Shade avoidance

Speed breeding 3.0: mainstreaming light-driven plant breeding for sustainable genetic gains

Advances in photobiological tools are revolutionizing plant breeding by enabling precise control of light parameters, addressing yield stagnation, and mitigating climate challenges. Full-spectrum light-emitting diodes (LEDs) and optimized light protocols have significantly reduced breeding cycles. This review highlights light-driven strategies that are accessible and practical for plant breeders worldwide including the role of light spectrum, intensity, and photoperiod in acceleration of plant growth in both short- and long-day crops. Speed breeding 3.0, with tailored rapid generation advancement (RGA) protocols designed for diverse crop populations, has the potential to significantly sustain genetic gains in a more efficient and targeted manner. These innovative approaches hold the potential to transform global agriculture and secure food systems in the face of rising populations and environmental uncertainties.

Species-specific PHYTOCHROME-INTERACTING FACTOR utilization in the plant morphogenetic response to environmental stimuli

PHYTOCHROME-INTERACTING FACTORs (PIFs) regulate growth-related gene expression in response to environmental conditions. Among their diverse functions in regulating signal responses, PIFs play an important role in thermomorphogenesis (the response to increased ambient temperature) and in the shade avoidance response. While numerous studies have examined the varied roles of PIFs in Arabidopsis (Arabidopsis thaliana), their roles in crop plants remain poorly investigated. This study delves into the conservation of PIFs activity among species by examining their functions in tomato (Solanum lycopersicum) and comparing them to known PIF functions in Arabidopsis using single and higher-order mutants of tomato PIF genes (SlPIFs). We demonstrate that, in contrast to Arabidopsis, PIFs are not required for thermomorphogenesis-induced stem elongation in tomato. In addition, whereas Arabidopsis PIF8 has a minor effect on plant growth, tomato SlPIF8a plays a key role in the low red/far-red (R/FR) response. In contrast, SlPIF4 and SlPIF7s play minor roles in this process. We also investigated the tissue-specific low R/FR response in tomato seedlings and demonstrate that the aboveground organs exhibit a conserved response to low R/FR, which is regulated by SlPIFs. Our findings provide insights into PIF-mediated responses in crop plants, which may guide future breeding strategies to enhance yield under high planting densities.

In a Different Light: Irradiation-Induced Cuticular Wax Accumulation Fails to Reduce Cuticular Transpiration

The cuticle, an extracellular hydrophobic layer impregnated with waxy lipids, serves as the primary interface between plant leaves and their environment and is thus subject to external cues. A previous study on poplar leaves revealed that environmental conditions outdoors promoted the deposition of about 10-fold more cuticular wax compared to the highly artificial climate of a growth chamber. Given that light was the most significant variable distinguishing the two locations, we hypothesized that the quantity of light might serve as a key driver of foliar wax accumulation. Thus, this study aimed to isolate the factor of light quantity (photosynthetic photon flux density [PPFD]) from other environmental stimuli (such as relative humidity and ambient temperature) and explore its impact on cuticular wax deposition and subsequent rates of residual foliar transpiration in different species. Analytical investigations revealed a significant increase in cuticular wax amount with increasing PPFD (between 50 and 1200 µmol m-2 s-1) in both monocotyledonous (maize and barley) and dicotyledonous (tomato and bean) crop species, without altering the relative lipid composition. Despite the increased wax coverages, rates of foliar water loss did not decrease, further confirming that the residual (cuticular) transpiration is independent of the cuticular wax amount.

The biocontrol paradox

Biocontrol agents can significantly reduce the growth and performance of individual invasive plants but often have limited success in controlling invasions. Here, we suggest that some biocontrol failures may be understood by distinguishing between individual plant performance and the performance of groups growing in monoculture. The success of a group growing in monoculture can be maximised if individual plants limit their allocation of limited resources to competition. However, individual performance can be maximised by acquiring resources at the expense of neighbouring plants. Enemies such as herbivores can reduce the dominance of individual plants and limit resource allocation to competition. Thus, biocontrol could have the unexpected effect of increasing the performance of groups of invaders.

Shade-Induced Regulation of Cell Wall Thickening in Moso Bamboo: A Molecular Pathway Involving XTH Activity

How plants adapt to shade and perform specific morphogenesis is one of the secrets of the kingdom, and unravelling the underlying molecular mechanisms is crucial. Scanning electron microscope results have revealed that a low R/FR ratio (indicating shade conditions) inhibited the cell wall thickness of parenchyma cells and sieve tube cells of Moso bamboo (Phyllostachys edulis). Xyloglucan Endotransglucosylase/hydrolase3 (PheXTH3) was identified as a circadian rhythm gene responsive to a low R/FR ratio by qRT-PCR analysis, and it showed peak activity in the vascular system. PheXTH3 enhanced interfascicular fibre cell wall thickening and lignin accumulation in stable transgenic Arabidopsis thaliana lines. A low R/FR ratio downregulated PheXTH3 expression, subsequently suppressing cell wall thickening in vessel and interfascicular fibre cells. Both Yeast One-Hybrid experiments and Dual-LUC assays revealed that WOX3b1, AP2-39, and XTH3 may form a regulatory pathway. Collectively, we proposed a WOX3b1-AP2-39-XTH3 molecular pathway mediated by the ratio of low R/FR, which may regulate the thickening of cell wall in Moso bamboo.

Analysis of Targeted Supplemental-Waveband Lighting to Increase Yield and Quality of Lettuce Grown Indoors

Lighting from light-emitting diodes (LEDs) is one of the largest capital and operational expenses for indoor farms. While broad-waveband white LEDs are relatively inexpensive, their efficacy is lower than most narrow-band LEDs. This study aimed to determine how supplementing warm-white light with additional blue (400-499 nm), green (500-599 nm), red (600-699 nm), or far-red (700-750 nm) light influences lettuce (Lactuca sativa) growth and quality, and whether these effects are consistent across two photon flux densities (PFDs). We grew lettuce 'Rouxai' and 'Rex' under 90 or 180 µmol∙m-2∙s-1 of warm-white light supplemented with 40 or 80 µmol∙m-2∙s-1 of blue, green, red, far-red, or warm-white light. Supplemental far-red light increased biomass without reducing secondary metabolites. Supplemental red, far-red, and warm-white light maximized biomass, whereas additional blue light enhanced secondary metabolite concentrations and leaf coloration. Increasing the PFD increased biomass and phenolic content in 'Rouxai'. Notably, spectral effects were consistent across PFD levels, suggesting that higher PFDs do not diminish spectral responses. These results demonstrate the potential of enriching white light to increase yield or quality in controlled-environment agriculture and provide insights for cost-effective commercial production.

Harnessing Light Quality for Potato Production: Red and Blue Light as Key Regulators of Growth and Yield

This study aimed to investigate the effects of different light qualities on the morphological development, photosynthetic characteristics, stomatal structure, and yield of potato, providing theoretical and practical guidance for optimizing light environments in controlled agricultural systems and enhancing the efficient production of potato microtubers. Six light qualities-white, red, blue, green, far-red, and ultraviolet-were applied to systematically evaluate their effects. The results showed that light quality significantly influenced plant morphological traits and physiological metabolism. Red and blue light demonstrated the most pronounced promotive effects. Under red light, plant height and stem diameter increased by 57.47% and 31.10%, respectively, compared to white light, while single tuber weight increased by 20.09%, despite a 14.96% reduction in tuber number per plant. Blue light significantly enhanced chlorophyll content (by 20.35%) and stomatal density (adaxial stomata increased by 28.85%), leading to a 38.98% increase in tuber number, a 51.79% increase in single tuber weight, and a remarkable 110.37% improvement in total yield per plant, compared to white light. In contrast, green light moderately promoted photosynthesis in lower leaves, but reduced the total yield by 39.90%. Far-red (740 nm) and ultraviolet light (390 nm) severely inhibited plant growth and failed to induce tuber formation. Correlation analysis revealed a highly significant positive relationship between chlorophyll content, net photosynthetic rate, stomatal density, and yield per plant (r = 0.96, p < 0.01). This study systematically evaluated the independent effects of single light quality on potato growth and production for the first time, clarifying the regulatory advantages of red and blue light, and providing important theoretical insights for optimizing the light environment with red and blue light to improve potato microtuber yield. Furthermore, this study provides critical data to support future research on the dynamic optimization of light quality ratio.

A Comprehensive Analysis of Transcriptomics and Metabolomics Reveals Key Genes Involved in Terpenes Biosynthesis Pathway of Litsea cubeba Under Light and Darkness Treatments

Light is an important environmental regulator of plant secondary metabolism. Terpenoids, the most abundant secondary metabolites in plants, demonstrate a wide spectrum of biologically significant properties, encompassing antimicrobial, antioxidative, and analgesic activities. Litsea cubeba (Lour.) Pers., a core species within the Lauraceae family, exhibits notable pharmacological potential, including antimicrobial and antitumor effects. Here, we found that darkness treatment significantly suppressed terpenoid accumulation in L. cubeba fruits. To clarify the molecular mechanisms underlying the regulatory effect of light and darkness treatments on terpenoid biosynthesis, we conducted a comparative transcriptome profiling of L. cubeba fruits under light and darkness treatments. A total of 13,074 differentially expressed genes (DEGs) were identified among four sampling time points (L1-L2-L3-L4 vs. D1-D2-D3-D4). These genes were enriched in various pathways, with significant enrichment being observed in the terpenoid and other secondary metabolism pathways. Additionally, the enrichment of DEGs in L2 and D2 stages was further studied, and it was found that nine DEGs were significantly enriched in the monoterpene synthesis pathway. The weighted gene co-expression network analysis (WGCNA) showed that alcohol dehydrogenase (ADH), a key enzyme in terpenoid synthesis, had the same expression pattern as WRKY and NAC transcription factors, suggesting their involvement in the biosynthesis of terpenoids in L. cubeba. Expression profiling demonstrated that plastid-localized terpenoid pathway genes were markedly downregulated under darkness treatment. qRT-PCR validation of key genes (LcDXS3, LcHMGS1, LcMDS, and LcTPS19) confirmed the reliability of the transcriptome data, with LcDXS3 exhibiting pronounced declines in expression after 6 h (2.76-fold decrease) and 12 h (2.63-fold decrease) of darkness treatment. These findings provide novel insights into the photoregulatory mechanisms governing terpenoid metabolism in L. cubeba.

Light Adaptations of Ipomoea purpurea (L.) Roth: Functional Analysis of Leaf and Petal Interfaces

In low-light environments, plants face challenges in maximizing light acquisition for growth and reproduction. This study investigates the light-related adaptations of Ipomoea purpurea (L.) Roth, a climbing annual vine commonly known as morning glory. Field and laboratory analyses focused on the functionality of its leaf and petal interfaces. We observed that tendrils of I. purpurea enable it to climb surrounding structures, optimizing light capture. The leaves display absorption peaks at 400 nm and 700 nm, typical for plants that absorb light in the red and blue regions, with microstructural features like protrusions and folds aiding in self-cleaning. Petals, exhibiting grid-like patterns and specific reflectance spectra, attract pollinators such as bees. These functional traits, including self-cleaning mechanisms and specialized light absorption, highlight I. purpurea's unique strategies for thriving in low-light conditions. The findings offer valuable insights into the potential use of I. purpurea for urban landscaping, vertical greening, and ornamental plant selection.

Leaf Photosynthetic and Photoprotective Acclimation in the Ultraviolet-A1 and Blue Light Regions Follow a Continuous, Shallow Gradient

Although blue light is known to produce leaves with high photosynthetic capacity, the role of the blue-adjacent UV-A1 (350-400 nm) in driving leaf photosynthetic acclimation is less studied. Tomato plants were grown under hybrid red and blue (RB; 95/5 μmol m-2 s-1), as well as four treatments in which RB was supplemented with 50 μmol m-2 s-1 peaking at 365, 385, 410 and 450 nm, respectively. Acclimation to 365-450 nm led to a shallow gradient increase in trait values (i.e., photosynthetic capacity, pigmentation and dry mass content) as the peak wavelength increased. Furthermore, both UV-A1 and blue light grown leaves showed efficient photoprotection under high light intensity. When treated plants were transferred to fluctuating light for 5 days, leaves from all treatments showed increases in photosynthetic capacity, which were strongest in RB, followed by additional UV-A1 treatments; RB grown leaves showed reductions in maximum quantum yield of photosystem II, while UV-A1 grown leaves showed increases. We conclude that both UV-A1 and blue light effectively trigger photosynthetic and photoprotective acclimation, the extent of acclimation becoming stronger the longer the peak wavelength is. Acclimatory responses to UV-A1 and blue light are thus not distinct from one another, but follow a continuous gradient.

Genome-wide analysis of GRAS gene family and functional identification of a putative development and maintenance of axillary meristematic tissue gene PlGRAS22 in Paeonia ludlowii

The GRAS gene family, is instrumental in a myriad of biological processes, including plant growth and development. Our findings revealed that Paeonia ludlowii (Stern & G.Taylor) D.Y.Hong) harbored 45 PlGRAS genes, which are categorized into eight subfamilies. These genes are distributed across chromosomes 1 through 5, with their encoded proteins exhibiting variation in physicochemical properties. The promoter regions of the Paeonia ludlowii GRAS genes are enriched with cis-acting elements associated with growth and development, hormonal responses, and light signaling, among others. Among these genes, we have pinpointed PlGRAS22, which bears the closest resemblance to the AtLAS gene in Arabidopsis. Notably, this gene exhibits heightened expression levels within the LAS subfamily across a range of tissues, and it demonstrates an exceptionally robust response to treatments with exogenous gibberellins and cytokinins. The subdued expression of TRV2-PlGRAS22 within the flower buds of the Paeonia ludlowii has resulted in a diminished development of axillary bud primordia. Intriguingly, overexpression of PlGRAS22 in Arabidopsis led to an increase in the number of branches, highlighting its potential role in developmental processes. Furthermore, through the use of luciferase and yeast one-hybrid assays, we have demonstrated that PlGRAS22 interacts with the SPL transcription factor PlSPL3. The comprehensive analysis presented in this study lays a solid foundation for future investigations into the functional roles of Paeonia ludlowii GRAS genes and elucidates the underlying mechanisms governing growth and development in this species.

How to utilize far-red photons effectively: substitution or supplementation with photosynthetically active radiation? A case study of greenhouse lettuce

The addition of photosynthetically active radiation (PAR, 400-700 nm) with a specific quantity of far-red photons (FR, 700-750 nm) has been demonstrated to positively influence biomass accumulation and nutritional quality in greenhouse lettuce. However, current relevant studies seldom consider comprehensive and systematic comparisons of the efficacy of different approaches: substitution versus supplementation. The present work aimed to compare the two aforementioned strategies, evaluate how they impact plant growth, development and metabolic processes, and analyse the light use efficiency. In this study, loose-leaf lettuce (cv. 'Dasusheng') grown in a glass Venlo-type greenhouse was exposed to six supplementary light treatments, including white-red (WR) light-emitting diodes (LEDs), FR LEDs, and WR plus FR LEDs [WR130 + FR30 (the number was the photon flux density provided by WR or FR LEDs, respectively), WR130 + FR50, WR100 + FR30, and WR80 + FR50]. Lettuce that was grown only under natural light (NL) conditions was considered the control. According to the results of the present study, supplementary light increased biomass accumulation, and the contents of ascorbic acid, total soluble sugar, and starch relative to the control. Lettuce plants treated with WR130 + FR50 treatment presented the highest shoot and root fresh/dry weights, the highest total chlorophyll content, and the best nutritional quality, whereas the lettuce weight did not differ between the WR130 + FR30 and WR100 + FR30 treatments. Compared with that of NL, the stacking of thylakoids increased most intensely in response to the WR130 + FR50 and WR100 + FR30 treatments. Biomass accumulation, nutritional quality, stomatal area, chloroplast area, and expression of photosynthesis-related genes (LHCb, PsbA, rbcL, and rbcS) in lettuce plants, as well as light use efficiency, presented increasing-to-decreasing trends as the FR fraction increased. In conclusion, partially substituting PAR with FR photons coincidentally aligns with the supplementation of FR photons, and a supplementary FR fraction of 0.50 to 0.56 is suitable for greenhouse-grown lettuce under weak light conditions because of the increased photochemical efficiency, biomass accumulation, and carbohydrate content.

Phytochrome-mediated shade avoidance responses impact the structure and composition of the bacterial phyllosphere microbiome of Arabidopsis

The shade avoidance response triggers a dramatic promotion of elongation growth, accompanied by a significant reprogramming of metabolic pathways as plants seek to prevent overtopping and adapt to vegetative shade. Here we demonstrate that simulated vegetative shade results in significant changes in the structure and composition of the phyllosphere bacterial microbiome. Our study uncovered significant shifts in the diversity, occurrence, abundance and activity of bacteria within the phyllosphere microbiome. A comparison of responses in both wild-type plants and phytochrome mutants, which inherently exhibit a shade-avoidance phenotype, revealed both indirect responses to host plant physiology and direct responses to light among the microbiota. Hierarchical clustering of response patterns further suggested that over a third of the taxa constituting the core phyllosphere microbiome in our assay show some degree of response to vegetative shade. Bacteria that increased in abundance on plants with a shade-avoidance phenotype corresponded to genera associated with beneficial traits such as enhanced disease resistance and growth promotion. Our findings suggests that plants manipulate their phyllosphere microbiome under shade conditions as a strategy to optimise fitness when competing for light. We discuss the implications of our findings in terms of furthering our understanding of plant-microbe signalling in the shaping of the phyllosphere microbiome and the possibility of manipulating the phyllosphere microbiome for plant health in an agricultural setting at high planting densities.

Low light reduces saffron corm yield by inhibiting starch synthesis

The mechanisms by which low light modulates source-sink dynamics, affecting starch synthesis and formation of underground storage organs in geophyte, remain unclear. In this study, a two-year field experiment was conducted under natural light (NL) and low light (LL, 50% of NL intensity) conditions. LL resulted in a 23.66% and 21.23% reduction in corm yield in 2023 and 2024, respectively. Saffron plants under LL had larger, longer leaves with a higher proportion of dry weight (DW) compared to those under NL. Despite the marked inhibition of photosynthetic capacity, initial DW, sucrose and glucose concentrations in leaves were comparable to those under NL. Carbohydrate analysis revealed that starch concentration in the mother corms under LL decreased by 18.00% relative to NL, while sucrose and glucose concentrations increased by 28.44% and 68.44%, respectively. At the corm expansion stage, sucrose concentration in leaves and daughter corms under LL conditions was 17.32% and 54.08% higher than under NL, but glucose and starch concentrations in daughter corms were 22.08% and 10.22% lower, respectively. Additionally, the activity of invertase (INV), sucrose synthase in the decomposition direction (SUS) and ADP-glucose pyrophosphorylase (AGPase) in daughter corms were reduced under LL. LL also affected phytohormones concentrations, with increased levels of indole-3-acetic acid (IAA) and gibberellin (GA1) in LL leaves and daughter corms, and decreased abscisic acid (ABA) levels. Transcriptome and quantitative PCR analyses showed that LL upregulated the expression of genes involved in glycolysis and the tricarboxylic acid cycle in leaves, while downregulating CsSUS, CsINV1, CsAGPS1, CsZEP, and CsNCED, which are key to sucrose hydrolysis, starch synthesis, and ABA biosynthesis. Exogenous GA3 application further inhibited SUS, INV and AGPase activities in daughter corms, indicating that high GA concentrations impair carbohydrate metabolism in these organs. In conclusion, LL decreases saffron corm yield by promoting the allocation of reserves from mother corms to leaves at the seedling stage. By the period of the daughter corms enlargement, elevated GA1 and IAA levels and reduced ABA concentration promote leaf growth while inhibiting carbohydrate metabolism in daughter corms, thereby reducing sucrose transport from leaves to daughter corms and suppressing corm yield formation.

Lowering light intensity while extending photoperiod at a constant daily light integral synergistically interacts with warm temperature to enhance leaf expansion and crop yield in lettuce in the absence of far-red light

Introduction

Low light intensity and far-red (FR) light act as shade signals to induce specific morphological changes mediated by plant photoreceptors phytochromes (PHYs). Applying FR light or lowering light intensity over a longer photoperiod at a constant daily light integral (DLI) can increase crop yield by enhancing leaf expansion and photon capture. However, PHY activity is also dependent on temperature. We aimed to investigate the interactive effects of FR light, light intensity, photoperiod, and temperature on plant growth and morphology.

Methods

Lettuce (Lactuca sativa L.) 'Rex' was grown under three temperatures (20, 24, and 28 °C), each containing six light treatments [two levels of FR light (0 and 20% FR in total photon flux density from 400-800 nm) x three light intensities (150, 200, and 300 μmol m-2 s-1)]. As light intensity increased, photoperiod was reduced (150, 200, and 300 μmol m-2 s-1 with photoperiods of 24 h, 18 h, and 12 h, respectively) to maintain a constant DLI of 13 mol m-2 d-1.

Results

Under 0% FR light, the combination of lower light intensity/longer photoperiod and warmer temperature synergistically enhanced leaf expansion and photon capture; however, this interactive effect disappeared under 20% FR light. Stem elongation exhibited an opposite response pattern to leaf expansion; lower light intensity and warm temperature had a synergistic enhancement on stem elongation under 20% FR light, but not under 0% FR light. Shoot dry weight responded to the light and temperature factors similarly to total leaf area. Our results showed that plant biomass accumulation depended primarily on photon capture (r2 = 0.93), rather than single-leaf photosynthetic efficiency. Antioxidant capacity was generally reduced by lower light intensity and FR light, but the reduction could be compensated by warmer temperatures.

Discussion

Thus, we concluded that applying lower light intensity over a longer photoperiod, combined with warm temperature, can effectively maximize leaf expansion and crop yield while maintaining nutritional quality in the absence of FR light. However, under strong shade signals composed of FR light, low light intensity, and warm temperature, lettuce prioritizes stem elongation at the expense of leaf expansion, leading to reduced crop yield.

Intermittent Supplementation with Far-Red Light Accelerates Leaf and Bud Development and Increases Yield in Lettuce

Supplementation with far-red light in controlled environment agriculture production can enhance yield by triggering the shade avoidance syndrome. However, the effectiveness of this yield enhancement can be further improved through intermittent far-red light supplementation. In this study, the effects are explored of varying far-red light photon intensities and intermittent exposure durations-specifically at 5, 15, 30, and 45 min intervals-on the growth and development of lettuce (Lactuca sativa) in plant factories, while maintaining a constant red light photon flux and daily light integral. The results showed that compared to constant far-red light, 30 min intermittent far-red light increased yield by 11.7% and the number of leaves and buds by 2.66. Furthermore, the various metrics demonstrated that intermittent far-red light supplementation enhanced the overall effectiveness of the far-red light treatment. This was validated by analyzing phytohormone content and the expression of genes related to hormone metabolism and transport at the tip of the lettuce stems. Transcriptome analysis revealed that the differences in gene expression between treatments were primarily concentrated in genes related to signaling, hormone metabolism, and transport. Weighted Gene Co-expression Network Analysis identified the co-expression modules associated with yield and quality. Additionally, dynamic expression analysis showed genes involved to far-red photoreception, response, and hormone metabolism and transport exhibited optimal rhythmic responses only under 30 min intermittent far-red light supplementation. This suggests that intermittent far-red light irradiation at 30 min intervals is the most effective for activating far-red light signaling influencing hormone metabolism and transport, thereby accelerating the growth of lettuce leaves and buds and ultimately increasing yield.

Transgenic Cynodon dactylon overexpressing CdPIF4 alters plant development and cold stress tolerance

Bermudagrass [Cynodon dactylon (L.) Pers.] is widely used for soil remediation, livestock forage, and as turfgrass for sports fields, parks, and gardens due to its resilience and adaptability. However, low temperatures are critical factors limiting its geographical distribution and ornamental season, even preventing its safe overwintering. PHYTOCHROME-INTERACTING FACTOR 4 (PIF4) acts as a hub transcription factor, not only regulating various light responses but also integrating multiple external stimuli to improve plant productivity and architectural adaptation under adverse stress conditions, which makes it potential as a target gene. In this study, we cloned and characterized the CdPIF4 genes in bermudagrass. Expression analysis revealed that it is predominantly expressed in leaves and is regulated by photoperiod and cold stress. Using Agrobacterium-mediated genetic modification, we successfully generated CdPIF4a-overexpressing bermudagrass lines. Under cold stress at 4°C, these transgenic plants demonstrated enhanced cold tolerance, as indicated by higher relative water content, reduced membrane damage, and lower levels of lipid peroxidation levels. Photosynthetic analysis revealed that CdPIF4a-overexpressing plants exhibited higher light energy capture and transfer efficiency at this low temperature, with less energy loss. Additionally, they showed higher antioxidant enzyme activity and lower levels of reactive oxygen species levels. The responsive regulation of cold stress-related genes further validated the role of the CdPIF4a gene in enhancing cold tolerance. This study elucidates that CdPIF4 enhances cold tolerance in bermudagrass through physiological and molecular mechanisms, offering new insights and valuable genetic resources for advancing cold resistance research in bermudagrass and other grass species.

Identification and characterization of soybean phytochrome-interacting factors and their potential roles in abiotic stress

Phytochrome-interacting factors (PIFs) belong to a subfamily of the bHLH transcription factor family and play a pivotal role in plant light signal transduction, hormone signal pathways, and the modulation of plant responses to various abiotic stresses. The soybean (Glycine max) is a significant food crop, providing essential oil and nutrients. Additionally, it is a vital industrial raw material and a lucrative cash crop. Nevertheless, research on PIFs in soybean is relatively scarce. In this study, we conducted a comprehensive analysis of the gene structure, chromosomal location, conserved motifs, phylogenetic relationships, and expression patterns of the Glycine max PIF (GmPIF) genes. A total of 20 GmPIF genes were identified in the soybean genome. These are unevenly distributed on 12 soybean chromosomes. The analysis of gene duplication events revealed the existence of five pairs of duplicated genes within the GmPIF gene set. Conserved motif analysis demonstrated the presence of several conserved motifs that were generally aligned with the classification of PIF protein. Cis-acting elements in the GmPIF promoters were found to be responsive to light, heat, drought, and phytohormone signaling. The expression levels of certain GmPIF genes were significantly induced under shade, high temperature and drought stress conditions. The heterologous expression of the GmPIF6c/GmPIL1 in an Arabidopsis mutant resulted in a reduction in the elongation of the hypocotyl in response to shade. It is proposed that GmPIF6c/GmPIL1 may exert an inhibitory effect on shade avoidance. This study elucidated the evolution, structural and functions of GmPIF family members. CLINICAL TRIAL NUMBER: Not applicable.

Source-sink manipulations through shading, crop load and water deficit affect plant morphogenesis and carbon sink priorities leading to contrasted plant carbon status in grapevine

BACKGROUNDS AND AIMS

Shading, water deficit, and crop load shape plant development in a very plastic way. They directly influence the plant's carbon supply and demand to and from the different organs via metabolic, hydraulic and hormonal mechanisms. However, how the multiple environmental factors combine through these mechanisms and how they interplay with carbon status, vegetative and reproductive development and carbon assimilation of the plant needs to be investigated in the context of current climatic and technological constraints.

METHODS

With this aim, two experiments were conducted on potted grapevines, subjected to ten combinations of treatments. Axis organogenesis, berry characteristics at harvest (weight, number and total soluble content) and a series of leaf traits (gas exchanges, non-structural carbohydrate contents, water potential and SPAD values) were measured.

KEY RESULTS

Grapevine development showed different responses corresponding to different sink priorities: under shade, vegetative development was maintained at the expense of berries, whereas under high crop load and water deficit, berry growth was the priority sink. These responses were accompanied by changes in the specific leaf area in agreement with the shade avoidance syndrome. These different strategies affected the plant carbon status as estimated through the starch content in leaves. Leaf starch content was not affected by shade, while it decreased under water deficit and crop load conditions. Carbon assimilation was decreased under water deficit, low crop load and shading conditions. Hydraulic properties and leaf nitrogen content correlated withthis decrease while plant carbon status has a very low impact. Finally, no major interaction between the different types of constraints were observed both on morphological and functional variables.

CONCLUSIONS

Depending on the type of abiotic constraints, grapevine exhibits specific morphogenetic responses at plant and leaf levels. The absence of interaction between the different constraints showed that grapevine is able to exhibit independent responses to shade and water deficit. This result is of major importance to further design new agricultural systems facing multiple abiotic constraints, such as those in agroforestery and agrivolatic system.

The interactive effects between far-red light and temperature on lettuce growth and morphology diminish at high light intensity

Phytochromes (PHYs) play a dual role in sensing light spectral quality and temperature. PHYs can interconvert between the active Pfr form and inactive Pr form upon absorption of red (R) and far-red (FR) light (Photoconversion). In addition, active Pfr can be converted to inactive Pr in a temperature-dependent manner (Thermal Reversion). Recent studies have shown that FR light and temperature can interactively affect plant growth and morphology through co-regulating phytochrome activities. These studies were primarily conducted under relatively low light intensities. As light intensity increases, the impact of thermal reversion on phytochrome dynamics decreases. However, the light intensity dependency of the interactive effects between FR light and temperature on plant growth and morphology has not been characterized. In this study, lettuce (Lactuca sativa L.) 'Rex' was grown under two total photon flux densities (TPFD; 400-800 nm) (150 and 300 μmol m-2 s-1) x three temperatures (20, 24, and 28°C) x two light spectra (0 and 20% of FR light in TPFD). Our results showed that the effects of FR light on leaf, stem, and root elongation, leaf number, and leaf expansion were dependent on temperature at lower TPFD. However, the magnitude of the interactive effects between FR light and temperature on plant morphology decreased at higher TPFD. Particularly, at a lower TPFD, FR light stimulated leaf expansion and canopy photon capture only under a cooler temperature of 20°C. However, at a higher TPFD, FR light consistently increased total leaf area across all three temperatures. Plant biomass was more strongly correlated with the total number of photons intercepted by the leaves than with the photosynthetic activities of individual leaves. FR light decreased the contents of chlorophylls, carotenoids, flavonoids, and phenolics, as well as the total antioxidant capacity. In contrast, warmer temperatures and high light intensity increased the values of these parameters. We concluded that the interactive effects between FR light and temperature on plant growth and morphology diminished as total light intensity increased. Additionally, the combination of high light intensity, warm temperature, and FR light resulted in the highest crop yield and antioxidant capacity in lettuce.

Sextuple knockouts of a highly conserved and coexpressed AUXIN/INDOLE-3-ACETIC ACID gene set confer shade avoidance-like responses in Arabidopsis

AUXIN/INDOLE-3-ACETIC ACIDs are transcriptional repressors for auxin signalling. Aux/IAAs of Arabidopsis thaliana display some functional redundancy. The IAA3/SHY2 clade (IAA1, IAA2, IAA3 and IAA4) show strong sequence similarity, but no higher-order mutants have been reported. Here, through CRISPR/Cas9 genome editing, we generated loss-of-function iaa1/2/3/4 mutants. The quadruple mutants only exhibited a weak phenotype. Thus, we additionally knocked out IAA7/AXR2 and IAA16, which are coexpressed with IAA1/2/3/4. Remarkably, under white light control conditions, the iaa1/2/3/4/7/16 mutants exhibited a shade avoidance-like phenotype with over-elongated hypocotyls and petioles and hyponastic leaves. The sextuple mutants were highly sensitive to low light intensity, and the hypocotyl cells of the mutants were excessively elongated. Transcriptome profiling and qRT-PCR analyses revealed that the sextuple mutation upregulated IAA19/MSG2 and IAA29, two shared shade/auxin signalling targets. Besides, genes encoding cell wall-remodelling proteins and shade-responsive transcription regulators were upregulated. Using dual-luciferase reporter assays, we verified that IAA2/IAA7 targeted the promoters of cell wall-remodelling genes to inhibit their transcription. Our work indicates that the IAA1/2/3/4/7/16 gene set is required for the optimal integration of auxin and shade signalling. The mutants generated here should be valuable for exploring the complex interactions among signal sensors, transcription activators and transcription repressors during hormone/environmental responses.

Quantifying the effects of far-red light on lettuce photosynthesis and growth using a 3D modelling approach

In vertical farms, the supplementation of far-red light has been widely applied to regulate plant growth and development. However, the relative contribution of far-red to photosynthesis and plant growth in indoor production systems is not sufficiently quantified. This study quantify the photosynthesis and growth responses under different levels of supplemental far-red in lettuce using a 3D modelling approach. Lettuce were cultivated under either white light or red to far-red (R:FR) ratio of 1.6 or 0.8. Measurements of plant morphological traits, leaf photosynthesis, and organ fresh and dry mass were taken and the 3D modelling approach was used to simulate plant photosynthesis and biomass accumulation. Results showed that leaf elevation angle, leaf expansion rate, and plant height significantly increased at each growth stage as the R:FR ratio decreased. Far-red light also promoted plant growth, leading to an increase in the dry and fresh weight of lettuce throughout the entire growth period. However, plants cultivated at low R:FR showed reduced maximum Rubisco carboxylation rate and maximum electron transport rate, which indicated that far-red light reduced the photosynthetic capacity in lettuce. Nevertheless, 3D model simulations demonstrated that plants exposed to enhanced far-red light exhibited increased light interception and whole-plant photosynthesis. The integrated analysis of photosynthetic parameters and plant morphological changes on the photosynthetic rate of the whole plant indicated that the positive effects of plant morphological changes outweighed the negative impacts of photosynthetic parameters. These results implied that far-red light-induced morphological changes enhanced light interception and whole-plant photosynthesis, thereby increased lettuce yield.

Dependence of far-red light on red and green light at increasing growth of lettuce

Despite being outside of the traditionally defined photosynthetically active radiation (PAR) waveband (400-700 nm), far-red (FR; 700-799 nm) light can increase photosynthesis and induce shade-avoidance responses, which increases light interception and thus, whole-plant growth. However, it is unclear how the promotion of growth from FR light depends on PAR wavebands and specifically how the substitution of red light (600-699 nm) with green light (500-599 nm) influences the efficacy of FR light on increasing shoot biomass accumulation. To determine this, we grew red- and green-leaf lettuce (Lactuca sativa) at a fixed total photon flux density (PFD) with 12 different fractions of red, green, and FR light and the same PFD of blue (400-499 nm) light. We postulated that decreasing the red:FR by substituting FR light for green light, red light, or both would increase shoot fresh mass (FM) until a fraction beyond which growth (but not leaf area) would begin to decrease. Indeed, the substitution of red with FR light increased the leaf area of both cultivars, but FM was greatest under an FR fraction [FR/(R+FR)] of approximately 0.25. Under the greatest FR PFD, FM was similar to lettuce grown without FR light, despite having greater leaf surface area for light interception. Green light had less of an effect on leaf expansion and FM than FR light, and plant diameter and leaf area of red-leaf 'Rouxai' were the greatest when green light fully replaced red light at the highest FR PFD. We conclude that under a modest light intensity and blue PFD, a spectrum that includes up to 25% of far-red photons can increase leaf area and biomass accumulation. While leaf area may continue to increase at higher far-red fractions, fresh mass does not, and plant quality begins to deteriorate.

Role of auxin and gibberellin under low light in enhancing saffron corm starch degradation during sprouting

The mechanisms by which low light accelerates starch macromolecules degradation by auxin and gibberellin (GA) in geophytes during sprouting remain largely unknown. This study investigated these mechanisms in saffron, grown under low light (50 μmol m-2 s-1) and optimal light (200 μmol m-2 s-1) during the sprouting phase. Low light reduced starch concentration in corms by 34.0 % and increased significantly sucrose levels in corms, leaves, and leaf sheaths by 19.2 %, 9.8 %, and 134.5 %, respectively. This was associated with a 33.3 % increase in GA3 level and enhanced auxin signaling. Leaves synthesized IAA under low light, which was transported to the corms to promote GA synthesis, facilitating starch degradation through a 228.7 % increase in amylase activity. Exogenous applications of GA and IAA, as well as the use of their synthesis or transport inhibitors, confirmed the synergistic role of these phytohormones in starch metabolism. The unigenes associated with GA biosynthesis and auxin signaling were upregulated under low light, highlighting the IAA-GA module role in starch degradation. Moreover, increased respiration rate and invertase activity, crucial for ATP biosynthesis and the tricarboxylic acid cycle, were consistent with the upregulation of related unigenes, suggesting that auxin signaling accelerates starch degradation by promoting energy metabolism. Upregulated of auxin signaling (CsSAUR32) and starch metabolism (CsSnRK1) genes under low light suggests that auxin directly regulate starch degradation in saffron corms. This study elucidates that low light modulates auxin and GA interactions to accelerate starch degradation in saffron corms during sprouting, offering insights for optimizing agricultural practices under suboptimal light conditions.

Shading increases the susceptibility of alfalfa (Medicago sativa) to Pst. DC3000 by inhibiting the expression of MsIFS1

Shade is a stressful factor for most plants, leading to both morphological and physiological changes, and often resulting in increased susceptibility to diseases and pathogen attacks. Our study revealed that the isoflavonoid synthesis pathway was inhibited in alfalfa under shade, resulting in a significant reduction in disease resistance. Overexpression of MsIFS1, a switch regulator in isoflavonoid synthesis, led to a notable increase in endogenous isoflavonoids and enhanced resistance to Pseudomonas syringae pv. tomato DC3000 (Pst. DC3000). Conversely, MsIFS1-RNAi had the opposite effect. Yeast one-hybrid (Y1H) assays revealed that the shade-responsive transcription factor MsWRKY41 could directly bind to the MsIFS1 promoter. This interaction was confirmed through Dual-Luciferase Reporter (Dual-LUC) and Chromatin Immunoprecipitation coupled with quantitative PCR (ChIP-qPCR) assays, both in vitro and in vivo. Overexpression of MsWRKY41 not only enhanced alfalfa's resistance to Pst. DC3000 but also promoted the accumulation of isoflavonoids. Additionally, yeast two-hybrid (Y2H) assays showed that neither MsWRKY41 nor MsIFS1 physically interacted with the Type III effector (T3SE) HopZ1 secreted by Pst. DC3000, suggesting that the MsWRKY41-MsIFS1 module is not a direct target of HopZ1. These findings provide valuable theoretical insights and genetic resources for the development of shade-tolerant alfalfa with enhanced disease resistance.

Unravelling drivers of local adaptation through evolutionary functional-structural plant modelling

Local adaptation to contrasting environmental conditions along environmental gradients is a widespread phenomenon in plant populations, yet we lack a mechanistic understanding of how individual agents of selection contribute to this evolutionary process. Here, we developed a novel evolutionary functional-structural plant (E-FSP) model that recreates local adaptation of virtual plants along an environmental gradient. First, we validate the model by testing if it can reproduce two elevational ecotypes of Dianthus carthusianorum occurring in the Swiss Alps. Second, we use the E-FSP model to disentangle the relative contribution of abiotic (temperature) and biotic (competition and pollination) selection pressures to elevational adaptation in D. carthusianorum. Our results suggest that elevational adaptation in D. carthusianorum is predominantly driven by the abiotic environment. The model reproduced the qualitative differences between the elevational ecotypes in two phenological (germination and flowering time) and one morphological trait (stalk height), as well as qualitative differences in four performance variables that emerge from G × E interactions (flowering time, number of stalks, rosette area and seed production). Our approach shows how E-FSP models incorporating physiological, ecological and evolutionary mechanisms can be used in combination with experiments to examine hypotheses about patterns of adaptation observed in the field.

Far-red light increases maize volatile emissions in response to volatile cues from neighbouring plants

Plants perceive the presence and defence status of their neighbours through light and volatile cues, but how plants integrate both stimuli is poorly understood. We investigated if and how low Red to Far red light (R:FR) ratios, indicative of shading or canopy closure, affect maize (Zea mays) responses to herbivore-induced plant volatiles (HIPVs), including the green leaf volatile (Z)-3-hexenyl acetate. We modulated light signalling and perception by using FR supplementation and a phyB1phyB2 mutant, and we determined volatile release as a response readout. To gain mechanistic insights, we examined expression of volatile biosynthesis genes, hormone accumulation, and photosynthesis. Exposure to a full blend of HIPVs or (Z)-3-hexenyl acetate induced maize volatile release. Short-term FR supplementation increased this response. In contrast, prolonged FR supplementation or constitutive phytochrome B inactivation in phyB1phyB2 plants showed the opposite response. Short-term FR supplementation enhanced photosynthesis and stomatal conductance and (Z)-3-hexenyl acetate-induced JA-Ile levels. We conclude that a FR-enriched light environment can prompt maize plants to respond more strongly to HIPVs emitted by neighbours, which might be explained by changes in photosynthetic processes and phytochrome B signalling. Our findings reveal interactive responses to light and volatile cues with potentially important consequences for plant-plant and plant-herbivore interactions.

Green light is similarly effective in promoting plant biomass as red/blue light: a meta-analysis

Whether green light promotes or represses plant growth is an unresolved but important question, warranting a global meta-analysis of published data. We collected 136 datasets from 48 publications on 17 crop species, and calculated the green light effect for a range of plant traits. For each trait the effect was calculated as the ratio between the trait value attained under a red/blue background light plus green, divided by the value attained under the background light only, both having the same light intensity. Generally, green light strongly increased intrinsic water use efficiency (15%), the shoot-to-root ratio (13%), and decreased stomatal conductance (-15%). Moreover, green light increased fresh weight to a small extent (4%), but not plant dry weight, resulting in a reduced dry matter content (-2%). Hence, green light is similarly effective at increasing biomass as red and blue light. Green light also showed to increase leaf area (7%) and specific leaf area (4%; i.e. thinner leaves). Furthermore, effects of green light were species-dependent, with positive effects on biomass for lettuce and microgreens, and negative effects in basil and tomato. Our data suggest that future research should focus on the role of green light in modulating water loss, its putative role as a shade signal, and the causes for its species-specific effects on crop biomass.

Biological macromolecules mediated by environmental signals affect flowering regulation in plants: A comprehensive review

Flowering time is a crucial developmental stage in the life cycle of plants, as it determines the reproductive success and overall fitness of the organism. The precise regulation of flowering time is influenced by various internal and external factors, including genetic, environmental, and hormonal cues. This review provided a comprehensive overview of the molecular mechanisms and regulatory pathways of biological macromolecules (e.g. proteins and phytohormone) and environmental factors (e.g. light and temperature) involved in the control of flowering time in plants. We discussed the key proteins and signaling pathways that govern the transition from vegetative growth to reproductive development, highlighting the intricate interplay between genetic networks, environmental cues, and phytohormone signaling. Additionally, we explored the impact of flowering time regulation on plant adaptation, crop productivity, and agricultural practices. Moreover, we summarized the similarities and differences of flowering mechanisms between annual and perennial plants. Understanding the mechanisms underlying flowering time control is not only essential for fundamental plant biology research but also holds great potential for crop improvement and sustainable agriculture.

Light at the end of the tunnel: integrating signaling pathways in the coordination of lateral root development

Root system architecture (RSA) encompasses a range of physical root attributes, including the lateral roots (LRs), root hairs and adventitious roots, in addition to the primary or main root. This overall structure is a crucial trait for efficient water and mineral capture alongside providing anchorage to the plant in the soil and is vital for plant productivity and fitness. RSA dynamics are dependent upon various environmental cues such as light, soil pH, water, mineral nutrition and the belowground microbiome. Among these factors, light signaling through HY5 significantly influences the flexibility of RSA by controlling different signaling pathways that converge at photoreceptors-mediated signaling, also present in the 'hidden half'. Furthermore, several phytohormones also drive the formation and emergence of LRs and are critical to harmonize intra and extracellular stimuli in this regard. This review endeavors to elucidate the impact of these interactions on RSA, with particular emphasis on LR development and to enhance our understanding of the fundamental mechanisms governing the light-regulation of LR growth and physiology.

Supplementary Far-Red Light for Photosynthetic Active Radiation Differentially Influences the Photochemical Efficiency and Biomass Accumulation in Greenhouse-Grown Lettuce

Adding far-red (FR, 700-800 nm) light to photosynthetic active radiation (400-700 nm) proved to be a possible approach to increasing plant biomass accumulation for lettuce production in indoor vertical farms with artificial lighting as a sole-source lighting. However, how FR light addition influences plant growth, development, and metabolic processes and the optimal value of FR photon flux density for greenhouse-grown lettuce under sunlight are still unclear. This work aims to quantify the value of supplementary FR light with different intensities on lettuce morphological and physiological characteristics in a greenhouse. Lettuce 'Dasusheng' (Lactuca sativa L.) was grown in a greenhouse under seven light treatments, including white plus red LEDs with FR photon flux density at 0, 10, 30, 50, 70, and 90 µmol m-2 s-1 (WR, WR + FR10, WR + FR30, WR + FR50, WR + FR70, and WR + FR90, respectively), and lettuce grown with sunlight only was marked as natural light (NL). FR light addition improved the electron transport flux per cross section and performance index (PIabs, PItotal) and decreased the changes in relative variable fluorescence of lettuce leaves compared to plants under NL. Specifically, the PIabs of lettuce leaves were 41%, 41%, 38%, 33%, 26%, and 25% lower under control than in plants under treatments WR + FR90, WR + FR70, WR + FR50, WR + FR30, WR + FR10, and WR, respectively. Leaf number, leaf area, and biomass accumulation of lettuce followed a quadratic function with increasing FR light intensity and were the highest under treatment WR + FR50. The shoot fresh weight and dry weight of lettuce were increased by 111% and 275%, respectively, under treatment WR + FR50 compared to NL. The contents of vitamin C, reducing sugar, total soluble sugar, and starch in lettuce showed a similar trend with biomass accumulation. In conclusion, with commonly used photosynthetic photon flux density (PPFD, 400-700 nm) around 200 μmol m-2 s-1, supplementary FR light intensity of 30~50 μmol m-2 s-1 was suggested to enhance the photochemistry efficiency, biomass accumulation, and carbohydrates' contents in greenhouse-grown lettuce.

RcOST1L phosphorylates RcPIF4 for proteasomal degradation to promote flowering in rose

Flowering is a vital agronomic trait that determines the economic value of most ornamental plants. The flowering time of rose (Rosa spp.) is photoperiod insensitive and is thought to be tightly controlled by light intensity, although the detailed molecular mechanism remains unclear. Here, we showed that rose plants flower later under low-light (LL) intensity than under high-light (HL) intensity, which is mainly related to the stability of PHYTOCHROME-INTERACTING FACTORs (RcPIFs) mediated by OPEN STOMATA 1-Like (RcOST1L) under different light intensity regimes. We determined that HL conditions trigger the rapid phosphorylation of RcPIFs before their degradation. A yeast two-hybrid screen identified the kinase RcOST1L as interacting with RcPIF4. Moreover, RcOST1L positively regulated rose flowering and directly phosphorylated RcPIF4 on serine 198 to promote its degradation under HL conditions. Additionally, phytochrome B (RcphyB) enhanced RcOST1L-mediated phosphorylation of RcPIF4 via interacting with the active phyB-binding motif. RcphyB was activated upon HL and recruited RcOST1L to facilitate its nuclear accumulation, in turn leading to decreased stability of RcPIF4 and flowering acceleration. Our findings illustrate how RcPIF abundance safeguards proper rose flowering under different light intensities, thus uncovering the essential role of RcOST1L in the RcphyB-RcPIF4 module in flowering.

Combining modeling and experimental approaches for developing rice-oil palm agroforestry systems

Monoculture systems in South East Asia are facing challenges due to climate change-induced extreme weather conditions, leading to significant annual production losses in rice and oil palm. To ensure the stability of these crops, innovative strategies like resilient agroforestry systems need to be explored. Converting oil palm (Elaeis guineensis) monocultures to rice (Oryza sativa)-based intercropping systems shows promise, but achieving optimal yields requires adjusting palm density and identifying rice varieties adapted to changes in light quantity and diurnal fluctuation. This paper proposes a methodology that combines a model of light interception with indoor experiments to assess the feasibility of rice-oil palm agroforestry systems. Using a functional-structural plant model of oil palm, the planting design was optimized to maximize transmitted light for rice. Simulation results estimated the potential impact on oil palm carbon assimilation and transpiration. In growth chambers, simulated light conditions were replicated with adjustments to intensity and daily fluctuation. Three light treatments independently evaluated the effects of light intensity and fluctuation on different rice accessions. The simulation study revealed intercropping designs that significantly increased light transmission for rice cultivation with minimal decrease in oil palm densities compared with conventional designs. The results estimated a loss in oil palm productivity of less than 10%, attributed to improved carbon assimilation and water use efficiency. Changes in rice plant architecture were primarily influenced by light quantity, while variations in yield components were attributed to light fluctuations. Different rice accessions exhibited diverse responses to light fluctuations, indicating the potential for selecting genotypes suitable for agroforestry systems.

The PHYB-FOF2-VOZ2 module functions to fine-tune flowering in response to changes in light quality by modulating FLC expression in Arabidopsis

Proper timing of flowering under different environmental conditions is critical for plant propagation. Light quality is a pivotal environmental cue that plays a critical role in flowering regulation. Plants tend to flower late under light with a high red (R)/far-red (FR) light ratio but early under light with a low R/FR light ratio. However, how plants fine-tune flowering in response to changes in light quality is not well understood. Here, we demonstrate that F-box of Flowering 2 (FOF2), an autonomous pathway-related regulator, physically interacts with VASCULAR PLANT ONE-ZINC FINGER 1 and 2 (VOZ1 and VOZ2), which are direct downstream factors of the R/FR light receptor phytochrome B (PHYB). We show that PHYB physically interacts with FOF2, mediates stabilization of the FOF2 protein under FR light and end-of-day FR light, and enhances FOF2 binding to VOZ2, which leads to degradation of VOZ2 by SCFFOF2 E3 ligase. By contrast, PHYB mediates degradation of FOF2 protein under R light and end-of-day R light. Genetic interaction studies demonstrated that FOF2 functions downstream of PHYB to promote FLC expression and inhibit flowering under both high R/FR light and simulated shade conditions, processes that are partially dependent on VOZ proteins. Taken together, our findings suggest a novel mechanism whereby plants fine-tune flowering time through a PHYB-FOF2-VOZ2 module that modulates FLC expression in response to changes in light quality.

Nutrient levels control root growth responses to high ambient temperature in plants

Global warming will lead to significantly increased temperatures on earth. Plants respond to high ambient temperature with altered developmental and growth programs, termed thermomorphogenesis. Here we show that thermomorphogenesis is conserved in Arabidopsis, soybean, and rice and that it is linked to a decrease in the levels of the two macronutrients nitrogen and phosphorus. We also find that low external levels of these nutrients abolish root growth responses to high ambient temperature. We show that in Arabidopsis, this suppression is due to the function of the transcription factor ELONGATED HYPOCOTYL 5 (HY5) and its transcriptional regulation of the transceptor NITRATE TRANSPORTER 1.1 (NRT1.1). Soybean and Rice homologs of these genes are expressed consistently with a conserved role in regulating temperature responses in a nitrogen and phosphorus level dependent manner. Overall, our data show that root thermomorphogenesis is a conserved feature in species of the two major groups of angiosperms, monocots and dicots, that it leads to a reduction of nutrient levels in the plant, and that it is dependent on environmental nitrogen and phosphorus supply, a regulatory process mediated by the HY5-NRT1.1 module.

Phytochrome-interacting factors play shared and distinct roles in regulating shade avoidance responses in Populus trees

Plants adjust their growth and development in response to changing light caused by canopy shade. The molecular mechanisms underlying shade avoidance responses have been widely studied in Arabidopsis and annual crop species, yet the shade avoidance signalling in woody perennial trees remains poorly understood. Here, we first showed that PtophyB1/2 photoreceptors serve conserved roles in attenuating the shade avoidance syndrome (SAS) in poplars. Next, we conducted a systematic identification and characterization of eight PtoPIF genes in Populus tomentosa. Knocking out different PtoPIFs led to attenuated shade responses to varying extents, whereas overexpression of PtoPIFs, particularly PtoPIF3.1 and PtoPIF3.2, led to constitutive SAS phenotypes under normal light and enhanced SAS responses under simulated shade. Notably, our results revealed that distinct from Arabidopsis PIF4 and PIF5, which are major regulators of SAS, the Populus homologues PtoPIF4.1 and PtoPIF4.2 seem to play a minor role in controlling shade responses. Moreover, we showed that PtoPIF3.1/3.2 could directly activate the expression of the auxin biosynthetic gene PtoYUC8 in response to shade, suggesting a conserved PIF-YUC-auxin pathway in modulating SAS in tree. Overall, our study provides insights into shared and divergent functions of PtoPIF members in regulating various aspects of the SAS in Populus.

Effect of Far-Red Light on Biomass Accumulation, Plant Morphology, and Phytonutrient Composition of Ruby Streaks Mustard at Microgreen, Baby Leaf, and Flowering Stages

Far-red (FR) light influences plant development significantly through shade avoidance response and photosynthetic modulation, but there is limited knowledge on how FR treatments influence the growth and nutrition of vegetables at different maturity stages in controlled environment agriculture (CEA). Here, we comprehensively investigated the impacts of FR on the yield, morphology, and phytonutrients of ruby streaks mustard (RS) at microgreen, baby leaf, and flowering stages. Treatments including white control, white with supplementary FR, white followed by singularly applied FR, and enhanced white (WE) matching the extended daily light integral (eDLI) of FR were designed for separating the effects of light intensity and quality. Results showed that singular and supplemental FR affected plant development and nutrition similarly throughout the growth cycle, with light intensity and quality playing varying roles at different stages. Specifically, FR did not affect the fresh and dry weight of microgreens but increased those values for baby leaves, although not as effectively as WE. Meanwhile, FR caused significant morphological change and accelerated the development of leaves, flowers, and seedpods more dramatically than WE. With regard to phytonutrients, light treatments affected the metabolomic profiles for baby leaves more dramatically than microgreens and flowers. FR decreased the glucosinolate and anthocyanin contents in microgreens and baby leaves, while WE increased the contents of those compounds in baby leaves. This study illustrates the complex impacts of FR on RS and provides valuable information for selecting optimal lighting conditions in CEA.

Temporal control of the Aux/IAA genes BnIAA32 and BnIAA34 mediates Brassica napus dual shade responses

Precise responses to changes in light quality are crucial for plant growth and development. For example, hypocotyls of shade-avoiding plants typically elongate under shade conditions. Although this typical shade-avoidance response (TSR) has been studied in Arabidopsis (Arabidopsis thaliana), the molecular mechanisms underlying shade tolerance are poorly understood. Here we report that B. napus (Brassica napus) seedlings exhibit dual shade responses. In addition to the TSR, B. napus seedlings also display an atypical shade response (ASR), with shorter hypocotyls upon perception of early-shade cues. Genome-wide selective sweep analysis indicated that ASR is associated with light and auxin signaling. Moreover, genetic studies demonstrated that phytochrome A (BnphyA) promotes ASR, whereas BnphyB inhibits it. During ASR, YUCCA8 expression is activated by early-shade cues, leading to increased auxin biosynthesis. This inhibits hypocotyl elongation, as young B. napus seedlings are highly sensitive to auxin. Notably, two non-canonical AUXIN/INDOLE-3-ACETIC ACID (Aux/IAA) repressor genes, BnIAA32 and BnIAA34, are expressed during this early stage. BnIAA32 and BnIAA34 inhibit hypocotyl elongation under shade conditions, and mutations in BnIAA32 and BnIAA34 suppress ASR. Collectively, our study demonstrates that the temporal expression of BnIAA32 and BnIAA34 determines the behavior of B. napus seedlings following shade-induced auxin biosynthesis.

Dynamic plant spacing in tomato results in high yields while mitigating the reduction in fruit quality associated with high planting densities

High planting densities achieve high light interception and harvestable yield per area but at the expense of product quality. This study aimed to maintain high light interception without negative impacts on fruit quality. Dwarf tomato was grown at four densities in a climate-controlled room-at two constant densities (high and low) and two dynamic spacing treatments (maintaining 90% and 75% ground coverage by decreasing planting density in 3-4 steps)-resulting in ~100, 19, 54, and 41 plants/m2 averaged over 100 days of cultivation, respectively. Constant high density resulted in the highest light use efficiency (LUE; 7.7 g fruit fresh weight per mol photons incident on the canopy) and the highest harvestable fruit yield (11.1 kg/m2) but the lowest fruit size and quality. Constant low density resulted in the lowest LUE and yield (2.3 g/mol and 3.2 kg/m2, respectively), but higher fruit size and quality than high density. Compared to low density, maintaining 90% ground coverage increased yield (9.1 kg/m2) and LUE (6.4 g/mol). Maintaining 75% ground coverage resulted in a 7.2 kg/m2 yield and 5.1 g/mol LUE. Both dynamic spacing treatments attained the same or slightly reduced fruit quality compared to low density. Total plant weight per m2 increased with planting density and saturated at a constant high density. Assimilate shortage at the plant level and flower abortion lowered harvestable fruit yield per plant, sweetness, and acidity under constant high density. Harvestable fruit yield per plant was the highest under dynamic spacing and low density. Under constant high density, morphological responses to lower light availability per plant-i.e., higher specific leaf area, internode elongation, and increased slenderness-coincided with the improved whole-plant LUE (g plant dry weight per mol photons). We conclude that a constant high planting density results in the highest harvestable fruit yield per area, but with reduced fruit quality. Dynamic spacing during cultivation produces the same fruit quality as constant low density, but with more than double the harvestable yield per area.

Influence of additional far-red light on the photosynthetic and growth parameters of lettuce plants and the resistance of the photosynthetic apparatus to high irradiance

The effects of additional far-red light (FRL) on the photosynthetic and growth parameters of Lactuca sativa plants grown for 30 d and on the photosynthetic activity of the plants under high irradiance [4 h; 1,500 μmol(photon) m-2 s-1] were studied. The plants were grown under coloured light-emitting diodes at a ratio of red light (RL): blue light (BL): green light (GL): far-red light (FRL) = 0.7:1:0.3:0.4 or RL:BL:GL:FRL = 0.7:1:0.3:0.8 (test, T). Additional FRL led to an increase in plant biomass, height, and leaf area but to a decrease in photosynthesis and respiration rates. However, PSII activity was greater in plants with additional FRL. It is suggested that the increase in biomass occurred mainly due to an increase in leaf area but not in photosynthesis. In addition, PSII in the experiment was less resistant to high irradiance. The possible direct and indirect influences of the FRL on growth and photosynthesis were considered.

Environmental regulation of male fertility is mediated through Arabidopsis transcription factors bHLH89, 91, and 10

Formation of functional pollen and successful fertilization rely on the spatial and temporal regulation of anther and pollen development. This process responds to environmental cues to maintain optimal fertility despite climatic changes. Arabidopsis transcription factors basic helix-loop-helix (bHLH) 10, 89, and 91 were previously thought to be functionally redundant in their control of male reproductive development, however here we show that they play distinct roles in the integration of light signals to maintain pollen development under different environmental conditions. Combinations of the double and triple bHLH10,89,91 mutants were analysed under normal (200 μmol m-2 s-1) and low (50 μmol m-2 s-1) light conditions to determine the impact on fertility. Transcriptomic analysis of a new conditionally sterile bhlh89,91 double mutant shows differential regulation of genes related to sexual reproduction, hormone signal transduction, and lipid storage and metabolism under low light. Here we have shown that bHLH89 and bHLH91 play a role in regulating fertility in response to light, suggesting that they function in mitigating environmental variation to ensure fertility is maintained under environmental stress.

The Fitting of the OJ Phase of Chlorophyll Fluorescence Induction Based on an Analytical Solution and Its Application in Urban Heat Island Research

Chlorophyll (Chl) fluorescence induction (FI) upon a dark-light transition has been widely analyzed to derive information on initial events of energy conversion and electron transfer in photosystem II (PSII). However, currently, there is no analytical solution to the differential equation of QA reduction kinetics, raising a doubt about the fitting of FI by numerical iteration solution. We derived an analytical solution to fit the OJ phase of FI, thereby yielding estimates of three parameters: the functional absorption cross-section of PSII (σPSII), a probability parameter that describes the connectivity among PSII complexes (p), and the rate coefficient for QA- oxidation (kox). We found that σPSII, p, and kox exhibited dynamic changes during the transition from O to J. We postulated that in high excitation light, some other energy dissipation pathways may vastly outcompete against excitation energy transfer from a closed PSII trap to an open PSII, thereby giving the impression that connectivity seemingly does not exist. We also conducted a case study on the urban heat island effect on the heat stability of PSII using our method and showed that higher-temperature-acclimated leaves had a greater σPSII, lower kox, and a tendency of lower p towards more shade-type characteristics.

Impact of low light intensity on biomass partitioning and genetic diversity in a chickpea mapping population

With recent climatic changes, the reduced access to solar radiation has become an emerging threat to chickpeas' drought tolerance capacity under rainfed conditions. This study was conducted to assess, and understand the effects of reduced light intensity and quality on plant morphology, root development, and identifying resistant sources from a Sonali/PBA Slasher mapping population. We evaluated 180 genotypes, including recombinant inbred lines (RILs), parents, and commercial checks, using a split-block design with natural and low light treatments. Low light conditions, created by covering one of the two benches inside two growth chambers with a mosquito net, reduced natural light availability by approximately 70%. Light measurements encompassed photosynthetic photon flux density, as well as red, and far-red light readings taken at various stages of the experiment. The data, collected from plumule emergence to anthesis initiation, encompassed various indices relevant to root, shoot, and carbon gain (biomass). Statistical analysis examined variance, treatment effects, heritability, correlations, and principal components (PCs). Results demonstrated significant reductions in root biomass, shoot biomass, root/shoot ratio, and plant total dry biomass under suboptimal light conditions by 52.8%, 28.2%, 36.3%, and 38.4%, respectively. Plants also exhibited delayed progress, taking 9.2% longer to produce their first floral buds, and 19.2% longer to commence anthesis, accompanied by a 33.4% increase in internodal lengths. A significant genotype-by-environment interaction highlighted differing genotypic responses, particularly in traits with high heritability (> 77.0%), such as days to anthesis, days to first floral bud, plant height, and nodes per plant. These traits showed significant associations with drought tolerance indicators, like root, shoot, and plant total dry biomass. Genetic diversity, as depicted in a genotype-by-trait biplot, revealed contributions to PC1 and PC2 coefficients, allowing discrimination of low-light-tolerant RILs, such as 1_52, 1_73, 1_64, 1_245, 1_103, 1_248, and 1_269, with valuable variations in traits of interest. These RILs could be used to breed desirable chickpea cultivars for sustainable production under water-limited conditions. This study concludes that low light stress disrupts the balance between root and shoot morphology, diverting photosynthates to vegetative structures at the expense of root development. Our findings contribute to a better understanding of biomass partitioning under limited-light conditions, and inform breeding strategies for improved drought tolerance in chickpeas.

Cryptochrome 1b represses gibberellin signaling to enhance lodging resistance in maize

Maize (Zea mays L.) is one of the most important crops worldwide. Photoperiod, light quality, and light intensity in the environment can affect the growth, development, yield, and quality of maize. In Arabidopsis (Arabidopsis thaliana), cryptochromes are blue-light receptors that mediate the photocontrol of stem elongation, leaf expansion, shade tolerance, and photoperiodic flowering. However, the function of maize cryptochrome ZmCRY in maize architecture and photomorphogenic development remains largely elusive. The ZmCRY1b transgene product can activate the light signaling pathway in Arabidopsis and complement the etiolation phenotype of the cry1-304 mutant. Our findings show that the loss-of-function mutant of ZmCRY1b in maize exhibits more etiolation phenotypes under low blue light and appears slender in the field compared with wild-type plants. Under blue and white light, overexpression of ZmCRY1b in maize substantially inhibits seedling etiolation and shade response by enhancing protein accumulation of the bZIP transcription factors ELONGATED HYPOCOTYL 5 (ZmHY5) and ELONGATED HYPOCOTYL 5-LIKE (ZmHY5L), which directly upregulate the expression of genes encoding gibberellin (GA) 2-oxidase to deactivate GA and repress plant height. More interestingly, ZmCRY1b enhances lodging resistance by reducing plant and ear heights and promoting root growth in both inbred lines and hybrids. In conclusion, ZmCRY1b contributes blue-light signaling upon seedling de-etiolation and integrates light signals with the GA metabolic pathway in maize, resulting in lodging resistance and providing information for improving maize varieties.

Estimation of time course in phytochrome photostationary state under artificial light for controlling plant growth

A model to estimate the time course of a phytochrome photostationary state (PSS) under an arbitrary light environment was developed. It is the solution of differential equations that use conversion rates between active and inactive forms of previously reported phytochromes. The model estimated that 90% of the PSS changes were completed using approximately 3.4 mmol m-2 of integrated end-of-day far-red light irradiation, and 99% of the changes were completed with approximately 6.9 mmol m-2 irradiation. Although these values were affected by the spectral photon flux density of the far-red light. They were consistent with previous results that examined dose requirements of far-red irradiation. The rate at which the PSS changes approached equilibrium was maximized under a red light, followed by far-red, green, and blue light. This estimation method could be used to control phytochrome responses for horticulture via artificial lighting.

Exogenous Sucrose Confers Low Light Tolerance in Tomato Plants by Increasing Carbon Partitioning from Stems to Leaves

Low light (LL) stress adversely affects plant growth and productivity. The role of exogenous sucrose in enhancing plant LL tolerance was investigated by spraying sucrose on tomato (Solanum lycopersicum L.) leaves. This study employed physiological and molecular approaches to identify the underlying mechanisms. Exogenous sucrose activated sucrose hydrolysis-related enzyme activity and upregulated genes encoding sucrose and hexose transporters in mature leaves, decreasing endogenous sucrose levels and promoting sucrose unloading during LL. Stem-related genes associated with sucrose synthesis and transport were also upregulated, enhancing sucrose phloem loading. Furthermore, sucrose from stems activated sucrose unloading in sink leaves, forming a feed-forward loop to sustain sucrose flow during LL. This led to increased nonstructural carbohydrates (NSCs), improved energy metabolism, and enhanced protein synthesis in leaves, ultimately boosting photosynthesis and fruit yield after light recovery. These findings highlight how exogenous sucrose enhances LL tolerance in tomatoes by increasing the transport of NSCs from stems to leaves.

Blue and Red LED Lights Differently Affect Growth Responses and Biochemical Parameters in Lentil (Lens culinaris)

Light-emitting diodes are an attractive tool for improving the yield and quality of plant products. This study investigated the effect of different light intensity and spectral composition on the growth, bioactive compound content, and antioxidant metabolism of lentil (Lens culinaris Medik.) seedlings after 3 and 5 days of LED treatment. Two monochromatic light quality × three light intensity treatments were tested: red light (RL) and blue light (BL) at photosynthetic photon flux density (PPFD) of 100, 300, and 500 μmol m-2 s-1. Both light quality and intensity did not affect germination. At both harvest times, the length of seedling growth under BL appeared to decrease, while RL stimulated the growth with an average increase of 26.7% and 62% compared to BL and seedlings grown in the darkness (D). A significant blue light effect was detected on ascorbate reduced form, with an average increase of 35% and 50% compared to RL-grown plantlets in the two days of harvesting, respectively. The content of chlorophyll and carotenoids largely varied according to the wavelength and intensity applied and the age of the seedlings. Lipid peroxidation increased with increasing light intensity in both treatments, and a strong H2O2 formation occurred in BL. These results suggest that red light can promote the elongation of lentil seedlings, while blue light enhances the bioactive compounds and the antioxidant responses.

Parallel auxin transport via PINs and plasmodesmata during the Arabidopsis leaf hyponasty response

KEY MESSAGE

The leaf hyponasty response depends on tip-to-petiole auxin transport. This transport can happen through two parallel pathways: active trans-membrane transport mediated by PIN proteins and passive diffusion through plasmodesmata. A plant's ability to counteract potential shading by neighboring plants depends on transport of the hormone auxin. Neighbor sensing at the leaf tip triggers auxin production. Once this auxin reaches the abaxial petiole epidermis, it causes cell elongation, which leads to leaf hyponasty. Two pathways are known to contribute to this intercellular tip-to-petiole auxin movement: (i) transport facilitated by plasma membrane-localized PIN auxin transporters and (ii) diffusion enabled by plasmodesmata. We tested if these two modes of transport are arranged sequentially or in parallel. Moreover, we investigated if they are functionally linked. Mutants in which one of the two pathways is disrupted indicated that both pathways are necessary for a full hyponasty response. Visualization of PIN3-GFP and PIN7-GFP localization indicated PIN-mediated transport in parallel to plasmodesmata-mediated transport along abaxial midrib epidermis cells. We found plasmodesmata-mediated cell coupling in the pin3pin4pin7 mutant to match wild-type levels, indicating no redundancy between pathways. Similarly, PIN3, PIN4 and PIN7 mRNA levels were unaffected in a mutant with disrupted plasmodesmata pathway. Our results provide mechanistic insight on leaf hyponasty, which might facilitate the manipulation of the shade avoidance response in crops.

EID1 promotes the response to canopy shade in Arabidopsis thaliana by repressing the action of phytochrome A

The phytochrome (phy) system enables plants to adapt to canopy shade. By sensing the reduction of the red:far-red light ratio in shade, phyA and phyB trigger downstream signalling cascades which eventually lead to enhanced elongation growth. In this study, we show that the F-box protein EID1 takes on an essential function within the shade avoidance response in Arabidopsis thaliana by repressing phyA action and thereby allowing seedlings to elongate in shade. Thus, altering EID1 activity provides a means to adapt the shade response without affecting phyB action and could have played a role in the evolution of shade tolerance.

EMS-induced mutagenesis in Choy sum (Brassica chinensis var. parachinensis) and selection for low light tolerance using abiotic stress indices

BACKGROUND

Choy Sum (Brassica rapa ssp. chinensis var. parachinensis), grown in a controlled environment, is vulnerable to changes in indoor light quality and displays distinct photo-morphogenesis responses. The scarcity of Choy Sum germplasm for indoor cultivation necessitates the development of new cultivars. Hence, this study attempted to develop mutants through chemical mutagenesis and select low-light-tolerant mutants by using abiotic stress tolerance indices.

RESULTS

A mutant population of Choy Sum created using 1.5% ethyl methane sulfonate (EMS) at 4 h was manually pollinated to obtain the M2 generation. 154 mutants with reduced hypocotyl length were initially isolated from 3600 M2 seedlings screened under low light (R: FR = 0.5). Five mutants that showed reduced plant height at mature stages were selected and screened directly for shade tolerance in the M3 generation. Principal component analysis based on phenotypic data distinguished the M3 mutants from the wild type. Abiotic stress tolerance indices such as relative stress index (RSI), stress tolerance index (STI), geometric mean productivity (GMP), yield stability index (YSI), and stress resistance index (SRI) showed significant (P < 0.05), and positive associations with leaf yield under shade. M3-12-2 was selected as a shade-tolerant mutant based on high values of STI, YSI, and SRI with low values for tolerance (TOL) and stress susceptibility index (SSI).

CONCLUSIONS

The results demonstrate that mutation breeding can be used to create dominant mutants in Choy Sum. Furthermore, we show that screening for low light and selection based on abiotic tolerance indices allowed the identification of mutants with high resilience under shade. This method should apply to developing new cultivars in other crop plants that can be suitable for controlled environments with stable yield performance.