Locality or habitat? Exploring predictors of biodiversity in Amazonia

Amazonia is an environmentally heterogeneous and biologically megadiverse region, and its biodiversity varies considerably over space. However, existing knowledge on Amazonian biodiversity and its environmental determinants stems almost exclusively from studies of macroscopic above‐ground organisms, notably vertebrates and trees. In contrast, diversity patterns of most other organisms remain elusive, although some of them, for instance microorganisms, constitute the overwhelming majority of taxa in any given location, both in terms of diversity and abundance. Here, we use DNA metabarcoding to estimate prokaryote and eukaryote diversity in environmental soil and litter samples from 39 survey plots in a longitudinal transect across Brazilian Amazonia using 16S and 18S gene sequences, respectively. We characterize richness and community composition based on operational taxonomic units (OTUs) and test their correlation with longitude and habitat. We find that prokaryote and eukaryote OTU richness and community composition differ significantly among localities and habitats, and that prokaryotes are more strongly structured by locality and habitat type than eukaryotes. Our results 1) provide a first large‐scale mapping of Amazonian soil biodiversity, suggesting that OTU richness patterns might follow substantially different patterns from those observed for macro‐organisms; and 2) indicate that locality and habitat factors interact in determining OTU richness patterns and community composition. This study shows the potential of DNA metabarcoding in unveiling Amazonia's outstanding diversity, despite the lack of complete reference sequence databases for the organisms sequenced.     

Enhancing gardens as habitats for plant-associated invertebrates: should we plant native or exotic species?

Domestic gardens, typically consisting of a mixture of native and non-native plants, support biodiversity. The relative value of these native and non-native plants for invertebrates is largely unknown. To address this a replicated field experiment with plots planted with one of three assemblages of non-invasive perennial and shrubby garden plants (treatments), based on plant origin [UK native, near-native (Northern Hemisphere) and Exotic (Southern Hemisphere)] was established. Over 4 years the invertebrates were recorded by Vortis suction sampler and amount of plant material measured. The abundance of above ground plant-inhabiting invertebrates increased with canopy cover and was higher on the native treatment. For several functional groups including herbivores and some predatory groups the near-native plants supported only marginally fewer individuals compared to native plots, with exotic plants being less favoured. The experiment demonstrated that gardens and other cultivated ornamental plantings support a wide range of plant-inhabiting invertebrates from primary functional groups regardless of the plants’ origin and the more plant matter (canopy cover) available the greater the abundance. Greater abundance of invertebrates will be supported by gardens and cultivated planting schemes with plantings biased towards native and near-native plants and that provide dense vegetation cover. However, exotic plants should not be dismissed as these are inhabited by some invertebrates.     

Birds girdling activity on exotic tree species as a form of adaptive behavior?

Four tree species in the Kostelec n. ?. l. arboretum (Czech Republic) have been repeatedly damaged by Dendrocopos medius. The unique aspect of this otherwise common behavior called girdling consists in regularly visiting the same trees every spring, although there are more than 1.200 tree species within the arboretum. We monitored transpiration, leaf phenology and the chemical composition of the xylem sap of girdled and nongirdled trees. Spectral analysis revealed slightly higher amounts of sugars, especially saccharose, in Cladrastis Raf. as the most regularly girdled tree among other conditions, comparing girdled to non-girdled trees. Higher transpiration rates were not confirmed in connection with girdling—quite the opposite—Cladrastis Raf. as the most highly favored tree for girdling showed the lowest transpiration rates (in average 6 kg water per day within spring months) compared to other non-girdled trees. We presume that the birds do not choose a particular tree on the basis of any visible or chemical traits but they examine many trees within their territory. Afterwards they probably remember the position of trees whose xylem sap starts to flow early in the spring compared to other trees, as their transpiration stream is enriched with sweet organic substances that represent an advantage for the forthcoming nesting period.     

Consequences of habitat fragmentation for plant species: Do we know enough?

Habitat fragmentation is one of the most important causes for the decline of plant species. However, plants differing in phylogeny, habitat requirements and biology are likely to respond differently to habitat fragmentation. We ask whether case studies on the effects of habitat fragmentation conducted so far allow generalizations about its effects on the fitness and genetic diversity of populations of endangered plant species. We compared the characteristics of plant species endangered in Germany whose sensitivity to habitat fragmentation had been studied with those of the endangered species that had not been studied. We found strong discrepancies between the two groups with regard to their taxonomy and traits relevant to their sensitivity to habitat fragmentation. Monocots, graminoids, clonal, abiotically pollinated and self compatible species were underrepresented among the studied species, and most study species were from a few habitat types, in particular grasslands. We conclude that our current knowledge of the effects of habitat fragmentation on plant populations is not sufficient to provide widely applicable guidelines for species management. The selection of species studied so far has been biased toward species from certain habitats and species exhibiting traits that probably make them vulnerable to habitat fragmentation. Future studies should include community-wide approaches in different habitats, e.g. re-visitation studies in which the species pool is assessed at different time intervals, and population-biological studies of species from a wide range of habitats, and of different life forms and growth strategies. A more representative picture of the effects of habitat fragmentation would allow a better assessment of threats and more specific recommendations for optimally managing populations of endangered plants.     

Evolution of biodiversity: Hyperbola or exponent?

Two models of the evolution of biodiversity during the Phanerozoic are critically analyzed.     

Propagule pressure as a driver of establishment success in deliberately introduced exotic species: fact or artefact?

A central paradigm in invasion biology is that more releases of higher numbers of individuals increase the likelihood that an exotic population successfully establishes and persists. Recently, however, it has been suggested that, in cases where the data are sourced from historical records of purposefully released species, the direction of causality is reversed, and that initial success leads to higher numbers being released. Here, we explore the implications of this alternative hypothesis, and derive six a priori predictions from it. We test these predictions using data on Acclimatization Society introductions of passerine bird species to New Zealand, which have previously been used to support both hypotheses for the direction of causality. All our predictions are falsified. This study reaffirms that the conventional paradigm in invasion biology is indeed the correct one for New Zealand passerine bird introductions, for which numbers released determine establishment success. Our predictions are not restricted to this fauna, however, and we keenly anticipate their application to other suitable datasets.     

The influence of a native tree species mix component on bird communities in non‐native coniferous plantations in Ireland

Capsule Norway Spruce plantations with Scots Pine as a secondary tree species had higher bird densities than pure Norway Spruce. Shrub cover was the most important structural variable, influencing bird density, species richness and Simpson’s diversity.

Aims To investigate whether incorporating a native tree component into non‐native coniferous plantations had any effect on bird communities or vegetation structure.

Methods Birds were surveyed in plantations of Norway Spruce mixed with Oak and Scots Pine, each paired with a plantation of pure Norway Spruce. distance was used to generate bird densities. Bird density, species richness and Simpson’s diversity were compared between each mix type and pure Norway Spruce. glms were used to investigate relationships between structural components of plantations and bird data.

Results Bird communities of mixed plantations differed only slightly in their composition from pure Norway Spruce. Bird density was significantly higher in Scots Pine mixes than in Oak mixes or pure Norway Spruce. Neither species richness nor Simpson’s diversity differed significantly between the plantation types. Some vegetation components differed between the plantations and shrub cover was positively associated with bird density, species richness and Simpson’s diversity. The presence of rides also increased bird density.

Conclusions There is a positive effect on bird communities of including a native tree species in non‐native coniferous plantations, but the magnitude of the effect is small. The influence of shrub cover on birds suggests that forest management may play an important role in determining the utility of plantations for birds. We recommend the establishment of mixed tree species plantations where possible, although, in the case of Oak mixes, the Norway Spruce appeared to suppress growth of the Oak and thus may be restricting its effect on birds. Changes in management, such as planting Oaks in clumps or heavier thinning of the coniferous component, could address this problem.     

Shortcuts in biodiversity research: What determines the performance of higher taxa as surrogates for species?

Biodiversity research is often impeded by the time and resources required to identify species. One possible solution is to use higher taxa to predict species richness and community composition. However, previous studies have shown that the performance of higher taxa as surrogates for species is highly variable, making it difficult to predict whether the method will be reliable for a particular objective. Using 8 independent datasets, I tested whether higher taxa accurately characterize the responses of beetle and ant communities to environmental drivers. For each dataset, ordinations were carried out using species and higher taxa, and the two compared using the Procrustes m² statistic (a scale‐independent variant of Procrustes sum of squares). I then modelled the relationship between five hypothesised explanatory variables and 1) Procrustes m², and 2) the coefficient of determination (R²) for the correlation between richness of species and higher taxa. The species to higher taxon ratio, community structure, beta diversity, completeness of sampling, and taxon (beetles or ants) were all significant predictors of m², together explaining 88% of the variance. The only significant predictor of R² was the species to higher taxon ratio, which explained 45% of the variance. When using higher taxa to predict community composition, better performance is expected when the ratio of species to higher taxa is low, in communities with high evenness and high species turnover, and when there is niche conservation within higher taxa. When using higher taxa to predict species richness, effective surrogacy can be expected when the species to higher taxon ratio is very low. When it is not, surrogacy performance may be strongly influenced by stochastic factors, making predictions of performance difficult.     

Species–area models to assess biodiversity change in multi-habitat landscapes: The importance of species habitat affinity

Species–area relationships (SARs) are a common tool to assess the impacts of habitat loss on species diversity. Species–area models that include habitat effects may better describe biodiversity patterns; also the shape of the SAR may be best described by other models than the classical power model. We compared the fit of 24 SAR models, i.e. eight basic models using three approaches: (i) single-habitat models, (ii) multi-habitat models which account for the effect of the habitat composition on total species diversity (= choros models) and (iii) multi-habitat models which also account for the differential use of habitats by different species groups (= countryside models). We use plant diversity data from a multi-habitat landscape in NW Portugal. Countryside models had the best fit both when predicting species–area patterns of species groups and of total species richness. Overall, choros models had a better fit than single-habitat models. We also tested the application of multi-habitat models to land-use change scenarios. Estimates of species richness using the choros model only depended on the number of habitats in the landscape. In contrast, for the countryside model, estimates of species richness varied continuously with the relative proportion of the different habitat types in the landscape, and projections suggest that land-use change impacts may be moderated by a species’ ability to use multiple habitats in the landscape. We argue that the countryside SAR is a better model to assess the impacts of land-use changes than the single-habitat SAR or the choros model, as species often face habitat change instead of real habitat loss, and species response to change is contingent on their differential use of habitats in the landscape.     

Hypsodonty in ungulates: an adaptation for grass consumption or for foraging in open habitat?

Hypsodont (i.e. high-crowned) teeth have been interpreted as an indicator of feeding preferences and habitat selection in ungulates. For this reason, the degree of hypsodonty has been used for estimating the diet of ancient taxa and in palaeoenvironmental reconstructions. The goal of this study is to elucidate the relative importance of grass consumption and open habitat foraging in the development of hypsodont teeth, using novel computer techniques of knowledge discovery applied to a dataset of 134 species of artiodactyls and perissodactyls distributed among thirteen families. The results obtained suggest that high-crowned teeth represent an adaptation for feeding in an open habitat, although the minimum threshold of hypsodonty seems to increase with the relative length of the anterior part of the jaw. On the contrary, there is no direct relationship between the degree of hypsodonty and the percentage of grass consumed, except for the correspondence between grazing and dwelling in open habitats. A relatively wide muzzle evidences an adaptation for grass foraging in open and mixed habitats, but there are some non-grazing species from a closed habitat that also show wide muzzles. Thus, the hypsodonty index, combined with the length of the anterior part of the jaw and the width of the muzzle, allows accurate inferences on the ecological preferences of extinct ungulates.     

Will climate change favor exotic grasses over native ecosystem engineer species in the Amazon Basin?

Several anthropic disturbances, including deforestation, fires, the building of roads and dams, have intensified in Amazon in last decades. These disturbances contribute to an increase in the occurrence and intensity of extreme events, such as more frequent floods and more severe droughts, due to climate change. Along the Amazonian rivers, aquatic herbaceous plants, mainly of the Poaceae family, are very abundant and produce up to three times more biomass than the adjacent flooded forests, and some are considered ecosystem engineers given their structuring role in these environments. Invasive grasses have spread through the Neotropics and are gradually entering the Amazon via the Arc of Deforestation. These invasive species often attain high coverage, suppress other species, and become dominant in both disturbed and pristine habitats. The aim of this study was to establish the current and future distribution patterns of two native ecosystem engineer species (Echinochloa polystachya and Paspalum fasciculatum) and two invasive species (Urochloa brizantha and Urochloa decumbens) in the Amazon Basin. To predict the future climate, we used three scenarios, namely SSP1–2.6, SSP3–7.0 and SSP5–8.5 for the years 2040, 2080 and 2100, to project climatically suitable areas. The current climatically suitable range for the native ecosystem engineer species was estimated at 33–35% of the Amazon Basin, while the invasive ones have a range of 53–84% in potential climatically suitable areas. A decrease in the areas of suitability of the two ecosystem engineer species, E. polystachya and P. fasciculatum, was observed in all scenarios and years, while only the invasive U. brizantha showed an increase in suitable areas in all years. These results raise concerns about the invasion of grasses with high aggressive potential that could result in the exclusion of native ecosystem engineer species and their ecological roles.     

Xylem cavitation vulnerability influences tree species’ habitat preferences in miombo woodlands

Although precipitation plays a central role in structuring Africa’s miombo woodlands, remarkably little is known about plant-water relations in this seasonally dry tropical forest. Therefore, in this study, we investigated xylem vulnerability to cavitation for nine principal tree species of miombo woodlands, which differ in habitat preference and leaf phenology. We measured cavitation vulnerability (Ψ₅₀), stem-area specific hydraulic conductivity (K _S), leaf specific conductivity (K _L), seasonal variation in predawn water potential (Ψ_PD) and xylem anatomical properties [mean vessel diameter, mean hydraulic diameter, mean hydraulic diameter accounting for 95 % flow, and maximum vessel length (V _L)]. Results show that tree species with a narrow habitat range (mesic specialists) were more vulnerable to cavitation than species with a wide habitat range (generalists). Ψ₅₀ for mesic specialists ranged between ?1.5 and ?2.2 MPa and that for generalists between ?2.5 and ?3.6 MPa. While mesic specialists exhibited the lowest seasonal variation in Ψ_PD, generalists displayed significant seasonal variations in Ψ_PD suggesting that the two miombo habitat groups differ in their rooting depth. We observed a strong trade-off between K _S and Ψ₅₀ suggesting that tree hydraulic architecture is one of the decisive factors setting ecological boundaries for principal miombo species. While vessel diameters correlated weakly (P > 0.05) with Ψ₅₀, V _L was positively and significantly correlated with Ψ₅₀. Ψ_PD was significantly correlated with Ψ₅₀ further reinforcing the conclusion that tree hydraulic architecture plays a significant role in species’ habitat preference in miombo woodlands.     

Parasites in biodiversity conservation: friend or foe?

Parasites stabilise food webs and facilitate species coexistence but can also lead to population- or species-level extinctions. So, in biodiversity conservation, are parasites friends or foes? This question is misleading: it implies that parasites are not part of biodiversity. Greater integration of parasites into global biodiversity and ecosystem conservation efforts is required.     

Intravenous antimicrobial therapy in the community: underused,inadequately resourced,or irrelevant to health care in Britain?

The NHS Executive is keen to promote "hospital at home" services in Britain, as part of its philosophy of keeping more care in the community and also to relieve the increasing demand for hospital beds. One such service is the provision of intravenous antimicrobial therapy in the community. Yet, compared with the United States, where home or outpatient intravenous antimicrobial therapy programmes are well developed, experience in Britain and Europe is limited, reflecting a difference in cultural attitudes and healthcare structures between the two continents. Only a few units in Britain currently run home intravenous antimicrobial therapy programmes, and several issues need to be addressed if more treatment is to be provided outside hospital. These include an assessment of the need for community intravenous antibiotic treatment and which patient groups many benefit. The main motive for community intravenous treatment should be better patient care and not simply a reduction in healthcare costs. At present the pace of change is being set by a few clinical enthusiasts and by commercial organisations, whereas the NHS deserves a more organised strategy for purchasing treatment with intravenous antibiotics in the community.     

Are invasive species drivers of native species decline or passengers of habitat modification? A case study of the impact of the common myna (Acridotheres tristis) on Australian bird species

Habitat modification and invasive species are significant drivers of biodiversity decline. However, distinguishing between the impacts of these two drivers on native species can be difficult. For example, habitat modification may reduce native species abundance, while an invasive species may take advantage of the new environment. This scenario has been described as the driver‐passenger model, with ‘passengers’ taking advantage of habitat modification and ‘drivers’ causing native species decline. Therefore, research must incorporate both habitat modification and invasive species impact to successfully investigate native species decline. In this paper, we used the common myna (Acridotheres tristis) as a case study to investigate the driver‐passenger model. We investigated changes in bird abundance, over 2 years, in relation to different habitat types and common myna abundance. We hypothesized that the common myna is both a passenger of habitat change and a driver of some bird species decline. Our results indicated that the abundance of many native species is greater in high tree density nature reserves, while the common myna was uncommon in these areas. Common myna abundance was almost three times higher in urban areas than nature reserves and declined rapidly as tree density in nature reserves increased. Our findings indicated that the common myna is primarily a passenger of habitat change. However, we also observed negative associations between common myna abundance and some bird species. We stress the importance of simultaneously investigating both invasive species impact and habitat modification. We suggest habitat restoration could be a useful tool for both native species recovery and invasive species control. Understanding the drivers of native species decline will help inform impact mitigation and direct further research.     

Distribution of plants in a California serpentine grassland: are rocky hummocks spatial refuges for native species?

Invasions by non-native taxa can have severe consequences for native species. In the heavily invaded serpentine grasslands of central California, many native species appear to be restricted to isolated outcrops of shallow serpentine soil, or hummocks, although the extent to which these hummocks function as refuges for native vegetation has never been quantified. We tested whether native plant species were restricted to hummocks within a serpentine grassland at the University of California Sedgwick Reserve near Santa Barbara, California by sampling species along hummock-grassland gradients. We also examined the influence of soil parameters, hummock area, proximity to other hummocks, and spatial location on species composition across 16 hummocks at this site. Both the hummocks and the surrounding grassland had high Mg, low Ca, and low Ca to Mg ratios typical of serpentine systems. Hummocks appeared to be more stressful environments because of their shallower soils, lower cation exchange capacity, and greater percent sand. Of the 27 most common plant species sampled along hummock-grassland transects, we identified 8 hummock specialists, 7 edge specialists, 8 matrix specialists, and 4 generalists. Importantly, both the hummock and matrix specialist groups included native species. Plant community composition was correlated with spatial positioning of the hummocks and with soil Ca, Na, K, and N. The number of species increased and community composition changed with increasing hummock area. Species composition was most similar among hummocks in close proximity to each other, and decreased with increasing distance between hummocks. Our results suggest that the community structure of serpentine grasslands is spatially complex and an effective management or restoration plan must address this complexity.