado defense against R. necatrix. The overall effects of MeJA increased ‘Dusa’ avocado tolerance to R. necatrix by inducing a primed state that delayed WRR disease symptoms. These findings point toward the use of MeJA application as an environmentally friendly strategy to mitigate the impact of this disease on susceptible avocado orchards.
Plasmids encode and can mobilize onion pathogenicity in Pantoea agglomerans
(Oxford University Press, 2025-03) Shin, Gi Yoon; Asselin, Jo Ann; Smith, Amy; Aegerter, Brenna; Coutinho, Teresa A.; Zhao, Mei; Dutta, Bhabesh; Mazzone, Jennie; Neupane, Ram; Gugino, Beth; Hoepting, Christy; Khanal, Manzeal; Malla, Subas; Nischwitz, Claudia; Sidhu, Jaspreet; Burke, Antoinette Machado; Davey, Jane; Uchanski, Mark; Derie, Michael L.; Du Toit, Lindsey J.; Stresow-Cortez, Stephen; Bonasera, Jean M.; Stodghill, Paul; Kvitko, Brian
Pantoea agglomerans is one of four Pantoea species reported in the USA to cause bacterial rot of onion bulbs. However, not all P. agglomerans strains are pathogenic to onion. We characterized onion-associated strains of P. agglomerans to elucidate the genetic and genomic signatures of onion-pathogenic P. agglomerans. We collected >300 P. agglomerans strains associated with symptomatic onion plants and bulbs from public culture collections, research laboratories, and a multi-year survey in 11 states in the USA. Combining the 87 genome assemblies with 100 high-quality, public P. agglomerans genome assemblies we identified two well-supported P. agglomerans phylogroups. Strains causing severe symptoms on onion were only identified in Phylogroup II and encoded the HiVir pantaphos biosynthetic cluster, supporting the role of HiVir as a pathogenicity factor. The P. agglomerans HiVir cluster was encoded in two distinct plasmid contexts: (i) as an accessory gene cluster on a conserved P. agglomerans plasmid (pAggl), or (ii) on a mosaic cluster of plasmids common among onion strains (pOnion). Analysis of closed genomes revealed that the pOnion plasmids harbored alt genes conferring tolerance to Allium thiosulfinate defensive chemistry and many harbored cop genes conferring resistance to copper. We demonstrated that the pOnion plasmid pCB1C can act as a natively mobilizable pathogenicity plasmid that transforms P. agglomerans Phylogroup I strains, including environmental strains, into virulent pathogens of onion. This work indicates a central role for plasmids and plasmid ecology in mediating P. agglomerans interactions with onion plants, with potential implications for onion bacterial disease management.
Self-growth suppression in Bradyrhizobium diazoefficiens is caused by a diffusible antagonist
(Oxford University Press, 2025-03) Sandhu, Armaan Kaur; Fischer, Brady R.; Subramanian, Senthil; Hoppe, Adam D.; Brözel, Volker Siegfried
Microbes in soil navigate interactions by recognizing kin, forming social groups, exhibiting antagonistic behavior, and engaging in competitive kin rivalry. Here, we investigated a novel phenomenon of self-growth suppression (sibling rivalry) observed in Bradyrhizobium diazoefficiens USDA 110. Swimming colonies of USDA 110 developed a distinct demarcation line and inter-colony zone when inoculated adjacent to each other. In addition to self, USDA 110 suppressed growth of other Bradyrhizobium strains and several other soil bacteria. We demonstrated that the phenomenon of sibling rivalry is due to growth suppression but not cell death. The cells in the inter-colony zone were culturable but had reduced respiratory activity, ATP levels, and motility. The observed growth suppression was due to the presence of a diffusible effector compound. This effector was labile, preventing extraction, and identification, but it is unlikely a protein or a strong acid or base. This counterintuitive phenomenon of self-growth suppression suggests a strategic adaptation for conserving energy and resources in competitive soil environments. Bradyrhizobium’s utilization of antagonism including self-growth suppression likely provides a competitive advantage for long-term success in soil ecosystems.
Bradyrhizobium diazoefficiens cultures display phenotypic heterogeneity
(Oxford University Press, 2025-03) Sarao, Sukhvir K.; Sandhu, Armaan K.; Hanson, Ryan L.; Govil, Tanvi; Brözel, Volker Siegfried
Bacteria growing in liquid culture are assumed to be homogenous in phenotype. Characterization of individual cells shows that some clonal cultures contain more than one phenotype. Bacteria appear to employ bet hedging where various phenotypes help the species survive in diverse niches in soil and rhizosphere environments. We asked whether the agriculturally significant bacterium Bradyrhizobium diazoefficiens USDA 110, which fixes nitrogen with soybean plants, displays phenotypic heterogeneity when grown under laboratory conditions. We observed differential binding of sugar-specific lectins in isogenic populations, revealing differential surface properties. We employed Percoll™ density gradient centrifugation to separate clonal populations of exponential and stationary phase B. diazoefficiens into four fractions and characterized their phenotype by proteomics. Specific phenotypes were then characterized in detail. Fractions varied by cell size, polyhydroxyalkanoate content, lectin binding profile, growth rate, cellular adenosine triphosphate, chemotaxis, and respiration activity. Phenotypes were not heritable because the specific buoyant densities of fractions equilibrated within 10 generations. We propose that heterogeneity helps slow growing B. diazoefficiens proliferate and maintain populations in the different environments in soil and the rhizosphere.
IMA GENOME-F20 a draft genome assembly of Agroathelia rolfsii, Ceratobasidium papillatum, Pyrenopeziza brassicae, Neopestalotiopsis macadamiae, Sphaerellopsis filum and genomic resources for Colletotrichum spaethianum and Colletotrichum fructicola
(Pensoft Publishers, 2025-02) D’Angelo, Davide; Sorrentino, Roberto; Nkomo, Tiphany; Zhou, Xianzhi; Vaghefi, Niloofar; Sonnekus, Byron; Bose, Tanay; Cerrato, Domenico; Cozzolino, Loredana; Creux, Nicky; D'Agostino, Nunzio; Fourie, Gerda; Fusco, Giovanna; Hammerbacher, Almuth; Idnurm, Alexander; Kiss, Levente; Hu, Yanping; Hu, Hongli; Lahoz, Ernesto; Risteski, Jason; Steenkamp, Emma Theodora; Viscardi, Maurizio; Van der Nest, Magrieta Aletta; Wu, Yuan; Yu, Hao; Zhou, Jianjin; Dewage, Chinthani S. Karandeni; Kotta-Loizou, Loly I.; Stotz, Henrik U.; Fitt, Bruce D.L.; Huang, Yong-Ju; Wingfield, Brenda D.; brenda.wingfield@up.ac.za
Gene transfer between fungal species triggers repeated coffee wilt disease outbreaks
(Public Library of Science, 2024-12-06) Wingfield, Brenda D.; Wingfield, Michael J.; brenda.wingfield@fabi.up.ac.za
Two outbreaks of coffee wilt disease have devastated African coffee production. A PLOS Biology study suggests that horizontal gene transfer via large Starship transposons between 2 fungal species played a key role in the repeated emergence of the disease.
Chalaropsis pruni sp. nov. (Ceratocystidaceae), a new species from Prunus serrulata var. pubescens in South Korea
(Magnolia Press, 2024-11-12) Cho, Sung-Eun; Seo, Sang-tae; Nam, Youngwoo; Wingfield, Michael J.; Lee, Dong-hyeon
A routine survey in a natural forest located in the Gangwon Province of Korea was undertaken in 2022 to establish an inventory of potentially pathogenic fungi that might affect tree health in the country. An ophiostomatoid fungus was consistently isolated from naturally occurring wounds on Prunus serrulata var. pubescens. Isolates were subjected to morphological and DNA sequence comparisons. The results showed that the fungus resided in a distinct taxonomic lineage, and the novel species is described here as Chalaropsis pruni sp. nov.
Transgenerational cross-susceptibility to heat stress following cold and desiccation acclimation in the angoumois grain moth
(Wiley, 2024-12) Mpofu, Precious; Machekano, Honest; Airs, Paul M.; Nyamukondiwa, Casper
The Angoumois grain moth, Sitotroga cerealella (Olivier), is a significant cosmopolitan primary pest of cereals worldwide and has thrived in divergent environments. However, the mechanisms underlying its survival in multiple contrasting environments are poorly understood. Here, we hypothesised that when facing diverse environmental stress, F1 generation exhibits transgenerational cross-protection as a mechanism to persist under divergent stressful environments. Notably, F1 acclimation to cold or desiccation conditions could either enhance or lower heat tolerance in the F2 generation. Specifically, we tested whether typical diurnal fluctuations and/or winter rapid or chronic cold temperatures (18–22 C) as well as desiccation acclimation of F1 parental population yields transgenerational cross-protection/susceptibility to heat stress on F2 offspring. F1 moths were exposed to cold hardening (2 h), chronic (72 h) and variable (fluctuating between 18 and 22 C for 72 h) temperature treatment groups. Desiccation treatment included incubation at 0%–1% relative humidity (24 h). F2 generation moths were then assessed for heat tolerance using critical thermal maxima (CTmax) at three different ramping rates (0.06, 0.25 and 0.5 C/min) as well as heat knockdown time (HKDT). Findings indicated that (i) desiccation, cold hardening and chronic low-temperature acclimations in F1 reduced heat tolerance in F2 populations and (ii) ramping rate was crucial to decipher differences between treatment groups, with lower ramping rates associated with lower CTmax. Transgenerational cross-susceptibility to heat stress indicates possible fitness costs of exposure to multiple contrasting stressors in the Angoumois grain moth and can be used in designing physical pest management strategies.
Fine scale patterns and drivers of plant species richness on a sub-Antarctic island
(Wiley, 2025-03) Tsamba, Joshua; Le Roux, Peter Christiaan; Pertierra, Luis R.; Kuhlase, Bongekile Sinenhlanhla Nontokozo; Greve, Michelle
AIMS : Cold environments, such as polar systems, are highly vulnerable to global change drivers such as climate change and invasive species. Therefore, it is essential to assess what drives the diversity of native and invasive species in these systems. LOCATION : We investigated what drives native and alien plant species richness on sub-Antarctic Marion Island and determined the scale-dependence of these drivers. METHODS : Native and alien plant species richness was surveyed at “small” (1 m2) and “large” (9 m2) sampling grains. Difference in richness between the two sampling grains was calculated to assess how local turnover contributes to species assemblage. The factors driving richness at both grains, and the differences in richness between the two grains, were analysed using simultaneous auto-regressive models. Drivers related to energy and environmental heterogeneity were correlated with native richness, whilst drivers related to productivity were related to alien richness. RESULTS : Biotic interactions with a cushion plant facilitated native richness, but restricted alien richness at low elevations. Further, some drivers of richness depended on spatial grain. Native richness was positively related to northness at large, but not small grain size, suggesting that higher northness increases local turnover at a grain size > 1 m2. On the other hand, topographical wetness index (TWI) boosted native richness at small but not large grains, implying that competition for water limits coexistence at low TWI (i.e., low moisture availability) only at small grain. Differences in native species richness between large and small grain sizes were more pronounced at low elevations, suggesting higher compositional heterogeneity at low altitudes. CONCLUSIONS : Our study highlights that drivers of plant species richness in a polar ecosystem differ between native and alien plant species. Additionally, the effects of some drivers on richness differ between sampling grains, and considering these differences provides insight into drivers of local patterns of species assemblage.
Survey of farmers' knowledge of yam pests and diseases and management practices in southern Ethiopia
(Oxford University Press, 2024-11) Gogile, Ashebir; Kebede, Misrak; Wada, Eyasu; Kidanemariam, Dawit B.; Abraham, Adane
Yam is a widely consumed food in the tropics and subtropics. Determination of pests (pathogens and insects) and diseases (developed pest invasions and symptoms) and the appropriate management practices are critical in existing crop production systems. This study aimed to document farmers’ knowledge about yam pests and diseases and their management practices in southern Ethiopia. Data were collected from 342 systematically selected farmers and 96 yam fields in 5 major yam-growing zones (Dawuro, Gofa, Gamo, Kembata-Tembaro, and Wolaita) in southern Ethiopia using a semi-structured interview guide. The results showed that 54.1% of the farmers saved their planting materials for the next growing season, while 39.2% of the farmers purchased the planting materials from the local market every year. Most farmers (63.5%) reported that the cultivation of yam has been declining annually due to pests and diseases. White yam (Dioscorea rotundata) (Poir, Dioscoreales, Dioscoreaceae) and water yam (Dioscorea alata) are severely damaged by pests and diseases, as perceived by 33.9% and 24.9% of farmers, respectively. Farmers use healthy-looking pest- and disease-free tubers (39.5%), remove infected plants (24.0%), practice crop rotations (17.3%), and use animal manure (7.0%) to manage yam pests and diseases. Farmers’ knowledge can be a starting point for seeking solutions to yam pests and disease risks. This study could play an important role in improving yam cultivation by identifying strategies to improve the recent decline in yam production to meet future food needs for a rapidly growing population.
The ascorbate-glutathione cycle coming of age
(Oxford University Press, 2024-05-03) Foyer, Christine H.; Kunert, Karl J.
Concepts regarding the operation of the ascorbate–glutathione cycle and the associated water/water cycle in the processing of metabolically generated hydrogen peroxide and other forms of reactive oxygen species (ROS) are well established in the literature. However, our knowledge of the functions of these cycles and their component enzymes continues to grow and evolve. Recent insights include participation in the intrinsic environmental and developmental signalling pathways that regulate plant growth, development, and defence. In addition to ROS processing, the enzymes of the two cycles not only support the functions of ascorbate and glutathione, they also have ‘moonlighting’ functions. They are subject to post-translational modifications and have an extensive interactome, particularly with other signalling proteins. In this assessment of current knowledge, we highlight the central position of the ascorbate– glutathione cycle in the network of cellular redox systems that underpin the energy-sensitive communication within the different cellular compartments and integrate plant signalling pathways.
Polyandry contributes to Gonipterus platensis (Coleoptera: Curculionidae) rearing
(PeerJ Inc., 2024-08) Ribeiro, Murilo F.; Cavallini, Gabriela; Solce, Gabriel N.; Favoreto, Ana L.; De Souza Passos, José R.; Hurley, Brett Phillip; Wilcken, C.F.
BACKGROUND: Gonipterus platensis Marelli, 1926 (Coleoptera: Curculionidae) is one of the main defoliating beetles in Eucalyptus plantations. Biological control with egg parasitoids is one of the main control strategies for this pest and a constant supply of fresh host eggs is required to rear the parasitoids. Polyandry can influence Gonipterus oviposition by increasing female fecundity and fertility; however, the high density of individuals in laboratory colonies can lead to male harassment, resulting in lower reproduction rate. The aim of this study was to measure the effects of monoandry and polyandry on the reproduction of G. platensis and the effects of male harassment on laboratory rearing conditions. METHODS: Reproductive parameters were compared between three treatments: monoandry, where the female was allowed to mate daily with the same male; no choice polyandry, where the female was allowed to mate daily with a different male; and polyandry with choice, where the female was allowed to mate daily, but with a choice between five different males. Another experiment varying the density of males was conducted to evaluate the effect of male harassment. RESULTS: Polyandry with choice resulted in the longest period of oviposition, highest fecundity and highest number of eggs per egg capsules when compared to monoandrous females. No negative effect related to male harassment in the laboratory, such as decreased fertility, fecundity, or number of eggs per egg capsule, was detected. CONCLUSION: Polyandry contributes to mass rearing as it increases fecundity and oviposition period on females and there is no evidence of male harassment on G. platensis.
Chromosome-level assemblies for the pine pitch canker pathogen Fusarium circinatum
(MDPI, 2024-01) De Vos, Lieschen; Van der Nest, Magrieta Aletta; Santana, Quentin C.; Van Wyk, Stephanie; Leeuwendaal, Kyle; Wingfield, Brenda D.; Steenkamp, Emma Theodora; emma.steenkamp@fabi.up.ac.za
The pine pitch canker pathogen, Fusarium circinatum, is globally regarded as one of the most important threats to commercial pine-based forestry. Although genome sequences of this fungus are available, these remain highly fragmented or structurally ill-defined. Our overall goal was to provide high-quality assemblies for two notable strains of F. circinatum, and to characterize these in terms of coding content, repetitiveness and the position of telomeres and centromeres. For this purpose, we used Oxford Nanopore Technologies MinION long-read sequences, as well as Illumina short sequence reads. By leveraging the genomic synteny inherent to F. circinatum and its close relatives, these sequence reads were assembled to chromosome level, where contiguous sequences mostly spanned from telomere to telomere. Comparative analyses unveiled remarkable variability in the twelfth and smallest chromosome, which is known to be dispensable. It presented a striking length polymorphism, with one strain lacking substantial portions from the chromosome’s distal and proximal regions. These regions, characterized by a lower gene density, G+C content and an increased prevalence of repetitive elements, contrast starkly with the syntenic segments of the chromosome, as well as with the core chromosomes. We propose that these unusual regions might have arisen or expanded due to the presence of transposable elements. A comparison of the overall chromosome structure revealed that centromeric elements often underpin intrachromosomal differences between F. circinatum strains, especially at chromosomal breakpoints. This suggests a potential role for centromeres in shaping the chromosomal architecture of F. circinatum and its relatives. The publicly available genome data generated here, together with the detailed metadata provided, represent essential resources for future studies of this important plant pathogen.
Sex pheromone receptor Ste2 orchestrates chemotropic growth towards pine root extracts in the pitch canker pathogen Fusarium circinatum
(MDPI, 2024-05) Ramaswe, J.B.; Steenkamp, Emma Theodora; De Vos, Lieschen; Fru, Felix Fon; Adegeye, O.O.; Wingfield, Brenda D.; emma.steenkamp@fabi.up.ac.za
In ascomycetous fungi, sexual mate recognition requires interaction of the Ste2 receptor protein produced by one partner with the α-factor peptide pheromone produced by the other partner. In some fungi, Ste2 is further needed for chemotropism towards plant roots to allow for subsequent infection and colonization. Here, we investigated whether this is also true for the pine pitch canker fungus, Fusarium circinatum, which is a devastating pathogen of pine globally. Ste2 knockout mutants were generated for two opposite mating-type isolates, after which all strains were subjected to chemotropism assays involving exudates from pine seedling roots and synthetic α-factor pheromone, as well as a range of other compounds for comparison. Our data show that Ste2 is not required for chemotropism towards any of these other compounds, but, in both wild-type strains, Ste2 deletion resulted in the loss of chemotropism towards pine root exudate. Also, irrespective of mating type, both wild-type strains displayed positive chemotropism towards α-factor pheromone, which was substantially reduced in the deletion mutants and not the complementation mutants. Taken together, these findings suggest that Ste2 likely has a key role during the infection of pine roots in production nurseries. Our study also provides a strong foundation for exploring the role of self-produced and mate-produced α-factor pheromone in the growth and overall biology of the pitch canker pathogen.
Inconsistencies within the proposed framework for stabilizing fungal nomenclature risk further confusion
(American Society for Microbiology, 2024-04) Kidd, Sarah E.; Hagen, Ferry; Halliday, Catriona L.; Abdolrasouli, Alireza; Boekhout, Teun; Crous, Pedro W.; Ellis, David H.; Elvy, Juliet; Forrest, Graeme N.; Groenewald, Marizeth; Hahn, Rosane C.; Houbraken, Jos; Rodrigues, Anderson M.; Scott, James; Sorrell, Tania C.; Summerbell, Richard C.; Tsui, Clement K.M.; Yurkov, Andrey M.; Chen, Sharon C.-A.
We read with interest the recent publication by de Hoog and colleagues in the Journal of Clinical Microbiology (1) and support the goal to stabilize fungal nomenclature. Although we recognize the importance of stable naming, we offeroffercomments on the need for clarity around the concepts introduced, consistency of the recommended nomenclature, process issues regarding the endorsement by professional groups and societies and the proposed oversight committee (working group), and the relationship between the proposed database and existing, officially recognized nomenclatural repositories.
The impact of past and current district-level climatic shifts on maize production and the implications for South African farmers
(Springer, 2025-02) Mangani, Robert; Mazarura, Jocelyn; Matlou, Solly; Marquart, Arnim; Archer, Emma Rosa Mary; Creux, Nicky; nicole.creux@fabi.up.ac.za
South Africa’s climate studies generally focus on coarser provincial levels, which aid policy recommendations, but have limited application at the farm level. District level climate studies are essential for farmer participation in climate change mitigation strategies and management. Our study aimed to investigate historical climate data for trends and their influence on maize yields at the magisterial level. Six sites were selected from three major maize-producing provinces in South Africa: Mpumalanga, Northwest, and Free State. Magisterial districts in each province were selected from different Köppen-Geiger climate zones. The climate variables assessed by the Mann–Kendall trend test included maximum or minimum temperature, rainfall, number of extreme high-temperature days, rainfall onset and cessation from 1986 to 2016. The average maximum temperatures were observed to have significant upward trends in most locations, except for Schweizer-Reneke and Bethlehem. The fastest rate of change was observed at Klerksdorp (0.1 °C per 30 years of study), while the Schweizer-Reneke district was the slowest (0.05 °C per 30 years of study). No significant changes were observed in rainfall onset, cessation, or total rainfall in Schweizer-Reneke, Standerton, and Bethlehem, which are scattered across the different provinces. The other districts in each province showed significant changes in these parameters. Rainfall accounted for the significant variation in maize yields over the study period, explaining between 18 and 40% of the variation in the North West, and between 1 and 17% in the Free State. These findings highlight the importance of understanding location-specific changes at a finer scale, which can help farming communities adjust agronomic practices and adapt to local climate shifts.

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