A rapid and sensitive one-pot platform integrating fluorogenic RNA aptamers and CRISPR-Cas13a for visual detection of monkeypox virus.

The recent global upsurge in Monkeypox virus (MPXV) outbreaks underscores the critical need for rapid and precise diagnostic solutions, particularly in resource-constrained settings. The gold standard diagnostic method, qRT-PCR, is hindered by its time-consuming nature, requirement for nucleic acid purification, expensive equipment, and the need for highly trained personnel. Traditional CRISPR/Cas fluorescence assays, relying on trans-cleavage of ssDNA/RNA reporters labeled with costly fluorophores and quenchers, pose challenges that limit their widespread application, especially for point-of-care testing (POCT). In this study, we utilized a cost-effective and stable fluorogenic RNA aptamer (Mango III), specifically binding and illuminating the fluorophore TO3-3 PEG-Biotin Fluorophore (TO3), as a reporter for Cas13a trans-cleavage activity. We propose a comprehensive strategy integrating RNA aptamer, recombinase-aided amplification (RAA), and CRISPR-Cas13a systems for the molecular detection of MPXV target. Leveraging the inherent collateral cleavage properties of the Cas13a system, we established high-sensitivity and specificity assays to distinguish MPXV from other Orthopoxviruses (OPVs). A streamlined one-pot protocol was developed to mitigate aerosol contamination risks. Our aptamer-coupled RAA-Cas13a one-pot detection method achieved a Limit of Detection (LoD) of 4 copies of target MPXV DNA in just 40 min. Validation using clinical MPX specimens confirmed the rapid and reliable application of our RAA-Cas13a-Apt assays without nucleic acid purification procedure, highlighting its potential as a point-of-care testing solution. These results underscore the user-friendliness and effectiveness of our one-pot RAA-Cas13a-Apt diagnostic platform, poised to revolutionize disease detection and management.

On the modelling of tropical tree growth: the importance of intra-specific trait variation, non-linear functions and phenotypic integration.

BACKGROUND AND AIMS: The composition and dynamics of plant communities arise from individual-level demographic outcomes, which are driven by interactions between phenotypes and the environment. Functional traits that can be measured across plants are frequently used to model plant growth and survival. Perhaps surprisingly, species average trait values are often used in these studies and, in some cases, these trait values come from other regions or averages calculated from global databases. This data aggregation potentially results in a large loss of valuable information that probably results in models of plant performance that are weak or even misleading. METHODS: We present individual-level trait and fine-scale growth data from >500 co-occurring individual trees from 20 species in a Chinese tropical rain forest. We construct Bayesian models of growth informed by theory and construct hierarchical Bayesian models that utilize both individual- and species-level trait data, and compare these models with models only using individual-level data. KEY RESULTS: We show that trait-growth relationships measured at the individual level vary across species, are often weak using commonly measured traits and do not align with the results of analyses conducted at the species level. However, when we construct individual-level models of growth using leaf area ratio approximations and integrated phenotypes, we generated strong predictive models of tree growth. CONCLUSIONS: Here, we have shown that individual-level models of tree growth that are built using integrative traits always outperform individual-level models of tree growth that use commonly measured traits. Furthermore, individual-level models, generally, do not support the findings of trait-growth relationships quantified at the species level. This indicates that aggregating trait and growth data to the species level results in poorer and probably misleading models of how traits are related to tree performance.

Conspecific negative density dependence in rainy season enhanced seedling diversity across habitats in a tropical forest.

Conspecific negative density dependence (CNDD) could be one of the most important local-scale mechanisms shaping plant species coexistence. However, the spatial and temporal changes in the strength CNDD and the implications for the plant diversity remain unknown. We used 10 years of seedling data, in a seasonal tropical rainforest, to discover how CNDD influences tree seedling survival across habitats and seasons. We also evaluated the relation between CNDD and species diversity. We found the strength of CNDD in the valley habitat was significantly stronger than in ridge habitat in rainy season, but not significantly different in dry season. Corresponding to expectations of CNDD as mechanism of diversity maintenance, seedling species diversity was significantly higher in valley habitat than in ridge habitat and significantly correlated with CNDD. Additionally, conspecific and heterospecific seedling neighbour densities positively affected the survival of tree seedlings, but heterospecific adult neighbour density had a weak effect. Our study finds that CNDD varied significantly across habitats and was correlated with local seedling diversity. Our results highlight the importance of CNDD in driving species diversity at the local scale. Recognizing the spatial and temporal variation in the strength of CNDD will aid efforts to model and understand species coexistence.

Mechanical traits of fine roots as a function of topology and anatomy.

Background and Aims: Root mechanical traits, including tensile strength (Tr), tensile strain (εr) and modulus of elasticity (Er), are key functional traits that help characterize plant anchorage and the physical contribution of vegetation to landslides and erosion. The variability in these traits is high among tree fine roots and is poorly understood. Here, we explore the variation in root mechanical traits as well as their underlying links with morphological (diameter), architectural (topological order) and anatomical (stele and cortex sizes) traits. Methods: We investigated the four tropical tree species Pometia tomentosa, Barringtonia fusicarpa, Baccaurea ramiflora and Pittosporopsis kerrii in Xishuangbanna, Yunnan, China. For each species, we excavated intact, fresh, fine roots and measured mechanical and anatomical traits for each branching order. Key Results: Mechanical traits varied enormously among the four species within a narrow range of diameters (<2 mm): <0.1-65 MPa for Tr, 4-1135 MPa for Er and 0.4-37 % for εr. Across species, Tr and Er were strongly correlated with stele area ratio, which was also better correlated with topological order than with root diameter, especially at interspecific levels. Conclusions: Root topological order plays an important role in explaining variability in fine-root mechanical traits due to its reflection of root tissue development. Accounting for topological order when measuring fine-root traits therefore leads to greater empirical understanding of plant functions (e.g. anchorage) within and across species.

Comparison of infrared canopy temperature in a rubber plantation and tropical rain forest.

Canopy temperature is a result of the canopy energy balance and is driven by climate conditions, plant architecture, and plant-controlled transpiration. Here, we evaluated canopy temperature in a rubber plantation (RP) and tropical rainforest (TR) in Xishuangbanna, southwestern China. An infrared temperature sensor was installed at each site to measure canopy temperature. In the dry season, the maximum differences (Tc - Ta) between canopy temperature (Tc) and air temperature (Ta) in the RP and TR were 2.6 and 0.1 K, respectively. In the rainy season, the maximum (Tc - Ta) values in the RP and TR were 1.0 and -1.1 K, respectively. There were consistent differences between the two forests, with the RP having higher (Tc - Ta) than the TR throughout the entire year. Infrared measurements of Tc can be used to calculate canopy stomatal conductance in both forests. The difference in (Tc - Ta) at three gc levels with increasing direct radiation in the RP was larger than in the TR, indicating that change in (Tc - Ta) in the RP was relatively sensitive to the degree of stomatal closure.

Impact of Striped-Squirrel Nectar-Robbing Behaviour on Gender Fitness in Alpinia roxburghii Sweet (Zingiberaceae).

Nectar-robbing has the potential to strongly affect male and female reproductive fitness of plants. One example of nectar theft is that shown by striped-squirrels (Tamiops swinhoei) on a number of ginger species, including Alpinia roxburghii and A. kwangsiensis (Zingiberaceae). In this study, we used a fluorescent dye as a pollen analogue, and measured fruit and seed output, to test the effect of squirrel nectar-robbing on A. roxburghii reproductive fitness. Pollen transfer between robbed and unrobbed flowers was assessed by comparing 60 randomly established plots containing robbed and unrobbed flowers. The frequency of squirrel robbing visits and broken styles were recorded from a number of flowers for five consecutive days. Two bee species (Bombus eximius and Apis cerana), were the primary pollinators, and their visitation frequency was recorded for six consecutive days. The results showed that fluorescent powder from unrobbed flowers was dispersed further, and to a greater number of flowers than that placed on robbed flowers. Additionally, robbing flowers caused significant damage to reproductive organs, resulting in lower fruit and seed sets in robbed than in unrobbed flowers and influencing both male and female fitness. The frequency of the primary pollinator visits (B. eximius) was significantly higher for unrobbed plants than for robbed plants. The present study clearly shows the negative impact of squirrel robbing on A. roxburghii male reproductive fitness and neutral impact on female reproductive fitness.

CTFS-ForestGEO: a worldwide network monitoring forests in an era of global change.

Global change is impacting forests worldwide, threatening biodiversity and ecosystem services including climate regulation. Understanding how forests respond is critical to forest conservation and climate protection. This review describes an international network of 59 long-term forest dynamics research sites (CTFS-ForestGEO) useful for characterizing forest responses to global change. Within very large plots (median size 25 ha), all stems ≥ 1 cm diameter are identified to species, mapped, and regularly recensused according to standardized protocols. CTFS-ForestGEO spans 25 °S-61 °N latitude, is generally representative of the range of bioclimatic, edaphic, and topographic conditions experienced by forests worldwide, and is the only forest monitoring network that applies a standardized protocol to each of the world's major forest biomes. Supplementary standardized measurements at subsets of the sites provide additional information on plants, animals, and ecosystem and environmental variables. CTFS-ForestGEO sites are experiencing multifaceted anthropogenic global change pressures including warming (average 0.61 °C), changes in precipitation (up to ± 30% change), atmospheric deposition of nitrogen and sulfur compounds (up to 3.8 g N m(-2) yr(-1) and 3.1 g S m(-2) yr(-1)), and forest fragmentation in the surrounding landscape (up to 88% reduced tree cover within 5 km). The broad suite of measurements made at CTFS-ForestGEO sites makes it possible to investigate the complex ways in which global change is impacting forest dynamics. Ongoing research across the CTFS-ForestGEO network is yielding insights into how and why the forests are changing, and continued monitoring will provide vital contributions to understanding worldwide forest diversity and dynamics in an era of global change.

The role of stream water carbon dynamics and export in the carbon balance of a tropical seasonal rainforest, southwest China.

A two-year study (2009 ~ 2010) was carried out to investigate the dynamics of different carbon (C) forms, and the role of stream export in the C balance of a 23.4-ha headwater catchment in a tropical seasonal rainforest at Xishuangbanna (XSBN), southwest China. The seasonal volumetric weighted mean (VWM) concentrations of total inorganic C (TIC) and dissolved inorganic C (DIC) were higher, and particulate inorganic C (PIC) and organic C (POC) were lower, in the dry season than the rainy season, while the VWM concentrations of total organic C (TOC) and dissolved organic C (DOC) were similar between seasons. With increased monthly stream discharge and stream water temperature (SWT), only TIC and DIC concentrations decreased significantly. The most important C form in stream export was DIC, accounting for 51.8% of the total C (TC) export; DOC, POC, and PIC accounted for 21.8%, 14.9%, and 11.5% of the TC export, respectively. Dynamics of C flux were closely related to stream discharge, with the greatest export during the rainy season. C export in the headwater stream was 47.1 kg C ha(-1) yr(-1), about 2.85% of the annual net ecosystem exchange. This finding indicates that stream export represented a minor contribution to the C balance in this tropical seasonal rainforest.

The floral biology of Curcumorpha longiflora (Zingiberaceae): a ginger with two-day flowers.

Curcumorpha longiflora is a perennial chasmophyte (rock fissure plant) ginger that usually grows in crevices of calcareous rocks and forms patches on the understory of limestone monsoon rainforests. The pollination ecology of C. longiflora was studied by monitoring phenology and flowering behavior, observing pollinator activity (frequency and behavior of visitors), and the quantity and quality of pollination services. We also investigated the germination of pollen grains and growth of pollen tubes after different pollination treatments to detect its breeding system. Based on the results: (1) for the first time in Zingiberaceae a new protandrous mechanism was found with a two-day flowering to avoid autogamy in this species; (2) under field conditions, all individuals of C. longiflora usually produced only one flower every other day to keep geitonogamy to a minimum; (3) germination of pollen grains and growth rates of pollen tubes under different pollination treatments were the same 4 h later after pollination, suggesting that C. longiflora is completely self-compatible; (4) among the limited visitors, Bombus sp. and Apis florae were effective pollinators, but they were active at different times and at different stages of the flower, probably receiving different rewards.