Accounting for dispersal and biotic interactions to disentangle the drivers of species distributions and their abundances

Although abiotic factors, together with dispersal and biotic interactions, are often suggested to explain the distribution of species and their abundances, species distribution models usually focus on abiotic factors only. We propose an integrative framework linking ecological theory, empirical data and statistical models to understand the distribution of species and their abundances together with the underlying community assembly dynamics. We illustrate our approach with 21 plant species in the French Alps. We show that a spatially nested modelling framework significantly improves the model's performance and that the spatial variations of species presence-absence and abundances are predominantly explained by different factors. We also show that incorporating abiotic, dispersal and biotic factors into the same model bring new insights to our understanding of community assembly. This approach, at the crossroads between community ecology and biogeography, is a promising avenue for a better understanding of species co-existence and biodiversity distribution.     

Assembly of plant communities in coastal wetlands—the role of saltcedar Tamarix chinensis during early succession

Aims The mechanisms of plant community assembly are hypothesized to vary at different stages of succession. Here, we explore the local assemblage structure of a herbaceous plant community at its early stage of succession in a supratidal wetland. Specifically, we assess the role of Chinese saltcedar (Tamarix chinensis), the lone dominant shrub species, in shaping the spatial structure and species composition in the local plant community, after landscape alteration.Methods We used the multivariate trend-surface analysis for analyzing the spatial structure of the community composition. A null model was also used to detect potential biotic interactions between species. Statistical significance was derived from a permutation test by randomizing the presence-absence matrix and functional traits independently. Sensitivity analysis by randomly selecting 50 subplots and repeating the null model tests was also done. Finally, rank correlation analysis was used to study the relationship between effect sizes and distance to nearest T. chinensis individuals.Important findings The herbaceous plant community was highly structured and shaped by the presence of T. chinensis. At local scale, two functional traits, plant height and leaf area, were found to be significantly convergent. Dispersal, environmental stress and interspecific competition played a trivial effect on the local community assembly. The facilitating effect of T. chinensis on the pioneering herbaceous plants, through acting as a wind shelter, was put forward as the dominant community assembly process.     

Vegetation structure,species life span,and exotic status elucidate plant succession in a limestone quarry reclamation

An understanding of the processes involved in plant succession is pivotal in achieving an effective site restoration. In a former limestone quarry (northeastern Italy), we explored the effects of a technical reclamation on the plant community using changes in cover of vegetation layers and two sensitive plant traits (i.e. exotic status and life span), with a chronosequence approach. Four reclaimed areas of different ages (from 8 to 35 years old) and natural vegetation in the surroundings were investigated with seven permanent plots each, for a total of 35. Changes in vegetation layers and species richness of both exotic status and life span were analyzed by generalized linear (mixed) models. Relations with plant community assembly were also considered, using a multivariate approach. Both vegetation layers and plant traits were affected by the age of reclaimed areas, evidencing the main changes in plant succession. Annual and exotic species decreased toward the mature stages of reclamation and target vegetation, whereas overall plant diversity (species richness) was stable. Our findings show that both vegetation layer changes and plant traits can be used to assess the degree to which reclamation efforts produce results that approach the restoration of a natural vegetation reference. Implementation of management practices aimed at favoring native perennial species (e.g. appropriate seed mixtures, mowing, tree, and shrub planting) could limit weed‐control efforts, representing a reasonable trade‐off between biodiversity promotion and invasive plant control.     

Trait but not species convergence during plant community assembly in restored semi‐natural grasslands

Community assembly or succession was traditionally thought of as being deterministic and directional, leading to a clearly defined climax state. The alternative view, however, keeps gaining attention. This view states that community assembly is influenced by historical processes, where differences in the sequence and timing of species arrival result in distinct communities. Here we tested the hypothesis that both views are valid, but at a different level, with increasing dissimilarity in species composition among sites with increasing age (divergence), caused by historical processes (priority effects), and with increasing similarity in mean trait composition (convergence) among sites, indicating a directional development at the niche level. We surveyed a chronosequence of restored semi‐natural grassland patches on former pine plantations over seven restoration age classes, covering 22 grasslands. Pairwise multivariate distances were calculated between the different grassland patches based on species abundance on the one hand, and on mean community trait values for 28 plant life history traits on the other. Trait composition showed a clear decrease in multivariate distance with increasing restoration age, indicating trait convergence through time. At the species level, we found no evidence of convergence through time, with even a trend towards divergence. Furthermore, spatial variation and environmental heterogeneity were found to remain constant through time. These results confirm our hypothesis. At the trait level, limited niches occur, only filled by species having the appropriate traits, resulting in a clear deterministic model of assembly. Species identity, on the contrary, has no role in this niche filling. The first appropriate species to reach a restoration site will be most likely the ones that get established, resulting in divergence of the species composition among restored grasslands.     

Recovery of mammal diversity in tropical forests: a functional approach to measuring restoration

Ecological restoration is increasingly applied in tropical forests to mitigate biodiversity loss and recover ecosystem functions. In restoration ecology, functional richness, rather than species richness, often determines community assembly, and measures of functional diversity provide a mechanistic link between diversity and ecological functioning of restored habitat. Vertebrate animals are important for ecosystem functioning. Here, we examine the functional diversity of small‐to‐medium sized mammals to evaluate the diversity and functional recovery of tropical rainforest. We assess how mammal species diversity and composition and functional diversity and composition, vary along a restoration chronosequence from degraded pasture to “old‐growth” tropical rainforest in the Wet Tropics of Australia. Species richness, diversity, evenness, and abundance did not vary, but total mammal biomass and mean species body mass increased with restoration age. Species composition in restoration forests converged on the composition of old‐growth rainforest and diverged from pasture with increasing restoration age. Functional metrics provided a clearer pattern of recovery than traditional species metrics, with most functional metrics significantly increasing with restoration age when taxonomic‐based metrics did not. Functional evenness and dispersion increased significantly with restoration age, suggesting that niche complementarity enhances species' abundances in restored sites. The change in community composition represented a functional shift from invasive, herbivorous, terrestrial habitat generalists and open environment specialists in pasture and young restoration sites, to predominantly endemic, folivorous, arboreal, and fossorial forest species in older restoration sites. This shift has positive implications for conservation and demonstrates the potential of tropical forest restoration to recover rainforest‐like, diverse faunal communities.     

Changes in the structure and heterogeneity of vegetation and microsite environments with the chronosequence of primary succession on a glacier foreland in Ellesmere Island, high arctic Canada

Primary plant succession was investigated on a well-vegetated glacier foreland on Ellesmere Island in high arctic Canada. A field survey was carried out on four glacier moraines differing in time after deglaciation to assess vegetation development and microsite modification in the chronosequence of succession. The results showed evidence of directional succession without species replacement, which is atypical in the high arctic, reflecting the exceptionally long time vegetation development. During this successional process, Salix arctica dominated throughout all moraines. The population structures of S. arctica on these moraines implied the population growth of this species with progressing succession. The population density of S. arctica reflected the abundance of vascular plants, suggesting that development of the plant community might be related to structural changes and the growth of constituting populations. Through such growths of the population and the whole community with progressing succession, the spatial heterogeneity of vegetation gradually declines. Moreover, this vegetation homogenization is accompanied by changes in the spatial heterogeneity of microsite environments, suggesting significant plant effects on the modification of microsite environments. Accordingly, it was concluded that the directional primary succession observed on this glacier foreland is characterized by the initial sporadic colonization of plants, subsequent population growths, and the community assembly of vascular plants, accompanied by microsite modification.     

Temporal dynamics of plant community regeneration sources during tallgrass prairie restoration

Ecological restoration aims to augment and steer the composition and contribution of propagules for community regeneration in degraded environments. We quantified patterns in the abundance, richness, and diversity of seed and bud banks across an 11-year chronosequence of restored prairies and in prairie remnants to elucidate the degree to which the germinable seed bank, emerged seedlings, belowground buds, and emerged ramets were related to community regeneration. There were no directional patterns in the abundance, richness, or diversity of the germinable seed bank across the chronosequence. Emerged seedling abundance of sown species decreased during restoration. Richness and diversity of all emerged seedlings and non-sown emerged seedling species decreased across the chronosequence. Conversely, abundance and richness of belowground buds increased with restoration age and belowground bud diversity of sown species increased across the chronosequence. Numbers of emerged ramets also increased across the chronosequence and was driven primarily by the number of graminoid ramets. There were no temporal changes in abundance and richness of sown and non-sown emerged ramets, but diversity of sown emerged ramets increased across the chronosequence. This study demonstrates that after initial seeding, plant community structure in restored prairies increasingly reflects the composition of the bud bank.     

鹤山退化草坡生态系统的自然恢复

研究了鹤山南亚热带退化草坡20a的自然恢复动态,发现群落虽有阳生乔木入侵,但仍处于草本和灌丛占优势的生物多样性较低的阶段;土壤中的有机质、水解氮、有效磷和有效钾等营养元素已基本恢复到同地带顶级森林群落的水平;虽然群落的空间结构与生物多样性尚未恢复,但其部分生态功能已经恢复,其中水土保持最先恢复,生产力等功能还需要较长的时间恢复;对于鹤山草坡这类一般退化生态系统来说,可能需要通过构建合适的人工林来加速生物多样性和生物量等指标的恢复过程,仅仅通过自然恢复是难以在较短的时间内迅速恢复其物质循环等功能的。     

Convergence of community composition during secondary succession on Zokor rodent mounds on the Tibetan Plateau

Aims The community succession theory is much debated in ecology. We studied succession on Zokor rodent mounds on the Tibetan Plateau to address several fundamental questions, among them: (i) During secondary succession, does the community composition converge towards one community state or multiple states depending on the initial colonization? (ii) Do mound communities located in different background communities exhibit different assembly trajectories?Methods In a sub-alpine meadow, we investigated a total of 80 mound communities at several successional stages in three different background communities resulting from different management histories and compared their changes in species composition. The distribution of plant communities over time was analyzed with quantitative classification and ordination methods. The co-occurrence patterns of species were evaluated at each successional stage, and the degree of convergence/divergence among communities was obtained by calculating two beta-diversity indices.Important findings During secondary succession, species richness of mound communities changed over time, and this change was dependent on the background community. Five life-form groups exhibited different dynamic patterns in species richness and plant cover. Community composition and the degree of species co-occurrence between communities increased over time since disturbance. There was much variation in species composition at earlier stages of succession, but communities on older mounds became more similar to each other and to their surrounding vegetation over the course of secondary succession. Post-disturbance succession of Zokor mound communities transitioned from 'multiple alternative states' to 'background-based deterministic community assembly' over time. Tradeoffs between competition and colonization, as well as the characteristics of different life-forms and mass effects within a limited species pool are the mechanisms responsible for convergence of mound communities.     

甘南高寒草甸群落的物种-多度关系沿坡向的变化

物种-多度格局研究是揭示群落组织结构和物种区域分布规律的重要手段。该研究以青藏高原东北部的甘南高寒草甸为研究对象, 基于野外调查和室内分析, 研究了不同坡向的环境因子、植物群落分布, 并利用RAD软件程序包对其进行了拟合分析。结果显示: 在南坡-北坡上, 土壤含水量从南坡(0.18 g·g ^-1)到北坡(0.31 g·g ^-1)呈现递增的趋势, 土壤温度从南坡(22.33 ℃)到北坡(18.13 ℃)以及光照强度从南坡(744.15 lx)到北坡(681.93 lx)均呈逐渐减小的趋势。物种-多度分布曲线的斜率从南坡向北坡依次减小。随着坡向由南向北转变, 物种-多度和物种多样性都呈递增的趋势。通过6个模型对坡向梯度的物种-多度分布进行拟合发现, 甘南高寒草甸区的物种-多度分布主要是以生态位模型为主, 其次是随机分布模型。青藏高原高寒草甸微生境梯度上的物种在总体上的资源分配模式是以固定分配模式为主, 稀有种的资源分配模式是以随机性模型为主, 常见种的资源分配模式则是以确定性模型为主。     

Dynamic and static views of succession: Testing the descriptive power of the chronosequence approach

Chronosequence and permanent plot studies are the two most common methods for evaluating successional dynamics in plant communities. We combined these two approaches by re-sampling an old-field chronosequence at Cedar Creek Natural History Area (Minnesota, USA) to: (1) measure rates of secondary succession; and (2) to test the ability of the chronosequence approach to predict actual successional dynamics over a 14-year survey interval. For each of 19 chronosequence fields we calculated four complimentary indices of succession rate for community changes that actually occurred within each of these fields between 1983 and 1997. We found that measures of compositional dissimilarity, species turnover, and the change rates of perennial and native species cover over this 14-year period were all negatively correlated with field age, indicating that the rate of successional change in these old-fields generally declines over time. We also found that data collected from the initial static chronosequence survey (1983) accurately predicted many of the observed changes in species abundance that occurred between 1983 and 1997, but was a poor predictor of changes in species richness. In general, chronosequence re-sampling confirmed the validity of using the chronosequence approach to infer basic patterns of successional change.     

Plant–pollinator network assembly along the chronosequence of a glacier foreland

Forelands of retreating glaciers offer an ideal model system to study community assembly processes during primary succession. As plants colonize the area that is freed from ice they should be accompanied by their pollinators to successfully reproduce and spread. However, little is known about the assembly of plant–pollinator networks. We therefore used quantitative network analysis to study the structure of plant–pollinator interactions at seven sites representing a chronosequence from 8 to 130 years since deglaciation on the foreland of the Morteratsch glacier (southeastern Switzerland). At these sites, individual visits of plant flowers by insects were recorded throughout the flowering season. Species richness of insect‐pollinated plants and plant‐pollinating insects, together with measures of interaction diversity and evenness, increased along the chronosequence at least for the first 80 years after deglaciation. Bees were the most frequent flower visitors at the two youngest sites, whereas flies dominated in mature communities. Pollinator generalization (the number of visited plant species weighted by interaction strength), but not plant generalization, strongly increased during the primary succession. This was reflected in a pronounced decline in network level specialization (measured as Blüthgen's H₂’) and interaction strength asymmetry during the first 60 years along the chronosequence, while nestedness increased along the chronosequence. Thus, our findings contradict niche‐theoretical predictions of increasing specialization of pollination systems during succession, but are in agreement with expectations from optimal foraging theory, predicting an increase in pollinator generalization with higher plant diversity but similar flower abundance, and an increase in diet breadth at higher pollinator densities during primary succession.     

Benthic colonization and succession on temperate sublittoral rocky cliffs

Patterns of benthic colonization and succession were investigated on a temperate rocky cliff (Aegean Sea, Eastern Mediterranean). Cement and ceramic panels deployed on the rocky substratum at 25-30 m depth were sampled every 3 months over a 2-year period yielding 28 floral and 156 animal species. Diversity, cover and abundance had low values at short immersion periods and increased at the long ones. The vagile fauna responded to the increasing habitat complexity offered by the development of algal turfs and sessile species, and the community structure remained highly dynamic. Unlike the duration of immersion, the type of substratum didn't affect species colonization except for decapods that showed a preference for cement panels. Three to four stages of succession were recorded over immersion periods, according to vagile and sessile biota, respectively, during which species richness and abundance increased. The structure of the developed communities on both artificial materials differed from the natural algal-dominated benthic community of the same area, suggesting that the recovery of rocky shore communities on temperate cliffs is time consuming.     

Restoration of riverine inland sand dune complexes: implications for the conservation of wild bees

1.  The evaluation of restoration measures is an important task of conservation biology. Inland sand dunes and dry, oligotrophic grasslands have become rare habitat types in large parts of Central Europe and their restoration and management is of major importance for the preservation of many endangered plant and insect species. Within such habitats, it is important to restore key ecosystem services, such as pollination networks. As wild bees are the most important pollinators in many ecosystems, they represent a suitable key group to evaluate restoration measures. Furthermore, the recent decline of many bee species and the potential ecological and economic consequences are currently topics of strong scientific interest.
2.  We studied the succession of bee communities in response to restoration measures of sand dunes and sand grasslands and compared these communities with those of old sand dune complexes.
3.  Our results show that wild bees respond rapidly to restoration measures indicated by a high species richness and abundance. The community structure of bees at restoration sites converged only slightly to those of the target sites. A higher similarity was found between bee communities at the restoration sites (sand dunes and grasslands), indicating that their close proximity was an important determinant of species overlap. Environmental factors such as the number of entomophilous plant species and moisture had a strong influence on wild bee species composition.
4.   Synthesis and applications . The restoration of inland sand dune complexes provides opportunities for colonization by a diverse wild bee community. Although it is difficult to establish a given target community, restoration measures gave rise to a high pollinator diversity and abundance, suggesting that community function can be re-established.     

Mechanisms of ecological succession: insights from plant functional strategies

Successions are a central issue of ecological theory. They are governed by changes in community assembly processes that can be tracked by species’ traits. While single‐trait‐based approaches have been mostly promoted to address community assembly, ecological strategies actually encompass tradeoffs between multiple traits that are relevant to succession theory. We analyzed plant ecological strategies along a 140‐year‐long succession primary succession of 52 vertical outcrop communities after roadwork. We performed a RLQ analysis to relate six functional traits, associated with resource acquisition, competition, colonization ability and phenology, to the age of the outcrops. We found the prominence of two main axes of specialization, one related to resource acquisition and the other to reproduction and regeneration. We further examined the community‐level variation in ecological strategies to assess the abiotic and biotic drivers of community assembly. Using trait‐based statistics of functional richness, regularity and divergence, we found that different processes drove the variation in ecological strategies along the axes of specialization. In late succession, functional convergence was detected for the traits related to resource acquisition as a signature of habitat filtering, while the coexistence of contrasted strategies was found for the traits related to reproduction and regeneration as a result of spatial micro‐heterogeneity. We observed a lack of niche differentiation along the succession, revealing a weak importance of biotic interactions for the regulation of community assembly in the outcrops. Overall, we highlight a prominent role of habitat filtering and spatial micro‐heterogeneity in driving the primary succession governed by water and nutrient limitation.     

Temporal patterns in rates of community change during succession

While ecological dogma holds that rates of community change decrease over the course of succession, this idea has yet to be tested systematically across a wide variety of successional sequences. Here, I review and define several measures of community change rates for species presence-absence data and test for temporal patterns therein using data acquired from 16 studies comprising 62 successional sequences. Community types include plant secondary and primary succession as well as succession of arthropods on defaunated mangrove islands and carcasses. Rates of species gain generally decline through time, whereas rates of species loss display no systematic temporal trends. As a result, percent community turnover generally declines while species richness increases--both in a decelerating manner. Although communities with relatively minor abiotic and dispersal limitations (e.g., plant secondary successional communities) exhibit rapidly declining rates of change, limitations arising from harsh abiotic conditions or spatial isolation of the community appear to substantially alter temporal patterns in rates of successional change.     

Dynamics of bacterial community succession in a salt marsh chronosequence: evidences for temporal niche partitioning

The mechanisms underlying community assembly and promoting temporal succession are often overlooked in microbial ecology. Here, we studied an undisturbed salt marsh chronosequence, spanning over a century of ecosystem development, to understand bacterial succession in soil. We used 16S rRNA gene-based quantitative PCR to determine bacterial abundance and multitag 454 pyrosequencing for community composition and diversity analyses. Despite 10-fold lower 16S rRNA gene abundances, the initial stages of soil development held higher phylogenetic diversities than the soil at late succession. Temporal variations in phylogenetic β-diversity were greater at initial stages of soil development, possibly as a result of the great dynamism imposed by the daily influence of the tide, promoting high immigration rates. Allogenic succession of bacterial communities was mostly driven by shifts in the soil physical structure, as well as variations in pH and salinity, which collectively explained 84.5% of the variation concerning community assemblage. The community assembly data for each successional stage were integrated into a network co-occurrence analysis, revealing higher complexity at initial stages, coinciding with great dynamism in turnover and environmental variability. Contrary to a spatial niche-based perspective of bacterial community assembly, we suggest temporal niche partitioning as the dominant mechanism of assembly (promoting more phylotype co-occurrence) in the initial stages of succession, where continuous environmental change results in the existence of multiple niches over short periods of time.     

Functional traits associated with plant colonizing and competitive ability influence species abundance during secondary succession: Evidence from subalpine meadows of the Qinghai–Tibetan Plateau

It is widely recognized that colonists and competitors dominate early and late succession, respectively, with selected species having different colonizing and competitive abilities. However, it remains unknown whether colonizing and competitive ability can determine species abundance directly over succession. The data for five key functional traits were collected (photosynthesis rate, leaf turgor loss point, leaf proline content, seed mass, and seed germination rate), which are direct indicators of plant competitive and colonizing abilities including growth, drought and cold stress resistance, dispersal, and seed dormancy. Here, we tested the effects of colonizing and competitive abilities on species abundance, by employing a linear mixed‐effects model to examine the shifts in the relationship between species abundance and these five colonization and competition‐related traits in species‐rich subalpine secondary successional meadows (at 4, 6, 10, 13 years of age, and undisturbed, respectively) of the Qinghai–Tibetan Plateau. The abundant species at the early‐successional meadows tend to have high photosynthetic rate, high leaf proline content, low seed mass, and seed germination rate for having high colonizing ability, but low competitive ability. By contrast, late‐successional communities tend to be dominated by species with high competitive ability, but low colonizing ability, indicated by large seeds, high seed germination rate, low photosynthetic rate, and leaf proline content. The observed directional shifts in the relationships between traits (photosynthetic rate, leaf proline content, seed mass, and seed germination rate) and abundance with successional age, bring two new understandings of community assembly during succession of subalpine meadows in the Qinghai–Tibetan Plateau. First, it discloses that the differences in species abundance over succession can be directly attributed to differences in colonizing and competitive abilities of different species. Second, it expands the effects of multiple life historical differences including growth, resource competitive ability, cold stress resistance, dispersal, and seed germination strategy, represented by functional traits on community assembly along succession, that is, from the species to the community level.     

Evidence for indirect effects of plant diversity and composition on net nitrification

Abiotic controls on net nitrification rates are well documented, but the potential effects of plants on this important ecosystem process are poorly understood. We evaluated four structural equation models to determine the relative importance of plant community composition, aboveground herbaceous production, and plant species richness on nitrifier abundance and net nitrification following restoration treatments in a ponderosa pine forest. Model selection criteria indicated that species richness was the best predictor of nitrifier abundance, but a model that included community composition effects also had some support in the data. Model results suggest that net nitrification was indirectly related to plant species richness via a positive relationship between species richness and nitrifier abundance. Community composition was indirectly related to nitrifier abundance through its relationship with species richness. Our model indicates that species-rich plant communities dominated by C₃ graminoids and legumes are associated with soils that have high abundances of nitrifiers. This study highlights the complexity of deciphering effects of ecological treatments on a system response when multiple interacting factors are simultaneously affected. Our results suggest that plant diversity and composition can both respond to forest thinning, prescribed fire and fuel manipulations, and can be factors that might indirectly influence an ecosystem process such as nitrification. Ecological restoration treatments designed to increase plant diversity and alter community composition may have cascading effects on below-ground processes.