Relative contribution of neutral and deterministic processes in shaping fruit‐feeding butterfly assemblages in Afrotropical forests

The unified neutral theory of biodiversity and biogeography has gained the status of a quantitative null model for explaining patterns in ecological (meta)communities. The theory assumes that individuals of trophically similar species are functionally equivalent. We empirically evaluate the relative contribution of neutral and deterministic processes in shaping fruit‐feeding butterfly assemblages in three tropical forests in Africa, using both direct (confronting the neutral model with species abundance data) and indirect approaches (testing the predictions of neutral theory using data other than species abundance distributions). Abundance data were obtained by sampling butterflies using banana baited traps set at the forest canopy and understorey strata. Our results indicate a clear consistency in the kind of species or species groups observed at either the canopy or understorey in the three studied communities. Furthermore, we found significant correlation between some flight‐related morphological traits and species abundance at the forest canopy, but not at the understorey. Neutral theory's contribution to explaining our data lies largely in identifying dispersal limitation as a key process regulating fruit‐feeding butterfly community structure. Our study illustrates that using species abundance data alone in evaluating neutral theory can be informative, but is insufficient. Species‐level information such as habitat preference, host plants, geographical distribution, and phylogeny is essential in elucidating the processes that regulate biodiversity community structures and patterns.     

Reef fish and habitat relationships in a Caribbean seascape: the importance of reef context

Marine protected area (MPA) effectiveness is contingent on understanding key ecological patterns and processes at appropriate spatial scales and may depend upon maintaining critical linkages among essential habitat patches to conserve reef-fish communities. Hypotheses were tested to investigate the importance of habitat linkages in the US Virgin Islands. As expected, reef context (the spatial pattern of surrounding habitat patches) was a strong predictor of reef fish assemblage structure. Specific relationships were functionally consistent with the ecology of the fishes of interest. For example, reefs with large amounts of seagrass nearby harbored the greatest numerical abundance of fishes, particularly mobile invertebrate feeders and the exploited fish families of Haemulidae (grunts) and Lutjanidae (snappers). Species richness for the entire fish community and within these fish groups was also strongly associated with reef context. Furthermore, reef fish mobility influenced how fishes related to reef context. Fish-habitat relationships were detected as far as 1 km from study reefs, suggesting that fish movements result in habitat encounter rates that may influence their patterns of distribution. Consequently, functional habitat connectivity of habitat patches appears important in structuring reef-fish assemblages, and suggests that landscape-scale metrics may provide insights useful to managers in the design of MPAs.     

Habitat selection behaviour links local and regional scales in aquatic systems

The role of habitat selection behaviour in the assembly of natural communities is an increasingly important theme in ecology. At the same time, ecologists and conservation biologists are keenly interested in scale and how processes at scales from local to regional interact to determine species distributions and patterns of biodiversity. How important is habitat selection in generating observed patterns of distribution and diversity at multiple spatial scales? In theory, habitat selection in response to interacting species can generate both positive and negative covariances among species distributions and create the potential to link processes of community assembly across multiple scales. Here I demonstrate that habitat selection by treefrogs in response to the distribution of fish predators functions at both the regional scale among localities and the local scale among patches within localities, implicating habitat selection as a critical link between local communities and the regional dynamics of metacommunities in complex landscapes.     

Adding energy gradients and long‐distance dispersal to a neutral model improves predictions of Madagascan bird diversity

Macroecological patterns are likely the result of both stochastically neutral mechanisms and deterministic differences between species. In Madagascar, the simplest stochastically neutral hypothesis – the mid‐domain effects (MDE) hypothesis – has already been rejected. However, rejecting the MDE hypothesis does not necessarily refute the existence of all other neutral mechanisms. Here, we test whether adding complexity to a basic neutral model improves predictions of biodiversity patterns. The simplest MDE model assumes that: (1) species' ranges are continuous and unfragmented, (2) are randomly located throughout the landscape, and (3) can be stacked independently and indefinitely. We designed a simulation based on neutral theory that allowed us to weaken each of these assumptions incrementally by adjusting the habitat capacity as well as the likelihood of short‐ and long‐distance dispersal. Simulated outputs were compared to four empirical patterns of bird diversity: the frequency distributions of species richness and range size, the within‐island latitudinal diversity gradient, and the distance‐decay of species compositional similarity. Neutral models emulated empirical diversity patterns for Madagascan birds accurately. The frequency distribution of range size, latitudinal diversity gradient, and the distance‐decay of species compositional similarity could be attributed to stochastic long‐distance migration events and zero‐sum population dynamics. However, heterogenous environmental gradients improved predictions of the frequency distribution of species richness. Patterns of bird diversity in Madagascar can broadly be attributed to stochastic long‐distance migration events and zero‐sum population dynamics. This implies that rejecting simple hypotheses, such as MDE, does not serve as evidence against stochastic processes in general. However, environmental gradients were necessary to explain patterns of species richness and deterministic differences between species are probably important for explaining the distributions of narrow‐range and endemic species.     

Reef fish assemblages in north-western Sri Lanka: distribution patterns and influences of fishing practises

The distribution and abundance of reef fishes in relation to habitat structure were studied within Bar Reef Marine Sanctuary (BRMS) and on an adjacent reef, disturbed by destructive fishing techniques, in north-western Sri Lanka, by visually censusing 135 species groups using fifty metre belt-transects. Two types of continental shelf patch-reefs are found in the study area: coral reefs and sandstone reefs, which are divided into distinct habitats, four for the coral reef (shallow reef flat, shallow patch reef, deep reef flat and Porites domes) and two for the sandstone reef (structured sandstone-reef and flat sandstone-reef). Fish assemblages varied in structure between reef types and among habitats within reef types. Functional aspects of habitat structure and composition, such as available food and shelter, seemed to be important factors influencing distribution patterns. The strongest separation in the organisation of fish assemblages in BRMS was between reef types: 19% of all species were confined to the coral-reef patches while 22% were restricted to the sandstone reef patches and 59% were represented on both reef types. In terms of distribution among habitats, 21% of all species were restricted to one habitat while only 1.5% were present in all. The highest density of fish was in the coral reef habitats while highest species diversity was found in the most structurally complex habitat: the structured sandstone-reef. This habitat also had the highest proportion of species with restricted distribution. Planktivores were the most abundant trophic group in BRMS, and the species composition of the group varied among habitats. The comparison of the disturbed reef with BRMS suggested that habitat alteration caused by destructive fishing methods has strongly influenced the fish community. Within the fished area the structure of the fish assemblages was more heterogeneous, fish abundance was lower by an order of magnitude and species numbers were lower than in BRMS.     

Plant species richness as the main driver of moth metacommunities

1. Ecologists have recognised several factors that may explain the distribution of species in a metacommunity. These factors may be related to the dispersal of individuals among the patches and environmental conditions. 2. Here, we attempted to determine which of the four different metacommunity frameworks (patch dynamics, mass effect, neutral processes, and species sorting) explain the distribution of Arctiinae moths in Brazilian savanna areas with different tree species richness. 3. The Arctiinae moths were categorised as habitat specialists or generalists, common or rare, and belonging to the tribes Arctiini and Lithosiini. We hypothesized that environmental variables best explain the abundance and occurrence of habitat specialist species, common species, and members of Lithosiini; whereas spatial processes are more closely related to habitat generalists, rare species, and members of Arctiini. 4. Contrary to our expectations, we found that the species sorting (mainly dictated by the species richness of trees) best explained the variation in abundance and occurrence of the majority of species groups. Spatial processes (more related to patch dynamics, mass effect, and neutral), although they were significantly related to some species groups, were not strong enough to explain the distribution of these species in the study area. 5. The plant species richness was the most important environmental condition, related to moth species niches. Therefore, species sorting best explained the distribution of the species of Arctiinae in the Brazilian savanna.     

Both local presence and regional distribution of predator cues modulate prey colonisation in pond landscapes

Recent work on habitat selection has shown that the perceived quality of habitat patches may depend on the quality of adjacent patches. However, it is still unclear how local habitat selection cues can alter distribution patterns in metacommunities at a larger (regional) scale. We studied mosquito oviposition in pond landscapes that differed in the proportion of bad patches with fish predation risk. Our experiment provided conclusive evidence for two local and two regional types of habitat selection. Good patches near bad patches were avoided (local risk contagion) while more distant good patches experienced increased oviposition (regional compression). Oviposition in bad patches increased when located next to good patches (reward contagion) or when there were no good patches regionally present (regional compromise). This complex colonisation behaviour involving compromises at different spatial scales forces experimenters to reconsider the independence of spatial replicates and challenges available theories to predict species distribution patterns.     

Community assembly of a euryhaline fish microbiome during salinity acclimation

Microbiomes play a critical role in promoting a range of host functions. Microbiome function, in turn, is dependent on its community composition. Yet, how microbiome taxa are assembled from their regional species pool remains unclear. Many possible drivers have been hypothesized, including deterministic processes of competition, stochastic processes of colonization and migration, and physiological ‘host‐effect’ habitat filters. The contribution of each to assembly in nascent or perturbed microbiomes is important for understanding host–microbe interactions and host health. In this study, we characterized the bacterial communities in a euryhaline fish and the surrounding tank water during salinity acclimation. To assess the relative influence of stochastic versus deterministic processes in fish microbiome assembly, we manipulated the bacterial species pool around each fish by changing the salinity of aquarium water. Our results show a complete and repeatable turnover of dominant bacterial taxa in the microbiomes from individuals of the same species after acclimation to the same salinity. We show that changes in fish microbiomes are not correlated with corresponding changes to abundant taxa in tank water communities and that the dominant taxa in fish microbiomes are rare in the aquatic surroundings, and vice versa. Our results suggest that bacterial taxa best able to compete within the unique host environment at a given salinity appropriate the most niche space, independent of their relative abundance in tank water communities. In this experiment, deterministic processes appear to drive fish microbiome assembly, with little evidence for stochastic colonization.     

A dimmer shade of pale: revealing the faint signature of local assembly processes on the structure of strongly filtered plant communities

Trait‐based ecology suggests that abiotic filtering is the main mechanism structuring the regional species pool in different subsets of habitat‐specific species. At more local spatial scales, other ecological processes may add on giving rise to complex patterns of functional diversity (FD). Understanding how assembly processes operating on the habitat‐specific species pools produce the locally observed plant assemblages is an ongoing challenge. Here, we evaluated the importance of different processes to community assembly in an alpine fellfield, assessing its effects on local plant trait FD. Using classical randomization tests and linear mixed models, we compared the observed FD with expectations from three null models that hierarchically incorporate additional assembly constraints: stochastic null models (random assembly), independence null models (each species responding individual and independently to abiotic environment), and co‐occurrence null models (species responding to environmental variation and to the presence of other species). We sampled species composition in 115 quadrats across 24 locations in the central Pyrenees (Spain) that differed in soil conditions, solar radiation and elevation. Overall, the classical randomization tests were unable to find differences between the observed and expected functional patterns, suggesting that the strong abiotic filters that sort out the flora of extreme regional environments blur any signal of other local processes. However, our approach based on linear mixed models revealed the signature of different ecological processes. In the case of seed mass and leaf thickness, observed FD significantly deviated from the expectations of the stochastic model, suggesting that fine‐scale abiotic filtering and facilitation can be behind these patterns. Our study highlights how the hierarchical incorporation of ecological additional constraints may shed light on the dim signal left by local assembly processes in alpine environments.     

Small fish,large river: Surprisingly minimal genetic structure in a dispersal‐limited,habitat specialist fish

Genetic connectivity is expected to be lower in species with limited dispersal ability and a high degree of habitat specialization (intrinsic factors). Also, gene flow is predicted to be limited by habitat conditions such as physical barriers and geographic distance (extrinsic factors). We investigated the effects of distance, intervening pools, and rapids on gene flow in a species, the Tuxedo Darter (Etheostoma lemniscatum), a habitat specialist that is presumed to be dispersal‐limited. We predicted that the interplay between these intrinsic and extrinsic factors would limit dispersal and lead to genetic structure even at the small spatial scale of the species range (a 38.6 km river reach). The simple linear distribution of E. lemniscatum allowed for an ideal test of how these factors acted on gene flow and allowed us to test expectations (e.g., isolation‐by‐distance) of linearly distributed species. Using 20 microsatellites from 163 individuals collected from 18 habitat patches, we observed low levels of genetic structure that were related to geographic distance and rapids, though these factors were not barriers to gene flow. Pools separating habitat patches did not contribute to any observed genetic structure. Overall, E. lemniscatum maintains gene flow across its range and is comprised of a single population. Due to the linear distribution of the species, a stepping‐stone model of dispersal best explains the maintenance of gene flow across its small range. In general, our observation of higher‐than‐expected connectivity likely stems from an adaptation to disperse due to temporally unstable and patchy habitat.     

Inter-Tributary Movements by Resident Salmonids across a Boreal Riverscape

Stream-dwelling fishes inhabit river networks where resources are distributed heterogeneously across space and time. Current theory emphasizes that fishes often perform large-scale movements among habitat patches for reproduction and seeking refugia, but assumes that fish are relatively sedentary during growth phases of their life cycle. Using stationary passive integrated transponder (PIT)-tag antennas and snorkel surveys, we assessed the individual and population level movement patterns of two species of fish across a network of tributaries within the Wood River basin in southwestern Alaska where summer foraging opportunities vary substantially among streams, seasons, and years. Across two years, Arctic grayling (Thymallus arcticus) and rainbow trout (Oncorhynchus mykiss) exhibited kilometer-scale movements among streams during the summer growing season. Although we monitored movements at a small fraction of all tributaries used by grayling and rainbow trout, approximately 50% of individuals moved among two or more streams separated by at least 7 km within a single summer. Movements were concentrated in June and July, and subsided by early August. The decline in movements coincided with spawning by anadromous sockeye salmon, which offer a high-quality resource pulse of food to resident species. Inter-stream movements may represent prospecting behavior as individuals seek out the most profitable foraging opportunities that are patchily distributed across space and time. Our results highlight that large-scale movements may not only be necessary for individuals to fulfill their life-cycle, but also to exploit heterogeneously spaced trophic resources. Therefore, habitat fragmentation and homogenization may have strong, but currently undescribed, ecological effects on the access to critical food resources in stream-dwelling fish populations.     

Distribution of a naturally fluctuating ungulate population among heterogeneous plant communities: ideal and free?

1. Herbivore distribution is often assumed to follow the ideal free distribution (IFD) model. This assumes that organisms are omniscient about forage quality and availability within the area available to them and are free to move, with negligible cost, throughout this environment. If this were the case we would expect that, at lowest densities, all animals would be found in the best habitat patches, with less desirable habitats being occupied stepwise as population density increases. We test this using data from a naturally fluctuating population of feral Soay sheep. 2. We show that, although the distribution of individuals is correlated positively with food quality, in line with patterns reported for hill sheep in Scotland, their distribution does not conform to the predictions of the IFD model. We argue that it is the dynamic nature of their food resource that causes this departure from the predictions of the IFD model and make the case that the IFD model, in its unmodified form, is inappropriate for use in modelling distribution among patches containing dynamic resources.     

Species persistence decreases with habitat fragmentation: an analysis in periodic stochastic environments

This paper presents a study of a nonlinear reaction–diffusion population model in fragmented environments. The model is set on , with periodic heterogeneous coefficients obtained using stochastic processes. Using a criterion of species persistence based on the notion of principal eigenvalue of an elliptic operator, we provided a precise numerical analysis of the interactions between habitat fragmentation and species persistence. The obtained results clearly indicated that species persistence strongly tends to decrease with habitat fragmentation. Moreover, comparing two stochastic models of landscape pattern generation, we observed that in addition to local fragmentation, a more global effect of the position of the habitat patches also influenced species persistence.      

基于栖息地斑块尺度的青弋江河源溪流鱼类群落的时空格局

确定鱼类的栖息地利用格局是研究物种与环境关系的基础, 也是鱼类多样性保护和管理的必要前提。目前, 有关溪流鱼类群落的栖息地斑块利用格局尚存在争议。基于2012年9月至2013年8月对青弋江河源溪流的逐月调查数据, 初步研究了鱼类群落的栖息地斑块利用格局, 着重在栖息地斑块尺度上解析了鱼类群落的时空变化规律。主要研究结果显示, 深潭和急滩2类斑块间的底质、流速、水深、溶氧栖息地因子显著差异, 且深潭斑块的环境稳定性高于急滩。研究共采集鱼类15种, 其中鲤科鱼类8种, 占采集物种数50%以上。基于鱼类物种存在与否的不连续变量的分析结果显示, 鱼类物种组成的斑块间和月份间变化均不具显著性。但是, 基于鱼类物种多度的连续变量的分析结果显示, 鱼类群落结构存在有显著的斑块间变化和时间动态; 就斑块间变化而言, 原缨口鳅(Vanmanenia stenosoma)在急滩斑块中的多度更高, 而宽鳍 (Zacco platypus)、光唇鱼(Acrossocheilus fasciatus)和尖头 (Phoxinus oxycephalus)等其他关键物种则在深潭中具有更高多度。深潭斑块的鱼类物种数显著高于急滩, 但2类斑块间的个体数无显著差异。深潭斑块的鱼类物种数较稳定, 而个体数月变化显著, 可能与鱼类繁殖和群体补充以及越冬死亡等有关; 急滩鱼类物种数和个体数的月变化均显著, 除了与鱼类群体补充和越冬死亡有关以外, 还可能受越冬时栖息地斑块选择变化的影响。上述结果表明, 在栖息地斑块空间尺度上, 由于研究区域内大多数物种在栖息地斑块选择上无明显的特化性, 深潭和急滩斑块间鱼类的物种组成分布不符合前人所报道的生境-共位群格局, 但区域内常见种多度的变化可引起鱼类群落结构的斑块间差异和季节动态。       

The effect of habitat fragmentation on dispersal patterns, mating behavior, and genetic variation in a pika (Ochotona princeps) metapopulation

 Habitat fragmentation is becoming increasingly common, yet, the effect of habitat spatial structure on population dynamics remains undetermined for most species. Populations of a single species found in fragmented and nonfragmented habitat present a rare opportunity to examine the effect of habitat spatial structure on population dynamics. This study investigates the impact of highly fragmented habitat on dispersal patterns, mating behavior, and genetic variation in a pika (Ochotona princeps) population with a mainland-island spatial structure. Juvenile dispersal patterns in fragmented habitat revealed that individuals tended to disperse to neighboring habitat patches. However, within-patch band-sharing scores from multilocus DNA fingerprints did not differ from what would be expected if individuals were assorting randomly among habitat patches each year. Multiple, short-distance dispersal targets for juveniles and occasional long-distance dispersal events suggest that habitat fragmentation on this scale has not resulted in restricted dispersal and a genetically subdivided population. Although pikas tended to mate with the closest available partner, DNA fingerprinting band-sharing scores between mated pairs were consistent with a random mating hypothesis. Random mating in this population appears to be an incidental effect of dispersal in a fragmented habitat. This pattern is distinct from that found in nonfragmented habitat (large talus patches) where mating was non-random and consistent with mating between individuals of intermediate relatedness. DNA fingerprinting data revealed within-species variation in the mating habits of the pika directly attributable to habitat spatial structure. Received: 4 November 1996 / Accepted: 30 June 1997     

Species effects on ecosystem processes are modified by faunal responses to habitat composition

Heterogeneity is a well-recognized feature of natural environments, and the spatial distribution and movement of individual species is primarily driven by resource requirements. In laboratory experiments designed to explore how different species drive ecosystem processes, such as nutrient release, habitat heterogeneity is often seen as something which must be rigorously controlled for. Most small experimental systems are therefore spatially homogeneous, and the link between environmental heterogeneity and its effects on the redistribution of individuals and species, and on ecosystem processes, has not been fully explored. In this paper, we used a mesocosm system to investigate the relationship between habitat composition, species movement and sediment nutrient release for each of four functionally contrasting species of marine benthic invertebrate macrofauna. For each species, various habitat configurations were generated by selectively enriching patches of sediment with macroalgae, a natural source of spatial variability in intertidal mudflats. We found that the direction and extent of faunal movement between patches differs with species identity, density and habitat composition. Combinations of these factors lead to concomitant changes in nutrient release, such that habitat composition effects are modified by species identity (in the case of NH4-N) and by species density (in the case of PO4-P). It is clear that failure to accommodate natural patterns of spatial heterogeneity in such studies may result in an incomplete understanding of system behaviour. This will be particularly important for future experiments designed to explore the effects of species richness on ecosystem processes, where the complex interactions reported here for single species may be compounded when species are brought together in multi-species combinations.     

Local contagion and regional compression: habitat selection drives spatially explicit,multiscale dynamics of colonisation in experimental metacommunities

Habitat selection, including oviposition site choice, is an important driver of community assembly in freshwater systems. Factors determining patch quality are assessed by many colonising organisms and affect colonisation rates, spatial distribution and community structure. For many species, the presence/absence of predators is the most important factor affecting female oviposition decisions. However, individual habitat patches exist in complex landscapes linked by processes of dispersal and colonisation, and spatial distribution of factors such as predators has potential effects beyond individual patches. Perceived patch quality and resulting colonisation rates depend both on risk conditions within a given patch and on spatial context. Here we experimentally confirm the role of one context‐dependent processes, spatial contagion, functioning at the local scale, and provide the first example of another context‐dependent process, habitat compression, functioning at the regional scale. Both processes affect colonisation rates and patterns of spatial distribution in naturally colonised experimental metacommunities.     

Physiological Ecology Meets the Ideal-free Distribution: Predicting the Distribution of Size-structured Fish Populations Across Temperature Gradients

We describe a habitat selection model that predicts the distribution of size-structured groups of fish in a habitat where food availability and water temperature vary spatially. This model is formed by combining a physiological model of fish growth with the logic of ideal free distribution (IFD) theory. In this model we assume that individuals scramble compete for resources, that relative competitive abilities of fish vary with body size, and that individuals select patches that maximize their growth rate. This model overcomes limitations in currently existing physiological and IFD-based models of habitat selection. This is because existing physiological models do not take into account the fact that the amount of food consumed by a fish in a patch will depend on the number of competitors there (something that IFD theory addresses), while traditional IFD models do not take into account the fact that fish are likely to choose patches based on potential growth rate rather than gross food intake (something that physiological models address). Our model takes advantage of the complementary strengths of these two approaches to overcome these weaknesses. Reassuringly, our model reproduces the predictions of its two constituent models under the simple conditions where they apply. When there is no competition for resources it mimics the physiological model of habitat selection, and when there is competition but no temperature variation between patches it mimics either the simple IFD model or the IFD model for unequal competitors. However, when there are both competition and temperature differences between patches our model makes different predictions. It predicts that input-matching between the resource renewal rate and the number of fish (or competitive units) in a patch, the hallmark of IFD models, will be the exception rather than the rule. It also makes the novel prediction that temperature based size-segregation will be common, and that the strength and direction of this segregation will depend on per capita resource renewal rates and the manner in which competitive weight scales with body size. Size-segregation should become more pronounced as per capita resource abundance falls. A larger fish/cooler water pattern is predicted when competitive ability increases more slowly than maximum ration with body size, and a smaller fish/cooler water pattern is predicted when competitive ability increases more rapidly than maximum ration with body size.     

Environmental flow assessment in estuaries taking into consideration species dispersal in fragmented potential habitats

Here, we propose an approach to environmental flow assessment that pays attention to species dispersal among fragmented potential habitat patches affected by river inflow and tidal currents in estuaries. The approach consists of three steps. In step one, potential suitable habitats were mapped and the Habitat Aggregation Index (HAI) was determined to understand the fragmentation of potential suitable habitats by integrating the requirements for critical environmental factors that have temporal and spatial variability. In the second step, an individual-based model was developed to simulate the dispersal of target species among potential habitat patches. The model provided the species distributions for altered hydrological processes. In the third step, environmental flows were defined by comparing the occupancy of suitable habitat patches by individual organisms and habitat aggregation for varying freshwater inflows. This approach was tested using a case study in the Yangtze River Estuary. We stressed the ecological importance of flood pulse, rather than average discharge, and recommend a Gaussian-type flood pulse, as provides a win–win point for both the numbers of individuals that could occupy suitable habitat and the HAI. We also demonstrated the importance of the peak flow and flood pulse duration in terms of affecting species distribution. Based on the results presented here, the proposed approach offers a flexible assessment of environmental flow for aquatic ecosystems.