Role of host identity in effects of phytogenic mounds on plant assemblages and species richness on coastal arid dunes

Question: Phytogenic mounds (nebkhas) ‐ the natural accumulation of wind‐blown sediments within or around the canopies of plants ‐ have been proposed as important structures for locally maintaining high species richness in coastal and arid ecosystems. Nebkhas are assumed to increase habitat heterogeneity, but what is the importance of the nebkha host species relative to other nebkha characteristics in determining the associated plant assemblages? Are some host species more effective in creating diversity hotspots, or does a single species‐area relationship apply to all nebkhas, regardless of host species? Can the influence of the host be ascribed to its indirect effects on abiotic attributes of the nebkha complex? Methods and location: We investigated plant species richness and composition on nebkhas around six psammophytic species on Mediterranean coastal dunes of the Sinai Peninsula. Results: Plant species richness was significantly related to nebkha size by the single power function according to the general prediction of island biogeography theory, but this relationship was modified ‐ though to a limited degree ‐ by nebkha host species identity. Canonical Correspondence Analysis revealed that nebkha host species identity and nebkha environmental and non‐environmental factors significantly explained species composition on the nebkhas, but host species identity did so to a greater extent. The latter might reflect differences in seed trapping ability or free space for colonization between host species. Conclusion: Differences in community composition and richness among nebkhas formed by different host species represent a key factor in the maintenance of plant diversity on arid coastal dunes.     

甘肃民勤不同演化阶段白刺灌丛沙堆分布格局及特征

通过对甘肃民勤不同演化阶段灌丛沙堆的调查,研究了其空间格局、形态和表层土壤水分特征及其差异,并对研究区的生态环境现状进行了分析。结果表明,研究区灌丛沙堆以稳定阶段为主,但这种稳定状态可能是暂时的,随着距离沙丘距离的变化,不同演化阶段灌丛沙堆呈现出有规律的分布,植被、表层土壤水分以及风力的相互作用是引起这种分布的主要原因。随着灌丛沙堆的演化,灌丛沙堆的形态参数呈现不同的变化趋势,雏形阶段灌丛沙堆的高度与水平尺度之间无明显相关性,发育阶段灌丛沙堆高度随水平尺度的增加呈现二次函数增长,稳定阶段灌丛沙堆高度随水平尺度的增加呈现对数函数增长,活化阶段灌丛沙堆高度与水平尺度的相关性较差。     

Unraveling landscapes with phytogenic mounds (nebkhas): An exploration of spatial pattern

Phytogenic mounds (nebkhas) often are symptoms of desertification in arid regions. Interactions among nebkhas and between nebkhas and their environment are however poorly examined. To this end, three main hypotheses of nebkha pattern formation were evaluated in this study. These state that nebkha patterns are either shaped by: (i) biologically induced recruitment inhibiting zones, (ii) biologically induced recruitment encouraging zones, or (iii) by the spatial distribution of abiotic factors which are not biologically driven. Contrasting nebkha landscapes were examined: a highly dense New Mexican mesquite (Prosopis glandulosa) and snakeweed (Gutierrezia sarothrae and Gutierrezia microcephala) ecosystem, and a low-density mixed Tamarix aphylla and Calligonum comosum field in central Libya. Spatial second-order statistics of strategically chosen nebkha subpatterns were compared with those of null models in which observed patches were spatially randomized without overlap. Null model deviations were assessed with goodness-of-fit tests, and interpreted in terms of hypothesized mechanisms of nebkha pattern formation. Our results suggest that biologically induced recruitment inhibiting zones surround adult mesquite nebkhas. The configuration of Calligonum and Tamarix nebkhas may be driven by spatial dynamics of abiotic microsites which are not caused by nebkha interactions. Hence we conclude that both biotic and abiotic drivers can shape nebkha spatial patterns.     

Reconstructing pre-impact vegetation cover in modified landscapes using environmental modelling, historical surveys and remnant vegetation data: a case study in the Fleurieu Peninsula, South Australia

Aim To investigate the application of environmental modelling to reconstructive mapping of pre‐impact vegetation using historical survey records and remnant vegetation data. Location The higher elevation regions of the Fleurieu Peninsula region in South Australia were selected as a case study. The Fleurieu Peninsula is an area typical of many agricultural regions in temperate Australia that have undergone massive environmental transformation since European settlement. Around 9% of the present land cover is remnant vegetation and historical survey records from the ad 1880s exist. It is a region with strong gradients in climate and topography. Methods Records of pre‐impact vegetation distribution made in surveyors’ field notebooks were transcribed into a geographical information system and the spatial and classificatory accuracy of these records was assessed. Maps of remnant vegetation distribution were obtained. Analysis was undertaken to quantify the environmental domains of historical survey record and remnant vegetation data to selected meso‐scaled climatic parameters and topo‐scaled terrain‐related indices at a 20 m resolution. An exploratory analytical procedure was used to quantify the probability of occurrence of vegetation types in environmental domains. Probability models spatially extended to geographical space produce maps of the probability of occurrence of vegetation types. Individual probability maps were combined to produce a pre‐impact vegetation map of the region. Results Surveyors’ field notebook records provide reliable information that is accurately locatable to levels of resolution such that the vegetation data can be spatially correlated with environmental variables generated on 20 m resolution environmental data sets. Historical survey records of vegetation were weakly correlated with the topo‐scaled environmental variables but were correlated with meso‐scaled climate. Remnant vegetation records similarly not only correlated to climate but also displayed stronger relationships with the topo‐scaled environmental variables, particularly slope. Main conclusions A major conclusion of this study is that multiple sources of evidence are required to reconstruct past vegetation patterns in heavily transformed region. Neither the remnant vegetation data nor historical survey records provided adequate data sets on their own to reconstruct the pre‐impact vegetation of the Fleurieu Peninsula. Multiple sources of evidence provide the only means of assessing the environmental and historical representativeness of data sets. The spatial distribution of historical survey records was more environmentally representative than remnant vegetation data, which reflect biases due to land clearance. Historical survey records were also shown to be classificatory and spatially accurate, thus are suitable for quantitative spatial analyses. Analysis of different spatial vegetation data sets in an environmental modelling framework provided a rigorous means of assessing and comparing respective data sets as well as mapping their predicted distributions based on quantitative correlations. The method could be usefully applied to other regions where predictions of pre‐impact vegetation cover are required.     

我多组学关联分析揭示表观等位基因在拟南芥环境适应性进化中的作用及机制

表观等位基因一般是指仅由DNA甲基化差异引起的表达量不同的等位基因,对植物形态结构和各种生理过程具有重要影响。但自然条件下环境因素对植物表观等位基因的影响还不清楚,同时表观等位基因在植物环境适应性进化中的作用和机制还亟待探究。为了在全基组水平鉴定拟南芥(Arabidopsis thaliana)中与特定环境因素相关的表观等位基因,并分析它们参与拟南芥环境适应性进化的可能机制,本研究利用623株拟南芥生态型的转录组、甲基化组和种源地气候数据进行多组学关联分析,并同时进行了蛋白互作网络和基因富集分析。以春季和夏季降水量为例,本研究最终鉴定到5个基因(AGL36、AT2G34100、AT4G09360、LSU4和AT5G56910)可能具有相应的表观等位基因,基因内部或附近特定区域不同甲基化水平对它们的表达可能具有调控作用。其中与种子发育有关的印记基因AGL36首次被发现可能作为表观等位基因参与拟南芥环境适应性进化,其他4个基因均与生物胁迫响应有关。自然条件下降水量能影响当地病虫害的严重程度,而DNA甲基化能通过影响这4个免疫基因的表达来影响拟南芥免疫能力。在长期演化过程中有利于个体适应当地降水模式的表观等位基因受到正向选择,这可能是这些表观等位基因参与拟南芥降水适应性进化的潜在机制。通过蛋白互作网络、GO功能分析和KEGG通路分析,本研究还首次发现LSU4可能与LSU基因家族其他成员一样参与硫代谢网络,并通过影响硫代葡萄糖苷代谢参与拟南芥生物胁迫响应。     

Environmental coupling of selection and heritability limits evolution

There has recently been great interest in applying theoretical quantitative genetic models to empirical studies of evolution in wild populations. However, while classical models assume environmental constancy, most natural populations exist in variable environments. Here, we applied a novel analytical technique to a long-term study of birthweight in wild sheep and examined, for the first time, how variation in environmental quality simultaneously influences the strength of natural selection and the genetic basis of trait variability. In addition to demonstrating that selection and genetic variance vary dramatically across environments, our results show that environmental heterogeneity induces a negative correlation between these two parameters. Harsh environmental conditions were associated with strong selection for increased birthweight but low genetic variance, and vice versa. Consequently, the potential for microevolution in this population is constrained by either a lack of heritable variation (in poor environments) or by a reduced strength of selection (in good environments). More generally, environmental dependence of this nature may act to limit rates of evolution, maintain genetic variance, and favour phenotypic stasis in many natural systems. Assumptions of environmental constancy are likely to be violated in natural systems, and failure to acknowledge this may generate highly misleading expectations for phenotypic microevolution.     

Natural selection and population dynamics

To what extent, and under which circumstances, are population dynamics influenced by concurrent natural selection? Density dependence and environmental stochasticity are generally expected to subsume any selective modulation of population growth rate, but theoretical considerations point to conditions under which selection can have an appreciable impact on population dynamics. By contrast, empirical research has barely scratched the surface of this fundamental question in population biology. Here, we present a diverse body of mostly empirical evidence that demonstrates how selection can influence population dynamics, including studies of small populations, metapopulations, cyclical populations and host-pathogen interactions. We also discuss the utility, in this context, of inferences from molecular genetic data, placing them within the broader framework of quantitative genetics and life-history evolution.     

Quantifying effects of environmental and geographical factors on patterns of genetic differentiation

Elucidating the factors influencing genetic differentiation is an important task in biology, and the relative contribution from natural selection and genetic drift has long been debated. In this study, we used a regression-based approach to simultaneously estimate the quantitative contributions of environmental adaptation and isolation by distance on genetic variation in Boechera stricta, a wild relative of Arabidopsis. Patterns of discrete and continuous genetic differentiation coexist within this species. For the discrete differentiation between two major genetic groups, environment has larger contribution than geography, and we also identified a significant environment-by-geography interaction effect. Elsewhere in the species range, we found a latitudinal cline of genetic variation reflecting only isolation by distance. To further confirm the effect of environmental selection on genetic divergence, we identified the specific environmental variables predicting local genotypes in allopatric and sympatric regions. Water availability was identified as the possible cause of differential local adaptation in both geographical regions, confirming the role of environmental adaptation in driving and maintaining genetic differentiation between the two major genetic groups. In addition, the environment-by-geography interaction is further confirmed by the finding that water availability is represented by different environmental factors in the allopatric and sympatric regions. In conclusion, this study shows that geographical and environmental factors together created stronger and more discrete genetic differentiation than isolation by distance alone, which only produced a gradual, clinal pattern of genetic variation. These findings emphasize the importance of environmental selection in shaping patterns of species-wide genetic variation in the natural environment.     

Microenvironmental and vegetational heterogeneity induced by phytogenic nebkhas in an arid coastal ecosystem

The nebkhas of woody plants represent distinct habitats in arid and semiarid ecosystems. Nebkhas are mounds composed of wind-borne sediment within or around shrub canopies. We studied the effects of widely spaced nebkhas of Retama raetam shrub on their microenvironment and associated herbaceous vegetation in the Mediterranean coast of Sinai Peninsula. Our measurements included nebkha size (height and width) and shrub size (canopy height and diameter). We identified four distinct microsites at each nebkha: crest, mid-slope, edge, and internebkha space. We measured soil temperature and moisture, photosynthetically active radiation (PAR), and soil properties. The plant species grown at each microsite were identified and their densities were measured. Average soil temperature and PAR were highest at internebkha space and lowest at nebkha crest. The maximum diurnal temperature and PAR of internebkhas exceeded that of nebkhas. Soil moisture and nutrient concentrations showed a gradient of spatial heterogeneity and were highest at the nebkha edge. Regression analysis indicated that total herbaceous plant density was significantly related to nebkha size, and to shrub canopy diameter and area. Detrended correspondence analysis indicated that patterns of species composition were correlated with the spatial variability in soil moisture and nutrient content along the gradient of increasing distance from the nebkha crest. It is assumed that shrub canopy and its nebkha interact in governing ecosystem functioning in this environment.     

Introduction: Current Directions in Australian Anthropologies of the Environment

Environmental anthropology is an expanding field in Australia. Extensive research on Aboriginal relationships to land and natural resources has provided the foundation for growing anthropological interest in the interactions of other Australians with the biophysical environments they inhabit. Australian‐based anthropologists also continue to contribute to research on environmental beliefs and practices in other parts of the world. This paper provides a brief overview of previously explored themes in this field as a precursor to introducing new research and proposing additional areas of research. It is suggested that these could be usefully developed to enhance anthropological contributions to debates about environmental change in Australia and surrounding regions. We argue that there are roles for anthropologists as `cultural translators' in cross‐disciplinary engagements with environmental scientists and natural resource managers; as cultural theorists skilled at documenting and interpreting changing environmental attitudes; and as environmental advocates pursuing the knowledge needed to create more ecologically sustainable human communities. We also suggest that Australian anthropologies of the environment can make valuable theoretical and ethnographic contributions to this important international field of study.     

A large-scale stream benthic diatom database

A relational database linking benthic diatom records, taxonomic nomenclature including synonyms, and corresponding environmental data has been built in MS Access. It allowed flexible and long-term use of a relatively important amount of data (∼3000 records) gathered in the framework of the EC-funded PAEQANN project, gathering precise and documented information both about benthic diatoms and quantitative or semi-quantitative environmental data. Such a database has been shown to be a useful tool for the definition of benthic diatom typology at a multi-regional scale, the prediction of the impact of environmental characteristics on the structure of diatom communities, and additionally for a new insight on the auto-ecology of some taxa. This database could serve as a template for further work on diatoms and, after some implementation, on other freshwater communities. It could also be the basis for wider typology of stream diatoms, extended to other regions.     

Genomic signature of natural and anthropogenic stress in wild populations of the waterflea Daphnia magna: validation in space, time and experimental evolution

Natural populations are confronted with multiple selection pressures resulting in a mosaic of environmental stressors at the landscape level. Identifying the genetic underpinning of adaptation to these complex selection environments and assigning causes of natural selection within multidimensional selection regimes in the wild is challenging. The water flea Daphnia is a renowned ecological model system with its well-documented ecology, the possibility to analyse subfossil dormant egg banks and the short generation time allowing an experimental evolution approach. Capitalizing on the strengths of this model system, we here link candidate genome regions to three selection pressures, known to induce micro-evolutionary responses in Daphnia magna: fish predation, parasitism and land use. Using a genome scan approach in space, time and experimental evolution trials, we provide solid evidence of selection at the genome level under well-characterized environmental gradients in the wild and identify candidate genes linked to the three environmental stressors. Our study reveals differential selection at the genome level in Daphnia populations and provides evidence for repeatable patterns of local adaptation in a geographic mosaic of environmental stressors fuelled by standing genetic variation. Our results imply high evolutionary potential of local populations, which is relevant to understand the dynamics of trait changes in natural populations and their impact on community and ecosystem responses through eco-evolutionary feedbacks.     

Gene flow and genetic drift in urban environments

Evidence is growing that human modification of landscapes has dramatically altered evolutionary processes. In urban population genetic studies, urbanization is typically predicted to act as a barrier that isolates populations of species, leading to increased genetic drift within populations and reduced gene flow between populations. However, urbanization may also facilitate dispersal among populations, leading to higher genetic diversity within, and lower differentiation between, urban populations. We reviewed the literature on nonadaptive urban evolution to evaluate the support for each of these urban fragmentation and facilitation models. In a review of the literature with supporting quantitative analyses of 167 published urban population genetics studies, we found a weak signature of reduced within‐population genetic diversity and no evidence of consistently increased between‐population genetic differentiation associated with urbanization. In addition, we found that urban landscape features act as barriers or conduits to gene flow, depending on the species and city in question. Thus, we speculate that dispersal ability of species and environmental heterogeneity between cities contributes to the variation exhibited in our results. However, >90% of published studies reviewed here showed an association of urbanization with genetic drift or gene flow, highlighting the strong impact of urbanization on nonadaptive evolution. It is clear that species biology and city heterogeneity obscure patterns of genetic drift and gene flow in a quantitative analysis. Thus, we suggest that future research makes comparisons of multiple cities and nonurban habitats, and takes into consideration species' natural history, environmental variation, spatial modelling and marker selection.     

极地和深海环境中低温噬菌体研究进展

极地和深海是地球上较为独特的生态系统,生活在其中的生物由于长期处于低温、寡营养和黑暗封闭的环境中,大多缺乏基本的光合作用,而被认为是研究生命进化和地球环境演化等问题的＂活化石＂。在这样的极端环境中,低温噬菌体的丰度却很高,越来越多的证据表明它们在维持这类环境的生态平衡和调控生物地球化学循环等方面扮演着非常重要的角色。对极地与深海中低温噬菌体的研究进行简要综述。     

Constraints on the evolution of adaptive phenotypic plasticity in plants

The high potential fitness benefit of phenotypic plasticity tempts us to expect phenotypic plasticity as a frequent adaptation to environmental heterogeneity. Examples of proven adaptive plasticity in plants, however, are scarce and most plastic responses actually may be 'passive' rather than adaptive. This suggests that frequently requirements for the evolution of adaptive plasticity are not met or that such evolution is impeded by constraints. Here we outline requirements and potential constraints for the evolution of adaptive phenotypic plasticity, identify open questions, and propose new research approaches. Important open questions concern the genetic background of plasticity, genetic variation in plasticity, selection for plasticity in natural habitats, and the nature and occurrence of costs and limits of plasticity. Especially promising tools to address these questions are selection gradient analysis, meta-analysis of studies on genotype-by-environment interactions, QTL analysis, cDNA-microarray scanning and quantitative PCR to quantify gene expression, and two-dimensional gel electrophoresis to quantify protein expression. Studying plasticity along the pathway from gene expression to the phenotype and its relationship with fitness will help us to better understand why adaptive plasticity is not more universal, and to more realistically predict the evolution of plastic responses to environmental change.     

Environmental selection is a main driver of divergence in house sparrows (Passer domesticus) in Romania and Bulgaria

Both neutral and adaptive evolutionary processes can cause population divergence, but their relative contributions remain unclear. We investigated the roles of these processes in population divergence in house sparrows (Passer domesticus) from Romania and Bulgaria, regions characterized by high landscape heterogeneity compared to Western Europe. We asked whether morphological divergence, complemented with genetic data in this human commensal species, was best explained by environmental variation, geographic distance, or landscape resistance—the effort it takes for an individual to disperse from one location to the other—caused by either natural or anthropogenic barriers. Using generalized dissimilarity modeling, a matrix regression technique that fits biotic beta diversity to both environmental predictors and geographic distance, we found that a small set of climate and vegetation variables explained up to ~30% of the observed divergence, whereas geographic and resistance distances played much lesser roles. Our results are consistent with signals of selection on morphological traits and of isolation by adaptation in genetic markers, suggesting that selection by natural environmental conditions shapes population divergence in house sparrows. Our study thus contributes to a growing body of evidence that adaptive evolution may be a major driver of diversification.     

New approach for evaluating habitat stability using scarce records for both historical and contemporary specimens: a case study using Carabidae specimen records

Natural history collections, such as specimen records, are crucial resources for conservation and habitat management. However, these data are usually scarce compared to physical environmental data (e.g., digital terrain maps) that we often have little species data and a lot of physical environmental data with which to evaluate habitats. In this paper, we propose a method for evaluating habitat stability using scarce natural history records and abundant physical environmental data. We used both historical and contemporary specimen records of carabid beetles (areas in which records of the same species were recorded during both periods) and evaluated the attributes of these areas using terrain characteristics. We found two common terrain characteristics among the occupied areas: large total river length and low variation in elevation. These terrain characteristics suggest that habitats of carabid species have been conserved in disturbed and wet environments for a long time. These results are consistent with the ecological characteristics of carabid beetles. Our study shows that scarce natural history collections, combined with ingenuity, can be useful for evaluating habitats.     

Alien phytogeographic regions of southern Africa: numerical classification, possible drivers, and regional threats

The distributions of naturalised alien plant species that have invaded natural or semi-natural habitat are often geographically restricted by the environmental conditions in their new range, implying that alien species with similar environmental requirements and tolerances may form assemblages and characterise particular areas. The aim of this study was to use objective numerical techniques to reveal any possible alien phytogeographic regions (i.e. geographic areas with characteristic alien plant assemblages) in southern Africa. Quarter degree resolution presence records of naturalised alien plant species of South Africa, Lesotho, Swaziland, Namibia and Botswana were analysed through a divisive hierarchical classification technique, and the output was plotted on maps for further interpretation. The analyses revealed two main alien phytogeographic regions that could be subdivided into eight lower level phytogeographic regions. Along with knowledge of the environmental requirements of the characteristic species and supported by further statistical analyses, we hypothesised on the main drivers of alien phytogeographic regions, and suggest that environmental features such as climate and associated biomes were most important, followed by human activities that modify climatic and vegetation features, such as irrigation and agriculture. Most of the characteristic species are not currently well-known as invasive plant species, but many may have potential to become troublesome in the future. Considering the possibility of biotic homogenization, these findings have implications for predicting the characteristics of the plant assemblages of the future. However, the relatively low quality of the dataset necessitates further more in-depth studies with improved data before the findings could be directly beneficial for management.