Predicting freshwater habitat integrity using land-use surrogates

Freshwater biodiversity is globally threatened due to human disturbances, but freshwater ecosystems have been accorded lessprotection than their terrestrial and marine counterparts. Few criteria exist for assessing the habitat integrity of rivers and data used for such assessments are generally of limited geographical coverage. Here, we use a fine-scale dataset describing river integrity in north-western South Africa to explore the extent to which measures of freshwater habitat integrity can be predicted from remotely sensed data, which are readily available in many parts of the world. A spatial statistical model was built using broad land-cover variables to predict the habitat integrity (subdivided into riparian and instream integrity) of rivers.We also explored the importance of the spatial scale. Results showed that riparian and, to a lesser degree, instream habitat integrity of river systems could be predicted with reasonable accuracy. The total area under natural vegetation was the most significant predictor of riparian integrity, which is best predicted by land-use activities at catchment level, rather than more locally. Our GIS-based model thus provides a fine-scale approach to assessing river habitat integrity as a supplement to landscape-level conservation plans for river systems, and represents a significant contribution towards the monitoring componentof the River Health Programme (RHP), which reports on the state of rivers in South Africa

Nasal Carriage of Staphylococcus Aureus and Cross-Contamination in a Surgical Intensive Care Unit: Efficacy of Mupirocin Ointment

A six month prospective study was carried out in a surgical intensive care unit (SICU) of a university hospital to assess the incidence and routes of exogenous colonization by Staphylococcus aureus. A total of 157 patients were included in the study. One thousand one hundred and eleven specimens (nasal, surgical wound swabs, tracheal secretions obtained on admission and once a week thereafter, and all clinical specimens) were collected over a four month period from patients without nasal decontamination (A). They were compared with 729 specimens collected over a two month period from patients treated with nasal mupirocin ointment (B). All S. aureus strains were typed by restriction fragment length polymorphism (RFLP) pulsed-field gel electrophoresis after SmaI macrorestriction. The nasal colonization rates on admission were 25.5 and 32.7% in groups A and B, respectively. Thirty-one untreated patients (31.3%) and three patients (5.1%) treated with nasal ointment, acquired the nasal S. aureus in the SICU (P = 0.00027). Nasal carriers were more frequently colonized in the bronchopulmonary tract (Bp) and surgical wound (Sw) (62%) than patients who were not nasal carriers (14%) (P < 0.00001). The patterns were identical for nasal, Bp and Sw strains from the same patient. RFLP analysis characterized seven epidemic strains of methicillin-resistant S. aureus (MRSA) which colonized 60% of group A and 9% of group B patients (P < 0.00001). The bronchopulmonary tract infection rate was reduced in group B (P = 0.032). In conclusion, in an SICU, nasal carriage of S. aureus appeared to be the source of endogenous and cross- colonization. The use of nasal mupirocin ointment reduced the incidence of Bp and Sw colonization, as well as the MRSA infection rate

Invasive alien plants and South African rivers: a proposed approach to the prioritization of control operations

1. A number of parallel initiatives in South Africa have been addressing the prioritization and management of invasive alien plant species, the prioritization of rivers for the conservation of biodiversity, and broad-scale planning for water resource management. This paper has combined aspects of these approaches to develop a composite index of prioritization of quaternary catchments for alien plant control purposes. 2. We calculated, for each quaternary catchment, a simple composite index that combined estimates of (i) the number of invasive alien plant species present; (ii) the potential number of invasive alien plant species that would be present if they occupied the full range as determined by climatic envelope models; (iii) the degree of habitat loss in rivers; and (iv) the degree of water stress. Each of the four components contributed between one and four to the combined index, which had a range of values between four and 16. 3. We used a geographic information system to map the distribution of priority catchments for invasive alien plant control. Of the 1911 quaternary catchments in South Africa and Lesotho, just over one-third (650) were in the highest priority category with an index of 13 or more. A relatively small proportion (273, or 14%) of the catchments had the maximum scores of 15 or 16. 4. The approach identified priority areas that have not currently been identified as such, and should provide decision makers with an objective and transparent method with which to prioritize areas for the control of invasive alien plants. We anticipate debate about the way in which components of the index are calculated, and the weight given to the different components, and that this will lead to the transparent evolution of the index. Improvements would also come about through the addition of a more comprehensive list of species, and through the addition of further components.DST-NRF Centre for Invasion Biolog

Patterns of alien plant distribution at multiple spatial scales in a large national park: implications for ecology, management and monitoring

Aim Spatial scale is critical for understanding and managing biological invasions. In providing direction to managing alien plant invasions, much emphasis is placed on collecting spatially explicit data. However, insufficient thought is often given to how the data are to be used, frequently resulting in the incompatibility of the data for different uses. This paper explores the role of spatial scale in interpreting, managing and monitoring alien plant invasions in a large protected area. Location Kruger National Park, South Africa. Methods Using 27,000 spatially-explicit records of invasive alien plants for the Kruger National Park (> 20,000 km2) we assessed alien plant species richness per cell at nine different scales of resolution. Results When assessing the patterns of alien plants at the various scales of resolution, almost identical results are obtained when working at scales of quarter-degree grids and quaternary watersheds (the fourth level category in South Africa’s river basin classification system). Likewise, insights gained from working at resolutions of 0.1–0.5 km and 1–5 km are similar. At a scale of 0.1 x 0.1 km cells, only 0.4% of the Kruger National Park is invaded, whereas > 90% of the park is invaded when mapped at the quarter-degree cell resolution. Main conclusions Selecting the appropriate scale of resolution is crucial when evaluating the distribution and abundance of alien plant invasions, understanding ecological processes, and overationalizing management applications and monitoring strategies. Quarter-degree grids and quaternary watersheds are most useful at a regional or national scale. Grid cells of 1 to 25 km 2 are generally useful for establishing priorities for and planning management interventions. Fine-scale data are useful for informing management in areas which are small in extent; they also provide the detail appropriate for assessing patterns and rates of invasion.Centre of Excellence for Invasion Biolog

Identifying priority areas for ecosystem service management in South African grasslands

Grasslands provide many ecosystem services required to support human well-being and are home to a diverse fauna and flora. Degradation of grasslands due to agriculture and other forms of land use threaten biodiversity and ecosystem services. Various efforts are underway around the world to stem these declines. The Grassland Programme in South Africa is one such initiative and is aimed at safeguarding both biodiversity and ecosystem services. As part of this developing programme, we identified spatial priority areas for ecosystem services, tested the effect of different target levels of ecosystem services used to identify priority areas, and evaluated whether biodiversity priority areas can be aligned with those for ecosystem services. We mapped five ecosystem services (below ground carbon storage, surface water supply, water flow regulation, soil accumulation and soil retention) and identified priority areas for individual ecosystem services and for all five services at the scale of quaternary catchments. Planning for individual ecosystem services showed that, depending on the ecosystem service of interest, between 4% and 13% of the grassland biome was required to conserve at least 40% of the soil and water services. Thirty-four percent of the biome was needed to conserve 40% of the carbon service in the grassland. Priority areas identified for five ecosystem services under three target levels (20%, 40%, 60% of the total amount) showed that between 17% and 56% of the grassland biome was needed to conserve these ecosystem services. There was moderate to high overlap between priority areas selected for ecosystem services and already-identified terrestrial and freshwater biodiversity priority areas. This level of overlap coupled with low irreplaceability values obtained when planning for individual ecosystem services makes it possible to combine biodiversity and ecosystem services in one plan using systematic conservation planning.Centre of Excellence for Invasion Biolog

Molecular basis for bacterial peptidoglycan recognition by LysM domains.

Carbohydrate recognition is essential for growth, cell adhesion and signalling in all living organisms. A highly conserved carbohydrate binding module, LysM, is found in proteins from viruses, bacteria, fungi, plants and mammals. LysM modules recognize polysaccharides containing N-acetylglucosamine (GlcNAc) residues including peptidoglycan, an essential component of the bacterial cell wall. However, the molecular mechanism underpinning LysM-peptidoglycan interactions remains unclear. Here we describe the molecular basis for peptidoglycan recognition by a multimodular LysM domain from AtlA, an autolysin involved in cell division in the opportunistic bacterial pathogen Enterococcus faecalis. We explore the contribution of individual modules to the binding, identify the peptidoglycan motif recognized, determine the structures of free and bound modules and reveal the residues involved in binding. Our results suggest that peptide stems modulate LysM binding to peptidoglycan. Using these results, we reveal how the LysM module recognizes the GlcNAc-X-GlcNAc motif present in polysaccharides across kingdoms

Renal pericytes: regulators of medullary blood flow

Regulation of medullary blood flow (MBF) is essential in maintaining normal kidney function. Blood flow to the medulla is supplied by the descending vasa recta (DVR), which arise from the efferent arterioles of juxtamedullary glomeruli. DVR are composed of a continuous endothelium, intercalated with smooth muscle-like cells called pericytes. Pericytes have been shown to alter the diameter of isolated and in situ DVR in response to vasoactive stimuli that are transmitted via a network of autocrine and paracrine signalling pathways. Vasoactive stimuli can be released by neighbouring tubular epithelial, endothelial, red blood cells and neuronal cells in response to changes in NaCl transport and oxygen tension. The experimentally described sensitivity of pericytes to these stimuli strongly suggests their leading role in the phenomenon of MBF autoregulation. Because the debate on autoregulation of MBF fervently continues, we discuss the evidence favouring a physiological role for pericytes in the regulation of MBF and describe their potential role in tubulo-vascular cross-talk in this region of the kidney. Our review also considers current methods used to explore pericyte activity and function in the renal medulla

A proposed classification of invasive alien plant species in South Africa: Towards prioritising species and areas for management action

Many invasive alien plant species in South Africa are already well-established and cause substantial damage, while scores of others are at the early stages of invasion (only recently introduced and/or entering a phase of rapid population growth). Management programmes must target well-established invaders, but must also give appropriate attention to emerging problems. Protocols for objectively prioritizing species in the two groups for management action are lacking. To this end, we describe the objective derivation of two lists of invasive alien plants in South Africa, using available quantitative data and expert knowledge on current patterns of distribution and abundance, life-history traits, and (for emerging invaders) estimates of potential habitat. ‘Major invaders’ are those invasive alien species that are well-established, and which already have a substantial impact on natural and semi-natural ecosystems. ‘Emerging invaders’ currently have less influence, but have attributes and potentially suitable habitat that could result in increased range and consequences in the next few decades. We describe the derivation of lists that contain 117 major invaders (categorized into groups based on geographical range and abundance) and 84 emerging invaders (categorized into groups based on current propagule-pool size and potentially invasible habitat). The main lists, and groupings within them, provide a useful means for prioritizing species for a range of management interventions at national, regional and local scale

Niche-based modelling as a tool for predicting the risk of alien plant invasions at a global scale

Predicting the probability of successful establishment of plant species by matching climatic variables has considerable potential for incorporation in early warning systems for the management of biological invasions. We select South Africa as a model source area of invasions worldwide because it is an important exporter of plant species to other parts of the world because of the huge international demand for indigenous flora from this biodiversity hotspot. We first mapped the five ecoregions that occur both in South Africa and other parts of the world, but the very coarse definition of the ecoregions led to unreliable results in terms of predicting invasible areas. We then determined the bioclimatic features of South Africa's major terrestrial biomes and projected the potential distribution of analogous areas throughout the world. This approach is much more powerful, but depends strongly on how particular biomes are defined in donor countries. Finally, we developed bioclimatic niche models for 96 plant taxa (species and subspecies) endemic to South Africa and invasive elsewhere, and projected these globally after successfully evaluating model projections specifically for three well-known invasive species (Carpobrotus edulis, Senecio glastifolius, Vellereophyton dealbatum) in different target areas. Cumulative probabilities of climatic suitability show that high-risk regions are spatially limited globally but that these closely match hotspots of plant biodiversity. These probabilities are significantly correlated with the number of recorded invasive species from South Africa in natural areas, emphasizing the pivotal role of climate in defining invasion potential. Accounting for potential transfer vectors (trade and tourism) significantly adds to the explanatory power of climate suitability as an index of invasibility. The close match that we found between the climatic component of the ecological habitat suitability and the current pattern of occurrence of South Africa alien species in other parts of the world is encouraging. If species' distribution data in the donor country are available, climatic niche modelling offers a powerful tool for efficient and unbiased first-step screening. Given that eradication of an established invasive species is extremely difficult and expensive, areas identified as potential new sites should be monitored and quarantine measures should be adopted.Ctr Invas Bio

Prioritising surveillance for alien organisms transported as stowaways on ships travelling to South Africa

The global shipping network facilitates the transportation and introduction of marine and terrestrial organisms to regions where they are not native, and some of these organisms become invasive. South Africa was used as a case study to evaluate the potential for shipping to contribute to the introduction and establishment of marine and terrestrial alien species (i.e. establishment debt) and to assess how this varies across shipping routes and seasons. As a proxy for the number of species introduced (i.e. 'colonisation pressure') shipping movement data were used to determine, for each season, the number of ships that visited South African ports from foreign ports and the number of days travelled between ports. Seasonal marine and terrestrial environmental similarity between South African and foreign ports was then used to estimate the likelihood that introduced species would establish. These data were used to determine the seasonal relative contribution of shipping routes to South Africa's marine and terrestrial establishment debt. Additionally, distribution data were used to identify marine and terrestrial species that are known to be invasive elsewhere and which might be introduced to each South African port through shipping routes that have a high relative contribution to establishment debt. Shipping routes from Asian ports, especially Singapore, have a particularly high relative contribution to South Africa's establishment debt, while among South African ports, Durban has the highest risk of being invaded. There was seasonal variation in the shipping routes that have a high relative contribution to the establishment debt of the South African ports. The presented method provides a simple way to prioritise surveillance effort and our results indicate that, for South Africa, port-specific prevention strategies should be developed, a large portion of the available resources should be allocated to Durban, and seasonal variations and their consequences for prevention strategies should be explored further. (Résumé d'auteur