Allelopathic growth inhibition by the toxic, bloom-forming cyanobacterium Planktothrix rubescens

Blooms of freshwater cyanobacteria are typically accompanied by an important decrease in phytoplankton biodiversity in the water bodies where they occur. This study examines the potential production of growth-inhibiting substances by the toxic, bloom-forming cyanobacterium Planktothrix rubescens, following the observation of physical segregation between this and another cyanobacterium during previously performed mixed-culture competition experiments. Inhibition assays examining the growth of target strains exposed to donor culture filtrates showed that the growth of Planktothrix agardhii TCC 83-2, P. agardhii PMC 75.02 and Mougeotia gracillima TCC 50-2 was significantly inhibited in the presence of culture filtrate from P. rubescens TCC 29-1, isolated from Lake Bourget, France. Filtrates from P. rubescens TCC 69-6 and P. rubescens TCC 69-7, isolated from Lakes Nantua and Paladru (France), respectively, did not, however, inhibit the growth of P. agardhii TCC 83-2. This brief exploration of the allelopathic activity of P. rubescens suggests that it may potentially inhibit coexisting competitors as well as phytoplankton isolated from other freshwater ecosystems, and that this capacity may vary among different strains of Planktothrix. The potential importance of this phenomenon in pelagic competition dynamics is discussed.     

Foraging ecology and niche partitioning in orb-weaving spiders

Summary Foraging patterns were determined for three orbweaving spiders in several geographical locations varying in percent cover by herbaceous vegetation. Argiope trifasciata was the most common species in early successional habitats, while both Argiope aurantia and Araneus trifolium were more common in wetter, more herbaceous sites. Discriminant analysis revealed that web height selected for webs and body size were the variables that explained most of the variation among populations in foraging patterns. Argiope aurantia forages lowest in vegetation, A. trifasciata at intermediate heights, and A. trifolium near the top of the vegetation. The body size sequence is reversed.Web radius, spider size, and web height appear to explain much of the variation in abundance and size of prey in webs. Species foraging higher in the vegetation take more winged prey, while larger species foraging lower in the vegetation tend to take larger, jumping prey like acridids. Comparison of prey in webs with field estimates of potential prey suggests that orbweavers select large insect prey. Inferential evidence indicates that interspecific competition may be responsible for the divergence in foraging patterns among species reported here. However, field manipulative experiments have not yet indicated that competition among orb-weavers is severe.     

Spatial and temporal niche partitioning in grassland ants

We examined whether the species composition of a community influences the persistence of larval Ambystoma maculatum in assemblages composed of two larger intraguild predators (A. opacum and A. jeffersonianum) and an alternative prey species (tadpoles of Rana sylvatica). We predicted a priori that A. maculatum would have higher survival in more diverse communities containing alternative species of prey and top predators (A. opacum), the latter of which may lower the abundance of intermediate predators (A. jeffersonianum) via intraguild predation. In a factorial experiment, we manipulated the presence of larval A. opacum, A. jeffersonianum, and R. sylvatica in replicated artificial ponds containing larval A. maculatum. The presence of all three species significantly depressed biomass production in A. maculatum: biomass was highest in ponds lacking the other species and was zero in ponds initially containing all four species. Tadpoles severely reduced the growth of filamentous algae in the ponds. This, in turn, may have affected the abundance of some herbivorous prey of larval salamanders, although this possibility was not tested. The presence of congeneric predators severely restricted the presence in the water column of larval A. maculatum, which otherwise exhibited significant diel patterns of activity in the absence of predators. Together, the presence of tadpoles and a predator-mediated reduction in activity patterns may have limited foraging opportunities for A. maculatum, thus exacerbating the direct impact of predation on survival in this species. These results suggest that diverse assemblages consisting of these particular species may actually inhibit, rather than promote, inclusion of A. maculatum in some communities of pond-breeding amphibians.     

Temporal variations in the dynamics of potentially microcystin-producing strains in a bloom-forming Planktothrix agardhii (Cyanobacterium) population

The concentration of microcystins (MCs) produced during blooms depends on variations in both the proportion of strains containing the genes involved in MC production and the MC cell quota (the ratio between the MC concentration and the density of cells with the mcyA genotype) for toxic strains. In order to assess the dynamics of MC-producing and non-MC-producing strains and to identify the impact of environmental factors on the relative proportions of these two subpopulations, we performed a 2-year survey of a perennial bloom of Planktothrix agardhii (cyanobacteria). Applying quantitative real-time PCR to the mcyA and phycocyanin genes, we found that the proportion of cells with the mcyA genotype varied considerably over time (ranging from 30 to 80% of the population). The changes in the proportion of cells with the mcyA genotype appeared to be inversely correlated to changes in the density of P. agardhii cells and also, to a lesser extent, to the availability of certain nutrients and the abundance of cladocerans. Among toxic cells, the MC cell quota varied throughout the survey. However, a negative correlation between the MC cell quota and the mcyA cell number during two short periods characterized by marked changes in the cyanobacterial biomass was found. Finally, only 54% of the variation in the MC concentrations measured in the lake can be explained by the dynamics of the density of cells with the MC producer genotype, suggesting that this measurement is not a satisfactory method for use in monitoring programs intended to predict the toxic risk associated with cyanobacterial proliferation.     

Microhabitat selection and niche partitioning in two syntopic geckos

Syntopic species often exhibit evolutionary mechanisms that reduce competition. A common mechanism facilitating coexistence is niche separation, which may manifest through spatial, temporal or trophic dimensions. Species that are morphologically similar, such as congeners, are likely to compete directly and thus separate their niche spatially. The microhabitat selection and partitioning of two endemic geckos of the Soutpansberg Mountains, Lygodactylus incognitus (Jacobsen, 1992; Squamata: Gekkonidae) and L. soutpansbergensis (Jacobsen, 1994; Squamata: Gekkonidae), was investigated by recording fine‐ and broad‐scale habitat variables. Results reveal that L. incognitus is restricted to high elevations above 1100 m a.s.l. and is associated with moist microclimates. Although primarily saxicolous, they also utilise tree trunks, branches and stems. Lygodactylus soutpansbergensis occurs above 800 m a.s.l and is restricted to rocky outcrops, open woodlands and rocky grasslands, often found on loose rocks. Perch height for L. soutpansbergensis is close to ground level, and they are limited to drier microclimates. Microhabitat partitioning does not appear to be due to interspecific exclusion as the smaller L. soutpansbergensis occupies the same niche dimensions in areas where L. incognitus is not present. Sites where L. incognitus occurs in the absence of L. soutpansbergensis are forested with high canopy cover, likely preventing the colonisation of L. soutpansbergensis. This suggests that morphological and physiological constraints define microhabitat limits, although this still requires testing. Anthropogenic activities are likely to threaten the persistence of L. incognitus and L. soutpansbergensis on the Soutpansberg in the future. The results from this study may aid the interpretation and understanding on the syntopy of morphologically similar species that inhabit the same macrohabitats in other areas.     

Chemical mediation and niche partitioning in non-pollinating fig-wasp communities

1. The parasitic chalcidoid wasps associated with the species-specific and obligatory pollination mutualisms between Ficus spp. and their agaonid wasp pollinators provide a good model to study the functional organization of communities. 2. However, communities of non-pollinating fig wasps (NPFWs) remain little characterized, and their functioning and evolutionary dynamics are still poorly understood. 3. We studied the communities of NPFWs associated with the monoecious F. racemosa and the dioecious F. hispida. Associated with these two fig species are a total of seven wasp species belonging to three genera. These species present contrasts in life history traits and in timing of oviposition. The species studied are thus broadly representative of the communities of NPFWs associated specifically with fig-pollinator mutualisms. 4. In our study systems, there is temporal segregation of oviposition time among members of NPFW communities. 5. We tested the role of volatile chemicals in the attraction of NPFWs associated with these two fig species, and tried to determine if chemical mediation can explain the organization of the communities. 6. We conducted odour choice tests using a Y-tube olfactometer. All the NPFWs studied were shown to use volatile chemicals produced by the fig to locate their host. Furthermore, the signals used by each species depended on the phenological stage of the fig they exploit. 7. Results demonstrated that the pattern of oviposition results from the utilization of volatile signals produced by figs that vary in their composition at different stages of fig development. Thus, chemical mediation allows resource partitioning in the NPFW communities associated with fig-pollinator mutualisms, and suggests hypotheses to explain coexistence in other parasite communities.     

Stream microhabitat selectivity,resource partitioning,and niche shifts in grazing caddisfly larvae

Microhabitat selectivity, resource partitioning, and niche shifts in five species of grazing caddisfly larvae (Glossosoma califica, G. penitum, Dicosmoecus gilvipes, Neophylax rickeri, and N. splendens) were quantified by underwater measurement of microhabitat availability and utilization in three northern California streams. The microhabitat parameters water depth and velocity and rock size, roughness, and slope were measured. Comparisons of habitat available to habitat used revealed significant selection for at least two microhabitat parameters by each population, with depth and velocity being the most important. Comparisons of habitat used by different species showed significant partitioning of at least two microhabitat parameters at each site, with depth being partitioned at all sites. Non-parametric discriminant analysis revealed significant microhabitat partitioning on a multivariate level at two sites. Comparisons of habitat used at different sites quantified a major niche shift by D. gilvipes in its preference for riffles versus pools. Size-selective predation by dippers (Cinclus mexicanus) and steelhead (Salmo gairdneri gairdneri) is proposed as a hypothesis to explain the observed resource partitioning and niche shift.     

Integrating selection,niche, and diversification into a hierarchical conceptual framework

Recently, new phylogenetic comparative methods have been proposed to test for the association of biological traits with diversification patterns, with species ecological “niche” being one of the most studied traits. In general, these methods implicitly assume natural selection acting at the species level, thus implying the mechanism of species selection. However, natural selection acting at the organismal level could also influence diversification patterns (i.e., effect macroevolution). Owing to our scarce knowledge on multi-level selection regarding niche as a trait, we propose a conceptual model to discuss and guide the test between species selection and effect macroevolution within a hierarchical framework. We first assume niche as an organismal as well as a species’ trait that interacts with the environment and results in species-level differential fitness. Then, we argue that niche heritability, a requirement for natural selection, can be assessed by its phylogenetic signal. Finally, we propose several predictions that can be tested in the future by disentangling both types of evolutionary processes (species selection or effect macroevolution). Our framework can have important implications for guiding analyses that aim to understand the hierarchical perspective of evolution.     

Integrating coalescent and ecological niche modeling in comparative phylogeography

Understanding the factors that contribute to the formation of population genetic structure is a central goal of phylogeographic research, but achieving this goal can be complicated by the stochastic variance inherent to genetic processes. Statistical approaches to testing phylogeographic hypotheses accommodate this stochasticity by evaluating competing models of putative historical population structure, often by simulating null distributions of the expected variance. The effectiveness of these tests depends on the biological realism of the models. Information from the fossil record can aid in reconstructing the historical distributions of some taxa. However, for the majority of taxa, which lack sufficient fossils, paleodistributional modeling can provide valuable spatial-geographic data concerning ancestral distributions. Paleodistributional models are generated by projecting ecological niche models, which predict the current distribution of each species, onto a model of past climatic conditions. Here, we generate paleodistributional models describing the suitable habitat during the last glacial maximum for lineages from the mesic forests of the Pacific Northwest of North America, and use these models to generate alternative phylogeographic hypotheses. Coalescent simulations are then used to test these hypotheses to improve our understanding of the historical events that promoted the formation of population genetic structure in this ecosystem. Results from Pacific Northwest mesic forest organisms demonstrate the utility of these combined approaches. Paleodistribution models and population genetic structure are congruent across three amphibian lineages, suggesting that they have responded in a concerted manner to environmental change. Two other species, a willow and a water vole, despite being currently codistributed and having similar population genetic structure, were predicted by the paleodistributional model to have had markedly different distributions during the last glacial maximum. This suggests that congruent phylogeographic patterns can arise from incongruent ancestral distributions. Paleodistributional models introduce a much-needed spatial-geographic perspective to statistical phylogeography. In conjunction with coalescent models of population genetic structure, they have the potential to improve our understanding of the factors that promote population divergence and ultimately produce regional patterns of biodiversity.     

Ecological niche and geographic distribution of human monkeypox in Africa

Monkeypox virus, a zoonotic member of the genus Orthopoxviridae, can cause a severe, smallpox-like illness in humans. Monkeypox virus is thought to be endemic to forested areas of western and Central Africa. Considerably more is known about human monkeypox disease occurrence than about natural sylvatic cycles of this virus in non-human animal hosts. We use human monkeypox case data from Africa for 1970-2003 in an ecological niche modeling framework to construct predictive models of the ecological requirements and geographic distribution of monkeypox virus across West and Central Africa. Tests of internal predictive ability using different subsets of input data show the model to be highly robust and suggest that the distinct phylogenetic lineages of monkeypox in West Africa and Central Africa occupy similar ecological niches. High mean annual precipitation and low elevations were shown to be highly correlated with human monkeypox disease occurrence. The synthetic picture of the potential geographic distribution of human monkeypox in Africa resulting from this study should support ongoing epidemiologic and ecological studies, as well as help to guide public health intervention strategies to areas at highest risk for human monkeypox.     

Plasmid and chromosome partitioning: surprises from phylogeny

Plasmids encode partitioning genes (par) that are required for faithful plasmid segregation at cell division. Initially, par loci were identified on plasmids, but more recently they were also found on bacterial chromosomes. We present here a phylogenetic analysis of par loci from plasmids and chromosomes from prokaryotic organisms. All known plasmid-encoded par loci specify three components: a cis-acting centromere-like site and two trans-acting proteins that form a nucleoprotein complex at the centromere (i.e. the partition complex). The proteins are encoded by two genes in an operon that is autoregulated by the par-encoded proteins. In all cases, the upstream gene encodes an ATPase that is essential for partitioning. Recent cytological analyses indicate that the ATPases function as adaptors between a host-encoded component and the partition complex and thereby tether plasmids and chromosomal origin regions to specific subcellular sites (i.e. the poles or quarter-cell positions). Two types of partitioning ATPases are known: the Walker-type ATPases encoded by the par/sop gene family (type I partitioning loci) and the actin-like ATPase encoded by the par locus of plasmid R1 (type II partitioning locus). A phylogenetic analysis of the large family of Walker type of partitioning ATPases yielded a surprising pattern: most of the plasmid-encoded ATPases clustered into distinct subgroups. Surprisingly, however, the par loci encoding these distinct subgroups have different genetic organizations and thus divide the type I loci into types Ia and Ib. A second surprise was that almost all chromosome-encoded ATPases, including members from both Gram-negative and Gram-positive Bacteria and Archaea, clustered into one distinct subgroup. The phylogenetic tree is consistent with lateral gene transfer between Bacteria and Archaea. Using database mining with the ParM ATPase of plasmid R1, we identified a new par gene family from enteric bacteria. These type II loci, which encode ATPases of the actin type, have a genetic organization similar to that of type Ib loci.     

同地共栖三种鼠耳蝠食性差异及其生态位分化

2005年9—11月在贵州省安龙县笃山乡暗河村,分析了共栖同一山洞3种鼠耳蝠的形态特征和食性。在体型上,华南水鼠耳蝠体重为(4.46±0.53)g,前臂长为(34.63±1.45)mm;毛腿鼠耳蝠体重为(5.15±1.76)g,前臂长为(35.20±1.07)mm;西南鼠耳蝠体重为(10.94±0.87)g,前臂长为(45.21±1.15)mm。3种鼠耳蝠的体重两两之间差异显著,西南鼠耳蝠与另外2种鼠耳蝠的前臂长相比两两之间差异显著。在食物组成上,华南水鼠耳蝠主要捕食近水面活动的双翅目及其幼虫,体积百分比和频次百分比分别为79.7%和100%;毛腿鼠耳蝠主要捕食双翅目和小型鞘翅目,体积百分比分别占59.6%和28.8%,频次百分比分别为91.3%和80.1%;西南鼠耳蝠的食物组成主要为近地面或在地表活动的鞘翅目步甲科和埋葬虫科昆虫,体积百分比和频次百分比分别为80.8%和100%;3种鼠耳蝠食物组成存在显著差异。结果表明,同地共栖3种鼠耳蝠除了形态结构上出现差异,食物组成也存在明显的差异。据此,推测3种鼠耳蝠可能采取不同的捕食生境和捕食策略,从而导致捕食生态位分离,避免出现激烈竞争,使得3种近缘鼠耳蝠能够同地共栖。     

Small differences in root distributions allow resource niche partitioning

1. Deep roots have long been thought to allow trees to coexist with shallow‐rooted grasses. However, data demonstrating how root distributions affect water uptake and niche partitioning are uncommon.
2. We describe tree and grass root distributions using a depth‐specific tracer experiment six times over two years in a subtropical savanna, Kruger National Park, South Africa. These point‐in‐time measurements were then used in a soil water flow model to simulate continuous water uptake by depth and plant growth form (trees and grasses) across two growing seasons. This allowed estimates of the total amount of water a root distribution could absorb as well as the amount of water a root distribution could absorb in excess of the other rooting distribution (i.e., unique hydrological niche).
3. Most active tree and grass roots were in shallow soils: The mean depth of water uptake was 22 cm for trees and 17 cm for grasses. Slightly deeper rooting distributions provided trees with 5% more soil water than the grasses in a drier season, but 13% less water in a wetter season. Small differences also provided each rooting distribution (tree or grass) with unique hydrological niches of 4 to 13 mm water.
4. The effect of rooting distributions has long been inferred. By quantifying the depth and timing of water uptake, we demonstrated how even small differences in rooting distributions can provide plants with resource niches that can contribute to species coexistence. Differences in total water uptake and unique hydrological niche sizes were small in this system, but they indicated that tradeoffs in rooting strategies can be expected to contribute to tree and grass coexistence because 1) competitive advantages change over time and 2) plant growth forms always have access to a soil resource pool that is not available to the other plant growth form.

     

Marine Dadabacteria exhibit genome streamlining and phototrophy-driven niche partitioning

The remineralization of organic material via heterotrophy in the marine environment is performed by a diverse and varied group of microorganisms that can specialize in the type of organic material degraded and the niche they occupy. The marine Dadabacteria are cosmopolitan in the marine environment and belong to a candidate phylum for which there has not been a comprehensive assessment of the available genomic data to date. Here in, we assess the functional potential of the marine pelagic Dadabacteria in comparison to members of the phylum that originate from terrestrial, hydrothermal, and subsurface environments. Our analysis reveals that the marine pelagic Dadabacteria have streamlined genomes, corresponding to smaller genome sizes and lower nitrogen content of their DNA and predicted proteome, relative to their phylogenetic counterparts. Collectively, the Dadabacteria have the potential to degrade microbial dissolved organic matter, specifically peptidoglycan and phospholipids. The marine Dadabacteria belong to two clades with apparent distinct ecological niches in global metagenomic data: a clade with the potential for photoheterotrophy through the use of proteorhodopsin, present predominantly in surface waters up to 100 m depth; and a clade lacking the potential for photoheterotrophy that is more abundant in the deep photic zone.Subject terms: Water microbiology, Marine microbiology, Metagenomics, Microbial ecology     

Dietary and habitat niche partitioning in congeneric cryptobenthic reef fish species

Coral Reefs - Ecological niches hold critical information concerning the eco-evolutionary dynamics that govern biodiversity and abundance patterns. Cryptobenthic reef fishes account for...     

云南西双版纳蝙蝠咬合力及生态位分化

咬合力与动物咀嚼系统的形态特征以及食物硬度有关,是评价动物取食行为的重要指标之一。本文于2012年4月在云南西双版纳对食果、食蜜和食虫3种食性的12种蝙蝠咬合力进行研究,使用咬合力探测仪测量蝙蝠手持状态下的咬合力,分析不同食性蝙蝠咬合力的差异,并与其体型（体重、前臂长、头长）进行相关分析。结果表明,3种食性蝙蝠的咬合力存在显著差异,食果蝙蝠咬合力最大,其次为食蜜蝙蝠,食虫蝙蝠咬合力最小;但是去除体重因素的影响之后,不同食性蝙蝠的咬合力则差异不显著。蝙蝠咬合力与体重、前臂长、头长均呈显著正相关。本文研究结果表明,体重是影响蝙蝠咬合力的主要因素,食性在一定程度上也对咬合力产生影响,食蜜蝙蝠吻部延长,头长上的特化导致其咬合力的减弱。     

Root niche partitioning among grasses, saplings, and trees measured using a tracer technique

Niche partitioning of resources by plants is believed to be a fundamental aspect of plant coexistence and biogeochemical cycles; however, measurements of the timing and location of resource use are often lacking because of the difficulties of belowground research. To measure niche partitioning of soil water by grasses, planted saplings, and trees in a mesic savanna (Kruger National Park, South Africa), we injected deuterium oxide into 102,000 points in 15, 154-m² plots randomly assigned to one of five depths (0–120 cm) and one of three time periods during the 2008/2009 growing season. Grasses, saplings and trees all demonstrated an exponential decline in water uptake early in the season when resources were abundant. Later in the season, when resources were scarce, grasses continued to extract the most water from the shallowest soil depths (5 cm), but saplings and trees shifted water uptake to deeper depths (30–60 cm). Saplings, in particular, rapidly established roots to at least 1 m and used these deep roots to a greater extent than grasses or trees. Helping to resolve contradictory observations of the relative importance of deep and shallow roots, our results showed that grasses, saplings and trees all extract the most water from shallow soils when it is available but that woody plants can rapidly shift water uptake to deeper soils when resources are scarce. Results highlight the importance of temporal changes in water uptake and the problems with inferring spatial and temporal partitioning of soil water uptake from root biomass measurements alone.