Table of Contents
EDITORIAL - FOCUS ISSUE
UPDATES - FOCUS ISSUE
Update on Chloroplast Development
Retrograde Signals Navigate the Path to Chloroplast DevelopmentComplex signaling networks between the chloroplast and the nucleus mediate the emergence of the seedling into the light and the establishment of photosynthesis.
Update on Dynamic Photosynthesis in Crops
Fluctuating Light Takes Crop Photosynthesis on a Rollercoaster RideCrops are regularly exposed to frequent irradiance fluctuations, which decrease their integrated CO2 assimilation and affect their phenotype.
Update on Impacts of Fluctuating Light on Crops
The Impacts of Fluctuating Light on Crop PerformanceRecent advances in understanding photosynthetic responses to dynamic light environments reveal opportunities to improve crop plant photosynthetic efficiency.
Update on Photooxidative Stress in Organ Development
Photo-Oxidative Stress during Leaf, Flower and Fruit DevelopmentPhotooxidative stress plays a crucial role in organ growth and development, with some similarities but also important differences in the development of leaves, flowers, and fruits.
Update on Blue Light Signaling
Shining Light on the Function of NPH3/RPT2-Like Proteins in Phototropin SignalingNRL proteins coordinate different aspects of phototropin signaling through signaling processes that are conserved in land plants and algae.
Update on Phytochromes and Phytochrome Interacting Factors
Phytochromes and Phytochrome Interacting FactorsRecent discoveries focus on the central phytochrome signaling mechanisms that have profound impact on plant growth and development in response to light.
Update on Phytochrome, Metabolism, and Growth Plasticity
Phytochrome, Carbon Sensing, Metabolism, and Plant Growth PlasticityPhytochrome signaling controls biomass accumulation, growth plasticity, and metabolism.
Update on Light Signaling and Root Development
Light Signaling, Root Development, and PlasticityLight signaling can affect root development and plasticity, either directly or through shoot-root communication via sugars, hormones, light, or other mobile factors.
Update on Photomorphogenesis
Seedling Establishment: A Dimmer Switch-Regulated Process between Dark and Light SignalingA balance between dark and light signaling directs seedling establishment through integrating internal and environmental information.
Update on Developmental Transitions
Transitioning to the Next Phase: The Role of Sugar Signaling throughout the Plant Life CycleDevelopmental transitions depend on the availability of sufficient carbon resources, which is sensed by sugar signaling pathways for high and low carbon availability.
Update on Cellular Energy Signaling
The SnRK1 Kinase as Central Mediator of Energy Signaling between Different OrganellesSnRK1 is a central integrator of energy signaling in different subcellular locations with emerging roles in organellar and hormone metabolism.
Update on TOR Signaling
Recent Discoveries on the Role of TOR (Target of Rapamycin) Signaling in Translation in PlantsTOR signaling regulates plant translation via a specific translation initiation mechanism: reinitiation.
Update on Flooding Stress Signaling
Signal Dynamics and Interactions during Flooding StressFlooding triggers several internal changes in plant cells, and interactions between these signals can provide critical information for downstream beneficial gene expression, stress acclimation, and survival.
Update on Root Plasticity and Internal Aeration
Regulation of Root Traits for Internal Aeration and Tolerance to Soil Waterlogging-Flooding StressKnowledge of the genetic regulation of adventitious roots, aerenchyma, and radial oxygen loss barrier formation, and the signaling for acclimation, will assist the development of waterlogging-tolerant crops.
Update on Integrative Oxygen Sensing and Signaling
Oxygen Sensing and Integrative Stress Signaling in PlantsIntegration of multiple cellular signals provides new opportunities in understanding oxygen sensing and response mechanisms in plants.
Update on Group VII Ethylene Response Factors
Group VII Ethylene Response Factors in Arabidopsis: Regulation and Physiological RolesThe role of ERF-VII TFs in higher plants is to coordinate their signature response to oxygen deficiency, but additional layers of modulation of ERF-VII activity enrich their regulatory range.
Update on Mitochondrial Energy Signaling
Mitochondrial Energy Signaling and Its Role in the Low-Oxygen Stress Response of PlantsCellular responses to low-oxygen stress and to respiratory inhibitors share common mitochondrial energy signaling pathways.
Update on Light, Oxygen, and Bud Burst
Roles for Light, Energy, and Oxygen in the Fate of Quiescent Axillary BudsThe decision of a quiescent axillary bud to commit to regrowth is governed by both metabolic and signaling functions, driven by light, energy, and oxygen availability.
RESEARCH ARTICLES - FOCUS ISSUE
BIOCHEMISTRY AND METABOLISM
Phosphoglycerate Kinases Are Co-Regulated to Adjust Metabolism and to Optimize GrowthPhotosynthetic and glycolytic phosphoglycerate kinase mutants are transcriptionally coregulated to achieve metabolic homeostasis and to optimize growth in Arabidopsis.
CELL BIOLOGY
Establishment of Photosynthesis through Chloroplast Development Is Controlled by Two Distinct Regulatory PhasesThe establishment of photosynthesis is a two-phase process with a clear checkpoint associated with the second regulatory phase allowing coordination of the activities of the nuclear and plastid genomes.
ECOPHYSIOLOGY AND SUSTAINABILITY
Chlorophyll Can Be Reduced in Crop Canopies with Little Penalty to PhotosynthesisAn empirically parameterized model of canopy photosynthesis in soybeans reveals that leaf chlorophyll can be reduced with significant nitrogen savings and only minor reductions in daily carbon gain.
Suboptimal Acclimation of Photosynthesis to Light in Wheat CanopiesHigh-resolution 3D reconstruction and ray tracing combined with an empirical model of photosynthesis reveals suboptimal photosynthetic acclimation in wheat canopies.
MEMBRANES, TRANSPORT, AND BIOENERGETICS
In Silico Analysis of the Regulation of the Photosynthetic Electron Transport Chain in C3 PlantsA model-based analysis of photosynthetic electron transport chain identifies several mechanisms by which photosynthetic metabolic hubs may be coordinated under a range of environmental conditions.
SIGNALING AND RESPONSE
OsbZIP48, a HY5 Transcription Factor Ortholog, Exerts Pleiotropic Effects in Light-Regulated DevelopmentThe OsbZIP48 gene from rice can complement the hy5 mutant of Arabidopsis but exerts pleiotropic effects and causes semidwarfism when overexpressed in rice, and its mutant/RNAi lines are seedling lethal.
Gene Regulation and Survival under Hypoxia Requires Starch Availability and MetabolismThe induction of genes involved in the anaerobic response is repressed if the sugar status of the plant is low.
The Energy-Signaling Hub SnRK1 Is Important for Sucrose-Induced Hypocotyl ElongationAn energy signaling pathway, photoperiod, and light intensity regulate sugar-induced hypocotyl elongation.
Light Signaling-Dependent Regulation of Photoinhibition and Photoprotection in TomatoFar-red light alleviates cold-induced photoinhibition and enhances photoprotection in shade leaves via activation of phyA-dependent HY5-ABI5-RBOH1 signaling pathways.
The Transcription Factor COL12 Is a Substrate of the COP1/SPA E3 Ligase and Regulates Flowering Time and Plant ArchitectureCOL12 is a substrate of the COP1/SPA ubiquitin ligase and regulates flowering time and plant architecture
Linking PHYTOCHROME-INTERACTING FACTOR to Histone Modification in Plant Shade AvoidanceThe transcription factor PIF7 recruits the H3K4me3/H3K36me3-reader protein MRG1/MRG2 to promote histone acetylations in activating genes to promote stem elongation in plant shade response.
Control of Adventitious Root Architecture in Rice by Darkness, Light, and GravityEthylene and light are major determinants of an altered root system architecture in flooded rice plants.
Converging Light, Energy and Hormonal Signaling Control Meristem Activity, Leaf Initiation, and GrowthThe development of leaves requires photoreceptors to initiate auxin export, cytokinin action, and sugar-dependent signaling at dividing cells, energy signaling further adjusting growth to available light.
ON THE INSIDE
FOUNDERS' REVIEW
Vacuolar Transporters – Companions on a Longtime JourneyBy storing and releasing a multitude of compounds, vacuoles play a multifaceted role in the plant development and response to environment Al changes.
BREAKTHROUGH TECHNOLOGIES
LTR_retriever: A Highly Accurate and Sensitive Program for Identification of Long Terminal Repeat RetrotransposonsLTR_retriever is an accurate and sensitive program that identifies LTR retrotransposons and generates nonredundant exemplars from DNA sequences for whole-genome annotation and evolutionary studies.
RESEARCH REPORT
Alternative Oxidase Isoforms Are Differentially Activated by Tricarboxylic Acid Cycle IntermediatesIn Arabidopsis, alternative oxidase activation is isoform specific, with AOX1A activated by oxaloacetate and 2-oxoglutarate, AOX1D solely by 2-oxoglutarate, and AOX1C insensitive to both.
Articles
BIOCHEMISTRY AND METABOLISM
Molecular Mechanisms of Photoadaptation of Photosystem I Supercomplex from an Evolutionary Cyanobacterial/Algal IntermediateZeaxanthin accumulation and antenna remodeling protect the extremophilic red alga Cyanidioschyzon merolae PSI supercomplex from light stress.
Biochemical and Structural Analysis of Substrate Specificity of a Phenylalanine Ammonia-LyaseThe major phenylalanine ammonia-lyases from Sorghum bicolor were characterized through crystal structures, molecular docking, site-directed mutagenesis, and kinetic and thermodynamic analyses.
A Single Oxidosqualene Cyclase Produces the Seco-Triterpenoid α-OnocerinIn Ononis spinosa, a single oxidosqualene cyclase interacts with squalene epoxidases to produce α-onocerin from squalene dioxide, demonstrating that α-onocerin pathways evolved convergently in plants.
Temporal Proteomics of Inducible RNAi Lines of Clp Protease Subunits Identifies Putative Protease SubstratesGeneration of inducible knockdown mutants for components of the plastid Clp protease system and time-resolved analysis of changes in their proteome allows the identification of a set of putative protease substrates.
Flavodiiron Protein Substitutes for Cyclic Electron Flow without Competing CO2 Assimilation in RiceA moss flavodiiron protein can substitute the function of cyclic electron transport around photosystem I without any decrease in CO2 assimilation or biomass production in rice.
Revisiting the Algal “Chloroplast Lipid Droplet”: The Absence of an Entity That Is Unlikely to ExistDespite previous arguments on chloroplast lipid droplets, all lipid droplets are present in the cytosolic compartment and not in the chloroplast in Chlamydomonas reinhardtii.
CELL BIOLOGY
SEIPIN Proteins Mediate Lipid Droplet Biogenesis to Promote Pollen Transmission and Reduce Seed DormancyGenetic disruption of Arabidopsis SEIPINs reveals the relevance of lipid droplets in pollen transmission and in adjusting seed dormancy levels.
Branched Pectic Galactan in Phloem-Sieve-Element Cell Walls: Implications for Cell MechanicsBranched pectic galactan is identified as a component of the cell walls of phloem sieve elements.
Vacuolar Trafficking Protein VPS38 Is Dispensable for AutophagyArabidopsis VPS38 is required for the intracellular localization of PI3P, an important lipid regulator of endosomal and vacuolar trafficking.
ECOPHYSIOLOGY AND SUSTAINABILITY
![Evidence That Isoprene Emission Is Not Limited by Cytosolic Metabolites. Exogenous Malate Does Not Invert the Reverse Sensitivity of Isoprene Emission to High [CO<sub>2</sub>]](http://www.plantphysiol.org/sites/default/files/styles/thumbnail/public/externals/fc0b807ffd1bbe37aa741defa6f03f76.gif?itok=p2gmR4Gb)
Evidence That Isoprene Emission Is Not Limited by Cytosolic Metabolites. Exogenous Malate Does Not Invert the Reverse Sensitivity of Isoprene Emission to High [CO2]Reduction of MEP/DOXP pathway activity under elevated CO2 is not due to limited cytosolic metabolite availability.
GENES, DEVELOPMENT AND EVOLUTION
Identification of a New Host Factor Required for Antiviral RNAi and Amplification of Viral siRNAsA transmembrane protein conserved broadly in plants and animals promotes antiviral silencing by enhancing the amplification of virus-derived small interfering RNAs.
The Brassicaceae Family Displays Divergent, Shoot-Skewed NLR Resistance Gene ExpressionThe majority of plant species preferentially express NLRs in root tissues, but the Brassicaceae family displays consistent shoot-skewed NLR expression across different phylogenetic NLR clades.
Stage-Specific Gene Profiling of Germinal Cells Helps Delineate the Mitosis/Meiosis TransitionStage- and cell type-specific gene expression profiling reveals dynamics and characteristics of the mitosis to meiosis transition in male germinal cells of maize.
Parental DNA Methylation States Are Associated with Heterosis in Epigenetic HybridsDNA methylation differences between isogenic parental lines can directly or indirectly trigger heterosis in Arabidopsis hybrids.
Loss of LOFSEP Transcription Factor Function Converts Spikelet to Leaf-Like Structures in RiceThe LOFSEP transcription factors OsMADS1, OsMADS5, and OsMADS34 regulate rice spikelet morphogenesis, form higher order complexes, and promote the expression of other floral homeotic genes.
SUPPRESSOR OF GAMMA RESPONSE1 Links DNA Damage Response to Organ RegenerationSOG1 governs the programmed breakdown and reconstruction of the root stem cell niche after acute DNA damage.
The SlCBL10 Calcineurin B-Like Protein Ensures Plant Growth under Salt Stress by Regulating Na+ and Ca2+ HomeostasisTomato CALCINEURIN B-LIKE PROTEIN 10 (SlCBL10) ensures plant growth by regulating proper distribution of Na+ and Ca2+ in the shoot apical meristem and developing organs under salt stress.
Spatial Control of Gene Expression by miR319-Regulated TCP Transcription Factors in Leaf DevelopmentmicroRNA319-regulated TCP transcription factors influence leaf development in distinct ways in central and marginal parts of the organ.
Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root OrganogenesisDistinctive developmental stages lead to de novo root organogenesis in leaves guide genetically dissection of the primary developmental pathways.
MEMBRANES, TRANSPORT AND BIOENERGETICS
NDH-PSI Supercomplex Assembly Precedes Full Assembly of the NDH Complex in ChloroplastThe chloroplast NDH complex is built up with the aid of an assembly factor, CRR3, triggering the NDH-PSI supercomplex formation via Lhca6 before the completion of the entire NDH assembly.
Preferential Distribution of Boron to Developing Tissues Is Mediated by the Intrinsic Protein OsNIP3Boron is preferentially delivered in rice to developing tissues by OsNIP3;1 located in the nodes, which is regulated at both the transcriptional and protein levels in response to external boron concentration.
Mineral Deposits in Ficus Leaves: Morphologies and Locations in Relation to FunctionMineral deposition in Ficus leaves is highly regulated, and some of the minerals function in light distribution to enhance photosynthesis, depending upon the mineral location in the leaf.
SIGNALING AND RESPONSE
Dynamics of Ethylene Production in Response to Compatible Nod FactorThe host plant Lotus japonicus produces ethylene in response to compatible Nod-factor to regulate nitrogen-fixing symbiosis.
STOREKEEPER RELATED1/G-Element Binding Protein (STKR1) Interacts with Protein Kinase SnRK1STKR1-overexpressing plants show many phenotypic changes that have previously been associated with SnRK1 overexpression, and thus STKR1 could act as a downstream component of SnRK1 signaling.
Glucose-Induced Trophic Shift in an Endosymbiont Dinoflagellate with Physiological and Molecular ConsequencesGlucose induces dramatic physiological changes in the dinoflagellate Symbiodinium strain SSB01, although there is very little modulation of nuclear gene expression.
Laccase GhLac1 Modulates Broad-Spectrum Biotic Stress Tolerance via Manipulating Phenylpropanoid Pathway and Jasmonic Acid SynthesisModification of GhLac1 expression leads to redirection of phenylpropanoid metabolism and alteration of JA synthesis to confer broad spectrum resistance to both pathogens and pests.
Involvement of Adapter Protein Complex 4 in Hypersensitive Cell Death Induced by Avirulent BacteriaThe adapter protein 4 is involved in plant immunity associated with vacuolar-plasma membrane fusion and in hypersensitive cell death triggered by type-III effector recognition on the plasma membrane.
The Kinase OsCPK4 Regulates a Buffering Mechanism That Fine-Tunes Innate ImmunityOsCPK4 has dual functions in rice in promoting the degradation and stability of OsRLCK176 to fine-tune plant immunity through modulating the phosphorylation state of OsRLCK176.
TCP Transcription Factors Regulate Shade Avoidance via Directly Mediating the Expression of Both PHYTOCHROME INTERACTING FACTORs and Auxin Biosynthetic GenesTCP17 acts as a key factor in regulating shade-induced hypocotyl rapid growth by directly promoting the transcriptional levels of PIFs and auxin biosynthesis genes.
SYSTEMS AND SYNTHETIC BIOLOGY
Transcription Factor-Mediated Control of Anthocyanin Biosynthesis in Vegetative TissuesA systems biology study reveals that anthocyanin biosynthesis in tomato vegetative tissue is accompanied by changes in the epidermis and architecture of the root.
In this issue
Jump to
- EDITORIAL - FOCUS ISSUE
- UPDATES - FOCUS ISSUE
- Update on Chloroplast Development
- Update on Dynamic Photosynthesis in Crops
- Update on Impacts of Fluctuating Light on Crops
- Update on Photooxidative Stress in Organ Development
- Update on Blue Light Signaling
- Update on Phytochromes and Phytochrome Interacting Factors
- Update on Phytochrome, Metabolism, and Growth Plasticity
- Update on Light Signaling and Root Development
- Update on Photomorphogenesis
- Update on Developmental Transitions
- Update on Cellular Energy Signaling
- Update on TOR Signaling
- Update on Flooding Stress Signaling
- Update on Root Plasticity and Internal Aeration
- Update on Integrative Oxygen Sensing and Signaling
- Update on Group VII Ethylene Response Factors
- Update on Mitochondrial Energy Signaling
- Update on Light, Oxygen, and Bud Burst
- RESEARCH ARTICLES - FOCUS ISSUE
- ON THE INSIDE
- FOUNDERS' REVIEW
- COMMENTARY
- BREAKTHROUGH TECHNOLOGIES
- RESEARCH REPORT
- Articles
COMMENTARY
Relating glycan structures in the wall to their cellular function can be achieved by combining methods for visualization of glycan epitopes, identification of their precise chemistry, and measurement of wall mechanics.