Super-resolution microscopy allowed major improvements in our capacity to describe and explain biological organization at the nanoscale. Single-molecule localization microscopy (SMLM) uses the positions of molecules to create super-resolved images, but it can also provide new insights into the organization of molecules through appropriate pointillistic analyses that fully exploit the sparse nature of SMLM data. However, the main drawback of SMLM is the lack of analytical tools easily applicable to the diverse types of data that can arise from biological samples. Typically, a cloud of detections may be a cluster of molecules or not depending on the local density of detections, but also on the size of molecules themselves, the labeling technique, the photo-physics of the fluorophore, and the imaging conditions. We aimed to set an easy-to-use clustering analysis protocol adaptable to different types of data. Here, we introduce Diinamic, which combines different density-based analyses and optional thresholding to facilitate the detection of clusters. On simulated or real SMLM data, Diinamic correctly identified clusters of different sizes and densities, being performant even in noisy datasets with multiple detections per fluorophore. It also detected subdomains (“nanodomains”) in clusters with non-homogeneous distribution of detections.

High densities of palms are common in many tropical forests. In some cases, the dominance of palms has been associated with a depauperate understorey and high rates of native seedling mortality. A variety of different potential mechanisms has been suggested to explain the sustained palm dominance in the understorey and canopy of these forests. Working in a Cocos nucifera-dominated wet tropical forest at Palmyra Atoll in the central Pacific, we examine how litterfall from this pantropical, and economically important palm, impacts seedling survival. We compare rates of litterfall, and rates of litterfall-associated damage, between forest stands dominated by C. nucifera (coconut palm) and forest stands with low abundance of C. nucifera. To assess litterfall damage we survey damage to both artificial seedlings (n = 711), outplanted real seedlings of two species (with and without protection via caging; n = 204), and standing rates of litterfall damage. We find that rates of large-litterfall damage were an average of five times higher in sites with high densities of C. nucifera. Associated with these increases we observe that levels of physical damage to artificial model seedlings caused by litterfall over a 4-mo period increased from 4.9% in sites with low abundance of C. nucifera to 16.1% in sites with high abundance of C. nucifera. Extrapolated to annual rates, litterfall damage of this magnitude exceeds the average levels observed in other published studies. Living native seedlings also showed more than 300% higher levels of mortality in forest stands with high densities of C. nucifera, a difference that was greatly reduced when protected by caging from litterfall. In contrast, uncaged C. nucifera seedlings actually had slightly higher survivorship in habitats dominated by conspecifics. We suggest that litterfall damage may be an important mechanism by which this tropical palm reaches and maintains near monodominance in many coastal and insular habitats.

The use of natural fibers in the development of composite materials is a sector in full expansion. These fibers were used for their low cost, their availability and their renewable character. The fibers of the palm (palm tree) were used as reinforcement in polypropylene (PP). The date palm fibers have some potential because of their ecological and economic interest. Both unmodified and compatibilized fibers are used. Compatibilization was carried out with the use of maleic anhydride copolymers. The morphology and mechanical properties were characterized by electron microscopy scanning (SEM) and tensile tests. The influence of fiber content on mechanical properties of composite PP/date palm has been evaluated and demonstrated, that the maximum stress and elongation decreases with increasing fiber volume rate. On the other hand, an increase of the tensile modulus has been noticed, but after the fibers improvement, the maximum stress increases significantly up to 25% weight.

For over a decade fluorescence microscopy has demonstrated the capacity to achieve single-molecule localization accuracies of a few nanometers, well below the ∼200 nm lateral and ∼500 nm axial resolution limit of conventional microscopy. Yet, only the recent development of new fluorescence labeling modalities, the increase in sensitivity of imaging hardware, and the creation of novel image analysis tools allow for the emergence of single-molecule-based super-resolution imaging techniques. Novel methods such as photoactivated localization microscopy and stochastic optical reconstruction microscopy can typically reach a tenfold increase in resolution compared to standard microscopy methods. Their implementation is relatively easy only requiring minimal changes to a conventional wide-field or total internal reflection fluorescence microscope. The recent translation of these two methods into commercial imaging systems has made them further accessible to researchers in biology. However, these methods are still evolving rapidly toward imaging live samples with high temporal resolution and depth. In this review, we recall the roots of single-molecule localization microscopy, summarize major recent developments, and offer perspective on potential applications.

Climate is one of the most important factors determining variation in forest structure, but whether soils have independent effects is less clear. We evaluate how climate and soil independently affect forest structure, using 89 200 stems ≥ 10 cm dbh from 220 1-ha permanent plots distributed along environmental gradients in lowland Bolivia. Fifteen forest structural variables, related to vertical structure (forest height and layering), horizontal structure (basal area, median and the 99th percentile of the stem diameter and size-class distribution) and density of life forms (tree, palm and liana), were evaluated. Environmental variables were summarized in four multivariate axes, related to rainfall, temperature, soil fertility and soil texture. Multiple regression indicates that all structural variables were affected by one or more of the environmental axes, but the explained variation was generally low (median R2 = 0.15). Rainfall and soil texture affected most forest structural variables (respectively 87% and 80%) and had qualitatively similar effects. This suggests that plant water availability, as determined by rainfall and soil water retention capacity, is the strongest driver of forest structure, whereas soil fertility was a weaker driver of forest structure, affecting 53% of the variables. Maximum forest height, palm density, total basal area and liana infestation showed the strongest responses to environmental variation (with R2 ranging from 0.31–0.82). Forest height, palm density and total basal area increased with plant water availability, while liana infestation decreased with plant water availability. Therefore, multiple rather than single environmental factors must be used to explain the structure of tropical forests.

We examined the consequences of habitat fragmentation on the assemblage of floral visitors and pollinators to male- and female-phase inflorescences of the understorey dominant palm Astrocaryum mexicanum at the Los Tuxtlas tropical rain forest. In six forest fragments ranging from 2 to 700 ha, we collected all floral visitors, pollinators and non-pollinators, to male- and female-phase inflorescences at the time of their greatest activity. We used multivariate and mixed-effects models to explore differences in guild composition between sexual phases of inflorescences and the effects of forest fragment size on several metrics of the assemblages of floral visitors. We detected 228 786 floral visitors, grouped into 57 species, across the six forest fragments. On average, abundance and species richness of floral visitors to female-phase inflorescences were higher than to male-phase ones. Forest fragmentation had no effect on species richness but negatively affected Shannon's diversity index. Overall, the most abundant species of floral visitors were predominantly found in inflorescences of plants from the large fragments. In contrast, most of the less common species were more abundant in the smallest fragments. The abundance of pollinators (those found on inflorescences of both phases and dusted with pollen that was carried to flower stigmas), and the ratio of pollinators to other floral visitors, increased with fragment size in both sexual phases of the inflorescences but these effects were significantly stronger on male-phase inflorescences than on female-phase inflorescences. These results show that tropical forest fragmentation correlates with changes in the composition of flower visitors to a dominant palm, with a reduction in the abundance of pollinators, but that such changes co-vary with the sexual phase of the plants.

Two rattans species were studied in Côte d'Ivoire using a stage-classified matrix model to compare their demography and life histories. Respectively 854 and 1009 genets of Eremospatha macrocarpa (pleonanthic) and Laccosperma secundiflorum (hapaxanthic) were censused every 6 mo over 18 mo. The population growth rates of E. macrocarpa (λ = 0.979) and L. secundiflorum (λ = 0.959) were not significantly different from 1. This indicates that the populations were close to equilibrium. However, the difference between the stable stage distributions and the observed distributions indicated temporal variation in vital rates. Elasticity analysis showed that growth and fecundity had lower contributions to λ than the survival rates for the two species. A Life Table Response Experiment revealed that the survival of the first juvenile stage (all stems < 6 m in length), fecundity, growth of the second juvenile stage (at least one stem > 6 m in length) and adult (reproductive) survival highly contribute to the differences between the demography of the two species. Reproduction is postponed longer for L. secundiflorum than for E. macrocarpa and the mean remaining life span for adult genets is shorter for L. secundiflorum than for E. macrocarpa. Finally, our results suggest the existence of two trade-offs within reproduction which suggest that, although the two species have different demographic features, the λ of their populations are not significantly different from 1.

Despite the importance of the palm family, Arecaceae, little has been systematically documented about the seed behaviour of the many species. The post-harvest seed behaviour of Phoenix reclinata, the highly utilized wild date palm species distributed along the eastern seaboard of Africa, is investigated in the present study. While both embryo and endosperm water concentration declined as the seeds of Phoenix reclinata matured, they remained relatively high: this is a characteristic of (but not confined to) non-orthodox seeds. The ultrastructure of embryo cells, and the finding that negligible water uptake was required for the initiation of germination, were in keeping with the possible non-orthodox nature of the seeds. A developmental study revealed that between the acquisition of full germinability and complete pre-shedding maturity, germination performance appeared to be constrained, suggesting the presence of an inhibitor. Pre-treatment by soaking, mechanical or acid scarification had no significant promotory effect on either rate or totality of germination of mature P. reclinata seeds, while use of water transiently at 100°C was highly deleterious. However, germination of partially dehydrated seeds was initiated sooner if they had been soaked or scarified. Mature P. reclinata seeds tolerated dehydration to a mean embryo water concentration of 0.40 g g–1 (dry mass basis; dmb), but at 0.14 g g–1, both rate and totality of germination were adversely affected. However, viability of seeds dehydrated to the mean embryo water concentration 0.40 g g–1 declined during storage for 16 weeks. It is concluded that P. reclinata seeds are non-orthodox, and are best categorized as showing intermediate post-harvest behaviour.

Among the hypotheses invoked to explain high species richness in tropical forests, the niche differentiation hypothesis has received observational and experimental support (Ashton 1969, Chesson 2000, Clark et al. 1999, Souza & Martins 2004, Svenning 2001, Terborgh & Mathews 1999). Habitat specialization with regard to edaphic factors and topography has been observed in several plant groups including trees, lianas, shrubs, ferns and palms (Clark et al. 1999, Ibarra-Manriquez & Martinez-Ramos 2002, Svenning 1999, Tuomisto & Ruokolainen 1993). Treefall gaps and light gradients have also been found to be important ecological factors affecting plant distribution and niche differentiation in the understory (Chazdon 1986, Poorter & Arets 2003, Terborgh & Mathews 1999). It is suggested that such habitat heterogeneity may not only maintain biodiversity but also may lead to the origin of new species through the process of parapatric speciation (Gentry 1989, Haffer 1997, Patton & Smith 1992).

Rodents are the most diverse group of terrestrial mammals in neotropical forests (Emmons & Feer 1997). The interaction of rodents with plants is often pivotal for seed survival (Peres & Baider 1997, Vander Wall 1990). Many rodent species are seed predators (Brewer 2001, Galetti et al. 1992, Hoch & Adler 1997). However, some neotropical rodents, especially dasyproctids (such as Dasyprocta and Myoprocta) and echimyids (Proechimys), are important secondary seed dispersers for large-seeded plants (Forget 1993, 1994; Hoch & Adler 1997, Wenny 1999).

Like many other palms, Iriartea deltoidea undergoes ontogenetic transitions in leaf morphology. It has been asked whether the transition to adult leaf form in Iriartea was a fixed developmental pattern or a more plastic response to changes in environmental conditions, but studies so far have not resolved the question. We re-examined the question by taking measurements on palms growing under the full range of conditions experienced in the natural environment. Using trunk height as a surrogate variable for ontogenetic stage, we found that individual palms undergo the transition to adult morphology over a wide range of heights from < 10 m to > 20 m. Palms growing in gaps undergo the transition early, whereas those growing under a closed canopy undergo the transition late. Noting this, we asked whether the transition occurred in individuals that were growing faster than a critical minimum rate, and found no correlation between growth and morphological stage. A post-hoc hypothesis, that structural support of the crown (measured as trunk diameter) could limit or delay the transition, was confirmed. Our results indicate that multiple conditions must be satisfied before the transition can be completed. The complex requirements for leaf morphogenesis in Iriartea confer an ability to respond flexibly to spatially and temporally varying environmental conditions.

Fungal endophytes associated with the palm, Trachycarpus fortunei, within and outside its natural geographic range were investigated. Endophytes were relatively common with colonization rates of 23–57% at the four sites sampled. The endophyte assemblages at the different sites were diverse with 75 fertile species of ascomycetes and mitosporic fungi. The assemblage composition at each site was similar and between seven and 13 species comprised 81–89% of the taxa present in relative frequencies of >1%. Glomerella cingulata and Phomopsis spp., were consistently dominant, and a large number of rare species were recorded. The diversity at each site was similar in number, but the abundance of isolates varied. The results obtained were comparable to those of previous studies of palm endophyte assemblages, but the assemblages showed more affinity with unrelated temperate hosts than with tropical palm hosts. Quantitative and qualitative differences in endophyte assemblages from old and young tissues were observed, and more isolates were recovered from old tissues independent of the age of the palm. The composition of the assemblage varied with several taxa being exclusively or more commonly isolated from old tissues (e.g. xylariaceous taxa, Oxydothis sp. nov.) or young tissues (e.g. Stagonospora spp., Phoma multirostrata). Some differences in the composition of the assemblage and in relative frequencies of various species were observed in trees and saplings. Significantly more isolates were recovered from the vein than intervein tissues, independent of leaf age or tree age. Tissue specificity was not exhibited by any taxa isolated from either leaf or petiole tissues, except for xylariaceous taxa in leaf tissues. Some other taxa showed a preference for leaf tissues or petioles, whereas others were equally distributed amongst all tissues. Endophyte assemblages of palms from continuous distributions were similar, but those from disjunct distributions (i.e. outside the natural geographic range of the palm, such as Australia and Switzerland), differed significantly from each other and from assemblages within continuous distributions. The relative importance values of endophyte species at the two sites in China indicates the site-specific nature of the endophyte assemblages. Most previous studies on the endophytes of palm hosts have concentrated on tropical palms. However, this study examines the endophytes of the warm temperate palm Trachycarpus fortunei, and investigates the relative importance of host and climate related processes.