How do leaf veins influence the worldwide leaf economic spectrum? Review and synthesis

Leaf vein traits are implicated in the determination of gas exchange rates and plant performance. These traits are increasingly considered as causal factors affecting the 'leaf economic spectrum' (LES), which includes the light-saturated rate of photosynthesis, dark respiration, foliar nitrogen concentration, leaf dry mass per area (LMA) and leaf longevity. This article reviews the support for two contrasting hypotheses regarding a key vein trait, vein length per unit leaf area (VLA). Recently, Blonder et al. (2011, 2013) proposed that vein traits, including VLA, can be described as the 'origin' of the LES by structurally determining LMA and leaf thickness, and thereby vein traits would predict LES traits according to specific equations. Careful re-examination of leaf anatomy, published datasets, and a newly compiled global database for diverse species did not support the 'vein origin' hypothesis, and moreover showed that the apparent power of those equations to predict LES traits arose from circularity. This review provides a 'flux trait network' hypothesis for the effects of vein traits on the LES and on plant performance, based on a synthesis of the previous literature. According to this hypothesis, VLA, while virtually independent of LMA, strongly influences hydraulic conductance, and thus stomatal conductance and photosynthetic rate. We also review (i) the specific physiological roles of VLA; (ii) the role of leaf major veins in influencing LES traits; and (iii) the role of VLA in determining photosynthetic rate per leaf dry mass and plant relative growth rate. A clear understanding of leaf vein traits provides a new perspective on plant function independently of the LES and can enhance the ability to explain and predict whole plant performance under dynamic conditions, with applications towards breeding improved crop varieties.

Exploring variation in leaf mass per area (LMA) from leaf to cell: an anatomical analysis of 26 woody species

PREMISE OF THE STUDY

Plant species differ widely in the leaf biomass invested per unit area (LMA). LMA can be explained by variation in leaf thickness and/or density, both of which are influenced by anatomical tissue composition. The aim of this study is to quantify the anatomical characteristics that underlie variation in LMA in a range of woody species. •

METHODS

Twenty-six woody species, forming 13 species pairs with a deciduous and evergreen species from the same genus or family, were grown in a glasshouse. The youngest full-grown leaves were analyzed for LMA and morpho-anatomical characteristics at leaf, tissue, and cell level. •

KEY RESULTS

Considered over all species studied, leaf thickness and density were equally important to explain the variation in LMA, but the class difference between deciduous and evergreen species was mainly determined by thickness, whereas variation within each group was largely due to density. Evergreens had thicker leaves, predominantly caused by a larger volume of mesophyll and air spaces, whereas the higher leaf density within each group was due to a lower proportion of epidermis and air spaces, and overall smaller cells. •

CONCLUSIONS

The anatomical basis for variation in LMA in woody species depends on the contrast made. Higher LMA in evergreens is mainly due to a greater leaf thickness, caused by a larger volume of mesophyll and air spaces. Within deciduous species and evergreens, higher LMA is caused by a higher density, due to higher volumetric fractions of mesophyll and lower fractions of air spaces and epidermis.

Physiological mechanisms in plant growth models: do we need a supra-cellular systems biology approach?

In the first part of this paper, we review the extent to which various types of plant growth models incorporate ecophysiological mechanisms. Many growth models have a central role for the process of photosynthesis; and often implicitly assume C-gain to be the rate-limiting step for biomass accumulation. We subsequently explore the extent to which this assumption actually holds and under what condition constraints on growth due to a limited sink strength are likely to occur. By using generalized dose-response curves for growth with respect to light and CO₂, models can be tested against a benchmark for their overall performance. In the final part, a call for a systems approach at the supra-cellular level is made. This will enable a better understanding of feedbacks and trade-offs acting on plant growth and its component processes. Mechanistic growth models form an indispensable element of such an approach and will, in the end, provide the link with the (sub-)cellular approaches that are yet developing. Improved insight will be gained if model output for the various physiological processes and morphological variables ('virtual profiling') is compared with measured correlation networks among these processes and variables. Two examples of these correlation networks are presented.

Pitfalls and possibilities in the analysis of biomass allocation patterns in plants

Plants can differentially allocate biomass to leaves, stems, roots, and reproduction, and follow ontogenetic trajectories that interact with the prevailing climate. Various methodological tools exist to analyze the resulting allocation patterns, based either on the calculation of biomass ratios or fractions of different organs at a given point in time, or on a so-called allometric analysis of biomass data sampled across species or over an experimental growth period. We discuss the weak and strong points of each of these methods. Although both approaches have useful features, we suggest that often a plot of biomass fractions against total plant size, either across species or in the comparison of treatment effects, combines the best of both worlds.

Phenotyping plants: genes, phenes and machines

No matter how fascinating the discoveries in the field of molecular biology are, in the end it is the phenotype that matters. In this paper we pay attention to various aspects of plant phenotyping. The challenges to unravel the relationship between genotype and phenotype are discussed, as well as the case where 'plants do not have a phenotype'. More emphasis has to be placed on automation to match the increased output in the molecular sciences with analysis of relevant traits under laboratory, greenhouse and field conditions. Currently, non-destructive measurements with cameras are becoming widely used to assess plant structural properties, but a wider range of non-invasive approaches and evaluation tools has to be developed to combine physiologically meaningful data with structural information of plants. Another field requiring major progress is the handling and processing of data. A better e-infrastructure will enable easier establishment of links between phenotypic traits and genetic data. In the final part of this paper we briefly introduce the range of contributions that form the core of a special issue of this journal on plant phenotyping.

The art of growing plants for experimental purposes: a practical guide for the plant biologist

Every year thousands of experiments are conducted using plants grown under more-or-less controlled environmental conditions. The aim of many such experiments is to compare the phenotype of different species or genotypes in a specific environment, or to study plant performance under a range of suboptimal conditions. Our paper aims to bring together the minimum knowledge necessary for a plant biologist to set up such experiments and apply the environmental conditions that are appropriate to answer the questions of interest. We first focus on the basic choices that have to be made with regard to the experimental setup (e.g. where are the plants grown; what rooting medium; what pot size). Second, we present practical considerations concerning the number of plants that have to be analysed considering the variability in plant material and the required precision. Third, we discuss eight of the most important environmental factors for plant growth (light quantity, light quality, CO2, nutrients, air humidity, water, temperature and salinity); what critical issues should be taken into account to ensure proper growth conditions in controlled environments and which specific aspects need attention if plants are challenged with a certain a-biotic stress factor. Finally, we propose a simple checklist that could be used for tracking and reporting experimental conditions.

Pot size matters: a meta-analysis of the effects of rooting volume on plant growth

The majority of experiments in plant biology use plants grown in some kind of container or pot. We conducted a meta-analysis on 65 studies that analysed the effect of pot size on growth and underlying variables. On average, a doubling of the pot size increased biomass production by 43%. Further analysis of pot size effects on the underlying components of growth suggests that reduced growth in smaller pots is caused mainly by a reduction in photosynthesis per unit leaf area, rather than by changes in leaf morphology or biomass allocation. The appropriate pot size will logically depend on the size of the plants growing in them. Based on various lines of evidence we suggest that an appropriate pot size is one in which the plant biomass does not exceed 1gL-1. In current research practice ~65% of the experiments exceed that threshold. We suggest that researchers need to carefully consider the pot size in their experiments, as small pots may change experimental results and defy the purpose of the experiment.

Resource limitation, tolerance, and the future of ecological plant classification

Throughout the evolutionary history of plants, drought, shade, and scarcity of nutrients have structured ecosystems and communities globally. Humans have begun to drastically alter the prevalence of these environmental factors with untold consequences for plant communities and ecosystems worldwide. Given limitations in using organ-level traits to predict ecological performance of species, recent advances using tolerances of low resource availability as plant functional traits are revealing the often hidden roles these factors have in structuring communities and are becoming central to classifying plants ecologically. For example, measuring the physiological drought tolerance of plants has increased the predictability of differences among species in their ability to survive drought as well as the distribution of species within and among ecosystems. Quantifying the shade tolerance of species has improved our understanding of local and regional species diversity and how species have sorted within and among regions. As the stresses on ecosystems continue to shift, coordinated studies of whole-plant growth centered on tolerance of low resource availability will be central in predicting future ecosystem functioning and biodiversity. This will require efforts that quantify tolerances for large numbers of species and develop bioinformatic and other techniques for comparing large number of species.

Plasticity as a plastic response: how submergence-induced leaf elongation in Rumex palustris depends on light and nutrient availability in its early life stage

Plants may experience different environmental cues throughout their development which interact in determining their phenotype. This paper tests the hypothesis that environmental conditions experienced early during ontogeny affect the phenotypic response to subsequent environmental cues. This hypothesis was tested by exposing different accessions of Rumex palustris to different light and nutrient conditions, followed by subsequent complete submergence. Final leaf length and submergence-induced plasticity were affected by the environmental conditions experienced at early developmental stages. In developmentally older leaves, submergence-induced elongation was lower in plants previously subjected to high-light conditions. Submergence-induced elongation of developmentally younger leaves, however, was larger when pregrown in high light. High-light and low-nutrient conditions led to an increase of nonstructural carbohydrates in the plants. There was a positive correlation between submergence-induced leaf elongation and carbohydrate concentration and content in roots and shoots, but not with root and shoot biomass before submergence. These results show that conditions experienced by young plants modulate the responses to subsequent environmental conditions, in both magnitude and direction. Internal resource status interacts with cues perceived at different developmental stages in determining plastic responses to the environment.

Biomass allocation to leaves, stems and roots: meta-analyses of interspecific variation and environmental control

We quantified the biomass allocation patterns to leaves, stems and roots in vegetative plants, and how this is influenced by the growth environment, plant size, evolutionary history and competition. Dose-response curves of allocation were constructed by means of a meta-analysis from a wide array of experimental data. They show that the fraction of whole-plant mass represented by leaves (LMF) increases most strongly with nutrients and decreases most strongly with light. Correction for size-induced allocation patterns diminishes the LMF-response to light, but makes the effect of temperature on LMF more apparent. There is a clear phylogenetic effect on allocation, as eudicots invest relatively more than monocots in leaves, as do gymnosperms compared with woody angiosperms. Plants grown at high densities show a clear increase in the stem fraction. However, in most comparisons across species groups or environmental factors, the variation in LMF is smaller than the variation in one of the other components of the growth analysis equation: the leaf area : leaf mass ratio (SLA). In competitive situations, the stem mass fraction increases to a smaller extent than the specific stem length (stem length : stem mass). Thus, we conclude that plants generally are less able to adjust allocation than to alter organ morphology.

Leaf nitrogen productivity is the major factor behind the growth reduction induced by long-term salt stress

Plant growth response to salinity on a scale of years has not been studied in terms of growth analysis. To gain insights into this topic, 2-year-old Mediterranean Fan Palm (Chamaerops humilis L.) and Mexican Fan Palm (Washingtonia robusta H. Wendl) seedlings, each with its own distinct plant morphology, were grown for 2 years in a peat soil and irrigated with water of 2 dS m(-1) (control) or 8 dS m(-1) (saline). Plants were harvested on seven occasions and the time trends in relative growth rate (RGR, the rate of increase of biomass per unit of biomass already existing) and its components were analysed. In the long term, salinity produced a slight reduction in the mean RGR, values in both species. In the short term, salinity caused a reduction in RGR. However, during the second year, plants irrigated with 8 dS m(-1) grew somewhat more quickly than the control plants, probably as a result of delay in the growth kinetics due to salinity. Regarding RGR components, leaf nitrogen productivity (the rate of biomass gain per unit leaf N and time) was the major factor causing the differences in RGR resulting from salinity. Washingtonia robusta showed a relatively high plasticity in plant morphology by increasing root and decreasing stem biomass allocation in the presence of salinity. However, the long-term response of W. robusta to salinity, based to a great extent, on this morphological plasticity, was less effective than that of C. humilis, which is based mainly on the contribution of leaf N to RGR values.

Endogenous abscisic acid as a key switch for natural variation in flooding-induced shoot elongation

Elongation of leaves and stem is a key trait for survival of terrestrial plants during shallow but prolonged floods that completely submerge the shoot. However, natural floods at different locations vary strongly in duration and depth, and, therefore, populations from these locations are subjected to different selection pressure, leading to intraspecific variation. Here, we identified the signal transduction component that causes response variation in shoot elongation among two accessions of the wetland plant Rumex palustris. These accessions differed 2-fold in petiole elongation rates upon submergence, with fast elongation found in a population from a river floodplain and slow elongation in plants from a lake bank. Fast petiole elongation under water consumes carbohydrates and depends on the (inter)action of the plant hormones ethylene, abscisic acid, and gibberellic acid. We found that carbohydrate levels and dynamics in shoots did not differ between the fast and slow elongating plants, but that the level of ethylene-regulated abscisic acid in petioles, and hence gibberellic acid responsiveness of these petioles explained the difference in shoot elongation upon submergence. Since this is the exact signal transduction level that also explains the variation in flooding-induced shoot elongation among plant species (namely, R. palustris and Rumex acetosa), we suggest that natural selection results in similar modification of regulatory pathways within and between species.

Blue light dose-responses of leaf photosynthesis, morphology, and chemical composition of Cucumis sativus grown under different combinations of red and blue light

The blue part of the light spectrum has been associated with leaf characteristics which also develop under high irradiances. In this study blue light dose-response curves were made for the photosynthetic properties and related developmental characteristics of cucumber leaves that were grown at an equal irradiance under seven different combinations of red and blue light provided by light-emitting diodes. Only the leaves developed under red light alone (0% blue) displayed dysfunctional photosynthetic operation, characterized by a suboptimal and heterogeneously distributed dark-adapted F(v)/F(m), a stomatal conductance unresponsive to irradiance, and a relatively low light-limited quantum yield for CO(2) fixation. Only 7% blue light was sufficient to prevent any overt dysfunctional photosynthesis, which can be considered a qualitatively blue light effect. The photosynthetic capacity (A(max)) was twice as high for leaves grown at 7% blue compared with 0% blue, and continued to increase with increasing blue percentage during growth measured up to 50% blue. At 100% blue, A(max) was lower but photosynthetic functioning was normal. The increase in A(max) with blue percentage (0-50%) was associated with an increase in leaf mass per unit leaf area (LMA), nitrogen (N) content per area, chlorophyll (Chl) content per area, and stomatal conductance. Above 15% blue, the parameters A(max), LMA, Chl content, photosynthetic N use efficiency, and the Chl:N ratio had a comparable relationship as reported for leaf responses to irradiance intensity. It is concluded that blue light during growth is qualitatively required for normal photosynthetic functioning and quantitatively mediates leaf responses resembling those to irradiance intensity.

A method to construct dose-response curves for a wide range of environmental factors and plant traits by means of a meta-analysis of phenotypic data

In the past, biologists have characterized the responses of a wide range of plant species to their environment. As a result, phenotypic data from hundreds of experiments are publicly available now. Unfortunately, this information is not structured in a way that enables quantitative and comparative analyses. We aim to fill this gap by building a large database which currently contains data on 1000 experiments and 800 species. This paper presents methodology to generalize across different experiments and species, taking the response of specific leaf area (SLA; leaf area:leaf mass ratio) to irradiance as an example. We show how to construct and quantify a normalized mean light-response curve, and subsequently test whether there are systematic differences in the form of the curve between contrasting subgroups of species. This meta-analysis is then extended to a range of other environmental factors important for plant growth as well as other phenotypic traits, using >5300 mean values. The present approach, which we refer to as 'meta-phenomics', represents a valuable tool in understanding the integrated response of plants to their environment and could serve as a benchmark for future phenotyping efforts as well as for modelling global change effects on both wild species and crops.

Intraspecific variation in the magnitude and pattern of flooding-induced shoot elongation in Rumex palustris

BACKGROUND AND AIMS

Intraspecific variation in flooding tolerance is the basic pre-condition for adaptive flooding tolerance to evolve, and flooding-induced shoot elongation is an important trait that enables plants to survive shallow, prolonged flooding. Here an investigation was conducted to determine to what extent variation in flooding-induced leaf elongation exists among and within populations of the wetland species Rumex palustris, and whether the magnitude of elongation can be linked to habitat characteristics.

METHODS

Offspring of eight genotypes collected in each of 12 populations from different sites (ranging from river mudflats with dynamic flooding regimes to areas with stagnant water) were submerged, and petioles, laminas and roots were harvested separately to measure traits related to elongation and plant growth.

KEY RESULTS

We found strong elongation of petioles upon submergence, and both among- and within-population variation in this trait, not only in final length, but also in the timing of the elongation response. However, the variation in elongation responses could not be linked to habitat type.

CONCLUSIONS

Spatio-temporal variation in the duration and depth of flooding in combination with a presumably weak selection against flooding-induced elongation may have contributed to the maintenance of large genetic variation in flooding-related traits among and within populations.

Xeml Lab: a tool that supports the design of experiments at a graphical interface and generates computer-readable metadata files, which capture information about genotypes, growth conditions, environmental perturbations and sampling strategy

Data mining depends on the ability to access machine-readable metadata that describe genotypes, environmental conditions, and sampling times and strategy. This article presents Xeml Lab. The Xeml Interactive Designer provides an interactive graphical interface at which complex experiments can be designed, and concomitantly generates machine-readable metadata files. It uses a new eXtensible Mark-up Language (XML)-derived dialect termed XEML. Xeml Lab includes a new ontology for environmental conditions, called Xeml Environment Ontology. However, to provide versatility, it is designed to be generic and also accepts other commonly used ontology formats, including OBO and OWL. A review summarizing important environmental conditions that need to be controlled, monitored and captured as metadata is posted in a Wiki (http://www.codeplex.com/XeO) to promote community discussion. The usefulness of Xeml Lab is illustrated by two meta-analyses of a large set of experiments that were performed with Arabidopsis thaliana during 5 years. The first reveals sources of noise that affect measurements of metabolite levels and enzyme activities. The second shows that Arabidopsis maintains remarkably stable levels of sugars and amino acids across a wide range of photoperiod treatments, and that adjustment of starch turnover and the leaf protein content contribute to this metabolic homeostasis.

Causes and consequences of variation in leaf mass per area (LMA): a meta-analysis

Here, we analysed a wide range of literature data on the leaf dry mass per unit area (LMA). In nature, LMA varies more than 100-fold among species. Part of this variation (c. 35%) can be ascribed to differences between functional groups, with evergreen species having the highest LMA, but most of the variation is within groups or biomes. When grown in the same controlled environment, leaf succulents and woody evergreen, perennial or slow-growing species have inherently high LMA. Within most of the functional groups studied, high-LMA species show higher leaf tissue densities. However, differences between evergreen and deciduous species result from larger volumes per area (thickness). Response curves constructed from experiments under controlled conditions showed that LMA varied strongly with light, temperature and submergence, moderately with CO2 concentration and nutrient and water stress, and marginally under most other conditions. Functional groups differed in the plasticity of LMA to these gradients. The physiological regulation is still unclear, but the consequences of variation in LMA and the suite of traits interconnected with it are strong. This trait complex is an important factor determining the fitness of species in their environment and affects various ecosystem processes.

Habitat-specific natural selection at a flowering-time QTL is a main driver of local adaptation in two wild barley populations

Understanding the genetic basis of local adaptation requires insight in the fitness effects of individual loci under natural field conditions. While rapid progress is made in the search for genes that control differences between plant populations, it is typically unknown whether the genes under study are in fact key targets of habitat-specific natural selection. Using a quantitative trait loci (QTL) approach, we show that a QTL associated with flowering-time variation between two locally adapted wild barley populations is an important determinant of fitness in one, but not in the other population's native habitat. The QTL mapped to the same position as a habitat-specific QTL for field fitness that affected plant reproductive output in only one of the parental habitats, indicating that the genomic region is under differential selection between the native habitats. Consistent with the QTL results, phenotypic selection of flowering time differed between the two environments, whereas other traits (growth rate and seed weight) were under selection but experienced no habitat-specific differential selection. This implies the flowering-time QTL as a driver of adaptive population divergence. Our results from phenotypic selection and QTL analysis are consistent with local adaptation without genetic trade-offs in performance across environments, i.e. without alleles or traits having opposing fitness effects in contrasting environments.

Multilevel genomic analysis of the response of transcripts, enzyme activities and metabolites in Arabidopsis rosettes to a progressive decrease of temperature in the non-freezing range

This paper characterizes the transcriptional and metabolic response of a chilling-tolerant species to an increasingly large decrease of the temperature. Arabidopsis Col-0 was grown at 20 degrees C and transferred to 17, 14, 12, 10 or 8 degrees C for 6 and 78 h, before harvesting the rosette and profiling >22 000 transcripts, >20 enzyme activities and >80 metabolites. Most parameters showed a qualitatively similar response across the entire temperature range, with the amplitude increasing as the temperature decreased. Transcripts typically showed large changes after 6 h, which were often damped by 78 h. Genes were induced for sucrose, proline, raffinose, tocopherol and polyamine synthesis, phenylpropanoid and flavonoid metabolism, fermentation, non-phosphorylating mitochondrial electron transport, RNA processing, and protein synthesis, targeting and folding. Genes were repressed for carbonic anhydrases, vacuolar invertase, and ethylene and jasmonic acid signalling. While some enzyme activities and metabolites changed rapidly, most changed slowly. After 6 h, there was an accumulation of phosphorylated intermediates, a shift of partitioning towards sucrose, and a perturbation of glycine decarboxylation and nitrogen metabolism. By 78 h, there was an increase of the overall protein content and many enzyme activities, a general increase of carbohydrates, organic and amino acids, and an increase of many stress-responsive metabolites including raffinose, proline, tocopherol and polyamines. When the responses of transcripts and metabolism were compared, there was little agreement after 6 h, but considerable agreement after 78 h. Comparison with the published studies indicated that much, but not all, of the response was orchestrated by the CBF programme. Overall, our results showed that transcription and metabolism responded in a continuous manner across a wide range of temperatures. The general increase of enzyme activities and metabolites emphasized the positive and compensatory nature of this response.

The role of ethylene perception in the control of photosynthesis

The process of photosynthesis is under the control by several internal factors. Apart from the effect of abscisic acid on stomatal conductance, little is known about the interaction between hormonal signals and photosynthesis in fully-developed, nonsenescing leaves. Recently, we found that the ethylene transduction pathway is involved in the regulation of photosynthesis. Using an ethylene-insensitive tobacco genotype we showed that the absence of a functional ethylene receptor leads to a reduction in Rubisco content and photosynthetic capacity. In this addendum, we present some additional data indicating that photosynthetic capacity is also reduced in ethylene-insensitive Arabidopsis mutants.