SPECIAL ISSUES & COLLECTIONS 2013
Preface Leegood & Long
Photorespiratory bypasses: how can they work? Peterhansel et al.
Engineering photosynthesis in plants and synthetic microorganisms. Maurino and Weber
The objectives of this paper are to summarize the principles of root/rhizosphere management and provide an overview of some successful case studies on how to exploit the biological potential of root system and rhizosphere processes to improve crop productivity and nutrient use efficiency.
The purpose of this review is to explore some of the ways in which understanding root systems and their interactions with soils could contribute to the development of more sustainable systems of intensive production. Physical interactions with soil particles limit root growth if soils are dense, but root–soil contact is essential for optimal growth and uptake of water and nutrients.
To gain an understanding of how apoplastic ROS levels change under water stress, cerium chloride staining was used in conjunction with transmission electron microscopy to examine the spatial distribution of apoplastic H2O2. The results revealed that apoplastic H2O2 levels increased specifically in the apical region of the growth zone under water stress, correlating spatially with the maintenance of cell elongation.
Here we review how soil conditions influence root system architecture; focusing on cereals. Cereals provide half of human calories, and their root systems differ from those of dicotyledons. We find that few controlled-environment studies combine more than one soil stimulus and, those that do, highlight the complexity of responses.
On the move: Induced resistance in monocots. Balmer et al.
Although plants possess an arsenal of constitutive defences such as structural barriers and preformed antimicrobial defences, many attackers are able to overcome the pre-existing defence layers. In this review, current facts and trends concerning basal immunity, and systemic acquired/induced systemic resistance in the defence of monocots against pathogens and herbivores will be summarized.
Microbial recognition and evasion of host immunity. Pel and Pieterse
Evasion of host immune recognition is less well studied but is emerging as another important strategy. Escape from recognition by the host’s immune system can be caused by alterations in the structure of the recognized MAMPs, or by active intervention of ligand-receptor recognition. This paper reviews the structure and recognition of common MAMPs and the ways that plant-associated microbes have evolved to prevent detection by their host.
Root herbivores are important ecosystem drivers and agricultural pests, and, possibly as a consequence, plants protect their roots using a variety of defensive strategies. One aspect that distinguishes belowground from aboveground plant–insect interactions is that roots are constantly exposed to a set of soil-specific abiotic factors. These factors can profoundly influence root resistance, and, consequently, the outcome of the interaction with belowground feeders. In this review, we synthesize the current literature on the impact of soil moisture, nutrients, and texture on root–herbivore interactions.
Since induced resistance is a host response, its expression under field conditions is likely to be influenced by a number of factors, including the environment, genotype, crop nutrition and the extent to which plants are already induced. Although research in this area has increased over the last few years, our understanding of the impact of these influences on the expression of induced resistance is still poor.
Priming of plant immune responses, alterations in phytohormone homeostasis, regulation of iron homeostasis, silicon-driven photorespiration and interaction with defence signalling components all are potential mechanisms involved in regulating silicon-triggered resistance responses. Further elucidating how silicon exerts its beneficial properties may create new avenues for developing plants that are better able to withstand multiple attackers.
The molecular architecture of the plant nuclear pore complex. Tamura and Hara-Nishimura
The nucleus contains the cell’s genetic material, which directs cellular activity via gene regulation. In this review, we summarize the current knowledge regarding the plant NPC proteome and address structural and functional aspects of plant nucleoporins, which support the fundamental cellular machinery.
The plant nuclear pore complex (NPC) is a critical controlling element in this nucleocytoplasmic movement of protein and RNA. The NPC is comprised of approximately 30 nucleoporin proteins arranged in radial symmetry around the central pore. Here is presented an overview as to how the members of the plant NPC affect signalling pathways, highlighting the progress and difficulties within this research area.
Auxin biosynthesis and storage forms. DA Korasick, TA Enders & L Strader
This review discusses the many ways auxin levels are regulated through biosynthesis, storage forms, and inactivation, and the potential roles modified auxins play in regulating the bioactive pool of auxin to affect plant growth and development.
Tuning the auxin transcriptional response Pierre-Jerome, Moss & Nemhauser
How does auxin provoke such a diverse array of responses? We review what is currently known about differences between family members of the components that make up the auxin response complex, as well as areas of potential differences in their interactions outside of the core module
Auxin: simply complicated M Sauer, S Robert, & J Kleine-Vehn
Auxin is a plant hormone involved in an extraordinarily broad variety of biological mechanisms. These range from basic cellular processes, such as endocytosis, cell polarity and cell cycle control over localized responses like cell elongation and differential growth, to macroscopic phenomena such as embryogenesis, tissue patterning and de novo formation of organs. This review gives an overview of these rather recent and emerging areas of auxin research, and tries to formulate some of the open questions.
Auxin and self-organization at the shoot apical meristem. M Sassi & T Vernoux
This review discusses both the experimental and theoretical evidence for the implication of auxin in the control of organogenesis and self organization of the shoot apical meristem.
The role of auxin in shaping shoot architecture Andrea Gallavotti
Recent advances in deciphering the molecular mechanisms that regulate auxin function have produced several tools to investigate how auxin affects the establishment and plasticity of plant morphology. Here the extensive evidence that connects auxin and its biology with the determination of plant shoot architecture is reviewed, with particular emphasis on the most recent discoveries in two well-studied model plant systems, the dicotyledonous Arabidopsis and the monocot maize.
This review assesses the sequence of molecular events that lead to lateral root formation in relation to the locations in which they occur, addresses how nutrients regulate the response generally though not exclusively by altering sensitivity to auxin, and finally considers the factors that control auxin levels.
Auxin and the Arabidopsis thaliana gynoecium. E Larsson, RG Franks & E Sundberg
This review summarizes recent advances in our understanding of how auxin biosynthesis, transport and responses together generate specific gynoecial domains. It also highlights areas where future research endeavors are likely to provide additional insight into the homeostatic molecular mechanisms by which auxin regulates gynoecium development
Evidence of oxidative attenuation of auxin signalling WA Peer, Y Chen & AS Murphy
This report summarizes previously published data and show additional data regarding oxIAA is generation in planta, oxIAA as a substrate in transport assays, and oxIAA as a signalling molecule in auxin-mediate responses. It then examine the relationship between IAA and ROS generation, and oxIAA levels in ROS scavenging mutants.
Plant micro and nanomechanics. I Burgert & T Keplinger
This paper reviews the most common micro- and nanomechanical approaches that are utilized to study primary and secondary cell walls from a biomechanics perspective. A significant part of the article is devoted to an overview of the methodological aspects of the mechanical characterization techniques with a particular focus on new developments and advancements in the field of nanomechanics.
Shrinking the hammer: micromechanical approaches to morphogenesis P Milani, SA Braybrook & A Boudaoud
Shape is imposed by the structural elements of the organism, and the translation of cellular activity into morphogenesis must go through these elements. Many methods have been recently developed to quantify at cellular resolution the properties of the main structural element in plants, the cell wall. As plant cell growth is restrained by the cell wall and powered by turgor pressure. These different micromechanical approaches are reviewed here, with a critical assessment of their strengths and weaknesses, and a discussion of how they can help us understand the regulation of growth and morphogenesis.
A force of nature: molecular mechanisms of mechanoperception in plants. GB Monshausen & ES Haswell
Here, we describe recent progress in the identification and characterization of two classes of putative mechanoreceptors, ion channels and receptor-like kinases. We also discuss how the secondary messenger Ca2+ operates at the centre of many of these mechanical signal transduction pathways.
Modes of deformation of walled cells Jacques Dumais
In this review, I attempt a first classification of the different modes of surface deformation used by walled cells. The two most restrictive modes - inextensional and equi-area deformations - are embodied in the exine of pollen grains and the wall-like pellicle of euglenoids, respectively. The greatest morphogenetic power is reached with the processive intussusception and chemorheological growth mechanisms that underlie the expansive growth of walled cells. A comparison of these two growth mechanisms suggests a possible way to tackle the complexity behind wall growth.
On the role of stress anisotropy in the growth of stems TI Baskin & OE Jensen
Efforts to quantify stress anisotropy in the stem have found that it is predominantly axial, and large enough in principle to explain the elongation of the epidermis despite its axial microfibrils. That the epidermis experiences a stress deriving from the inner tissue, the so-called “tissue stress”, has been widely recognized; however, the origin of the dominant axial direction remains obscure. We suggest that understanding the role of stress anisotropy in plant growth requires a deeper understanding of the nature of stress in hierarchical, organic structures.
The cellular mechanics of an invasive life style. AA Nezhad & A Geitmann
Mechanical control of morphogenesis at the shoot apex. Robinson et al.
Morphogenesis does not just require the correct expression of patterning genes; these genes must induce the precise mechanical changes necessary to produce a new form. Here we overview the current understanding of the mechanical dynamics and its influence on cellular and developmental processes in the shoot apex. We are only starting to uncover the mechanical basis underlying morphogenesis, and many exciting questions remain to be answered.
This review summarizes the main physical mechanisms plants use to achieve motility, highlighting recent work at the frontier of biology and physics on rapid movements. Emphasis is given to presenting in a single framework pioneering biological studies of water transport and growth with more recent physics research on poroelasticity and mechanical instabilities.
How do roots elongate in a structured soil?. Jin et al.
Xylem cavitation resistance has profound implications for plant physiology and ecology. This process is characterized by a vulnerability curve showing the variation of the percentage of cavitation as a function of xylem pressure potential. In this review, we provide a panorama of the techniques that have been used to generate such a curve. The techniques differ by 1) the way cavitation is induced, 2) the way cavitation is measured and we propose a nomenclature based on these two entries.
In this paper, we propose concepts and methods that make it possible to better integrate, from an ecological point of view, the way trees mechanically explore their aerial environment “without muscle”. We propose a new view of biomechanical performance, describing the biomechanical framework for studying “motricity”. The way this biomechanical framework has been and could be used in tree ecology at species and community levels is reviewed and discussed.
Although organisms cannot obviate the effects of physical laws and processes, the consequences of these effects can be altered by ontogenetic or phylogenetic alterations in geometry, shape, or orientation as well as in body size. This examination shows how physical laws limit phenotypic expression, but how they also simultaneously provide alternative, potentially adaptive possibilities.
In this review, we assess possible positive or negative effects of the introduction of a carbon concentrating mechanism in C3 crop species on crop potential productivity and yield robustness.
This review presents and discusses the advantages of thermal imaging applications to plant science, agriculture, and ecology, as well as its limitations and possible approaches to minimize them, by highlighting examples from previous and ongoing research.
Measurement of the matric potential of soil water in the rhizosphere Whalley, Ober & Jenkins
In this review, the relationship between matric potential and soil water content is explored. It is shown that for any given soil type, this relationship is not unique and therefore both soil water content and matric potential need to be measured for the soil water status to be fully described.
In this review, we recognize the requirements for the use of this technique in the fields of ecology and agriculture and especially where measurements must be rapid. In addition, the development of new equipment such as monitoring fluorometers which are intended for automated long-term assessment of photosynthesis and chlorophyll fluorescence imaging for phenotypic screening has offered new opportunities.
The state of knowledge on autotrophy as a nutritional source for sacoglossans and the strategies they have developed to avoid excessive light, with emphasis to the behavioural and physiological mechanisms suggested to be involved in the photoprotection of kleptoplasts is reviewed.
Metabolomics in plant environmental physiology Brunetti et al.
This review examines the main techniques used in situ within field sites with particular reference to sampling and processing, and those more appropriate for use in laboratory-based settings with emphasis on secondary metabolite analysis.
This review begins with a consideration of the origin of life and whether autotrophy is an ancestral trait. There is then a consideration of the roles of phosphorus in organisms, and of elemental stoichiometries in food webs, starting from autotrophs and proceeding to phago- and osmo-chemo-organotrophs.
Ontogeny strongly and differentially alters leaf economic and other key traits in three diverse Helianthus species Mason
We tested the hypothesis that human cultivation buried seeds deeper than natural dispersal, exerting unconscious selection favouring larger seeds with greater reserves. Using a comparative approach, we sampled accessions of eight grain legumes, originating from independent domestication centres across several continents.
GOLVEN peptide signaling controls different developmental processes in the root A Fernandez, P Hilson & T Beeckman
Taking transgenic rice drought screening to the field Gaudin et al.
The molecular architecture of the plant nuclear pore complex Tamura & Hara-Nishimura
In this review, we discuss recent advancements in CP29 phosphorylation and dephosphorylation studies and its physiological significance under environmental stresses in higher plants, especially in the monocotyledonous crops
This review combines analyses of transcriptomic, metabolomic, and proteomic data, and fruit process-based simulation models of the accumulation of citric and malic acids, to further our understanding of the physiological mechanisms likely to control the accumulation of these two acids during fruit development.
Sweet immunity in the plant circadian regulatory network Bolouri Moghaddam & Van den Ende
Emerging roles of microRNAs in the mediation of drought stress response in plants Y Ding, Y Tao, and C Zhu
Drought is a major environmental stress factor that limits agricultural production worldwide. This review summarizes recent molecular studies on the miRNAs involved in the regulation of drought-responsive genes, with emphasis on miRNA-associated regulatory networks involved in drought stress response.
Photo-oxidative stress in emerging and senescing leaves: a mirror image? M Juvany, M Müller, and S Munné-Bosch
This review focuses on the role of photo-oxidative stress both at early stages of leaf growth and during leaf senescence. We consider early leaf growth to be the stages at which the leaf is photosynthetically active but still depends on imported photoassimilates for net growth. During leaf senescence, we focus on the processes involved in the initiation, re-organization and terminal phases. Furthermore, we aim at characterizing such processes beyond the information gathered in the model plant Arabidopsis thaliana and include recent literature on the topic obtained in perennials.
The key roles of Ca2+-ATPases in transport systems and stress signalling in cellular homeostasis are addressed in this review. A complete understanding of plant defence mechanisms under stress will allow bioengineering of improved crop plants, which will be crucial for food security currently observed worldwide in the context of global climate changes. Overall, this article covers classification, evolution, structural aspects of Ca2+-ATPases, and their emerging roles in plant stress signalling.
This review discusses changes in the normal pattern of signal transduction that could account for disruption of guard cell signalling after long-term exposure to some environmental conditions, with special emphasis on long-term low vapour pressure deficit (VPD).
Making open data work for plant scientists Leonelli et al.
Here we highlight some of the challenges encountered by plant researchers at the bench when generating, interpreting and attempting to disseminate their data. We review the difficulties involved in sharing sequencing, transcriptomics, proteomics and metabolomics data. We then identify and assess the benefits and drawbacks of three data sharing venues currently available to plant scientists: (1) journal publication; (2) university repositories; and (3) community and project-specific databases.
A criticism of the value of midparent in polyploidization Alberto Gianinetti
Genetic additivity occurs when the effects of different alleles, or different genes, add up in the resulting phenotype. Non-additive effects (genetic interactions) are typically measured as deviations from MPV. Recently, however, the use of MPV has been directly transposed to the study of genetic additivity in newly synthesized plant polyploids, assuming that they should as well display mid-parent expression patterns for additive traits. Here, it is shown that this direct transposition is incorrect.