Biotic controls on CO2 and CH4 exchange in wetlands – a closed environment study

Wetlands are significant sources of the important greenhouse gas CH₄. Here we explore the use of an experimental system developed for the determination of continuous fluxes of CO₂ and CH₄ in closed ecosystem monoliths including the capture of ¹⁴CO₂ and ¹⁴CH₄ following pulse labelling with ¹⁴CO₂. We show that, in the ecosystem studied, ebullition (bubble emission) may account for 18 to 50% of the total CH₄ emission, representing fluxes that have been difficult to estimate accurately in the past. Furthermore, using plant removal and ¹⁴C labelling techniques, we use the system to detail the direct influence of vascular plants on CH₄ emission. This influence is observed to be dependent on the amount of vascular plants present. The results that may be produced using the presented experimental set-up have implications for an improved understanding of wetland ecosystem/atmosphere interactions, including possible feedback effects on climate change. In recent years much attention has been devoted to ascertaining and subsequently using the relationship between net ecosystem productivity and CH₄ emission as a basis for extrapolation of fluxes across large areas. The experimental system presented may be used to study the complex relationship between vascular plants and CH₄ emission and here we show examples of how this may vary considerably in nature between and even within ecosystems.     

Quantifying immunogold labelling patterns of cellular compartments when they comprise mixtures of membranes (surface-occupying) and organelles (volume-occupying)

In quantitative immunoelectron microscopy, subcellular compartments that are preferentially labelled with colloidal gold particles can be identified by estimating labelling densities (LDs) and relative labelling indices (RLIs). Hitherto, this approach has been limited to compartments which are either surface occupying (membranes) or volume occupying (organelles) but not a mixture of both (membranes and organelles). However, some antigens are known to translocate between membrane and organelle compartments and the problem then arises of expressing gold particle LDs in a consistent manner (e.g., as number per compartment profile area). Here, we present one possible solution to tackle this problem. With this method, each membrane is treated as a volume-occupying compartment and this is achieved by creating an acceptance zone at a fixed distance on each side of membrane images. Gold signal intensity is then expressed as an LD within the membrane profile area so created and this LD can be compared to LDs found in volume-occupying compartments. Acceptance zone width is determined largely by the expected dispersion of gold labelling. In some cases, the zone can be applied to all visible membrane images but there is a potential problem when image loss occurs due to the fact that membranes are not cut orthogonal to their surface but are tilted within the section. The solution presented here is to select a subset of clear images representing orthogonally sectioned membranes (so-called local vertical windows, LVWs). The fraction of membrane images forming LVWs can be estimated in two ways: goniometrically (by determining the angle at which images become unclear) or stereologically (by counting intersections with test lines). The fraction obtained by either method can then be used to calculate a factor correcting for membrane image loss. In turn, this factor is used to estimate the total gold labelling associated with the acceptance zone of the entire (volume-occupying) membrane. However calculated, the LDs over the chosen (membrane and organelle) compartments are used to obtain observed and expected gold particle counts. The observed distribution is determined simply by counting gold particles associated with each compartment. Next, an expected distribution is created by randomly superimposing test points and counting those hitting each compartment. LDs of the chosen compartments are used to calculate RLI and chi-squared values and these serve to identify those compartments in which there is preferential labelling. The methods are illustrated by synthetic and real data.     

The effect of cadmium on lipid and fatty acid biosynthesis in tomato leaves

This research aims to examine the effect of cadmium uptake on lipid composition and fatty acid biosynthesis, in young leaves of tomato treated seedlings (Lycopersicon esculentum cv. Ibiza F1). Results in membrane lipids investigations revealed that high cadmium concentrations affect the main lipid classes, leading to strong changes in their composition and fatty acid content. Thus, the exposure of tomato plants to cadmium caused a concentration-related decrease in the unsaturated fatty acid content, resulting in a lower degree of fatty acid unsaturation. The level of lipid peroxides was significantly enhanced at high Cd concentrations. Studies of the lipid metabolism using radioactive labelling with [1-¹⁴C]acetate as a major precursor of lipid biosynthesis, showed that levels of radioactivity incorporation in total lipids as well as in all lipid classes were lowered by Cd doses. In total lipid fatty acids, [1-¹⁴C]acetate incorporation was reduced in tri-unsaturated fatty acids (C16:3 and C18:3); While it was enhanced in the palmitic (C16:0), palmitoleic (C16:1), stearic (C18:0) and linoleic (C18:2) acids. [1-¹⁴C]acetate incorporation into C16:3 and C18:3 of galactolipids [monogalactosyldiacylglycerol (MGDG) and digalactosyldiacylglycerol (DGDG)] and some phospholipids [phosphatidylcholine (PC) and phosphatidylglycerol (PG)] was inhibited by Cd stress. Our results showed that in tomato plants, cadmium stress provoked an inhibition of polar lipid biosynthesis and reduced fatty acid desaturation process.     

Differences in rhizosphere carbon-partitioning among plant species of different families

Interspecific variations in carbon (C) allocation and partitioning in the rhizosphere were investigated on 12 Mediterranean species belonging to different family groups (grasses, legumes, non-legume forbs) and having different life cycles. Plants grown individually in artificial soil, in a greenhouse and inoculated with rhizosphere microflora were labelled with ¹⁴CO₂ for 3 h at the vegetative stage. Rhizosphere respiration was measured during 6 days after which labelled C partitioning between shoots, roots, soil, root washing solution and respiration was estimated. The percentage of assimilated ¹⁴C allocated below ground differed significantly between species (41 – 76%) but no significant difference was found between grasses, legumes and non-legume forbs. When expressed as percentage of below-ground ¹⁴C, rhizosphere respiration was significantly smaller for non-legume forbs (42%) than for grasses (46%) and legumes (51%). Consequently more ¹⁴C was incorporated into root biomass in the former. Half-life of ¹⁴CO₂ evolution through respiration ranged from 23 h in legumes to 27 h for non-legume forbs and 37 h for grasses. This suggested differences in microbial activities due to quantities and quality of root exuded C. Rhizosphere respiration was positively correlated with the amount of ¹⁴C in the solution used to wash the roots on one hand, and root N concentration on the other hand. This led to a functional hierarchy between plant family groups of the overall rhizosphere activity. It went from non-legume forbs being the less active (except Crepis sancta)in terms of respiration and exudation, to grasses and then legumes, the most active but also the richest in nitrogen.     

Model for rhizodeposition and CO2 efflux from planted soil and its validation by 14C pulse labelling of ryegrass

A model for rhizodeposition and root respiration was developed and parameterised based on ¹⁴C pulse labelling of Lolium perenne. The plants were grown in a two-compartment chamber on a loamy Haplic Luvisol under controlled laboratory conditions. The dynamics of ¹⁴CO₂ efflux from the soil and ¹⁴C content in shoots, roots, micro-organisms, dissolved organic carbon (DOC) and soil were measured during the first 11 days after labelling. Modelled parameters were estimated by fitting on measured ¹⁴C dynamics in the different pools. The model and the measured ¹⁴C dynamics in all pools corresponded well (r ²=0.977). The model describes well ¹⁴CO₂ efflux from the soil and ¹⁴C dynamics in shoots, roots and soil, but predicts unsatisfactorily the ¹⁴C content in micro-organisms and DOC. The model also allows for division of the total ¹⁴CO₂ efflux from the soil in ¹⁴CO₂ derived from root respiration and ¹⁴CO₂ derived from rhizomicrobial respiration by use of exudates and root residues. Root respiration and rhizomicrobial respiration amounted for 7.6% and 6.0% of total assimilated C, respectively, which accounts for 56% and 44% of root-derived ¹⁴CO₂ efflux from the soil planted with 43-day-old Lolium perenne, respectively. The sensitivity analysis has shown that root respiration rate affected the curve of ¹⁴CO₂ efflux from the soil mainly during the first day after labelling. The changes in the exudation rate influenced the ¹⁴CO₂ efflux later than first 24 h after labelling.     

Decomposition of 13C-labelled standard plant material in a latitudinal transect of European coniferous forests: Differential impact of climate on the decomposition of soil organic matter compartments

¹³C labelled plant material was incubated in situ over 2 to 3 years in 8 conifer forest soils located on acid and limestone parent material along a north-south climatic transect from boreal to dry Mediterranean regions in western Europe. The objectives of the experiment were to evaluate the effects of climate and the soil environment on decomposition and soil organic matter dynamics. Changes in climate were simulated using a north-to-south cascade procedure involving the relocation of labelled soil columns to the next warmer site along the transect.Double exponential, decay-rate functions (for labile and recalcitrant SOM compartments) vs time showed that the thermosensitivity of microbial processes depended on the latitude from which the soil was translocated. Cumulative response functions for air temperature, and for combined temperature and moisture were used as independent variables in first order kinetic models fitted to the decomposition data. In the situations where climatic response functions explained most of the variations in decomposition rates when the soils were translocated, the climate optimised decomposition rates for the local and the translocated soil should be similar. Differences between these two rates indicated that there was either no single climatic response function for one or both compartments, and/or other edaphic factors influenced the translocation effect. The most northern boreal soil showed a high thermosensitivity for recalcitrant organic matter compartment, whereas the labile fraction was less sensitive to climate changes for soils from more southern locations. Hence there was no single climatic function which describe the decay rates for all compartments. At the end of the incubation period it was found that the heat sum to achieve the same carbon losses was lower for soils in the north of the transect than in the south. In the long term, therefore, for a given heat input, decomposition rates would show larger increases in boreal northern sites than in warm temperate regions.The changes in climate produced by soil translocation were more clearly reflected by decomposition rates in the acid soils than for calcareous soils. This indicates that the physicochemical environment can have important differential effects on microbial decomposition of the labile and recalcitrant components of SOM.     

Applications of single-cell technology on bacterial analysis

Background: Traditionally, scientists studied microbiology through the manner of batch cultures, to conclude the dynamics or outputs by averaging all individuals. However, as the researches go further, the heterogeneities among the individuals have been proven to be crucial for the population dynamics and fates. Results: Due to the limit of technology, single-cell analysis methods were not widely used to decipher the inherent connections between individual cells and populations. Since the early decades of this century, the rapid development of microfluidics, fluorescent labelling, next-generation sequencing, and high-resolution microscopy have speeded up the development of single-cell technologies and further facilitated the applications of these technologies on bacterial analysis. Conclusions: In this review, we summarized the recent processes of single-cell technologies applied in bacterial analysis in terms of intracellular characteristics, cell physiology dynamics, and group behaviors, and discussed how single-cell technologies could be more applicable for future bacterial researches.     

The fate of recently fixed carbon after drought release: towards unravelling C storage regulation in Tilia platyphyllos and Pinus sylvestris

Carbon reserves are important for maintaining tree function during and after stress. Increasing tree mortality driven by drought globally has renewed the interest in how plants regulate allocation of recently fixed C to reserve formation. Three‐year‐old seedlings of two species (Tilia platyphyllos and Pinus sylvestris) were exposed to two intensities of experimental drought during ~10 weeks, and ¹³C pulse labelling was subsequently applied with rewetting. Tracking the ¹³C label across different organs and C compounds (soluble sugars, starch, myo‐inositol, lipids and cellulose), together with the monitoring of gas exchange and C mass balances over time, allowed for the identification of variations in C allocation priorities and tree C balances that are associated with drought effects and subsequent drought release. The results demonstrate that soluble sugars accumulated in P. sylvestris under drought conditions independently of growth trends; thus, non‐structural carbohydrates (NSC) formation cannot be simply considered a passive overflow process in this species. Once drought ceased, C allocation to storage was still prioritized at the expense of growth, which suggested the presence of ‘drought memory effects’, possibly to ensure future growth and survival. On the contrary, NSC and growth dynamics in T. platyphyllos were consistent with a passive (overflow) view of NSC formation.     

光激活荧光蛋白及其在植物分子细胞生物学研究中的应用

光激活荧光蛋白是指用特定光照射时, 其荧光特性发生显著改变的一类荧光蛋白。借助光激活荧光蛋白的这种特性,可以实现对活细胞、细胞器或胞内分子的时空标记和追踪。该文介绍了目前光激活荧光蛋白的性质, 并从多个方面对其应用进行了概括, 包括分子标记与动态分析、蛋白质相互作用、细胞器及细胞组分动态研究、细胞追踪以及在光激活定位显微镜中的应用等, 且对目前光激活荧光蛋白在植物分子细胞生物学中的应用进行了详细介绍。     

Contribution of current photosynthates to root respiration of non-nodulated Medicago sativa: effects of light and nitrogen supply

Abstract: The effects of light (PFD) and nitrogen (N) supply on root respiration of new C (currently assimilated carbon, R _new) and old C ( R _old) were analysed in non-nodulated Medicago sativa . Plants were pre-treated with high/low PFD and high/low N supply with a regular 16/8 h light/dark cycle. Five to eight weeks after planting current photosynthates were labelled with ¹³C and their contribution to root respiration was continuously measured during a 24 h day/night cycle. PFD conditions during labelling were either those of the pre-treatments (control, 25 or 6 mol m^-2 d^-1) or, for high PFD plants, 6 mol m^-2 d^-1 by shortening the photoperiod or reducing irradiance. The fraction of new C in the respiratory CO₂ increased during the light period, but remained constant in the dark period. In control plants, R _new contributed 40 % to the daily root respiration in high PFD/high N conditions. Continuously low PFD increased (50 %) and low N decreased (26 %) the contribution of R _new. Exposing plants from high PFD pre-treatments to a short photoperiod or to low PFD stimulated R _old, indicating mobilisation of reserve C. This stimulation was more pronounced in plants with high N supply than in those with low N supply. Comparison with other legumes suggested that R _new in root respiration was mainly defined by the ratio between the assimilatory capacity of the shoots and the maintenance costs of roots with a short-term capacity of buffering respiratory demand by mobilisation of reserves in situations of fluctuating PFD.