木荷种源间光合作用参数分析

基于直角双曲线修正模型估算3个不同纬度的木荷种源(开平、太平和永丰种源)光补偿点、饱和点、最大净光合速率等参数,以便为评价不同木荷种源对环境的适应能力和优良种源选择等提供科学依据。结果表明:在3个不同纬度种源中,开平种源具有最高的净光合速率、最大净光合速率和较高的表观量子效率,且其生长速率最快;太平种源光饱和点最高,但其净光合速率、表观量子效率和最大净光合速率最低,其生长速率也最低;永丰种源具有较高的净光合速率、最大净光合速率和表观量子效率,其生长速率略高于太平种源。3个不同纬度木荷种源中,南部开平种源对当地环境具有较强的适应能力和生长潜力,具有较高的推广应用价值。     

E-photosynthesis: a comprehensive modeling approach to understand chlorophyll fluorescence transients and other complex dynamic features of photosynthesis in fluctuating light

Plants are exposed to a temporally and spatially heterogeneous environment, and photosynthesis is well adapted to these fluctuations. Understanding of the complex, non-linear dynamics of photosynthesis in fluctuating light requires novel-modeling approaches that involve not only the primary light and dark biochemical reactions, but also networks of regulatory interactions. This requirement exceeds the capacity of the existing molecular models that are typically reduced to describe a partial process, dynamics of a specific complex or its particular dynamic feature. We propose a concept of comprehensive model that would represent an internally consistent, integral framework combining information on the reduced models that led to its construction. This review explores approaches and tools that exist in engineering, mathematics, and in other domains of biology that can be used to develop a comprehensive model of photosynthesis. Equally important, we investigated techniques by which one can rigorously reduce such a comprehensive model to models of low dimensionality, which preserve dynamic features of interest and, thus, contribute to a better understanding of photosynthesis under natural and thus fluctuating conditions. The web-based platform www.e-photosynthesis.org is introduced as an arena where these concepts and tools are being introduced and tested.     

Simulation of carbon reserve dynamics in Microcystis and its influence on vertical migration with Yoyo model

Blue-green algae control their buoyancy depending upon the surrounding conditions. This process is essential for Cyanobacteria development and can account for their dominance in eutrophic waters in summer. In order to determine the main regulating factors of those movements, we developed a mechanistic and deterministic model, based on differential equations, that simulates the vertical migration of Microcystis sp. In Microcystis, buoyancy regulation results from the dynamics of the carbohydrate reserve metabolism during photosynthesis. These fundamental processes are modelled daily by this vertical 1-D model named Yoyo. It describes the movement of colonies with different sizes in response to variations of environmental conditions. This paper presents the model sensitivity analysis. We individually investigated the role of light and temperature upon algal migration with colonies of two different diameters. Under a daily light cycle and a temperature of 20 degrees C, the model described vertical migration on a 48 h rhythm in colonies with a 300-micron diameter.     

A Dynamic Model for Photosynthesis

A dynamic mathematical model of the effect of radiant flux densityand CO₂ concentration on the rate of photosynthesis is proposed.An appropriate dynamic experimental method for ecological studiesof this subject is described. The methodology permits the analysisof numerous problems, including the effect of changes in CO₂concentration on photosynthesis and the effectiveness of energyconversion by a leaf of a plant in different environmental conditions. The dynamic model for photosynthesis is composed of two separateinteracting non-linear parts; one describes the dynamics ofthe complex set of light reactions, and the other describesthe dark reactions. The model explains the dynamics of leafphotosynthesis in a closed circuit flow system, and also explainsthe expressions for the equilibrium states of photosyntheticrate widely used in the literature. photosynthesis, mathematical model, carbon dioxide fixation, light reactions     

Plant competition for light analyzed with a multispecies canopy model

Summary Competition for light among species in a mixed canopy can be assessed quantitatively by a simulation model which evaluates the importance of different morphological and photosynthetic characteristics of each species. A model was developed that simulates how the foliage of all species attenuate radiation in the canopy and how much radiation is received by foliage of each species. The model can account for different kinds of foliage (leaf blades, stems, etc.) for each species. The photosynthesis and transpiration for sunlit and shaded foliage of each species is also computed for different layers in the canopy. The model is an extension of previously described single-species canopy photosynthesis simulation models. Model predictions of the fraction of foliage sunlit and interception of light by sunlit and shaded foliage for monoculture and mixed canopies of wheat (Triticum aestivum) and wild oat (Avena fatua) in the field compared very well with measured values. The model was used to calculate light interception and canopy photosynthesis for both species of wheat/wild oat mixtures grown under normal solar and enhanced ultraviolet-B (290–320 nm) radiation (UV-B) in a glasshouse experiment with no root competition. In these experiments, measurements showed that the mixtures receiving enhanced UV-B radiation had a greater proportion of the total foliage area composed of wheat compared to mixtures in the control treatments. The difference in species foliage area and its position in the canopy resulted in a calculated increase in the portion of total canopy radiation interception and photosynthesis by wheat. This, in turn, is consistent with greater canopy biomass of wheat reported in canopies irradiated with supplemental UV-B.     

ACGCA: An R package for simulating tree growth and mortality based on functional traits

The Allometrically Constrained Growth and Carbon Allocation (ACGCA) model is an individual-based model of tree growth and mortality, and it is a unique tool for investigating how tree functional traits influence growth and mortality. Several studies have used the ACGCA model to investigate tree traits, but the model is not readily accessible to the wider scientific community. Thus, we developed an R package that provides a greatly simplified interface to the ACGCA model. The package contains a single function, runacgca, with the capability of simulating tree growth under constant light conditions, variable light, or within a simple forest gap dynamics scenario. The ACGCA package can accommodate temporally varying parameters (tree traits), and its modular structure allows for users to swap out the current carbon gain (photosynthesis) algorithm for alternative versions that may incorporate more physiological detail. We provide examples demonstrating how the package can be used to investigate the effects of tree traits on growth and survival under constant light and under different gap dynamic scenarios. Though not explicitly shown, this model can be easily adapted to include more mechanistic detail or integrated into larger modeling frameworks.     

Exploring the spatial distribution of light interception and photosynthesis of canopies by means of a functional-structural plant model

Background and Aims

At present most process-based models and the majority of three-dimensional models include simplifications of plant architecture that can compromise the accuracy of light interception simulations and, accordingly, canopy photosynthesis. The aim of this paper is to analyse canopy heterogeneity of an explicitly described tomato canopy in relation to temporal dynamics of horizontal and vertical light distribution and photosynthesis under direct- and diffuse-light conditions.

Methods

Detailed measurements of canopy architecture, light interception and leaf photosynthesis were carried out on a tomato crop. These data were used for the development and calibration of a functional–structural tomato model. The model consisted of an architectural static virtual plant coupled with a nested radiosity model for light calculations and a leaf photosynthesis module. Different scenarios of horizontal and vertical distribution of light interception, incident light and photosynthesis were investigated under diffuse and direct light conditions.

Key Results

Simulated light interception showed a good correspondence to the measured values. Explicitly described leaf angles resulted in higher light interception in the middle of the plant canopy compared with fixed and ellipsoidal leaf-angle distribution models, although the total light interception remained the same. The fraction of light intercepted at a north–south orientation of rows differed from east–west orientation by 10 % on winter and 23 % on summer days. The horizontal distribution of photosynthesis differed significantly between the top, middle and lower canopy layer. Taking into account the vertical variation of leaf photosynthetic parameters in the canopy, led to approx. 8 % increase on simulated canopy photosynthesis.

Conclusions

Leaf angles of heterogeneous canopies should be explicitly described as they have a big impact both on light distribution and photosynthesis. Especially, the vertical variation of photosynthesis in canopy is such that the experimental approach of photosynthesis measurements for model parameterization should be revised.     

Simulation of a nonphotochemical quenching in plant leaf under different light intensities

An analysis of photosynthetic response on action of stressors is an important problem, which can be solved by experimental and theoretical methods, including mathematical modeling of photosynthetic processes. The aim of our work was elaboration of a mathematical model, which simulated development of a nonphotochemical quenching under different light conditions. We analyzed two variants of the model: the first variant included a light-induced activation of the electron transport chain; in contrast, the second variant did not describe this activation. Both variants of the model described interactions between transitions from open reaction centers to closed ones (and vice versa) and development of the nonphotochemical quenching. Investigation of both variants of the model showed well qualitative and quantitative accordance between simulated and experimental changes in coefficient of the nophotochemical quenching which were analyzed under different light regimes: (i) the stepped increase of the light intensity without dark intervals between steps, (ii) periodical illuminations by different light intensities with constant durations which were separated by constant dark intervals, and (iii) periodical illuminations by the constant light intensity with different durations which were separated by different dark intervals. Thus, the model can be used for theoretical prediction of stress changes in photosynthesis under fluctuations in light intensity and search of optimal regimes of plant illumination.     

Towards a functional-structural plant model of cut-rose: simulation of light environment, light absorption, photosynthesis and interference with the plant structure

Background and Aims

The production system of cut-rose (Rosa × hybrida) involves a complex combination of plant material, management practice and environment. Plant structure is determined by bud break and shoot development while having an effect on local light climate. The aim of the present study is to cover selected aspects of the cut-rose system using functional–structural plant modelling (FSPM), in order to better understand processes contributing to produce quality and quantity.

Methods

The model describes the production system in three dimensions, including a virtual greenhouse environment with the crop, light sources (diffuse and direct sun light and lamps) and photosynthetically active radiation (PAR) sensors. The crop model is designed as a multiscaled FSPM with plant organs (axillary buds, leaves, internodes, flowers) as basic units, and local light interception and photosynthesis within each leaf. A Monte-Carlo light model was used to compute the local light climate for leaf photosynthesis, the latter described using a biochemical rate model.

Key Results

The model was able to reproduce PAR measurements taken at different canopy positions, different times of the day and different light regimes. Simulated incident and absorbed PAR as well as net assimilation rate in upright and bent shoots showed characteristic spatial and diurnal dynamics for different common cultivation scenarios.

Conclusions

The model of cut-rose presented allowed the creation of a range of initial structures thanks to interactive rules for pruning, cutting and bending. These static structures can be regarded as departure points for the dynamic simulation of production of flower canes. Furthermore, the model was able to predict local (per leaf) light absorption and photosynthesis. It can be used to investigate the physiology of ornamental plants, and provide support for the decisions of growers and consultants.     

Modelling canopy photosynthesis using parameters determined from simple non-destructive measurements

Most models for canopy photosynthesis require a large number of parameters as input which have to be determined by means of direct measurements. Such measurements are usually expensive, time consuming and destructive. The objective of the present study was, therefore, to develop a simple but accurate canopy photosynthesis model based on a minimum number of parameters that can be determined non-destructively. The results from previous studies were used to derive an empirical expression which describes the variation in leaf photosynthetic capacity (P_m) as a function of the light distribution in the canopy. The light distribution itself was calculated with a simple model which assumes only three leaf angle classes (0–30°, 30–60° and 60–90°). The leaf area index was determined indirectly from measurements of direct radiation below the canopy. The result was a model for canopy photosynthesis that requires only a few parameters. These parameters are the leaf photosynthetic capacity at the top of the canopy, the relative frequency of leaves in each of the three leaf angle classes, and the fraction of direct radiation below the canopy. Each of these parameters can be determined by means of simple non-destructive measurements. The model was applied to dense stands of two monocotyledonous species: rice (Oryza sativa L.) and pearl millet (Pennisetum americanum (L.) K. Schum.). The rates of canopy photosynthesis thus calculated were compared to those obtained with a more elaborate reference model. The differences between the values obtained with the two models were small. The present photosynthesis model can, therefore, be considered to be a suitable alternative for the more elaborate model. It was further discussed that, since the model is based on purely non-destructive measurements, it will be particularly useful in cases where it is required to estimate canopy photosynthesis at regular intervals over a length of time or in stands of vegetation that cover large areas of land.     

Acquired phototrophy stabilises coexistence and shapes intrinsic dynamics of an intraguild predator and its prey

In marine ecosystems, acquired phototrophs – organisms that obtain their photosynthetic ability by hosting endosymbionts or stealing plastids from their prey – are omnipresent. Such taxa function as intraguild predators yet depend on their prey to periodically obtain chloroplasts. We present a new theory for the effects of acquired phototrophy on community dynamics by analysing a mathematical model of this predator–prey interaction and experimentally verifying its predictions with a laboratory model system. We show that acquired phototrophy stabilises coexistence, but that the nature of this coexistence exhibits a ‘paradox of enrichment’: as light increases, the coexistence between the acquired phototroph and its prey transitions from a stable equilibrium to boom‐bust cycles whose amplitude increases with light availability. In contrast, heterotrophs and mixotrophic acquired phototrophs (that obtain  < 30% of their carbon from photosynthesis) do not exhibit such cycles. This prediction matches field observations, in which only strict ( > 95% of carbon from photosynthesis) acquired phototrophs form blooms.     

Elements of a dynamic systems model of canopy photosynthesis

Improving photosynthesis throughout the full canopy rather than photosynthesis of only the top leaves of the canopy is central to improving crop yields. Many canopy photosynthesis models have been developed from physiological and ecological perspectives, however most do not consider heterogeneities of microclimatic factors inside a canopy, canopy dynamics and associated energetics, or competition among different plants, and most models lack a direct linkage to molecular processes. Here we described the rationale, elements, and approaches necessary to build a dynamic systems model of canopy photosynthesis. A systems model should integrate metabolic processes including photosynthesis, respiration, nitrogen metabolism, resource re-mobilization and photosynthate partitioning with canopy level light, CO(2), water vapor distributions and heat exchange processes. In so doing a systems-based canopy photosynthesis model will enable studies of molecular ecology and dramatically improve our insight into engineering crops for improved canopy photosynthetic CO(2) uptake, resource use efficiencies and yields.     

Short-term acclimation of the photosynthetic electron transfer chain to changing light: a mathematical model

Photosynthetic eukaryotes house two photosystems with distinct light absorption spectra. Natural fluctuations in light quality and quantity can lead to unbalanced or excess excitation, compromising photosynthetic efficiency and causing photodamage. Consequently, these organisms have acquired several distinct adaptive mechanisms, collectively referred to as non-photochemical quenching (NPQ) of chlorophyll fluorescence, which modulates the organization and function of the photosynthetic apparatus. The ability to monitor NPQ processes fluorometrically has led to substantial progress in elucidating the underlying molecular mechanisms. However, the relative contribution of distinct NPQ mechanisms to variable light conditions in different photosynthetic eukaryotes remains unclear. Here, we present a mathematical model of the dynamic regulation of eukaryotic photosynthesis using ordinary differential equations. We demonstrate that, for Chlamydomonas, our model recapitulates the basic fluorescence features of short-term light acclimation known as state transitions and discuss how the model can be iteratively refined by comparison with physiological experiments to further our understanding of light acclimation in different species.     

Addition of species abundance and performance predicts community primary production of macroalgae

Understory plant assemblages are important sources of primary production in both terrestrial and marine environments, and they may exhibit different dynamics than their overstory counterparts. For example, production within dense upper canopies is typically light-limited by shading, whereas such canopy architecture effects are likely unimportant in low-light environments, such as those inhabited by sparser understory assemblages. In these assemblages, light saturation of understory production may be common as species become limited by their photosynthetic capacity, which is adapted to low-light levels. Here we show that a simple model relating species-specific light use relationships measured in the laboratory to biomass and light levels measured in nature accurately predicts community gross primary production (GPP) in a marine understory algal community. We validate the model by comparing GPP measured in situ in enclosed chambers with model estimates for the same incubations. Model estimates of GPP explained 70% of the variation in the measured estimates. The results show that GPP was accurately estimated by simple addition of the photosynthetic capacity of each species in the community based on their biomass and the available light. The difference between modeled and measured GPP did not show any relationship with community biomass or diversity, and the results suggest that diversity does not significantly affect productivity in this system. This type of model should be applicable in other environments where canopy architecture does not play a significant role in limiting photosynthesis.     

叶片叶肉结构对环境光强的适应及对光合作用的影响

本文利用Kubelka-Munk理论描述了平行光在叶片内的吸收和散射,同时利用叶片分层光合作用非直角双曲线光反应模型,给出了整张叶片光合作用计算式。最后利用优化理论阐明了叶片叶肉分化成光合特性具有明显差异的栅栏组织和海绵组织可能是对叶片内光梯度的一种适应;同时证明了叶片叶肉在一定环境光强下存在一个最佳的栅栏组织和海绵组织比例,并且这个比例随环境光强增大而增大,这最佳比例也受叶肉组织光合特性差异的影响。     

The oxygen evolution methodology affects photosynthetic rate measurements of microalgae in well‐defined light regimes

Designing photobioreactors correctly is a must for the success of microalgal mass production. Optimal photobioreactor design requires a precise knowledge of photosynthesis dynamics in fluctuating light conditions and hence a method for the measurement of photosynthetic rates in specific light regimes. However, it is not uncommon in literature that experimental protocols used to obtain oxygen generation rates are described ambiguously and the reported rates of photosynthesis vary widely depending on the methodology. Additionally, quite a number of methods overlook certain aspects that can affect the estimated rates significantly, and can therefore affect photobioreactor design. We have developed a method based on oxygen evolution measurements that accurately determines photosynthetic rates under well‐defined light regimes. Our experimental protocol takes into account most of the issues that can affect the rates of oxygen generation, such as depletion of nutrients during the measurements and precision of the measurements. We have focused on the basic applications in photobioreactor design and used a dynamic model of photosynthesis to analyze our results and compare them with available published data. The results suggest that our oxygen evolution method is consistent. Biotechnol. Bioeng. 2010;106: 228–237. © 2010 Wiley Periodicals, Inc.     

The construction of a scientific model: Otto Warburg and the building block strategy

In the years 1919 to 1923, Otto Warburg published four papers that were to revolutionise the field of photosynthesis. In these articles, he introduced a number of new techniques to measure the rate of photosynthesis, put forward a new model of the mechanism and added a completely new perspective to the topic by attempting to establish the process’s efficiency in terms of the light quantum requirement. In this paper I trace the roots of Warburg’s series of contributions to photosynthesis research by exploring three different contexts of inspiration: Warburg’s own research into cell respiration, his father’s work on the quantum yield of photochemical reactions in general and the photosynthesis work carried out by Richard Willstätter and Arthur Stoll. When these influences are considered together, it becomes clear that Warburg implemented a Building Block Strategy in his research: rather than inventing his photosynthesis model from scratch, he availed himself of fragments from other contexts, which he then recombined in a new and innovative way. This way of working is considered to be standard practice in scientific research.