Patterns of Species Richness at Varying Scales in Western Kenya: Planning for Agroecosystem Diversification

Agroforestry tree domestication research is geared at promoting diversification of on-farm tree species composition. A survey was conducted in western Kenya with the objective of exploring possibilities for diversification for a particular agroecosystem, involving a complete tree census, tree measurement and collection of ethnobotanical information in 201 small-scale farms. Various approaches to landscape diversification were explored, including random distribution of trees to increase alpha richness and species richness at higher scales in the landscape, and random distribution of species composition over villages to increase the average richness of villages. The results showed that random distribution would result in increments of average species richness in the landscape, without requiring increments of total and average abundance. A new, fast and exact method of calculating site-based species accumulation curves was presented. The method yielded results that were extremely close to classical algorithms using 10,000 randomisations. Four use-groups (beverage, fodder, charcoal and soil fertility enhancement) were identified as use-groups with alpha richness smaller than one species, but only beverage and fodder had lowest richness at all scales (fruit and construction wood joined the four use-groups of lowest average species richness at higher scales in the landscape). The novel approaches used in this study could be used in future biodiversity studies on species accumulation patterns, or on spatial distribution patterns of species richness in a landscape.     

Richness, Abundance, and Complementarity of Fruit-feeding Butterfly Species in Relict Sacred Forests and Forest Reserves of Ghana

Sacred forest groves in Ghana are centuries old protected areas that were once part of continuous forest cover but now mostly exist as relict forest patches embedded in an agropastoral landscape. We conducted a year-long survey of the fruit-feeding butterfly fauna of four sacred groves and two forest reserves in the moist semi-deciduous forest zone of Ghana to characterize resident species diversity and complementarity among communities. Joint analysis of frugivorous butterfly diversity at these six forest fragments, which ranged in size from 6 to 5000 ha, was used to evaluate the conservation potential of these ancient indigenous reserves. A total of 6836 individuals were trapped across all sites, representing 79 species and five subfamilies. Community diversity was characterized in terms of, (a) number of species accumulated versus sampling effort, (b) rarefied species richness, (c) nonparametric richness estimates, (d) species evenness, (e) Simpson’s Index of Diversity, and (f) complementarity of communities. Diversity of the fruit-feeding butterfly communities, quantified in terms of both species evenness and rarefied species richness, was higher at the larger forest reserves than at the small sacred forest groves. Additionally, although all sites had species trapped only at that site, the 5000-ha forest reserve harbored a resident community that was clearly distinctive from and more diverse than the other communities including the other forest reserve. Hence, our findings add to the burgeoning body of data that indicates large reserves are the foundation of successful conservation programs. Nonetheless, we found these small forest patches contribute to biodiversity conservation in at least three ways and these are identified and discussed. We also identify a number of species that appear more or less vulnerable to dynamics of forest fragmentation based on changes in their relative abundance across sites and we interpret these data in the context of potential indicator species and theoretical predictions of at-risk species.     

AFLP and SSR diversity in the African fruit tree Allanblackia: implications for management of a genus newly subject to domestication for the edible oil industry

Allanblackia, a dioecious fruit tree native to sub-Saharan Africa, is the subject of increased international interest for oil production for the global food market. Until recently, however, Allanblackia has been an overlooked wild tree, with very little known about its biology that could guide domestication. Here, we applied amplified fragment length polymorphisms (AFLPs) to assess the genetic composition of populations of five important Allanblackia species. Data indicated significant differentiation between certain species and occasional misidentification of taxa during collection. Misclassification suggested that care is required when sampling germplasm, especially when domesticating single species in areas where related taxa are sympatric. Genetic relatedness between species and the geographic proximity of distributions sometimes but did not always correspond. This likely reflects complex evolutionary processes related to migration and dispersal in the genus and indicated that a simple ‘sampling-by-distance’ model for assessing variation is not always appropriate. High AFLP variation suggested that Cameroon presents particular opportunities for domestication. In a comparison with AFLPs, we tested the value of de novo simple sequence repeats (SSRs) for detecting genetic variation in the same populations of Allanblackia, with a view to later applying these markers to determine optimal tree-planting ratios (female to male trees) and configurations during on-farm planting. Four primer pairs from a genomic library of one member of the genus—Allanblackia stuhlmannii—appeared suitable for research in this taxon (revealing 4.75 alleles per locus on average). However, cross-species application appeared limited (occurrence of null alleles?), suggesting either generic expressed sequence tag SSRs or specific suites of primers for each taxon are required.     

Structure of coniferous forest communities in Western Washington: Diversity and ecotope properties

Summary Vegetation patterns were examined in three regions of coniferous forest, arrayed along a gradient of decreasing maritime influence. The following responses to decreasing maritime influence were noted: all aspects of species diversity increase; growth-form complexity increases; habitat heterogeneity increases; species habitat breadths decrease; and habitat overlaps decrease. These observations result from studies of both individual plots and data aggregated into community types. The contrasts between the maritime western study region and the more continental eastern study region imply that ecotope differentiation increases from west to east.The enhanced structural complexity of the eastern region results from climatical limitation of the dominant tree species. Reduced canopy dominance produces greater within-habitat heterogeneity with respect to moisture, light, and soil properties. Furthermore, contrasts between the extremes of the topographic-moisture gradient increase toward the east. These factors combine to increase alpha, beta, and gamma diversities in the eastern study region above those of the western study region. Corresponding to these diversity trends are decreasing mean relative niche, habitat, and ecotope breadths of species toward the eastNomenclature is that of Hitchcock & Cronquist (1973).Funds for the study were provided in part by the Graduate School Research Fund, University of Washington. We thank Alan F. Watson, B.C. Cannon, S.G. Fleming, C. Brewer, K.E. Wade, K. Loughney, and M. Swanson for their able field assistance and Joan Canfield for assistance with data analysis. R.H. Whittaker, R.K. Peet, and an anonymous reviewer made valuable suggestions.     

Factors Affecting Macroinvertebrate Richness and Diversity in Portuguese Streams: a Two‐Scale Analysis

We analysed the spatial patterns in macroinvertebrate taxon richness and abundance at two scales: sampling unit and basin. We sampled 12 stream sites in three zones of Portugal, differing in climate geomorphology and water chemistry. At a sampling unit scale, substratum organic matter content, depth and the dominant size of substratum particles were correlated with numbers of taxa and individuals. We propose that the number of taxa at a small scale depends on the number of individuals, which in turn is the result of organic matter accumulation, hydrologic and substratum characteristics. The environmental parameters better explaining the large‐scale biological data were temperature, minimum size of substratum particles and pH. Regardless of the relative importance of variable types and mechanisms regulating stream invertebrates along the climatic gradient, rivers from the North and Centre appeared to be richer in taxa than the typically Mediterranean streams in the South.     

Genetic Diversity： Geographical Distribution and Toxin Profiles of Microcystis Strains （Cyanobacteria） in China

Twenty strains of Microcystis Kütz were isolated from different freshwater bodies in China to analyze the diversity, geographical distribution and toxin profiles. Based on whole-cell polymerase chain reaction of cpcBA-IGS nucleotlde sequence, the derived neighbor-joining （NJ） and maximum parsimony （MP） trees Indicate that these strains of Microcystis can be divided into four clusters. The strains from south, middle and north region of China formed distinct lineages, suggesting high diversity and a geographical distribution from south to north locations. Moreover, the results being indicating high variable genotypes of the strains of the Microcystis strains from the same lake show that there Is high diversity of Microcystis within a water bloom population. Comparing the results of the present study with those reported for compared with 43 strains of Microcystis from other locations, also reveals Chinese strains have high similarity with those from regions in the North Hemispherical. This suggests that the Microcystis strains In the world might have a geographical distribution. Analysis of 30 strains using the primers MCF/TER and TOX2P/TOX2M showed that there was no correlation between the gene of cpcBA-IGS and the presence of racy. Toxic strains were founded to be predominant in different water bodies throughout China.     

Diversity and composition of trees and shrubs in Kasagala forest: a semiarid savannah woodland in central Uganda

The diversity and composition of trees and shrubs of ≥5 cm diameter at breast height (DBH) were investigated in Kasagala woodland in central Uganda using 1 ha permanent sample plots. A total of 2745 trees and shrubs with a mean stem density of 686 ha⁻¹ were recorded. These included 69 tree species belonging to 28 families and 47 genera. There was a larger number of small stems compared with that of larger stems. There was significant variation in stem size class distribution between the plots ( F  =   3.14, P  =   0.027). The variation in stem densities (counts) across different size classes was significant ( F  =   8.31, P  <   0.001). Species diversity was higher in the low lands compared with that in the elevated sites in the woodland. The species encountered were unevenly distributed across the plots. Species abundance was not significantly different across the sample plots ( F  =   2.63, P  =   0.053). We suggest that the structure of the forest is typical of any regenerating forest, but other human influences may have played a part in the dominance of size classes <10 cm DBH. The causes of the present status and composition of the woodland require further investigation.     

云冷杉天然林乔木树种组成及物种多样性对择伐强度的动态响应

以吉林省长白山金沟岭林场云冷杉天然林为研究对象,定量分析不同择伐强度(对照0%、弱度择伐20.6%、中度择伐29.9%和重度择伐41.6%)下其乔木层树种组成及物种多样性的动态变化规律。结果显示:采伐后经10年恢复,择伐对原有林分结构影响不大,其中弱度和中度择伐仍能保持择伐前以冷杉占优势、红松和云杉占亚优势的物种结构,重度择伐使林分结构略有改变,但不明显;相比择伐前,择伐后经10年恢复的样地α多样性指数均有所增加,优势度指数均有不同程度的降低,其中弱度择伐样地的物种丰富度指数、多样性指数及均匀度指数的增加量和优势度指数的减少量均最大,说明弱度择伐有利于改善林分物种多样性状况,使林分物种更为丰富。本研究结果表明采取弱度择伐的方式更有利于维持林分物种结构及物种多样性,有利于云冷杉天然林的可持续经营和发展。     

Genetic Diversity of a Tropical Tree Species,Shorea leprosula Miq. (Dipterocarpaceae), in Malaysia: Implications for Conservation of Genetic Resources and Tree Improvement1

Genetic diversity and population genetic structure of Shorea leprosula was investigated using seven natural populations distributed throughout Peninsular Malaysia and one natural population from Borneo. The mean population and species level genetic diversity were exceptionally high (H_e= 0.369 ± 0.025 and 0.406 ± 0.070, respectively). Heterozygosity varied among populations, ranging from 0.326 to 0.400, with the highest values found in the populations from central Peninsular Malaysia. Correlations among ecological factors (longitude, latitude, and annual rainfall) were not significant (P > 0.05), indicating that these ecological variables were not responsible for the observed genetic differences among populations. The Bangi adult population exhibited a higher level of observed heterozygosity but lower fixation indices in comparison to its seedling population. All other seedling populations also showed positive fixation indices (f), indicating a general excess of homozygotes. This also may suggest selection against homozygotes between the seedling and adult stages. A low level of population differentiation was detected (G_ST= 0.117 with the Lambir population and GST= 0.085 without the Lambir population). Furthermore, gene flow (N_m) between populations was not significantly correlated with geographical distances for the populations within Peninsular Malaysia. Cluster analysis also did not reflect geographical proximity and gave little insight into the genetic relatedness of the populations. This may indicate that the populations sampled are part of a continuous population with fragmentation having occurred in the recent past.     

Biological diversity of the Yala Swamp lakes, with special emphasis on fish species composition, in relation to changes in the Lake Victoria Basin (Kenya): threats and conservation measures

During the second half of the last century, the Lake Victoria ecosystem has undergone drastic ecological changes. Most notable has been the decline in the populations of many endemic cichlid fishes. The lake has lost nearly 200 haplochromines and one tilapiine, Oreochromis esculentus. The above changes have been attributed to effects of species stocking and, in particular, from predation pressure by the introduced Nile perch, Lates niloticus. Other factors that have led to the decline of the endemic species include intensive non-selective fishing, extreme changes in the drainage basin, increased eutrophication, and the invasion of the lake by the water hyacinth, Eichhornia crassipes. However, the remnants of some species that had disappeared from Lake Victoria occur abundantly in the Yala Swamp lakes (Kanyaboli, Sare and Namboyo). This paper discusses the biodiversity of the swamp and the three lakes and gives suggestions for their conservation.     

Subsampling Herbarium Collections to Assess Geographic Diversity Gradients: A Case Study with Endemic Orchidaceae and Rubiaceae in Cameroon

We compiled herbarium specimen data to provide an improved characterization of geographic patterns of diversity using indices of species diversity and floristic similarity based on rarefaction principles. A dataset of 3650 georeferenced plant specimens belonging to Orchidaceae and Rubiaceae endemic to Atlantic Central Africa was assembled to assess species composition per half‐degree or one‐degree grid cells. Local diversity was measured by the expected number of species (S_k) per grid cell found in subsamples of increasing size and compared with raw species richness (S_R). A nearly unbiased estimator of the effective number of species per grid cell was also used, allowing quantification of ratios of ‘true diversity’ between grid cells. Species turnover was measured using a presence/absence‐based similarity index (Sørensen) and an abundance‐based index that corrects for sampling bias (NNESS). Our results confirm that the coastal region of Cameroon is more diverse in endemic species than those more inland. The southern part of this coastal forest is, however, as diverse as the more intensively inventoried northern part, and should also be recognized as an important center of endemism. A strong congruence between Sørensen and NNESS similarity matrices lead to similar delimitations of floristic units. Hence, heterogeneous sampling seems to confer more bias when measuring patterns of local diversity using raw species richness than species turnover using Sørensen index. Overall, we argue that subsampling methods represent a useful way to assess diversity gradients using herbarium specimens while correcting for heterogeneous sampling effort. Abstract in French is available in the online version of this article.     

More genetic data are needed before populations are mixed: response to ‘Sourcing Eurasian beaver Castor fiber stock for reintroductions in Great Britain and Western Europe’

Halley described three options for sourcing Eurasian beavers Castor fiber for reintroduction in Britain and Western Europe: (i) use animals from populations within a single western evolutionarily significant unit (ESU); (ii) mix animals from two or three western ESUs; and (iii) mix animals from eastern and western ESUs. Option three contravenes International Union for Conservation of Nature guidelines, so debate should focus on options one and two. We believe there is a need for further genetic analysis, before a final decision can be made. This decision should not be heavily influenced by cost or be determined by the genotypes of existing captive or escaped populations.     

Using food network unfolding to evaluate food–web complexity in terms of biodiversity: theory and applications

Food–web complexity often hinders disentangling functionally relevant aspects of food–web structure and its relationships to biodiversity. Here, we present a theoretical framework to evaluate food–web complexity in terms of biodiversity. Food network unfolding is a theoretical method to transform a complex food web into a linear food chain based on ecosystem processes. Based on this method, we can define three biodiversity indices, horizontal diversity (D_H), vertical diversity (D_V) and range diversity (D_R), which are associated with the species diversity within each trophic level, diversity of trophic levels, and diversity in resource use, respectively. These indices are related to Shannon's diversity index (H′), where H′ = D_H + D_V ? D_R. Application of the framework to three riverine macroinvertebrate communities revealed that D indices, calculated from biomass and stable isotope features, captured well the anthropogenic, seasonal, or other within‐site changes in food–web structures that could not be captured with H′ alone.     

Fostering equity,diversity, and inclusion in large,first‐year classes: Using reflective practice questions to promote universal design for learning in ecology and evolution lessons

Instructors can deliberately design for equity, diversity, and inclusion, including for large first‐year classes, and now instructors have added challenges given COVID‐19. Our paper explores the question: How do we integrate equity, diversity, and inclusion and universal design for learning (UDL) into first‐year, undergraduate ecology and evolution introductory lessons given the COVID‐19 pandemic? Given the large field exploring equity, diversity, and inclusion, we chose to focus on developing reflective practice question rubrics for before, during, and after lessons to encourage UDL for instructors, teaching assistants, and learners. We conducted a focus group within our team and discussed ideas related to online learning, including related pitfalls and solutions. Lastly, we created a figure to illustrate ideas and end with a general discussion. Our reflective practice questions for UDL rubrics, figure, focus group, and discussion aim to increase positive action for equity, diversity, and inclusion in the classroom and beyond.     

Diversity and mean specific leaf area of Mediterranean woody vegetation changes in response to summer drought across a double stress gradient: The role of phenotypic plasticity

Aim

Many aspects of vegetation response to increased drought remain uncertain but it is expected that phenotypic plasticity may be key to early adaptation of plants to environmental stress. In this work we observe the response of specific leaf area (SLA) of woody shrub vegetation to the summer drought typical of the Mediterranean climate. In addition, to observe the possible interaction between the impact of drought and the environmental characteristics of the ecosystems, communities from different edaphic and structural contexts distributed along the double stress gradient of the Mediterranean mountains (high temperature and low precipitation at low elevation; low temperature and high irradiation at high elevation) have been analysed.

Location

Central Mountain range of the Iberian Peninsula.

Methods

Along the entire altitudinal gradient, 33 shrub communities belonging to different habitat typologies (shrublands, rocky areas, hedgerows, understorey) were sampled before and after the passage of summer, both in 2017 and 2019. A total of 1724 individuals and 15,516 leaves were collected and measured to estimate the mean values and diversity of SLA of each community.

Results

The community-weighted mean and functional divergence have inverse quadratic relationships with the environmental gradient. Shrub communities at both ends of the gradient have low mean SLA values and high functional divergence of this trait. Summer drought implies a generalised decrease in the mean SLA of the communities throughout the gradient, as well as an alteration in functional richness and uniformity. However, the effect of summer drought on the plant community is mediated by the microenvironmental characteristics of its habitat.

Conclusions

Drought acclimatisation of shrub communities through phenotypic plasticity leads to rapid changes in their functional leaf structure. In the long term, our results point to an increase in plant conservative strategies, reduced ecosystem productivity, slower nutrient recycling and the reduction of communities of specific habitats as drought increases.     

Using a reference population yardstick to calibrate and compare genetic diversity reported in different studies: an example from the brown bear

In species with large geographic ranges, genetic diversity of different populations may be well studied, but differences in loci and sample sizes can make the results of different studies difficult to compare. Yet, such comparisons are important for assessing the status of populations of conservation concern. We propose a simple approach of using a single well-studied reference population as a ‘yardstick'' to calibrate results of different studies to the same scale, enabling comparisons. We use a well-studied large carnivore, the brown bear (Ursus arctos), as a case study to demonstrate the approach. As a reference population, we genotyped 513 brown bears from Slovenia using 20 polymorphic microsatellite loci. We used this data set to calibrate and compare heterozygosity and allelic richness for 30 brown bear populations from 10 different studies across the global distribution of the species. The simplicity of the reference population approach makes it useful for other species, enabling comparisons of genetic diversity estimates between previously incompatible studies and improving our understanding of how genetic diversity is distributed throughout a species range.     

Using virtual 3-D plant architecture to assess fungal pathogen splash dispersal in heterogeneous canopies: a case study with cultivar mixtures and a non-specialized disease causal agent

Background and Aims

Recent developments in plant disease management have led to a growing interest in alternative strategies, such as increasing host diversity and decreasing the use of pesticides. Use of cultivar mixtures is one option, allowing the spread of plant epidemics to be slowed down. As dispersal of fungal foliar pathogens over short distances by rain-splash droplets is a major contibutor to the spread of disease, this study focused on modelling the physical mechanisms involved in dispersal of a non-specialized pathogen within heterogeneous canopies of cultivar mixtures, with the aim of optimizing host diversification at the intra-field level.

Methods

Virtual 3-D wheat-like plants (Triticum aestivum) were used to consider interactions between plant architecture and disease progression in heterogeneous canopies. A combined mechanistic and stochastic model, taking into account splash droplet dispersal and host quantitative resistance within a 3-D heterogeneous canopy, was developed. It consists of four sub-models that describe the spatial patterns of two cultivars within a complex canopy, the pathway of rain-splash droplets within this canopy, the proportion of leaf surface area impacted by dispersal via the droplets and the progression of disease severity after each dispersal event.

Key Results

Different spatial organization, proportions and resistance levels of the cultivars of two-component mixtures were investigated. For the eight spatial patterns tested, the protective effect against disease was found to vary by almost 2-fold, with the greatest effect being obtained with the smallest genotype unit area, i.e. the ground area occupied by an independent unit of the host population that is genetically homogeneous. Increasing both the difference between resistance levels and the proportion of the most resistant cultivar often resulted in a greater protective effect; however, this was not observed for situations in which the most resistant of the two cultivars in the mixture had a relatively low level of resistance.

Conclusions

The results show agreement with previous data obtained using experimental approaches. They demonstrate that in order to maximize the potential mixture efficiency against a splash-dispersed pathogen, optimal susceptible/resistant cultivar proportions (ranging from 1/9 to 5/5) have to be established based on host resistance levels. The results also show that taking into account dispersal processes in explicit 3-D plant canopies can be a key tool for investigating disease progression in heterogeneous canopies such as cultivar mixtures.