A visualization of 3D proteome universe: Mapping of a proteome ensemble into 3D space based on the protein-structure composition

To visualize a bird’s-eye view of an ensemble of proteomes for various species, we recently developed a novel method of mapping a proteome ensemble into Three-Dimensional (3D) vector space. In this study, the “proteome” is defined as the entire set of all proteins encoded in a genome sequence, and these proteins were dealt with at the level of the SCOP Fold. First, we represented the proteome of a species s by a 1053-dimensional vector x(s), where its length ∣x(s)∣ represents the overall amount of all the SCOP Folds in the proteome, and its unit vector x(s)/∣x(s)∣ represents the relative composition of the SCOP Folds in the proteome and the size of the dimension, 1053, is the number of all possible Folds in the proteome ensemble given. Second, we mapped the vector x(s) to the 3D vector y(s), based on the two simple principles: (1) ∣y(s)∣ = ∣x(s)∣, and (2) the angle between y(s) and y(t) maximally correlates with the angle between x(s) and x(t). We applied to the mapping of a proteome ensemble for 456 species, which were retrieved from the Genomes TO Protein structures and functions (GTOP) database. As a result, we succeeded in the mapping in that the properties of the 1053-dimensional vectors were quantitatively conserved in the 3D vectors. Particularly, the angles between vectors before and after the mapping highly correlated with each other (correlation coefficients were 0.95–0.96). This new mapping method will allow researchers to intuitively interpret the visual information presented in the maps in a highly effective manner.     

Microanatomical traits track climate gradients for a dominant C4 grass species across the Great Plains,USA

Background and AimsAndropogon gerardii is a highly productive C₄ grass species with a large geographic range throughout the North American Great Plains, a biome characterized by a variable temperate climate. Plant traits are often invoked to explain growth rates and competitive abilities within broad climate gradients. For example, plant competition models typically predict that species with large geographic ranges benefit from variation in traits underlying high growth potential. Here, we examined the relationship between climate variability and leaf-level traits in A. gerardii, emphasizing how leaf-level microanatomical traits serve as a mechanism that may underlie variation in commonly measured traits, such as specific leaf area (SLA).MethodsAndropogon gerardii leaves were collected in August 2017 from Cedar Creek Ecosystem Science Reserve (MN), Konza Prairie Biological Station (KS), Platte River Prairie (NE) and Rocky Mountain Research Station (SD). Leaves from ten individuals from each site were trimmed, stained and prepared for fluorescent confocal microscopy to analyse internal leaf anatomy. Leaf microanatomical data were compared with historical and growing season climate data extracted from PRISM spatial climate models.Key ResultsMicroanatomical traits displayed large variation within and across sites. According to AICc (Akaike’s information criterion adjusted for small sample sizes) selection scores, the interaction of mean precipitation and temperature for the 2017 growing season was the best predictor of variability for the anatomical and morphological traits measured here. Mesophyll area and bundle sheath thickness were directly correlated with mean temperature (annual and growing season). Tissues related to water-use strategies, such as bulliform cell and xylem area, were significantly correlated with one another.ConclusionsThe results indicate that (1) microanatomical trait variation exists within this broadly distributed grass species, (2) microanatomical trait variability appears likely to impact leaf-level carbon and water use strategies, and (3) microanatomical trait values vary across climate gradients, and may underlie variation in traits measured at larger ecological scales.     

Vulnerability to xylem cavitation of Hakea species (Proteaceae) from a range of biomes and life histories predicted by climatic niche

Background and AimsExtreme drought conditions across the globe are impacting biodiversity, with serious implications for the persistence of native species. However, quantitative data on physiological tolerance are not available for diverse flora to inform conservation management. We quantified physiological resistance to cavitation in the diverse Hakea genus (Proteaceae) to test predictions based on climatic origin, life history and functional traits.MethodsWe sampled terminal branches of replicate plants of 16 species in a common garden. Xylem cavitation was induced in branches under varying water potentials (tension) in a centrifuge, and the tension generating 50 % loss of conductivity (stem P₅₀) was characterized as a metric for cavitation resistance. The same branches were used to estimate plant functional traits, including wood density, specific leaf area and Huber value (sap flow area to leaf area ratio).Key ResultsThere was significant variation in stem P₅₀ among species, which was negatively associated with the species climate origin (rainfall and aridity). Cavitation resistance did not differ among life histories; however, a drought avoidance strategy with terete leaf form and greater Huber value may be important for species to colonize and persist in the arid biome.ConclusionsThis study highlights climate (rainfall and aridity), rather than life history and functional traits, as the key predictor of variation in cavitation resistance (stem P₅₀). Rainfall for species origin was the best predictor of cavitation resistance, explaining variation in stem P₅₀, which appears to be a major determinant of species distribution. This study also indicates that stem P₅₀ is an adaptive trait, genetically determined, and hence reliable and robust for predicting species vulnerability to climate change. Our findings will contribute to future prediction of species vulnerability to drought and adaptive management under climate change.     

Interspecific variation of functional traits in a CAM‐tree dominated sandy coastal plain

Question: Although the restinga vegetation lies adjacent to the species‐rich Atlantic Rainforest, fewer species thrive due to low available resources of the sandy substrate. We asked whether there is a specific set of functional traits related to the ability to attain high dominance in a restinga dominated by a CAM photosynthesis tree. Location: Restinga of Jurubatiba National Park, north of the state of Rio de Janeiro, Brazil. Methods: We chose traits that are commonly used in large screenings, leaf mass per area (LMA), leaf longevity (LL) and leaf nitrogen concentration (LNC). We also measured the functional traits, midday leaf water potential (Ψ_min), pressure‐volume curves, nitrogen isotope discrimination (δ¹⁵N) and chlorophyll fluorescence. We compared species using ANOVA and ordination analysis. Results: The two most dominant species differed from subordinate species in terms of leaf succulence (SUC) and Ψ_min. However, they were also significantly different from each other in LMA, SUC, leaf thickness and LNC. Ψ_min and δ¹⁵N had the strongest loadings on the third ordination axis, which, despite explaining only 18.2% of total variance, was the only axis reflecting variation in species dominance. Conclusions: Despite high interspecific variation, the most common traits of the leaf economic spectrum were not directly associated with variation in species dominance. In contrast, the bulk modulus of elasticity, Ψ_min and δ¹⁵N were important not only to track the connection between plant traits and environmental factors, but also between plant traits and community structure.     

Shifts in fine root traits within and among species along a fine-scale hydrological gradient

Background and AimsLessons from above-ground trait ecology and resource economics theory may not be directly translatable to below-ground traits due to differences in function, trade-offs and environmental constraints. Here we examine root functional traits within and across species along a fine-scale hydrological gradient. We ask two related questions: (1) What is the relative magnitude of trait variation across the gradient for within- versus among-species variation? (2) Do correlations among below-ground plant traits conform with predictions from resource-economic spectrum theory?MethodsWe sampled four below-ground fine-root traits (specific root length, branching intensity, root tissue density and root dry matter content) and four above-ground traits (specific leaf area, leaf size, plant height and leaf dry matter content) in vascular plants along a fine-scale hydrological gradient within a wet heathland community in south-eastern Australia. Below-ground and above-ground traits were sampled both within and among species.Key ResultsRoot traits shifted both within and among species across the hydrological gradient. Within- and among-species patterns for root tissue density showed similar declines towards the wetter end of the gradient. Other root traits showed a variety of patterns with respect to within- and among-species variation. Filtering of species has a stronger effect compared with the average within-species shift: the slopes of the relationships between soil moisture and traits were steeper across species than slopes of within species. Between species, below-ground traits were only weakly linked to each other and to above-ground traits, but these weak links did in some cases correspond with predictions from economic theory.ConclusionsOne of the challenges of research on root traits has been considerable intraspecific variation. Here we show that part of intraspecific root trait variation is structured by a fine-scale hydrological gradient, and that the variation aligns with among-species trends in some cases. Patterns in root tissue density are especially intriguing and may play an important role in species and individual response to moisture conditions. Given the importance of roots in the uptake of resources, and in carbon and nutrient turnover, it is vital that we establish patterns of root trait variation across environmental gradients.     

Models of Individual Dietary Behavior Based on Smartphone Data: The Influence of Routine,Physical Activity,Emotion, and Food Environment

IntroductionSmartphone applications (apps) facilitate the collection of data on multiple aspects of behavior that are useful for characterizing baseline patterns and for monitoring progress in interventions aimed at promoting healthier lifestyles. Individual-based models can be used to examine whether behavior, such as diet, corresponds to certain typological patterns. The objectives of this paper are to demonstrate individual-based modeling methods relevant to a person’s eating behavior, and the value of such approach compared to typical regression models.MethodUsing a mobile app, 2 weeks of physical activity and ecological momentary assessment (EMA) data, and 6 days of diet data were collected from 12 university students recruited from a university in Kunming, a rapidly developing city in southwest China. Phone GPS data were collected for the entire 2-week period, from which exposure to various food environments along each subject’s activity space was determined. Physical activity was measured using phone accelerometry. Mobile phone EMA was used to assess self-reported emotion/feelings. The portion size of meals and food groups was determined from voice-annotated videos of meals. Individual-based regression models were used to characterize subjects as following one of 4 diet typologies: those with a routine portion sizes determined by time of day, those with portion sizes that balance physical activity (energy balance), those with portion sizes influenced by emotion, and those with portion sizes associated with food environments.ResultsAmple compliance with the phone-based behavioral assessment was observed for all participants. Across all individuals, 868 consumed food items were recorded, with fruits, grains and dairy foods dominating the portion sizes. On average, 218 hours of accelerometry and 35 EMA responses were recorded for each participant. For some subjects, the routine model was able to explain up to 47% of the variation in portion sizes, and the energy balance model was able to explain over 88% of the variation in portion sizes. Across all our subjects, the food environment was an important predictor of eating patterns. Generally, grouping all subjects into a pooled model performed worse than modeling each individual separately.ConclusionA typological modeling approach was useful in understanding individual dietary behaviors in our cohort. This approach may be applicable to the study of other human behaviors, particularly those that collect repeated measures on individuals, and those involving smartphone-based behavioral measurement.     

Differentiation of Mating Vocalizations in Birds: Acoustic Features in Mainland and Island Populations and Evidence of Habitat-Dependent Selection on Songs

Local environments can act as selective agents on some characteristics of birds’ songs, whereas other song traits may not reflect local genetic adaptation. Geographic variation in songs of two Australian bird species (red‐capped robins Petroica goodenovii, western gerygones Gerygone fusca) was studied to examine one component of the ‘habitat‐dependent selection’ hypothesis. This hypothesis suggests that: (1) the detailed spectral characteristics of male songs are an evolved response to local habitat conditions affecting signal propagation and detection and (2) parallel evolution of other fitness traits sets up the potential for assortative mating by female choice. To examine the first part of the hypothesis, I made comparisons among widespread mainland populations and an island population using two levels of analysis: a typological analysis of song morphology (phonology: notes, syllables, syntax, temporal pattern, repertoires) and a spectral analysis of acoustic characteristics of songs (mean frequency, Wiener entropy, frequency modulation) using an automated procedure of feature extraction (Sound Analysis Pro). Spectral analysis was also used to extract values of the same acoustic features from the background sound environment of each recorded population. The typological analysis revealed no differences among mainland populations of either species, but large differences between mainland songs and those on the island. In contrast, the spectral analysis revealed acoustic divergence among populations, both mainland and island. For both species, Wiener entropy of songs correlated negatively with that of the ambient sound environment, consistent with predictions of the habitat‐dependent selection hypothesis of environmental selection on signal design.     

What Determines Bird Beauty in Human Eyes?

ABSTRACT

Some authors have argued that human preferences for “beautiful” birds may skew the selection of species used to promote conservation programs. This evokes questions about the importance of color, shape, and other appearance traits of bird in affecting human preferences for birds. The aim of this study was to assess the traits affecting human preferences towards all non-passerine and five passerine bird families (n = 102), and to see whether such preferences correspond within a family or are species-specific. Using an Internet survey, we asked 200 human respondents to evaluate pictures of bird species, with two randomly chosen from each family, according to their attractiveness. The respondents were mainly from the Czech and Slovak Republics, but 67 came from other countries (the majority of which were English-speaking). An additional 100 respondents, exclusively from the Czech and Slovak Republics, evaluated the same pictures converted to silhouettes, to test the effect of shape versus color. We included various factors such as morphometric traits (i.e., measurements of body segments and the area the bird silhouette filled in the picture), body weight of the species, and colors, lightness, and saturation of the pictures in the statistical analyses, to help explain any variation in human preferences. We found that human preferences were significantly affected by bird morphology; however, the colors blue and yellow, as well as the overall lightness, were significant as well. The preferences for species belonging to the same family were positively correlated, possibly due to similarity in the body shape of related species. We suggest that finding the traits that determine human preferences toward birds may help conservationists promote a conservation program based on the selection of the correct, scientifically determined, flagship species.     

Plant functional identity as the predictor of carbon storage in semi-arid ecosystems

Background: There is an increasing consensus that ecosystem processes are governed by functional identity and trait variation rather than species richness. Despite its importance, the relative effect of relevant functional traits for carbon storage has remained mostly untested in different bioclimatic regions.

Aims: In this study, different components of functional diversity such as community-weighted means of trait values (CWM), functional trait diversity (Rao’s quadratic diversity), functional richness (FRi), functional evenness (FEv) and functional divergence (FDiv) were used to associate carbon content of above-ground biomass, litter and soil in four bioclimatic regions including warm and cold-steppe, semi-steppe rangelands and oak dry forest in the south-west of Iran.

Methods: Several key important traits highly associated with carbon storage including specific leaf area (SLA), height (H), leaf dry matter content, leaf nitrogen and phosphorus content (LNC and LPC), leaf longevity, wood specific gravity and life form were determined to quantify single and multiple traits that contribute to different components of plant functional diversity.

Results: The results showed that CWM of H, Chamaephyte life form, LNC and LPC were among the most important aspects of functional diversity that positively predicted carbon storage in above-ground biomass and soil. We also observed the negative association of carbon storage with FEv of LNC, Rao of LNC and FEv of multiple traits in the rangelands and the negative association of carbon storage with FDiv of SLA in the forest.

Conclusions: Our results indicate that different components of functional diversity are essential for a mechanistic understanding of the role of plant diversity for carbon storage. The negative associations between FDiv and FEv and carbon storage do not provide support for the complementarity niche hypothesis. Our results suggest that in the more functionally diverse ecosystems dominated by functionally important species with key traits, the so-called functional identity does indeed promote carbon storage, at least in these semi-arid ecosystems.     

Habitat-islands in the coastal Atacama Desert: loss of functional redundancy,but not of functional diversity,with decreased precipitation

Background and AimsAridity is increasing in many regions of the world, but microclimatic conditions may buffer plant communities from the direct effects of decreased precipitation, creating habitat islands. However, reduced precipitation can also impact these communities indirectly by decreasing the suitability of the surrounding habitat, thus limiting incoming propagules and increasing the chances of population decline and species loss. We test whether decreased precipitation results in loss of species and functional diversity within habitat islands, evaluating in particular whether declines in species diversity and abundance are less likely to result in loss of functional diversity if species/individual loss is stochastic (i.e. independent of species/individual traits) and communities/populations are functionally redundant.MethodsLomas communities are discrete plant communities embedded in the Atacama Desert, maintained by the microclimatic conditions created by fog. We recorded species and functional diversity in six Lomas communities along a 500 km long precipitation gradient in northern Chile. Functional traits were measured in 20 individuals per species, in those species that accounted for approx. 75 % of the abundance at each site. We calculated functional diversity and functional redundancy of the community, and intraspecific functional variation.Key ResultsDecreased precipitation was associated with lower species diversity and lower species abundances. However, no traits or functional strategies increased or decreased consistently with precipitation, suggesting stochastic species/individual loss. Species with stress-tolerant strategies were predominant in all sites. Although species diversity decreased with decreasing precipitation, functional diversity remained unchanged. Lower functional redundancy in the drier sites suggests that mainly functionally redundant species were lost. Likewise, intraspecific functional variation was similar among communities, despite the lower species abundance in drier sites.ConclusionsDecreased precipitation can impact habitat island communities indirectly by decreasing the suitability of the surrounding habitat. Our results support the idea that a stochastic loss of species/individuals from functionally redundant communities and populations does not result in loss of functional diversity.     

Intraspecific trait variation influences physiological performance and fitness in the South Africa shrub genus Protea (Proteaceae)

Background and AimsGlobal plant trait datasets commonly identify trait relationships that are interpreted to reflect fundamental trade-offs associated with plant strategies, but often these trait relationships are not identified when evaluating them at smaller taxonomic and spatial scales. In this study we evaluate trait relationships measured on individual plants for five widespread Protea species in South Africa to determine whether broad-scale patterns of structural trait (e.g. leaf area) and physiological trait (e.g. photosynthetic rates) relationships can be detected within natural populations, and if these traits are themselves related to plant fitness.MethodsWe evaluated the variance structure (i.e. the proportional intraspecific trait variation relative to among-species variation) for nine structural traits and six physiological traits measured in wild populations. We used a multivariate path model to evaluate the relationships between structural traits and physiological traits, and the relationship between these traits and plant size and reproductive effort.Key ResultsWhile intraspecific trait variation is relatively low for structural traits, it accounts for between 50 and 100 % of the variation in physiological traits. Furthermore, we identified few trait associations between any one structural trait and physiological trait, but multivariate regressions revealed clear associations between combinations of structural traits and physiological performance (R² = 0.37–0.64), and almost all traits had detectable associations with plant fitness.ConclusionsIntraspecific variation in structural traits leads to predictable differences in individual-level physiological performance in a multivariate framework, even though the relationship of any particular structural trait to physiological performance may be weak or undetectable. Furthermore, intraspecific variation in both structural and physiological traits leads to differences in plant size and fitness. These results demonstrate the importance of considering measurements of multivariate phenotypes on individual plants when evaluating trait relationships and how trait variation influences predictions of ecological and evolutionary outcomes.     

Trunk spines of trees: a physical defence against bark removal and climbing by mammals?

Background and Aims The defensive role of spines has previously been related to leaves, young shoots and reproductive organs. However, some woody species harbour spines on their trunks where none of those organs are present. Several explanations are plausible: they could be (1) climbing aids, (2) remnants from defence of leaves or reproductive organs during an earlier development phase, or (3) an as-yet undescribed defence. Here we investigate whether they could play a role against either bark feeding or preventing climbing animals accessing food resources in the tree canopy.MethodsWe described 31 woody species with spines on their trunk, growing in a botanical garden, to test whether morphological strategies could be identified and suggest what could be their most likely function. As testing their function is difficult experimentally for large pools of species, we performed virtual experiments to evaluate the potential roles of trunk spines against bark removal and climbing animals of different sizes. We then compared for each species and their confamilial non-spiny species the nutritional profiles of leaf, bark and reproductive organs to test whether trunk spines were associated with a nutritious organ (more likely targeted by herbivores).Key ResultsWe identified four morphological syndromes of trunk spines. Two corresponded to already known functions (anchorage for lianas and crown defence against large ground mammals), and two strategies are newly described trait syndromes with traits suggesting a defence against bark feeding and climbing mammals. By simulation, we show how each strategy could translate into defence against debarking and prevent herbivores from climbing.ConclusionsWe identified trunk spine strategies and the criteria to classify them, their most likely function and the likely feeding mode and size of animal against which different trunk spine strategies may be effective. We discuss further perspectives for testing their function and their ecological significance.     

Assessing the dominance of Phleum pratense cv. climax,a species commonly used for ski trail restoration

Questions: (1) Are some species used for ski trail restoration too dominant to allow native species to re-establish? (2) What plant traits can be used to predict which species are good competitors? We tested the hypothesis that limited native species establishment on ski trails is caused by (1) the dominance of Phleum pratense cv. climax (PPC) and (2) the asymmetry of competitive interactions. Location: Sub-alpine area in the northern French Alps. Methods: PPC was cultivated outdoors over 2 years with 15 alpine species in a systematic design with high- and low-nutrient soil conditions. For each species relative survival, competitive performance and relationships with plant traits were measured. Results: PPC exerted strong dominance on most of its neighbouring species. Survival performance of Anthyllis vulneraria, Luzula sudetica and Lotus alpinus were dramatically reduced. Results of above-ground competition showed that species were trapped in asymmetric competition. Festuca rubra, Trifolium repens, Alchemilla xanthochlora, Trifolium pratense and Plantago alpina best counteracted PPC. Below-ground competition was more symmetric, particularly at the high nutrient level. Plant traits such as biomass, canopy size and specific leaf area were positively correlated with competitive performance of the species. Conclusion: The study has implications for the management of restored ski trails since PPC may hinder the establishment of native sub-alpine species. Consequently, recommendations should focus on (1) maintaining a low proportion or decreasing the proportion of PPC seeds in the revegetation mix and (2) reducing soil fertilization. Plant traits and competition experiments can help to predict changes in restored grasslands.     

Centre–periphery approaches based on geography,ecology and historical climate stability: what explains the variation in morphological traits of Bulnesia sarmientoi?

Background and AimsThe centre–periphery hypothesis posits that higher species performance is expected in geographic and ecological centres rather than in peripheral populations. However, this is not the commonly found pattern; therefore, alternative approaches, including the historical dimension of species geographical ranges, should be explored. Morphological functional traits are fundamental determinants of species performance, commonly related to environmental stability and productivity. We tested whether or not historical processes may have shaped variations in tree and leaf traits of the Chaco tree Bulnesia sarmientoi.MethodsMorphological variation patterns were analysed from three centre–periphery approaches: geographical, ecological and historical. Tree (stem and canopy) and leaf (leaf size and specific leaf area) traits were measured in 24 populations across the species range. A principal component analysis was performed on morphological traits to obtain synthetic variables. Linear mixed-effects models were used to test which of the implemented centre–periphery approaches significantly explained trait spatial patterns.Key ResultsThe patterns retrieved from the three centre–periphery approaches were not concordant. The historical approach revealed that trees were shorter in centre populations than in the periphery. Significant differences in leaf traits were observed between the geographical centre and the periphery, mainly due to low specific leaf area values towards the geographical centre. We did not find any pattern associated with the ecological centre–periphery approach.ConclusionsThe decoupled response between leaf and tree traits suggests that these sets of traits respond differently to processes occurring at different times. The geographical and historical approaches showed centres with extreme environments in relation to their respective peripheries, but the historical centre has also been a climatically stable area since the Last Glacial Maximum. The historical approach allowed for the recovery of historical processes underlying variation in tree traits, highlighting that centre–periphery delimitations should be based on a multi-approach framework.     

Leaflet morphometric variation of service tree (Sorbus domestica L.) in the Balkan Peninsula

Abstract

In most European countries, the service tree (Sorbus domestica L.) is a rare and threatened species and its conservation has been recognised as a priority. The aim of this study was to asses its morphologic variation in the western and central part of the Balkan Peninsula and in southern Central Europe. Three populations were analysed: one in Serbia, one in Bosnia and Herzegovina and one in Slovenia. In each population 30 trees were selected, and from each tree 30 leaves were collected for morphometric analysis based on nine leaflet morphological traits. Univariate (ANOVA) and multivariate (MANOVA) analysis of variance were used to estimate the variation within- and between populations and a discriminant analysis was performed to examine the structure of the between-population differences. The values of particular morphological traits found in our study did not differ considerably from the values reported elsewhere. The results revealed significant within- and between population variation. Variation within populations was highly significant for all the scored leaf morphological traits, while variation between populations was significant for all the studied traits except for the leaflet length. The discrimination between the three populations was significant. High percentages of correctly classified samples demonstrate good discriminating employability of the analysed leaf morphological traits and indicate differentiation of the analysed populations.     

An inventory of mammalian pests in a New Zealand city

Abstract

Urban ecosystems include many habitat types supporting native flora and fauna. These habitats may also sustain populations of introduced mammalian pests, although relatively little is known about the composition or distributions of these species in urban environments. We made a preliminary survey of the distribution and relative abundance of pest mammals across three urban habitat types (gully, amenity park, residential) in Hamilton, New Zealand. Tracking tunnel and WaxTag® surveys showed that: (1) rats (Rattus rattus or R. norvegicus), mice (Mus musculus) and brushtail possums (Tricho‐surus vulpecula) were detected most often and in highest abundances in gullies, were relatively rare in amenity parks, and were not detected in residential areas; (2) hedgehogs (Erinaceus europaeus) were regularly detected in all habitats; and (3) mustelids were not detected in any habitat. Live trapping in areas where rats were detected captured 21 rats, of which 19 were R. rattus. Scat and animal sign surveys found evidence of lagomorphs in amenity parks and gullies but not in residential areas. Cats (Felis catus) were detected in all habitats. These data suggest that important mammalian pests other than cats are either absent (mustelids) or comparatively rare (rats) in urban Hamilton and largely confined to gully habitats. Further research is needed to determine whether detection probabilities of target species vary significantly between the species and habitats we sampled, and to quantify the impact that mammalian pests might have in limiting populations of other animals, especially avifauna.     

Traits allowing some ant species to nest syntopically with the fire ant Solenopsis saevissima in its native range

Supercolonies of the red fire ant Solenopsis saevissima (Smith) develop in disturbed environments and likely alter the ant community in the native range of the species. For example, in French Guiana only 8 ant species were repeatedly noted as nesting in close vicinity to its mounds. Here, we verified if a shared set of biological, ecological, and behavioral traits might explain how these 8 species are able to nest in the presence of S. saevissima. We did not find this to be the case. We did find, however, that all of them are able to live in disturbed habitats. It is likely that over the course of evolution each of these species acquired the capacity to live syntopically with S. saevissima through its own set of traits, where colony size (4 species develop large colonies), cuticular compounds which do not trigger aggressiveness (6 species) and submissive behaviors (4 species) complement each other.     

Phylogenetic structure of a palm community in the central Amazon: changes along a hydro-edaphic gradient

The concepts of phylogenetic community structure (PCS) and phylogenetic niche conservatism (PNC) allow ecologists to address the role of species’ evolutionary history in community assembly. It is important to test the role of historical legacies relative to environmental constraints at local scales, where communities are assembled. We studied phylogenetic structure and niche conservatism for palms (Arecaceae) in the 64-km² Ducke Reserve in the central Amazon, near Manaus. The 72 study plots, each covering 0.1 ha, were distributed regularly in a terra firme forest along a hydro-edaphic gradient. We compared the observed palm PCS with assemblages generated by null models. We also analyzed whether morphological and ecological traits are labile or conserved along the phylogeny and quantified the spatial structure of morphological traits in each plot. We found an overall neutral PCS in combination with low PNC (labile traits), suggesting that evolutionary history poses little constraint on palm community assembly in this Amazonian landscape. Still, there was a tendency towards phylogenetic overdispersion in bottomlands, suggesting competitive exclusion among close relatives or, more likely, environmental filtering acting on convergent traits that affect co-occurrence in flood-prone areas. We conclude that (1) PCS of local communities is random as a whole and morphological traits are overall labile, but that (2) the hydro-edaphic gradient within terra firme forests leads to differences in species co-occurrence so that closely related species occur less often than expected in bottomlands due to diffuse competition among close relatives or environmental filtering on convergent traits.     

Size‐dependent and environment‐mediated shifts in leaf traits of a deciduous tree species in a subtropical forest

AimsUnderstanding the joint effects of plant development and environment on shifts of intraspecific leaf traits will advance the understandings of the causes of intraspecific trait variation. We address this question by focusing on a widespread species Clausena dunniana in a subtropical broad‐leaved forest.MethodsWe sampled 262 individuals of C. dunniana at two major topographic habitat types, the slope and hilltop, within the karst forests in Maolan Nature Reserve in southwestern China. We measured individual plant level leaf traits (i.e., specific leaf area (SLA), leaf area, leaf dry‐matter content (LDMC), and leaf thickness) that are associated with plant resource‐use strategies. We adopted a linear mixed‐effects model in which the plant size (i.e., the first principal component of plant basal diameter and plant height) and environmental factors (i.e., topographic habitat, canopy height, and rock‐bareness) were used as independent variables, to estimate their influences on the shifts of leaf traits.Key ResultsWe found that (1) plant size and the environmental factors independently drove the intraspecific leaf trait shifts of C. dunniana, of which plant size explained less variances than environmental factors. (2) With increasing plant size, C. dunniana individuals had increasingly smaller SLA but larger sized leaves. (3) The most influential environmental factor was topographic habitat; it drove the shifts of all the four traits examined. Clausena dunniana individuals on hilltops had leaf traits representing more conservative resource‐use strategies (e.g., smaller SLA, higher LDMC) than individuals on slopes. On top of that, local‐scale environmental factors further modified leaf trait shifts.ConclusionsPlant size and environment independently shaped the variations in intraspecific leaf traits of C. dunniana in the subtropical karst forest of Maolan. Compared with plant size, the environment played a more critical role in shaping intraspecific leaf trait variations, and potentially also the underlying individual‐level plant resource‐use strategies.