Human immune and gut microbial parameters associated with inter-individual variations in COVID-19 mRNA vaccine-induced immunity.

COVID-19 mRNA vaccines induce protective adaptive immunity against SARS-CoV-2 in most individuals, but there is wide variation in levels of vaccine-induced antibody and T-cell responses. However, the mechanisms underlying this inter-individual variation remain unclear. Here, using a systems biology approach based on multi-omics analyses of human blood and stool samples, we identified several factors that are associated with COVID-19 vaccine-induced adaptive immune responses. BNT162b2-induced T cell response is positively associated with late monocyte responses and inversely associated with baseline mRNA expression of activation protein 1 (AP-1) transcription factors. Interestingly, the gut microbial fucose/rhamnose degradation pathway is positively correlated with mRNA expression of AP-1, as well as a gene encoding an enzyme producing prostaglandin E2 (PGE2), which promotes AP-1 expression, and inversely correlated with BNT162b2-induced T-cell responses. These results suggest that baseline AP-1 expression, which is affected by commensal microbial activity, is a negative correlate of BNT162b2-induced T-cell responses.

Rethinking forest monitoring for more meaningful global forest landscape change assessments.

Forest ecosystems play an indispensable role in addressing various pressing sustainability and social-ecological challenges such as climate change, biodiversity loss, and ecosystem services deterioration, hence the monitoring of the world's forests is crucial. As part of the global forest assessment workflow, a forest is generally classified and mapped based on land use and/or using a tree canopy cover threshold. In this paper, we examine the limitations of this approach and argue that the use of a land use-based forest definition and tree canopy cover thresholds can overlook forest degradation and enhancement, disguise the actual status of forest landscapes, and misinform management planning. These limitations can delay the development and implementation of forest restoration and conservation measures. To help overcome these issues, we propose some enhancements to the global forest assessment workflow, including the sharing of spatial data and inclusion of tree canopy cover estimates in assessment reports. Such enhancements are needed to achieve more meaningful forest monitoring and reporting in the context of global environmental initiatives, such as those related to climate change mitigation and adaptation, forest restoration, biodiversity conservation, and ecosystem services monitoring.

Kinetic modelling of cytochrome c adsorption on SBA-15.

The adsorption capacity of mesoporous silicate (MPS) materials as an adsorbent for protein adsorption from the aqueous phase and the mechanism of the adsorption processes by comparative analyses of the applicability of five kinetic transfer models, pseudo-first-order model, pseudo-second-order model, Elovich kinetic model, Bangham's equation model, and intraparticle diffusion model, were investigated. A mixture of tetraethyl orthosilicate (TEOS) and triblock copolymer as a template was stirred, hydrothermally treated to form the mesoporous SBA-15 structure, and heat-treated at 550°C to form the MPS material, SBA-15. The synthesized SBA-15 was immersed in a phosphate buffered saline (PBS) solution containing cytochrome c for 2, 48, and 120 hours at 4°C. The TEM observations of proteins on/in mesoporous SBA-15 revealed the protein behaviors. The holes of the MPS materials were observed to overlap those of the stained proteins for the first 2 hours of immersion. The stained proteins were observed between primary particles and partly inside the mesoporous channels in the MPS material when it had been immersed for 48 hours. For MPS when it had been immersed for 120 hours, stained proteins were observed in almost all meso-scale channels of MPS. The time profiles for adsorption of proteins can be described well by Bangham's equation model and the intraparticle diffusion model. The Bangham's equation model is based on the assumption that pore diffusion was the only rate controlling step during adsorption, whose contribution to the overall mechanism of cytochrome c adsorption on SBA-15 should not be neglected. The kinetic curves obtained from the experiment for cytochrome c adsorption on SBA-15 could show the three steps: the initial rapid increase of the adsorbed amount of cytochrome c, the second gradual increase, and the final equilibrium stage. These three adsorption steps can be interpreted well by the multi-linearity of the intraparticle diffusion model, proving the significant role of intraparticle diffusion as one of the rate controlling mechanisms.

Mixed-power scaling of whole-plant respiration from seedlings to giant trees.

The scaling of respiratory metabolism with body mass is one of the most pervasive phenomena in biology. Using a single allometric equation to characterize empirical scaling relationships and to evaluate alternative hypotheses about mechanisms has been controversial. We developed a method to directly measure respiration of 271 whole plants, spanning nine orders of magnitude in body mass, from small seedlings to large trees, and from tropical to boreal ecosystems. Our measurements include the roots, which have often been ignored. Rather than a single power-law relationship, our data are fit by a biphasic, mixed-power function. The allometric exponent varies continuously from 1 in the smallest plants to 3/4 in larger saplings and trees. Therefore, our findings support the recent findings of Reich et al. [Reich PB, Tjoelker MG, Machado JL, Oleksyn J (2006) Universal scaling of respiratory metabolism, size, and nitrogen in plants. Nature 439:457-461] and West, Brown, and Enquist [West GB, Brown JH, Enquist BJ (1997) A general model for the origin of allometric scaling laws in biology. Science 276:122 -126.]. The transition from linear to 3/4-power scaling may indicate fundamental physical and physiological constraints on the allocation of plant biomass between photosynthetic and nonphotosynthetic organs over the course of ontogenetic plant growth.

Limitation of leaf carbon gain by stomatal and photochemical processes in the top canopy of Macaranga conifera, a tropical pioneer tree.

Diurnal changes in gas exchange and chlorophyll fluorescence were measured in the top canopy leaves of the tropical rainforest tree species, Macaranga conifera (Zoll.) Muell. Arg. during a drought year. Maximum values of net photosynthetic rate (P(n), 10 &mgr;mol m(-2) s(-1)) and stomatal conductance (g(s), 0.2 mol m(-2) s(-1)) were found in east-facing leaves in early morning. After 1000 h, both P(n) and g(s) decreased. Minimum daytime values of P(n), g(s), and photosystem II (PSII) quantum yield (DeltaF/F(m)') were found in horizontally fixed leaves. At a given electron transport rate through PSII (ETR), P(n) was higher in early morning than at midday, suggesting a high rate of photorespiration at midday. We tested the hypothesis that the effect of low leaf temperature (T(leaf)) on P(n) is significant in the early morning, whereas the effect of low g(s) on P(n) predominates at midday. In the early morning, when T(leaf) was increased from 32 to 38 degrees C by artificial heating, P(n) at a given ETR decreased 29%, suggesting that the low T(leaf) was associated with a high P(n). When T(leaf) at midday was decreased from 37 to 32 degrees C by artificial cooling, P(n) increased 22%, but P(n) at a given ETR was higher in early morning than at midday, even at the same low T(leaf) (32 degrees C). This suggests that the rate of photorespiration was higher at midday than in early morning because low g(s) at midday caused a reduction in leaf intercellular CO(2) concentration. We conclude that low P(n) at midday was the result of both a reduction in the photochemical process and an increase in stomatal limitation.

Leaf gas exchange and cholorphyll fluorescence in relation to leaf angle, azimuth, and canopy position in the tropical pioneer tree, Macaranga conifera.

We tested the hypothesis that, in tropical pioneer tree species, vertical leaf angle contributes to high carbon gain because it minimizes damage caused by high irradiances. Diurnal changes in leaf gas exchange and chlorophyll fluorescence were measured in east-facing (EL), west-facing (WL) leaves, and in leaves artificially held horizontal (HL) in the uppermost canopy of Macaranga conifera (Zoll.) Muell. Arg. Maximum values of net photosynthetic rate (P(n)) for EL and HL reached 12 &mgr;mol m(-2) s(-1), whereas maximum P(n) for WL was only 6 &mgr;mol m(-2) s(-1). Midday depressions of P(n) and stomatal conductance occurred at high photosynthetic photon flux densities (PPFD), especially for HL. Photosystem II quantum yield (DeltaF/F(m)') of HL for a given PPFD at the leaf surface was lower in the afternoon than in the morning. Values of DeltaF/F(m)' for HL measured at dusk were lower than those measured just before dawn, suggesting that HL suffered from high light and heat load. Variations in the morphology and physiology of the canopy leaves were associated with different light environments, and there was circumstantial evidence of a transitional point at a PPFD of about 20-30% of full sunlight. Maximum P(n) and nitrogen (N) content were higher in upper canopy leaves than in lower canopy leaves, and the differences were mainly associated with differences in lamina thickness. We conclude that the vertical leaf angle and thick lamina of the top canopy leaves contributed to enhance total carbon gain of the whole plant.