Frontiers in Plant Science

Rice blast, caused by Magnaporthe oryzae , is one of the most devastating diseases affecting rice crops. We investigated effectiveness of Streptomyces spp. against M. oryzae . The results revealed that among the Streptomyces spp., Streptomyces caeruleatus strain S14 demonstrated superior effectiveness in inhibiting the mycelial growth of M. oryzae (74.7%). The strain was identified by sequencing 16S rRNA region. Further, the complete genome sequence of this highly effective strain was acquired using the Illumina NovaSeq 6000 (PE 150), revealing a total genome length of 9,750,804 base pairs (9.7 Mb). The genome comprises 9,191 protein-coding sequences (CDS), 68 transfer RNA (tRNA) genes, 6 ribosomal RNA (rRNA) genes, with an average G+C content of 71.03%. The Streptomyces caeruleatus S14 genome, annotated with RASTtk and genetic code 11, falls under the superkingdom Bacteria. According to annotation statistics from PATRIC, it is a high-quality genome with 97.9% coarse consistency, 93.7% fine consistency, and completeness of 99.9%. The genome included genes related to metabolism, protein processing, defense, virulence, energy, stress response, membrane transport, regulation, cell signaling, cell envelope, DNA processing, cellular activities, RNA processing, and miscellaneous. The complete genome sequence of S. caeruleatus suggests that it offers valuable insights into its antimicrobial activity and provide key genetic traits responsible for pathogen suppression. Incidentally this is the first whole genome sequencing report of S. caeruleatus isolated from rice rhizosphere soil in India.

Introduction Accurately determining the moisture content of cigar leaves during the air-curing process is crucial for quality preservation. Traditional measurement techniques are often subjective and destructive, limiting their practical application. Methods In this study, we propose a stacking ensemble learning model for non-destructive moisture prediction, leveraging image-based analysis of naturally suspended cigar leaves. In this study, front and rear surface images of cigar leaves were collected throughout the air-curing process. Color and texture features were extracted from these images, and a filtering method was applied to remove redundant variables. To ensure optimal model selection, the entropy weight method was employed to comprehensively evaluate candidate machine learning models, leading to the construction of a stacking ensemble model. Furthermore, we applied the SHAP method to quantify the contribution of each input feature to the prediction results. Results The stacking ensemble model, comprising MLP, RF, and GBDT as base learners and LR as the meta-learner, achieved superior prediction accuracy ( R ² test =0.989) and outperforms than traditional machine learning models ( R ² test ranged from 0.961 to 0.982). SHAP analysis revealed that front surface features (45.5%) and leaf features (38.5%) were the most influential predictors, with airing period ( AP ), a f * , G f , and ASM f identified as key predictors. Conclusion This study provides a feasible and scalable solution for real-time and non-destructive monitoring of cigar leaf moisture content, offering effective technical support for similar agricultural and food drying applications.

Plants synthesize an extensive array of secondary metabolites in response to diverse biotic and abiotic stresses. These metabolites function not only as defensive compounds but also constitute significant sources of nutrition and pharmaceuticals. However, the mechanisms governing the synthesis of these secondary metabolites have long been a central focus of research and continue to pose significant challenges. Transcription factors (TFs), serving as key regulators of secondary metabolite synthesis in plants, exhibit mechanisms of action that are still not fully understood. This review summarizes the latest research advancements on how plant transcription factors mediate the regulation of secondary metabolite biosynthesis through various signaling pathways, including light signaling, hormone signaling, MAPK signaling, the ubiquitin-proteasome pathway, epigenetic regulation, microbial interactions, and climate change. A deeper understanding of the mechanisms regulating transcription factors is expected to provide new insights into the biosynthesis of plant secondary metabolites.

This study investigates the effects of ultra-high light intensities and varying light spectra on the photosynthetic efficiency and growth of maize ( Zea mays saccharata ). Photosynthetic rates, transpiration, stomatal conductance, and leaf temperature were measured under white light, monochromatic light, and their combinations. Assimilation rates increased with light intensities up to 5000 PAR, plateaued around 5500 PAR, and declined beyond 8000 PAR. Red light at 300 PAR yielded the highest assimilation rate under monochromatic conditions, while green light significantly boosted assimilation at higher intensities, peaking at 33.5 µmol m –2 s –1 under 4000 PAR. A 50% mix of white and green light at 2000 PAR enhanced assimilation by 14% compared to white light alone. Red light (630 nm) notably promoted photosynthesis in high PAR combinations. However, increasing green light reduced quantum yield, and higher blue light enhanced non-photochemical quenching. These findings suggest that ultra-high light intensities with specific spectral combinations can optimize photosynthesis in maize, though this does not necessarily translate to enhanced overall plant growth.

Introduction Salt stress is a major global environmental factor limiting plant growth. Rhizosphere bacteria, recruited from bulk soil, play a pivotal role in enhancing salt stress resistance in herbaceous and crop species. However, whether the rhizosphere bacterial community of a mature tree can respond to salt stress, particularly in saline-alkalitolerant trees, remains unexplored. Pecan ( Carya illinoinensis ), an important commercially cultivated nut tree, is considered saline-alkali tolerant. Methods Pecan trees (12 years) were subjected to different NaCl concentrations for 12 weeks. Collected samples included bulk soil, rhizosphere soil, roots, leaves, and fruit. Amplicon sequencing data and shotgun metagenomic sequencing data obtained from the samples were investigated: 1) microbial communities in various ecological niches of mature pecan trees; 2) the characteristic of the rhizosphere bacteria community and the associated functional traits when pecan suffered from salt stress. Results and discussion We characterized the mature pecan-associated microbiome (i.e., fruit, leaf, root, and rhizosphere soil) for the first time. These findings suggest that niche-based processes, such as habitat selection, drive bacterial and fungal community assembly in pecan tissues. Salt stress reduced bacterial diversity, altered community composition, and shifted pecan’s selective pressure on Proteobacteria and Actinobacteria . Shotgun metagenomic sequencing further revealed functional traits of the rhizosphere microbiome in response to salt stress. This study enhances our understanding of mature tree-associated microbiomes and supports the theory that shaping the rhizosphere microbiome may be a strategy for saline-alkali-tolerant mature trees to resist salt stress. These findings provide insights into salt tolerance in mature trees and suggest potential applications, such as the development of bio-inoculants, for managing saline environments in agricultural and ecological contexts.

Macadamia integrifolia , a perennial evergreen crop valued for its nutritious nuts, also exhibits a diverse range of inflorescence colors that possess both ornamental and biological significance. Despite the economic importance of macadamia, the molecular mechanisms regulating flower coloration remain understudied. This study employed a combination of metabolomic and biochemical approaches to analyze metabolites present in inflorescences from 11 Macadamia cultivars, representing distinct color phenotypes. A total of 787 metabolites were identified through the use of ultra-high-performance liquid chromatography–tandem mass spectrometry (UPLC–MS/MS), the majority of which were phenolic acids, flavonoids, and flavonols. Principal component analysis and clustering yielded a classification of the samples into three major flower color groups. The differential metabolites were found to be enriched in pathways such as flavonoid, flavonol, and phenylpropanoid biosynthesis, which have been demonstrated to be key contributors to color variation. Moreover, weighted gene co-expression network analysis (WGCNA) identified metabolite modules that were strongly associated with specific flower colors. This revealed that key compounds, including kaempferol, quercetin derivatives, and anthocyanins, were the primary drivers of pigmentation. This study provides a comprehensive framework for understanding the genetic, biochemical, and environmental factors influencing macadamia flower color. These findings contribute to the theoretical understanding of macadamia reproductive biology and have practical implications for molecular breeding, ornamental enhancement, and optimizing pollinator attraction to improve crop yield and ecological sustainability.

Introduction The openness grading of fresh-cut roses relies heavily on manual work, which can be inefficient and inconsistent. Methods In this study, an improved YOLOv8s model is proposed for openness grading in conjunction with a newly developed automatic grading machine for fresh-cut roses. The model identifies unopened inner petals and classifies openness into five levels: degree 1, degree 2, degree 3, degree 4, and deformity. To enhance detection accuracy while reducing the model complexity and computation, the backbone network of YOLOv8s is replaced by MobileNetV3. Additionally, an Efficient Multi-scale Attention (EMA) module is introduced to enhance focus on critical features, and a Wise-IoU loss function is incorporated to accelerate convergence. Results Field experiments revealed that the openness predictions made by the automatic fresh-cut roses grader had errors of 6.9%, 9.1%, 10.0%, 6.5%, and 12.6%, respectively, compared to manual predictions. Discussion Therefore, the improved YOLOv8s-F model effectively meets the requirements of fresh-cut rose openness grading.

Introduction Flax ( Linum usitatissimum ) is an important industrial crop in temperate regions, but fungal diseases, especially those caused by Fusarium oxysporum sp. lini , pose a serious risk. These infections can lead to major crop losses, reducing interest in flax cultivation. Methods This study investigated the effects of exogenous spermidine (Spd) on the interactions between flax and Fusarium oxysporum sp. lini . Flax plants treated with either 10 mM or 100 mM Spd were monitored for changes in polyamine levels, gene expression, and hydrogen peroxide (H 2 O 2 ) content following infection. Results and discussion Notably, plants treated with 10 mM Spd showed enhanced resistance, exhibiting better phenotypic health and lower fungal murein levels, especially in shoots. Chitinase expression in these plants remained similar to or lower than control levels, suggesting minimal additional defence activation was required. Additionally, a marked ROS burst occurred two days post-infection, followed by redox balance restoration, indicating a controlled defence response. These results suggest that moderate Spd treatment improves flax resilience against fusarium wilt while avoiding excessive defence activation, highlighting Spd’s potential for sustainable crop protection strategies.

The spread of cultivated grapevine from primary centers of origin is inevitably accompanied by the range expansion of its pathogens, including viruses. A limited number of wild Vitis vinifera L. ssp. sylvestris (Gmelin) Hegi populations have survived in the centers of grapevine domestication and can be used for comprehensive studies. We analyzed 50 grapevines collected in protected areas of the Black Sea region, which belong to the Caucasian domestication center. Based on genotyping of grapevines using simple sequence repeats as DNA markers, we determined the phylogenetic placement of V. vinifera ssp. sylvestris from the Black Sea region compared to cultivated and wild grapevines of the world. Using high-throughput sequencing of total RNA, we obtained the viromes of these grapevines. Ten viruses and one viroid were identified. The most common viruses detected were Vitis cryptic virus, grapevine rupestris stem pitting–associated virus, grapevine Pinot gris virus, and grapevine virus T. Among the economically significant viruses, we identified grapevine leafroll-associated virus 1 and grapevine virus A. A total of 91 complete or nearly complete virus genomes and one viroid genome were assembled, and phylogenetic analysis was performed. Two novel (+) ssRNA viruses were discovered, tentatively named Abrau grapevine-associated virus in the order Hepelivirales and Taurida grapevine-associated virus in the order Picornavirales . It is important to comprehensively consider the phylogeography of both viruses and their plant hosts. This is the first study that simultaneously addresses the population genetics of V. vinifera ssp. sylvestris from the Caucasian domestication center and its viruses.

Global climate change, characterized by increased frequency and intensity of extreme temperature events, poses significant challenges to plant survival and crop productivity. While considerable research has elucidated plant responses to temperature stress, the molecular mechanisms, particularly those involved in temperature sensing, remain incompletely understood. Thermosensors in plants play a crucial role in translating temperature signals into cellular responses, initiating the downstream signaling cascades that govern adaptive processes. This review highlights recent advances in the identification and classification of plant thermosensors, exploring their physiological roles and the biochemical mechanisms by which they sense temperature changes. We also address the challenges in thermosensor discovery and discuss emerging strategies to uncover novel thermosensory mechanisms, with implications for improving plant resilience to temperature stress in the face of a rapidly changing climate.

Introduction Plant height is an important agronomic trait that not only affects crop yield but is also related to crop resistance to abiotic and biotic stresses. Methods In this study, we analyzed the differentially expressed genes (DEGs) and differentially accumulated metabolites (DAMs) between Brazilian banana and local dwarf banana (Df19) through transcriptomics and metabolomics, and combined morphological differences and endogenous hormone content to analyze and discuss themolecular mechanisms controlling banana height. Results Sequencing data showed that a total of 2851 DEGs and 1037 DAMs were detected between Brazilian banana and local dwarf banana (Df19). The main differential biological pathways of DEGs involve plant hormone signaling transduction, Cutin, suberin and wax biosynthesis, phenylpropanoid biosynthesis, mitogen-activated protein kinase (MAPK) signaling pathway in plants, amino sugar and nucleotide sugar metabolism, etc. DAMs were mainly enriched in ATP binding cassette (ABC) transporters, amino and nucleotide sugar metabolism, glycerophospholipid metabolism, lysine degradation, and phenylalanine metabolism. Discussion Our analysis results indicate that banana plant height is the result of the synergistic effects of hormones such as abscisic acid (ABA), gibberellic acid (GA3), indole-3-acetic acid (IAA), jasmonic acid (JA), brassinosteroids (BR) and other plant hormones related to growth. In addition, transcription factors and ABC transporters may also play important regulatory roles in regulating the height of banana plants.

The plant cell wall (CW) is more than a structural barrier; it serves as the first line of defence against pathogens and environmental stresses. During pathogen attacks or physical damage, fragments of the CW, known as CW-derived Damage-Associated Molecular Patterns (CW-DAMPs), are released. These molecular signals play a critical role in activating the plant’s immune responses. Among CW-DAMPs, oligogalacturonides (OGs), fragments derived from the breakdown of pectin, are some of the most well-studied. This review highlights recent advances in understanding the functional and signalling roles of OGs, beginning with their formation through enzymatic CW degradation during pathogen invasion or mechanical injury. We discuss how OGs perception triggers intracellular signalling pathways that enhance plant defence and regulate interactions with microbes. Given that excessive OG levels can negatively impact growth and development, we also examine the regulatory mechanisms plants use to fine-tune their responses, avoiding immune overactivation or hyper- immunity. As natural immune modulators, OGs (and more generally CW-DAMPs), offer a promising, sustainable alternative to chemical pesticides by enhancing crop resilience without harming the environment. By strengthening plant defences and supporting eco-friendly agricultural practices, OGs hold great potential for advancing resilient and sustainable farming systems.

This study examined the effects of nitrogen (N) application rates and weak light treatment post anthesis on the grain yield and starch physicochemical characteristics of soft wheat. The soft wheat varieties Quanmai 725 (QM725) and Yangmai 15 (YM15) were used as study materials under field conditions, and the experiments were conducted during 2022–2023. During the grain filling stage (7–35 days post anthesis), three shading levels were set: 10% shading (S1), 20% shading (S2) and 30% shading (S3), with natural light conditions used as the control (CK). In 2023–2024, two N application rates (120 kg/hm ² [N1] and 180 kg/hm ² [N2]) and the abovementioned three shading treatments for each N application rate were set during the filling stage. The effects of weak light treatment post anthesis on the grain yield and yield components of soft wheat were analyzed. Moreover, the mitigation effects of different N application rates on the grain yield and starch physicochemical characteristics of wheat were examined. The results showed that N application increased wheat yield and yield components as well as the content of starch and its components, whereas weak light treatment decreased these parameters under the same N application rate. Under N1 and N2 conditions, weak light treatment post anthesis significantly reduced the volume, surface area percentage and number of B-type starch granules (particle size ≤10 μm) and increased those of A-type starch granules (particle size >10 μm). Enhanced N application rates significantly improved the gelatinization characteristics and thermodynamic characteristics of wheat starch. Under the same conditions of N1 and N2, weak light treatment significantly reduced the gelatinization characteristics of wheat starch, such as peak viscosity, trough viscosity and final viscosity. Although the enthalpy of wheat starch was increased, its onset temperature, peak temperature and end temperature were significantly reduced, which affected the quality of wheat grains and eventually led to a decrease in wheat yield. However, enhanced N application rates increased the grain yield and starch physicochemical characteristics of wheat. Under the same N application rate, weak light treatment post anthesis reduced the content of starch and its components in wheat grains, which in turn affected the wheat grain weight. The effect was more pronounced in wheat B-type starch granules than in A-type starch granules.

Introduction In the context of intelligent strawberry cultivation, achieving multi-stage detection and yield estimation for strawberry fruits throughout their full growth cycle is essential for advancing intelligent management of greenhouse strawberries. Addressing the high rates of missed and false detections in existing object detection algorithms under complex backgrounds and dense multi-target scenarios, this paper proposes an improved multi-stage detection algorithm RLK-YOLOv8 for greenhouse strawberries. The proposed algorithm, an enhancement of YOLOv8, leverages the benefits of large kernel convolutions alongside a multi-stage detection approach. Method RLK-YOLOv8 incorporates several improvements based on the original YOLOv8 model. Firstly, it utilizes the large kernel convolution network RepLKNet as the backbone to enhance the extraction of features from targets and complex backgrounds. Secondly, RepNCSPELAN4 is introduced as the neck network to achieve bidirectional multi-scale feature fusion, thereby improving detection capability in dense target scenarios. DynamicHead is also employed to dynamically adjust the weight distribution in target detection, further enhancing the model’s accuracy in recognizing strawberries at different growth stages. Finally, PolyLoss is adopted as the loss function, which effectively improve the localization accuracy of bounding boxes and accelerating model convergence. Results The experimental results indicate that RLK-YOLOv8 achieved a mAP of 95.4% in the strawberry full growth cycle detection task, with a precision and F1-score of 95.4% and 0.903, respectively. Compared to the baseline YOLOv8, the proposed algorithm demonstrates a 3.3% improvement in detection accuracy under complex backgrounds and dense multi-target scenarios. Discussion The RLK-YOLOv8 exhibits outstanding performance in strawberry multi-stage detection and yield estimation tasks, validating the effectiveness of integrating large kernel convolutions and multi-scale feature fusion strategies. The proposed algorithm has demonstrated significant improvements in detection performance across various environments and scenarios.

Boron (B) is an essential micronutrient critical for crop growth and productivity. However, excessive boron concentrations can impair plant development, and detoxification remains a significant challenge. Understanding genetic variability and identifying tolerance mechanisms are crucial for developing boron-resistant cultivars. This study explores the physiological and molecular responses of two Actinidia species, namely kiwifruit ( A.chinensis ) and kiwiberry ( A.arguta ), to varying levels of excess B. Under excessive B conditions, B accumulation followed the order roots< stems< leaves, with maximum concentrations of 68.6 mg/kg, 105 mg/kg, and 160.7 mg/kg in AC , and 68.2 mg/kg, 107 mg/kg, and 196.9 mg/kg in AA , respectively. B toxicity symptoms appeared in AA when B levels exceeded 50 mg/kg, leading to a 15–20% reduction in dry weight across roots, stems, and leaves. AC exhibited greater sensitivity, with a 20–30% reduction in dry biomass. Both species showed significant declines in chlorophyll a and b content under B stress, with alterations in the chlorophyll a/b ratio and increased oxidative stress. Additionally, stress-responsive genes, including 1-aminocyclopropane-1-carboxylate synthase ( Actinidia10066 ) and xyloglucan endotransglucosylase/hydrolase ( Actinidia11948 ), were downregulated in response to B stress, suggesting potential disruptions in growth and development. These findings provide valuable insights into the differential physiological and molecular responses to excess boron in Actinidia species, laying a foundation for functional genomics research and the development of boron-tolerant kiwifruit cultivars.

Grain size significantly affects rice yield and quality. Although several genes that regulate grain size have been identified, their mechanisms remain unclear. In this study, we characterized the swg5 mutant, which has a smaller plant height, shorter panicles, and smaller grains compared to the wild type (WT). MutMap resequencing and gene knockout analysis identified SWG5 , a gene encoding the kinesin-13a protein, a new allele of SRS3 that positively regulates grain length and weight. RNA sequencing analyses revealed that the SWG5 allele is involved in diterpenoid biosynthesis, amino sugar metabolism, and pentose-glucuronate interconversions. Furthermore, young panicles of the swg5 mutant exhibited decreased sucrose invertase activity as well as reduced sugar and starch content. These findings indicate that SWG5/SRS3 plays a significant role in sugar metabolism, influencing grain size and weight in rice. This research provides valuable insights into breeding rice varieties with improved yield and grain quality.

Plastoquinone plays a crucial role in the photosynthetic electron transport system as an electron carrier, transferring electrons from photosystem II to cytochrome b 6 f complexes. Certain cyanobacteria acylate plastoquinone derivatives, plastoquinol, the reduced form of plastoquinone, and/or plastoquinone-C, the hydroxylated form of plastoquinone to synthesize newly found cyanobacterial lipids, acylplastoquinol and acylplastoquinone-C, the latter of which is known as plastoquinone-B in seed plants. The cyanobacterial genes, slr2103 in Synechocystis sp. PCC 6803 and its ortholog in Synechococcus sp. PCC 7002, encode a bifunctional acyltransferase for the synthesis of both acylplastoquinol and plastoquinone-B. Despite conservation of slr2103 orthologs across a wide range of cyanobacteria, only four cyanobacterial strains, including the two mentioned above, have been identified as producing acylplastoquinol and/or plastoquinone-B. Moreover, the extent to which acylplastoquinone species are distributed in eukaryotic photosynthetic organisms that lack slr2103 orthologs remains largely unknown. Using LC-MS/MS ² analysis of total cellular lipids, this study demonstrates that acylplastoquinol and plastoquinone-B are conserved not only in cyanobacteria with slr2103 orthologs but also in eukaryotic photosynthetic organisms lacking these orthologs, including primary and secondary endosymbiotic algae, and a seed plant. Notably, in eukaryotic photosynthetic organisms as well as in cyanobacteria, these acylplastoquinone species are predominantly esterified with saturated fatty acids. The evolutionary conservation of these acylplastoquinone species suggests replacement of slr2103 orthologs by alternative gene(s) responsible for their synthesis at least once after the primary endosymbiotic event in the evolution of photosynthetic organisms. The persistent conservation of acylplastoquinone species throughout the evolution likely reflects their critical physiological roles.

Prunus subgenus Cerasus (Mill) A. Gray, commonly known as cherries and cherry blossoms, possesses significant edible and ornamental value. However, the mitochondrial genomes (mitogenomes) of cherry species remain largely unexplored. Here, we successfully assembled the mitogenomes of five cherry species ( P. campanulata , P. fruticosa , P. mahaleb , P. pseudocerasus , and P. sp eciosa ), revealing common circular structures. The assembled mitogenomes exhibited sizes ranging from 383,398 bp to 447,498 bp, with GC content varying between 45.54% and 45.76%. A total of 62 to 69 genes were annotated, revealing variability in the copy number of protein-coding genes (PCGs) and tRNA genes. Mitogenome collinearity analysis indicated genomic rearrangements across Prunus species, driven by repetitive sequences, particularly dispersed repeats. Additionally, the five cherry species displayed highly conserved codon usage and RNA editing patterns, highlighting the evolutionary conservation of the mitochondrial PCGs. Phylogenetic analyses confirmed the monophyly of subg. Cerasus , although notable phylogenetic incongruences were observed between the mitochondrial and plastid datasets. These results provide significant genomic resources for forthcoming studies on the evolution and molecular breeding of cherry mitogenomes, enhancing the overall comprehension of mitogenome structure and evolution within Prunus .

Introduction Aconitum pendulum is a well-known Tibetan medicine that possesses abundant diterpenoid alkaloids (DAs) with high medicinal value. However, due to the complicated structures of DAs and the associated challenges in vitro synthesis presents, plants like Aconitum pendulum remain the primary source for DAs. Methods Given the underutilization of the A. pendulum , a thorough metabolomic and transcriptomic analysis was conducted on its flowers, leaves, and stems to elucidate the regulatory network underlying DA biosynthesis. Results Metabolomic profiling (utilizing UPLC-QQQ-MS/MS) identified 198 alkaloids, of which 61 were DAs and the relative abundance of DAs was different among different tissues. Without a reference genome, we performed de novo assembly of the transcriptome of A. pendulum . We generated 181,422 unigenes, among which 411 candidate enzyme genes related to the DA synthesis pathway were identified, including 34 differentially expressed genes (DEGs). Through joint analysis of transcriptome and metabolome data, we found a correlation between the detected metabolite levels in various tissues and the expression of related genes. Specifically, it was found that ApCYP1, ApCYP72, and ApCYP256 may be related to turupellin accumulation, while ApBAHD9, ApBAHD10, ApBAHD12 positively associated with the accumulation of aconitine. Furthermore, our study also revealed that genes involved in the diterpene skeleton synthesis pathway tend to be highly expressed in flowers, whereas genes related to DA skeleton synthesis and their subsequent modifications are more likely to be highly expressed in leaf and stem tissues. Functional analysis of gene families identified 77 BAHD acyltransferases, 12 O -methyltransferases, and 270 CYP450 enzyme genes potentially involved in the biosynthesis of DAs. The co-expression network between metabolites and related genes revealed 116 significant correlations involving 30 DAs and 58 enzyme genes. Discussion This study provides valuable resources for in-depth research on the secondary metabolism of A. pendulum , not only deepening our understanding of the regulatory mechanisms of DA biosynthesis but also providing valuable genetic resources for subsequent genetic improvement and metabolic engineering strategies.

This study investigates the effects of irrigated and non-irrigated conditions on the bioactive compound content in fenugreek ( Trigonella foenum-graecum ) across 31 diverse genotypes from various geographical regions. The study was conducted at Atatürk University Research and Extension Center, Türkiye (N 39°55’59.9”, E 41°14’10.6”, altitude 1789 m) during the 2021 and 2022 growing seasons. The levels of diosgenin, trigonelline, and 4-hydroxyisoleucine analyzed under irrigated and non-irrigated conditions were found to be significantly influenced by genotype, environment, and their interaction (Genotype × Environment), with a highly significant effect observed at the p < 0.001 level. The compounds analyzed included diosgenin (0.50-0.93%), trigonelline (5.22-13.65 mg g ⁻ ¹), and 4-hydroxyisoleucine (0.41-1.90%). Notably, genotypes such as Sivas/TR, Amasya/TR, Konya/TR and Samsun/TR exhibited higher diosgenin content across all conditions, while Spain, Malaysia, France, and India showed higher trigonelline content under irrigation. Variability in 4-hydroxyisoleucine content was observed, with some genotypes showing stability across different environmental conditions. A negative correlation between diosgenin and trigonelline was observed in fenugreek. Furthermore, Principal Component Analysis (PCA) and cluster analysis were found to be effective in revealing genetic diversity, morphological differences, and genotype adaptability. The findings highlight the potential for selecting superior genotypes for breeding programs focused on enhancing bioactive compound yields, especially under varying irrigation and non-irrigated conditions. This research emphasizes the critical role of environmental and genetic factors in optimizing the production of health-benefiting compounds in fenugreek.

Plants face multifactorial environmental stressors mainly due to global warming and climate change which affect their growth, metabolism, and productivity. Among them, is drought stress which alters intracellular water relations, photosynthesis, ion homeostasis and elevates reactive oxygen species which eventually reduce their growth and yields. In addition, drought alters soil physicochemical properties and beneficial microbiota which are critical for plant survival. Recent reports have shown that climate change is increasing the occurrence and intensity of drought in many regions of the world, which has become a primary concern in crop productivity, ecophysiology and food security. To develop ideas and strategies for protecting plants against the harmful effects of drought stress and meeting the future food demand under climatic calamities an in-depth understanding of molecular regulatory pathways governing plant stress responses is imperative. In parallel, more research is needed to understand how drought changes the features of soil, particularly microbiomes, as microorganisms can withstand drought stress faster than plants, which could assist them to recover. In this review we first discuss the effect of drought stress on plants, soil physicochemical properties and microbiomes. How drought stress affects plant microbe interactions and other microbe-driven beneficial traits was also highlighted. Next, we focused on how plants sense drought and undergo biochemical reprogramming from root to shoot to regulate diverse adaptive traits. For instance, the role of calcium (Ca ²⁺ ), reactive oxygen species (ROS) and abscisic acid (ABA) in modulating different cellular responses like stomata functioning, osmotic adjustment, and other adaptive traits. We also provide an update on the role of different hormones in drought signaling and their crosstalk which allows plants to fine tune their responses during drought stress. Further, we discussed how recurrent drought exposure leads to the development of short-term memory in plants that allows them to survive future drought stresses. Lastly, we discussed the application of omics and biotechnological-based mitigating approaches to combat drought stress in sustainable agriculture. This review offers a deeper understanding of multiple factors that are related to drought stress in plants which can be useful for drought improvement programs.

Dry cultivation of rice (DCR) is one of the important rice cultivation practices aimed at addressing freshwater resource shortages. However, the non-renewable nature of phosphate resources constrains agricultural development. In the context of the contradiction between rice, water, and phosphorus, there is little research on using the silicon phosphorus relationship to improve the phosphorus availability and uptake of DCR. This experiment used field soil and established five fertilization treatments: no phosphorus application, low phosphorus and normal phosphorus (0, 25, 75 kg·ha ⁻¹ P 2 O 5 ) (0P, 25P, 75P), along with two silicon levels (0, 45kg·ha ⁻¹ SiO 2 ), resulting in the treatments 0P, 0PSi, 25P, 25PSi, and 75P. The soil phosphorus components and plant phosphorus uptake were analyzed. The results showed that adding silicon to 25P increased the Olsen-P content (14.37%) by increasing Ca 8 -P (9.04%) and Al-P (19.31%). Additionally, root and leaf phosphorus content increased by 7.6% and 5.8%, respectively, comparable to the levels observed in the 75P treatment. On one hand, adding silicon increases malate (40.48%) and succinate (49.73%) content, enhances acid phosphatase activity, and increases the abundance of Bradyrhizobium , Paenibacillus , and Bacillus , as well as the proportion of Fusarium , forming an “organic acid microbial” activated phosphorus system. On the other hand, the addition of silicon alleviated phosphorus limitations by reducing ATP consumption in roots through a decrease in ATPase and P-ATPase content. This also minimized excessive NSC transport to roots, thereby promoting shoot growth by downregulating SUT1 , SWEET11 , SUS2 , and CIN2 . In addition to optimizing root-to-shoot ratio and providing sufficient energy, silicon addition also increases root volume and upregulates OsPT2 , OsPT4 , and OsPT8 , thereby promoting phosphorus uptake. In summary, 25PSi optimizes the root-to-shoot ratio and promotes phosphorus conversion and uptake through organic acid, microbial, and energy pathways. Applying silicon is beneficial for the sustainable and efficient management of phosphorus in DCR.

Introduction Nature-based Solutions (NbS) provide a comprehensive strategy for environmental management, focusing on the protection, sustainable use, and restoration of natural and modified ecosystems. Cultivated grasslands are a form of NbS, offering benefits such as increased biodiversity, improved soil fertility, and greater ecosystem resilience. They are widely acknowledged for their positive impact on restoring degraded grasslands. Kentucky bluegrass (Poa pratensis L.) is widely used for restoring degraded grasslands on the Qinghai-Tibet Plateau. However, long-term cultivation of Kentucky bluegrass can lead to above-ground degradation, which challenges its effectiveness in restoring ecosystem health. Methods This study investigates the impacts of Kentucky bluegrass cultivation on soil quality, focusing on soil nutrients, enzyme activities, and microbial communities across different recovery stages. Field experiments were conducted to analyze soil quality dynamics during early (2nd year), mid (6th year), and late (10th year) succession stages of cultivated grasslands on the Qinghai-Tibet Plateau. Our results show that in the early and mid-stages, soil total nitrogen, total phosphorus, and organic carbon storage were significantly lower compared to undegraded grasslands, with the lowest soil quality observed in the early stage (P< 0.05). However, by the late stage, soil quality significantly improved, with total nitrogen, total phosphorus, and organic carbon contents exceeding those of undegraded grasslands by 14.59%. These improvements were driven by enhanced microbial community dynamics and increased nitrogen and carbon cycling enzyme activities, which promoted nutrient utilization and organic matter decomposition. This process was accompanied by a rise in microbial diversity, supporting soil resilience and ecosystem function. Soil total nitrogen emerged as a key determinant of soil quality in both natural and cultivated grasslands, and appropriate nitrogen fertilization strategies were found to effectively enhance grassland productivity and ecosystem health. Discussion Overall, this study highlights the potential of Kentucky bluegrass in restoring degraded grasslands by improving soil fertility and microbial community structure over time, providing insights into sustainable management practices to maintain soil fertility and ecosystem services on the Qinghai-Tibet Plateau.

To identify candidate genes for breeding oil palm varieties with high flavonoid content through molecular biotechnology, this study analyzed the metabolomes and transcriptomes of oil palm exocarp at different developmental stages using LC-MS/MS and RNA-Seq techniques. The green fruiting type (FS) oil palm exocarp at 95 days (FS1), 125 days (FS2), and 185 days (FS3) after pollination served as the materials. The enzyme genes F3H, CHS, ANS, and DFR were positively correlated with Quercetin-3-O-sambubioside. DFR also showed positive correlations with Afzelechin, Epiafzelechin, and Baimaside. In contrast, F3H, CHS, and ANS were negatively correlated with Hesperetin-7-O-glucoside. Additionally, CYP73A, UGT73C6, FG2-1, and FG2-2 were negatively correlated with Afzelechin, Epiafzelechin, Quercetin-3-O-sambubioside, and Baimaside, while CYP75A was negatively correlated with Epiafzelechin, Quercetin-3-O-sambubioside, and Baimaside. These results suggest that F3H, CHS, ANS, and DFR play a role in promoting Quercetin-3-O-sambubioside* synthesis, with DFR further enhancing the production of Afzelechin, Epiafzelechin, and Baimaside. On the other hand, F3H, CHS, and ANS may inhibit Hesperetin-7-O-glucoside synthesis. Meanwhile, CYP73A, UGT73C6, FG2-1, and FG2-2 appear to suppress the synthesis of multiple flavonoids, including Afzelechin, Epiafzelechin, Quercetin-3-O-sambubioside*, and Baimaside. Lastly, CYP75A is implicated in suppressing Epiafzelechin, Quercetin-3-O-sambubioside*, and Baimaside synthesis. These findings provide a foundation for future molecular breeding efforts targeting flavonoid-rich oil palm varieties.