Point process models,the dimensions of biodiversity and the importance of small-scale biotic interactions

Aims Recent mechanistic explanations for community assembly focus on the debates surrounding niche-based deterministic and dispersal-based stochastic models. This body of work has emphasized the importance of both habitat filtering and dispersal limitation, and many of these works have utilized the assumption of species spatial independence to simplify the complexity of the spatial modeling in natural communities when given dispersal limitation and/or habitat filtering. One potential drawback of this simplification is that it does not consider species interactions and how they may influence the spatial distribution of species, phylogenetic and functional diversity. Here, we assess the validity of the assumption of species spatial independence using data from a subtropical forest plot in southeastern China.Methods We use the four most commonly employed spatial statistical models—the homogeneous Poisson process representing pure random effect, the heterogeneous Poisson process for the effect of habitat heterogeneity, the homogenous Thomas process for sole dispersal limitation and the heterogeneous Thomas process for joint effect of habitat heterogeneity and dispersal limitation—to investigate the contribution of different mechanisms in shaping the species, phylogenetic and functional structures of communities.Important findings Our evidence from species, phylogenetic and functional diversity demonstrates that the habitat filtering and/or dispersal-based models perform well and the assumption of species spatial independence is relatively valid at larger scales (50×50 m). Conversely, at local scales (10×10 and 20×20 m), the models often fail to predict the species, phylogenetic and functional diversity, suggesting that the assumption of species spatial independence is invalid and that biotic interactions are increasingly important at these spatial scales.     

Floristic patterns of epiphytes in the Brazilian Atlantic Forest,a biodiversity hotspot

To assess the main factors driving epiphytic angiosperm distribution throughout the Brazilian Atlantic Forest, we compiled 57 floristic surveys and analysed species composition under the influence of environmental variables, space and vegetation type using canonical correspondence analysis (CCA), similarity (Sorensen) and Mantel's tests. The indicator value index (IndVal) was used to find indicator species of each Brazilian Atlantic Forest vegetation type. Group sharpness analysis was performed in order to determine the appropriate group partition level. CCA showed a separation of the epiphytic flora reflecting temperature and rainfall gradients. Mantel's test showed that environment and space were highly correlated with floristic similarity. Cluster analysis, indicating floristic similarity, resolved five groups, mainly grouped by region. Clear differentiation of the Brazilian Atlantic Forest epiphytic flora on a north–south axis with a strong correlation with temperature and rainfall gradients was found. The role of space and environment on species composition varied according to distinct epiphytic species groups. In particular, for Bromeliaceae and Orchidaceae, the main factor associated with floristic similarity was space. Indicator species were found for all vegetation types apart from the Seasonal Semideciduous Forest that seemed to represent a subset of a more humid forest type. © 2015 The Linnean Society of London, Botanical Journal of the Linnean Society, 2015, 179 , 587–601.     

The building of a biodiversity hotspot across a land-bridge in the Mediterranean

Many of the macroevolutionary processes that have shaped present-day phylogenetic patterns were caused by geological events such as plate tectonics and temporary land-bridges. The study of spatial patterns of phylogenetic diversity can provide insights into these past events. Here we focus on a western Mediterranean biodiversity hotspot located in the southern Iberian Peninsula and northwest Africa, two regions that are separated by the Strait of Gibraltar. We explore the spatial structure of the phylogenetic relationships within and across large-scale plant assemblages. Significant turnover in terminal lineages tends to occur between landmasses, whereas turnover in deep lineages tends to occur within landmasses. Plant assemblages in the western ecoregions of this hotspot tend to be phylogenetically overdispersed but are phylogenetically clustered on its eastern margins. We discuss our results in the light of potential scenarios of niche evolution (or conservatism) and lineage diversification. The significant turnover between landmasses suggests a common scenario of allopatric speciation that could have been facilitated by the intermittent joining of the two continents. This may have constituted an important stimulus for diversification and the emergence of this western Mediterranean biodiversity hotspot.     

Inferring the parameters of the neutral theory of biodiversity using phylogenetic information and implications for tropical forests

We develop a statistical method to infer the parameters of Hubbell's neutral model of biodiversity using data on local species abundances and their phylogenetic relatedness. This method uses the approximate Bayesian computation (ABC) approach, where the data are summarized into a small number of informative summary statistics. We used three statistics: the number of species in the sample, Shannon H index of evenness and Shao and Sokal's B ₁ index of phylogenetic tree imbalance. Our approach was found to outperform previous methods, illustrating the potential of ABC methods in ecology. Applying it to four large tropical forest tree data sets, the best-fit immigration rates m were found to be two orders of magnitude smaller and regional diversities θ larger than previously reported for the same data. This implies that neutral-compatible regional pools of tropical trees should extend over continental scales, and that m measures, in this context, mostly the frequency of long-distance dispersal events.     

Native forest metacommunity structures in Uruguay shaped by novel land‐use types in their surroundings

We explore the effect of land‐use change from extensively used grasslands to intensified silvi‐ and agricultural monocultures on metacommunity structure of native forests in Uruguay. We integrated methods from metacommunity studies, remote sensing, and landscape ecology to explore how woody species distribution was influenced by land‐use change from local to regional scale. We recorded richness and composition of adult and juvenile woody species from 32 native forests, created land‐use maps from satellite image to calculate spatial metrics at landscape, class, and patch levels. We also analyzed the influence of land use pattern, climate, topography, and geographic distance between sites (d) on metacommunity, and created maps to visualize species richness and (dis)similarity between communities across the country. Woody species communities were distributed in a discrete pattern across Uruguay. Precipitation and temperature seasonality shaped species distribution pattern. Species richness and community dissimilarity increased from West to East. Latitude did not influence these patterns. Number of patches, landscape complexity, and interspersion and juxtaposition indexes determine woody species distribution at landscape level. Increasing areas covered by crops and timber plantation reduced species richness and increased community dissimilarity. The spatial metrics of native forest fragments at patch level did not influence metacommunity structure, species richness, and community dissimilarity. In conclusion, Uruguayan native forests display a high range of dissimilarity. Pressure of neighborhood land uses was the predominant factor for species assemblages. Conserving landscape structures that assure connectivity within and among native forest patches is crucial. On sites with rare target species, the creation of alliances between governmental institution and landowner complemented by incentives for biodiversity conservation provides opportunities to advance in species protection focused on those less tolerant to land‐use change.     

Toad radiation reveals into-India dispersal as a source of endemism in the Western Ghats-Sri Lanka biodiversity hotspot

Background  

High taxonomic level endemism in the Western Ghats-Sri Lanka biodiversity hotspot has been typically attributed to the subcontinent's geological history of long-term isolation. Subsequent out of – and into India dispersal of species after accretion to the Eurasian mainland is therefore often seen as a biogeographic factor that 'diluted' the composition of previously isolated Indian biota. However, few molecular studies have focussed on into-India dispersal as a possible source of endemism on the subcontinent. Using c. 6000 base pairs of mitochondrial and nuclear DNA, we investigated the evolutionary history and biogeography of true toads (Bufonidae), a group that colonized the Indian Subcontinent after the Indo-Asia collision.     

Aridity,soil and biome stability influence plant ecoregions in the Atlantic Forest,a biodiversity hotspot in South America

Our aims were to quantify and map the plant ecoregions of the Atlantic Forest, a biodiversity hotspot that covers ca 150 million ha in eastern South America. We used a data set on the distribution of 4378 shrub and tree species across 711 localities. Plant ecoregions were identified using analyses of species turnover for both species occurrences and relative abundances. We interpolated NMDS axes of compositional variation over the entire the Atlantic Forest extent, and then classified the compositional dissimilarity according to the number of biogeographical ecoregions previously identified through K‐means analyses. We assessed the ability of environmental, historical vegetation stability and the current human footprint to explain the occurrence of the identified ecoregions through multinomial logistic regression models. We identified 21 spatially cohesive occurrence and 14 abundance ecoregions. Aridity, soil and historical biome stability were retained in the best model explaining both occurrence and abundance ecoregions. Broad compositional zones were identified through UPGMA cluster analysis of ecoregions, and formed north and south compositional blocks. Our work confirms the existence of a broad north–south divide within the Atlantic Forest, previously suggested based on climatic and amphibious data. Differences between the occurrence and abundance maps suggest the location of transition zones to neighbouring domains and endemism centres. Due to the aggregate nature of our analyses, site‐level disturbance degree was not considered, implying that human impacts could be broader then we could detect. There was limited overlap between our results and previous Atlantic Forest regionalization efforts, indicating that multi‐taxa, physiognomic and environmental regionalization schemes based on expert opinion or vegetation maps are poor proxies for compositional ecoregions.     

Functional diversity and traits assembly patterns of lichens as indicators of successional stages in a tropical rainforest

Understanding community assembly patterns with regard to functional traits, which may be common to different species, allows us to compare ecological communities in a wider range of environmental and phytogeographic conditions. Moreover, a functional approach may facilitate the comprehension of the relation between biotic changes and ecosystem functions in complex systems such as tropical forests. Considering the lack of information in relation to the influence of environmental conditions on lichen functional traits, on lichen functional patterns in tropical forests and the potential usage of this approach in bioindication studies, this paper aims at (i) determining the functional structure of the lichen communities along the forest succession gradient, (ii) assessing the relation of lichen functional traits to this gradient and (iii) verifying the potential of using lichen functional traits as indicators of successional stages in tropical rainforests. Lichens were sampled in 24 sampling units of three successional stages (6–10; 12–20; and 40–60 years of recovering). The results corroborated our main hypothesis that the functional structure of the lichen communities responds to structural changes along a forest regeneration gradient. Growth forms (foliose, fruticose and crustose) as well as some reproductive trait states (lirella, isidia and perithecia) were the most suitable lichen traits to be used as indicators of forest succession in the southern edge of the Atlantic Rainforest. Lirella, fruticose and foliose were more related to earlier successional stages; isidia was more related to intermediate stages, while perithecia and crustose were more related to older stages. These results reinforce the ability of lichens to be used as bioindicators of forest conditions.     

Examining differences in phylogenetic composition enhances understanding of the phylogenetic structure of the shrub community in the northeastern Qinghai‐Tibetan Plateau

Periodic climatic oscillations and species dispersal during the postglacial period are two important causes of plant assemblage and distribution on the Qinghai‐Tibet Plateau (QTP). To improve our understanding of the bio‐geological histories of shrub communities on the QTP, we tested two hypotheses. First, the intensity of climatic oscillations played a filtering role during community structuring. Second, species dispersal during the postglacial period contributed to the recovery of species and phylogenetic diversity and the emergence of phylogenetic overdispersion. To test these hypotheses, we investigated and compared the shrub communities in the alpine and desert habitats of the northeastern QTP. Notably, we observed higher levels of species and phylogenetic diversity in the alpine habitat than in the desert habitat, leading to phylogenetic overdispersion in the alpine shrub communities versus phylogenetic clustering in the desert shrub communities. This phylogenetic overdispersion increased with greater climate anomalies. These results suggest that (a) although climate anomalies strongly affect shrub communities, these phenomena do not act as a filter for shrub community structuring, and (b) species dispersal increases phylogenetic diversity and overdispersion in a community. Moreover, our investigation of the phylogenetic community composition revealed a larger number of plant clades in the alpine shrub communities than in the desert shrub communities, which provided insights into plant clade‐level differences in the phylogenetic structures of alpine and desert shrub communities in the northeastern QTP.     

Climate change, plant migration, and range collapse in a global biodiversity hotspot: the Banksia (Proteaceae) of Western Australia

Climate change has already altered global patterns of biodiversity by modifying the geographic distributions of species. Forecasts based on bioclimatic envelop modeling of distributions of species suggests greater impacts can be expected in the future, but such projections are contingent on assumptions regarding future climate and migration rates of species. Here, we present a first assessment of the potential impact of climate change on a global biodiversity hotspot in southwestern Western Australia. Across three representative scenarios of future climate change, we simulated migration of 100 Banksia (Proteaceae) species at a rate of 5 km decade^?1 and compared projected impacts with those under the commonly applied, but acknowledged as inadequate, assumptions of ‘full‐’ and ‘no‐migration.’ Across all climate × migration scenarios, 66% of species were projected to decline, whereas only 6% were projected to expand or remain stable. Between 5% and 25% of species were projected to suffer range losses of 100% by 2080, depending mainly on climate scenario. Species losses were driven primarily by changes in current precipitation regimes, with the greatest losses of species projected to occur in a transition zone between wet coastal areas and interior arid regions and which is projected to become more arid in the future. Because the ranges of most species tended to collapse in all climate scenarios, we found that climate change impacts to flora of southwestern Western Australia may be large, even under optimistic assumptions regarding migration abilities. Taken together, our results suggest that the future of biodiversity in southwestern Western Australia may lie largely in the degree to which this hotspot experiences increased drought and in the ability of species to tolerate such decreases in precipitation. More broadly, our study is among a growing number of theoretical studies suggesting the impacts of future climate change on global biodiversity may be considerable.     

Best of both worlds: Combining ecological and social research to inform conservation decisions in a Neotropical biodiversity hotspot

Conservation decision is a challenging and risky task when it aims at prioritizing species or protected areas (PAs) to prevent extinction while ensuring fair treatment of all stakeholders. Better conservation decisions are those made upon a broader evidence base that includes both ecological and social considerations. However, in some of the most biodiverse ecosystems on Earth — tropical forests, for instance — multicriteria decision-making has been constrained by the following (i) ecological and social datasets available have been obtained in an independent, non-integrated manner, with social data typically more scarce than ecological ones, and (ii) capacity in social and/or interdisciplinary data analysis among decision-maker is limited. We describe a conservation prioritization exercise that combined findings from independent ecological and social research conducted in the Brazilian Atlantic Forest, and propose methods to integrate, analyze and visualize data. We found that the outcomes based on combined ecological and social research findings were, in some cases, different from those based on any of these lines of evidence alone. Indeed, the input from relatively basic social research significantly changed the outcomes of decision-making based on the results of ecological research. Results corroborate the importance and cost-effectiveness of broadening the interdisciplinary evidence base for conservation decision-making, even when social data is scarce and analytical capacity is limited.     

The effect of hummingbird flower mites on nectar availability of two sympatric Heliconia species in a Brazilian Atlantic forest

BACKGROUND AND AIMS: Hummingbird flower mites feed and reproduce in flowers of host plants pollinated by hummingbirds, and use the nostrils and bill of the hummingbird to move from plant to plant. These mites compete with the pollinator for the nectar produced by flowers. An investigation was made of the relationship between the pattern of nectar production and the effects of hummingbird flower mites in the flowers of two sympatric species of Heliconia (Heliconiaceae). METHODS: Nectar production was sampled by carrying out two experiments: 2-hour intervals and accumulated nectar. Flowers with and without mites were used in both experiments. KEY RESULTS: Exclusion of mites increased nectar production, especially in accumulated daily production (a maximum of 49 % more nectar). Both Heliconia species had the same pattern of nectar production: a high concentration in the morning, which was progressively reduced as the day passed. This pattern of nectar production coincides with the behaviour of the pollinator, which makes more frequent visits in the morning, as observed in a previous study. CONCLUSIONS: The results suggest that the impact of mites on nectar availability of Heliconia is more important with regard to total volume of nectar produced irrespective of flower longevity. A high variation among individuals in nectar produced in the populations was also observed. Hummingbird flower mites strongly affect availability of nectar for hummingbirds.     

地理距离和环境因子对阿拉善戈壁植物群落β多样性的影响

内蒙古阿拉善地区分布着超过20万km²的典型戈壁生态系统, 且这些戈壁生态系统正遭受着持续性气候变暖与极端天气的影响。然而, 土壤、气候、空间变量等因子对阿拉善戈壁大尺度植物β多样性及其关键组分的相对影响还没有得到系统研究。本文通过对阿拉善典型戈壁生境的276个样方进行植物群落组成调查, 并结合气候、土壤等数据, 探讨了地理距离和环境因子对阿拉善戈壁区植物群落β多样性及其组分的影响。研究表明: (1)在阿拉善戈壁区, 随着地理距离的增加, 植物群落β多样性及物种周转组分显著增加, 而且β多样性主要源于物种周转组分, 物种嵌套组分的贡献非常有限; (2)偏Mantel分析显示环境因子和地理距离对β多样性及其物种周转组分均有显著的单独作用; 方差分解结果进一步表明, 环境因子和地理距离共同解释了植物β多样性及其物种周转组分10.84%-17.67% (Bray-Curtis)和15.47%-24.81% (Sørensen)的变异, 但环境因子可以单独解释更多的变异(6.62%-9.97% (Bray-Curtis)和8.98%-14.51% (Sørensen))。在众多环境因子中, 气温日较差、土壤含水量和地表砾石盖度对植物群落β多样性和物种周转组分的贡献更大。以上结果表明, 环境过滤、扩散限制以及其他未知过程可能共同影响阿拉善戈壁区植物群落β多样性格局, 其中环境过滤可能具有更大的影响。     

The geographical pattern of speciation and floral diversification in the neotropics: the tribe sinningieae (gesneriaceae) as a case study

The geographical pattern of speciation and the relationship between floral variation and species ranges were investigated in the tribe Sinningieae (Gesneriaceae), which is found mainly in the Atlantic forests of Brazil. Geographical distribution data recorded on a grid system of 0.5 x 0.5 degree intervals and a near-complete species-level phylogenetic tree of Sinningieae inferred from a simultaneous analysis of seven DNA regions were used to address the role of geographical isolation in speciation. Geographical range overlaps between sister lineages were measured across all nodes in the phylogenetic tree and analyzed in relation to relative ages estimated from branch lengths. Although there are several cases of species sympatry in Sinningieae, patterns of sympatry between sister taxa support the predominance of allopatric speciation. The pattern of sympatry between sister taxa is consistent with range shifts following allopatric speciation, except in one clade, in which the overlapping distribution of recent sister species indicates speciation within a restricted geographical area and involving changes in pollinators and habitats. The relationship between floral divergence and regional sympatry was also examined by analyzing floral contrasts, phenological overlap, and the degree of sympatry between sister clades. Morphological contrast between flowers is not increased in sympatry and phenological divergence is more apparent between allopatric clades than between sympatric clades. Therefore, our results failed to indicate a tendency for sympatric taxa to minimize morphological and phenological overlap (geographic exclusion and/or character displacement hypotheses). Instead, they point toward adaptation in phenology to local conditions and buildup of sympatries at random with respect to flower morphology. Additional studies at a lower geographical scale are needed to identify truely coexisting species and the components of their reproductive isolation.