Influence of Habitat Types on Diversity and Species Composition of Urban Flora—A Case Study in Serbia

The aim of this study was to investigate the floristic composition and diversity of seven urban habitat types in 24 Serbian cities with different climatic affiliation. In each of the 24 cities, we selected 1 ha plots representing a habitat from one of the following groups: square, boulevard, residential area with compact and with open building pattern, city park, and sites with early and mid-succession vegetation stages. All vascular plant species that occur spontaneously in these plots were observed. Data on the main climatic characteristics were collected for each plot, and data on the life forms were obtained for each species recorded. Diagnostic species were identified for each habitat type analyzed, and alpha, beta and gamma diversity were calculated. A total of 674 taxa were recorded in the studied area. Significant differences were observed in habitats by diagnostic species and by life form representation. The lowest alpha and gamma diversity and the dominance of therophytes were observed in habitat types with intensive anthropogenic impact, whereas the highest number was recorded in mid-successional sites and residential areas with a compact building pattern. The analysis showed that habitat type influences species composition much more than climate.

When Imagery and Physical Sampling Work Together: Toward an Integrative Methodology of Deep-Sea Image-Based Megafauna Identification

Imagery has become a key tool for assessing deep-sea megafaunal biodiversity, historically based on physical sampling using fishing gears. Image datasets provide quantitative and repeatable estimates, small-scale spatial patterns and habitat descriptions. However, taxon identification from images is challenging and often relies on morphotypes without considering a taxonomic framework. Taxon identification is particularly challenging in regions where the fauna is poorly known and/or highly diverse. Furthermore, the efficiency of imagery and physical sampling may vary among habitat types. Here, we compared biodiversity metrics (alpha and gamma diversity, composition) based on physical sampling (dredging and trawling) and towed-camera still images (1) along the upper continental slope of Papua New Guinea (sedimented slope with wood-falls, a canyon and cold seeps), and (2) on the outer slopes of the volcanic islands of Mayotte, dominated by hard bottoms. The comparison was done on selected taxa (Pisces, Crustacea, Echinoidea, and Asteroidea), which are good candidates for identification from images. Taxonomic identification ranks obtained for the images varied among these taxa (e.g., family/order for fishes, genus for echinoderms). At these ranks, imagery provided a higher taxonomic richness for hard-bottom and complex habitats, partially explained by the poor performance of trawling on these rough substrates. For the same reason, the gamma diversity of Pisces and Crustacea was also higher from images, but no difference was observed for echinoderms. On soft bottoms, physical sampling provided higher alpha and gamma diversity for fishes and crustaceans, but these differences tended to decrease for crustaceans identified to the species/morphospecies level from images. Physical sampling and imagery were selective against some taxa (e.g., according to size or behavior), therefore providing different facets of biodiversity. In addition, specimens collected at a larger scale facilitated megafauna identification from images. Based on this complementary approach, we propose a robust methodology for image-based faunal identification relying on a taxonomic framework, from collaborative work with taxonomists. An original outcome of this collaborative work is the creation of identification keys dedicated specifically to in situ images and which take into account the state of the taxonomic knowledge for the explored sites.

Gamma diversity and under-sampling together generate patterns in beta-diversity

Beta diversity represents how species in the regional pool segregate among local communities and hence forms a link between local and regional species diversities. Therefore, the magnitude of beta diversity and its variation across geographic gradients can provide insights into mechanisms of community assembly. Along with limits on local or regional level diversities, effects of local abundance that lead to under-sampling of the regional species pool are important determinants of estimated beta diversity. We explore the effects of regional species pools, abundance distributions, and local abundance to show that patterns in beta diversity as well as the mean of species abundance distribution have distinct outcomes, depending on limits on species pools and under-sampling. We highlight the effect of under-sampling in some established relationships between gamma diversity and beta diversity using graphical methods. We then use empirical data on ant communities across an elevational gradient in the Eastern Himalayas to demonstrate a shift from effect of reduction in species pool to under-sampling at mid-elevations. Our results show that multiple processes with contrasting effects simultaneously affect patterns in beta diversity across geographic gradients.

Elevated alpha diversity in disturbed sites obscures regional decline and homogenization of amphibian diversity

Loss of natural habitat is one of the major threats for biodiversity worldwide. Habitat conversion not only changes diversity and species composition locally (alpha diversity) but might also lead to large-scale homogenization of species communities and decrease in regional species richness (gamma diversity). We investigated the effect of farmland conversion on amphibian communities in Rwanda and compared local and regional (country-wide) taxonomic, functional and phylogenetic diversity between natural and farmland sites (agricultural marais). Alpha diversity was higher in the disturbed farmland than in natural sites. However, species turnover among farmland sites was much lower than among natural sites, resulting in highly homogenized amphibian communities and much lower country-wide taxonomic, functional and phylogenetic gamma diversity in farmland compared to natural sites. The few frog species found in farmland were mostly disturbance-tolerant species that are widespread in Eastern Africa and beyond. In contrast, most of the regionally endemic frog species that make this region a continent-scale hotspot of amphibian diversity were found only in the natural habitats. Ongoing farmland conversion might lead to a loss of regional endemism and a widespread homogenization of species communities across sub-Saharan Africa.

Wildfire and topography drive woody plant diversity in a Sky Island mountain range in the Southwest USA

Aim: Drastic changes in fire regimes are altering plant communities, inspiring ecologists to better understand the relationship between fire and plant species diversity. We examined the impact of a 2011 megafire on woody plant species diversity in an arid mountain range in southern Arizona, USA. We tested recent fire-diversity hypotheses by addressing the impact of the fire severity, fire variability, historic fire regimes, and topography on diversity. Location: Chiricahua National Monument, Chiricahua Mountains, Arizona. USA., part of the Sky Islands of the US-Mexico borderlands. Taxon: Woody plant species. Methods: We sampled woody plant diversity in 138 plots before (2002-2003) and after (2017-2018) the 2011 Horseshoe Two Megafire in three vegetation types and across fire severity and topographic gradients. We calculated gamma, beta, and alpha diversity and examined changes over time in burned vs. unburned plots and the shapes of the relationships of diversity with fire severity and topography. Results: Alpha species richness declined and beta and gamma diversity increased in burned but not unburned plots. Fire-induced enhancement of gamma diversity was confined to low fire severity plots. Alpha diversity did not exhibit a clear continuous relationship with fire severity. Beta diversity was enhanced by fire severity variation among plots and increased with fire severity up to very high diversity, where it declined slightly. Main Conclusions: The results reject the intermediate disturbance hypothesis for alpha diversity but weakly support it for gamma diversity. Spatial variation in fire severity promoted variation among plant assemblages, supporting the pyrodiversity hypothesis. Long-term drought probably amplified fire-driven diversity changes. Despite the apparent benign impact of the fire on diversity, the replacement of two large conifer species with shrubs signals the potential loss of functional diversity, emphasizing the importance of intervention to direct the transition to a novel vegetation mosaic.

Disentangling the Information in Species Interaction Networks

Shannon’s entropy measure is a popular means for quantifying ecological diversity. We explore how one can use information-theoretic measures (that are often called indices in ecology) on joint ensembles to study the diversity of species interaction networks. We leverage the little-known balance equation to decompose the network information into three components describing the species abundance, specificity, and redundancy. This balance reveals that there exists a fundamental trade-off between these components. The decomposition can be straightforwardly extended to analyse networks through time as well as space, leading to the corresponding notions for alpha, beta, and gamma diversity. Our work aims to provide an accessible introduction for ecologists. To this end, we illustrate the interpretation of the components on numerous real networks. The corresponding code is made available to the community in the specialised Julia package EcologicalNetworks.jl.

Matrix composition mediates effects of habitat fragmentation: a modelling study

Context Habitat loss has clear negative effects on biodiversity, but whether fragmentation per se (FPS), excluding habitat loss does is debatable. A contribution to this debate may be that many fragmentation studies tend to use landscapes of fragmented focal-habitat and a single vastly different species-poor intervening land cover (the matrix). Objectives How does matrix composition influence the effect of FPS on biodiversity?. Methods Using an individual-based model to investigate the effect of different configurations of the matrix on the relationship between FPS and biodiversity of the focal-habitat. We manipulated the number and quality of land cover types in the matrix, and their similarity to the focal-habitat. Results Extremely different matrix, caused an order of magnitude stronger effect of FPS on alpha- and gamma-diversity and beta-diversity to decline. Low FPS led to high gamma-diversity. Increasing FPS caused a dramatic decline to low diversity. In contrast landscapes with a more similar matrix had lower diversity under low FPS declining little with increasing FPS. Having few matrix types caused beta-diversity to decline in general compared to landscapes with a larger numbers. Conclusions The effects of FPS on biodiversity may change depending on the number of matrix types and their similarity to the focal-habitat. We recommend that fragmentation studies should consider a greater variety of landscapes to help assess in which cases FPS does not have a negative impact and allow better predictions of the impacts of fragmentation. We show the importance of having a diversity of matrix land cover types and improving the hospitability of the matrix for species dependent on the focal-habitat.