Artificial neural network (ANN)-based algorithms for high light stress phenotyping of tomato genotypes using chlorophyll fluorescence features

Determination of rice (Oryza sativa L.) drought stress levels based on chlorophyll a fluorescence through independent component analysis

Sensing rice drought stress is crucial for agriculture, and chlorophyll a fluorescence (ChlF) is often used. However, existing techniques usually rely on defined feature points on the OJIP induction curve, which ignores the rich physiological information in the entire curve. Independent Component Analysis (ICA) can effectively preserve independent features, making it suitable for capturing drought-induced physiological changes. This study applies ICA and Support Vector Machine (SVM) to classify drought levels using the entire OJIP curve. The results show that the 20-dimensional ChlF features obtained by ICA provide superior classification performance, with Accuracy, Precision, Recall, F1-score, and Kappa coefficient improving by 18.15%, 0.18, 0.17, 0.17, and 0.22, respectively, compared to the entire curve. This work provides a rice drought stress levels determination method and highlights the importance of applying dimension reduction methods for ChlF analysis. This work is expected to enhance stress detection using ChlF.

Smart estimation of protective antioxidant enzymes' activity in savory (Satureja rechingeri L.) under drought stress and soil amendments

Savory (Satureja rechingeri L.) is one of Iran's most important medicinal plants, having low irrigation needs, and thus is considered one of the most valuable plants for cultivation in arid and semi-arid regions, especially under drought conditions. The current research was carried out to develop a genetic algorithm-based artificial neural network (ΑΝΝ) model able of simulating the levels of antioxidants in savory when using soil amendments [biochar (BC) and superabsorbent (SA)] under drought. Data under different watering schemes and different levels of soil amendments showed that both BC and SA have mitigating effects over drought stress by optimizing enzymatic and non-enzymatic antioxidant traits (POD, CTA, and APX enzymes). Specifically, using biochar and superabsorbent led to improved homeostasis under water deficit as reflected by lower MDA levels. An ANN model with a 3-10-6 topology was found to be the best model to predict polyphenols (PHE), proline (PRO), peroxidase (POX), catalase (CAT), ascorbate peroxidase (APX) levels, and indicator of oxidative stress malondialdehyde (MDA). The model's efficiency was established using the R-value as the statistical parameter, and simulated GA-ANN data were highly correlated with experimental findings. Across enzymatic antioxidants, APX had the best model fit, having an R-value of 0.9733. On the other hand, POX had a lower predictive correlation (R = 0.8737), indicating a lower capacity of the ANN system in forecasting this parameter. On the other hand, MDA (R = 0.9690) had an elevated assimilation performance over PHE (R = 0.9604) and PRO (R = 0.9245) levels. The current study shows the potential of the ANN model in predicting the content of enzymatic and non-enzymatic antioxidants in savory plants under drought stress as a non-invasive, low-cost experimental alternative.

Photosynthetic Responses of Peat Moss (Sphagnum spp.) and Bog Cranberry (Vaccinium oxycoccos L.) to Spring Warming

The rising global temperature makes understanding the impact of warming on plant physiology in critical ecosystems essential, as changes in plant physiology can either help mitigate or intensify climate change. The northern peatlands belong to the most important parts of the global carbon cycle. Therefore, knowledge of the ongoing and future climate change impacts on peatland vegetation photosynthesis is crucial for further refinement of peatland or global carbon cycle and vegetation models. As peat moss (Sphagnum spp.) and bog cranberry (Vaccinium oxycoccos L.) represent some of the most common plant functional groups of peatland vegetation, we examined the impact of experimental warming on the status of their photosynthetic apparatus during the early vegetation season. We also studied the differences in the winter to early spring transition of peat moss and bog cranberry photosynthetic activity. We have shown that peat moss starts photosynthetic activity earlier because it relies on light-dependent energy dissipation through the winter. However, bog cranberry needs a period of warmer temperature to reach full activity due to the sustained, non-regulated, heat dissipation during winter, as suggested by the doubling of photosystem II efficiency and 36% decrease in sustained heat dissipation between the mid-March and beginning of May. The experimental warming further enhanced the performance of photosystem II, indicated by a significant increase in the photosystem II performance index on an absorption basis due to warming. Therefore, our results suggest that bog cranberry can benefit more from early spring warming, as its activity is sped up more compared to peat moss. This will probably result in faster shrub encroachment of the peatlands in the warmer future. The vegetation and carbon models should take into account the results of this research to predict the peatland functions under changing climate conditions.

Drought and heat stress interactions: Unveiling the molecular and physiological responses of Persian walnut

While numerous studies explored the response of walnut plants to drought stress (DS), there remains a significant gap in the knowledge regarding the impact of heat stress (HS) and the combined effects of DS and HS on the recovery capacity of walnut trees. This study aimed to investigate the mechanism of Persian walnut (cv. Chandler) response to the combined DS and HS, focusing on various aspects including photosynthesis, water relations, and osmotic regulation. The treatments involved subjecting plants to DS (through a withholding method for 24 d), HS (gradually up to 40 °C for 8 d), and a combined DS and HS, which were compared to a control group (no stress) during the stress and recovery phases. The results showed that DS had significantly more negative effects on chlorophyll content, relative water content (RWC), leaf water potential (WP), osmotic potential (OP) compared to HS. Involvement of osmoregulation mechanism was detected more in DS and HS plants through the accumulation of proline, glycine Betaine and total soluble carbohydrates. The functionality of photosynthesis was significantly impacted by both HS and DS, respectively. While the HS accelerated the change of the abovementioned physiological processes in drought-stressed seedlings. Consistently, more pronounced damage was found in leaves under the combined stress, alongside the decrease RWC, chlorophyll content and fluorescence ratios. Based on the analysis of the linear mixed-effect model, the effects of combined stress and HS on photosynthesis parameters were detected in the early stages of stress compared to DS. Within a range of stresses, the abovementioned physiological processes of individual and combined-stressed plants recovered to levels comparable to those of the control. Our results also showed a substantial reduction in the expression of the photosynthetic genes (Fd, Cyt b6f, and PsbB) in Persian walnut saplings under abiotic stress conditions indicating significant damage to their photosynthetic apparatus. This study highlights that, under scenarios of aggravating drought occurring with heat, walnut seedlings could face a high risk of damage to physiological structures in relation to the synergistically increased hydraulic and thermal impairments.

Exploration and genetic analyses of canopy leaf pigmentation changes in soybean (Glycine max L.): unveiling a novel phenotype

KEY MESSAGE

Pigmentation changes in canopy leaves were first reported, and subsequent genetic analyses identified a major QTL associated with levels of pigmentation changes, suggesting Glyma.06G202300 as a candidate gene. An unexpected reddish-purple pigmentation in upper canopy leaves was discovered during the late reproductive stages in soybean (Glycine max L.) genotypes. Two sensitive genotypes, 'Uram' and PI 96983, exhibited anomalous canopy leaf pigmentation changes (CLPC), while 'Daepung' did not. The objectives of this study were to: (i) characterize the physiological features of pigmented canopy leaves compared with non-pigmented leaves, (ii) evaluate phenotypic variation in a combined recombinant inbred line (RIL) population (N = 169 RILs) under field conditions, and (iii) genetically identify quantitative trait loci (QTL) for CLPC via joint population linkage analysis. Comparison between pigmented and normal leaves revealed different Fv/Fm of photosystem II, hyperspectral reflectance, and cellular properties, suggesting the pigmentation changes occur in response to an undefined abiotic stress. A highly significant QTL was identified on chromosome 6, explaining ~ 62.8% of phenotypic variance. Based on the QTL result, Glyma.06G202300 encoding flavonoid 3'-hydroxylase (F3'H) was identified as a candidate gene. In both Uram and PI 96983, a 1-bp deletion was confirmed in the third exon of Glyma.06G202300 that results in a premature stop codon in both Uram and PI 96983 and a truncated F3'H protein lacking important domains. Additionally, gene expression analyses uncovered significant differences between pigmented and non-pigmented leaves. This is the first report of a novel symptom and an associated major QTL. These results will provide soybean geneticists and breeders with valuable knowledge regarding physiological changes that may affect soybean production. Further studies are required to elucidate the causal environmental stress and the underlying molecular mechanisms.

How photosynthetic performance impacts agricultural productivity in hybrid cotton offspring

Currently, heterosis is an effective method for achieving high crop quality and yield worldwide. Owing to the challenges of breeding and the high cost of the F1 generation, the F2 generation is considered the more desirable hybrid offspring for agricultural production. The use of OJIP fluorescence provides rapid insights into various photosynthetic mechanisms. However, OJIP fluorescence has not been previously studied as an indicator of the rate of heterosis. Consequently, we investigated the relationship between photosynthetic characteristics and growth and developmental parameters in hybrid cotton cultivars. The findings showed a gradual decline in the photosynthetic performance of hybrid cotton as the number of generations increased. In comparison to the F3 generation, both the F1 and F2 generations showed minimal variations in parameters, thus maintaining hybrid dominant and emphasizing the agricultural production potential of the F2 generation. The JIP-test revealed significant differences in the relationship between ψ Eo and ϕ Eo parameters, as well as variations in the connections between the photo-response center and electron transfer efficiency, and between cotton yield and fiber quality in the hybrid progeny. These variations can serve as indicators for predicting the extent of hybrid dominance in cotton. The results indicated significant differences in the light and dark responses of the hybrid offspring. By using parents with similar photosynthetic performance as genetic resources for crossbreeding, the photosynthetic capacity of the hybrid progeny can be enhanced to facilitate the efficient absorption and conversion of light energy in crops.

Interplay among photoreceptors determines the strategy of coping with excess light in tomato

This study investigates photoreceptor's role in the adaption of photosynthetic apparatus to high light (HL) intensity by examining the response of tomato wild type (WT) (Solanum lycopersicum L. cv. Moneymaker) and tomato mutants (phyA, phyB1, phyB2, cry1) plants to HL. Our results showed a photoreceptor-dependent effect of HL on the maximum quantum yield of photosystem II (Fv/Fm) with phyB1 exhibiting a decrease, while phyB2 exhibiting an increase in Fv/Fm. HL resulted in an increase in the efficient quantum yield of photosystem II (ΦPSII) and a decrease in the non-photochemical quantum yields (ΦNPQ and ΦN0) solely in phyA. Under HL, phyA showed a significant decrease in the energy-dependent quenching component of NPQ (qE), while phyB2 mutants showed an increase in the state transition (qT) component. Furthermore, ΔΔFv/Fm revealed that PHYB1 compensates for the deficit of PHYA in phyA mutants. PHYA signaling likely emerges as the dominant effector of PHYB1 and PHYB2 signaling within the HL-induced signaling network. In addition, PHYB1 compensates for the role of CRY1 in regulating Fv/Fm in cry1 mutants. Overall, the results of this research provide valuable insights into the unique role of each photoreceptor and their interplay in balancing photon energy and photoprotection under HL condition.

The crosstalk of far-red energy and signaling defines the regulation of photosynthesis, growth, and flowering in tomatoes

This study investigated the effect of light intensity and signaling on the regulation of far-red (FR)-induced alteration in photosynthesis. The low (LL: 440 μmol m-2 s-1) and high (HL: 1135 μmol m-2 s-1) intensity of white light with or without FR (LLFR: 545 μmol m-2 s-1 including 115 μmol m-2 s-1; HLFR: 1254 μmol m-2 s-1 + 140 μmol m-2 s-1) was applied on the tomato cultivar (Solanum Lycopersicon cv. Moneymaker) and mutants of phytochrome A (phyA) and phytochrome B (phyB1, and phyB2). Both light intensity and FR affected plant morphological traits, leaf biomass, and flowering time. Irrespective of genotype, flowering was delayed by LLFR and accelerated by HLFR compared to the corresponding light intensity without FR. In LLFR, a reduced energy flux through the electron transfer chain along with a reduced energy dissipation per reaction center improved the maximum quantum yield of PSII, irrespective of genotype. HLFR increased net photosynthesis and gas exchange properties in a genotype-dependent manner. FR-dependent regulation of hormones was affected by light signaling. It appeared that PHYB affected the levels of abscisic acid and salicylic acid while PHYA took part in the regulation of CK in FR-exposed plants. Overall, light intensity and signaling of FR influenced plants' photosynthesis and growth by altering electron transport, gas exchange, and changes in the level of endogenous hormones.

Modulation of plant photosynthetic processes during metal and metalloid stress, and strategies for manipulating photosynthesis-related traits

Metals constitute vital elements for plant metabolism and survival, acting as essential co-factors in cellular processes which are indispensable for plant growth and survival. Excess or deficient provision of metal/metalloids puts plant's life and survival at risk, thus considered a potent stress for plants. Chloroplasts as an organelle with a high metal demand form a pivotal site within the metal homeostasis network. Therefore, the metal-mediated electron transport chain (ETC) in chloroplasts is a primary target site of metal/metalloid-induced stresses. Both excess and deficient availability of metal/metalloids threatens plant's photosynthesis in several ways. Energy demands from the photosynthetic carbon reactions should be in balance with energy output of ETC. Malfunctioning of ETC components as a result of metal/metalloid stress initiates photoinhiition. A feedback inhibition from carbon fixation process also impedes the ETC. Metal stress impairs antioxidant enzyme activity, pigment biosynthesis, and stomatal function. However, genetic manipulations, nutrient management, keeping photostasis, and application of phytohormones are among strategies for coping with metal stress. Consequently, a comprehensive understanding of the underlying mechanisms of metal/metalloid stress, as well as the exploration of potential strategies to mitigate its impact on plants are imperative. This review offers a mechanistic insight into the disruption of photosynthesis regulation by metal/metalloids and highlights adaptive approaches to ameliorate their effects on plants. Focus was made on photostasis, nutrient interactions, phytohormones, and genetic interventions for mitigating metal/metalloid stresses.