Plants

27 pages, 24114 KiB

Open AccessArticle

Mamba-YOLO-ML: A State-Space Model-Based Approach for Mulberry Leaf Disease Detection

by Chang Yuan, Shicheng Li, Ke Wang, Qinghua Liu, Wentao Li, Weiguo Zhao, Guangyou Guo and Lai Wei

Plants 2025, 14(13), 2084; https://doi.org/10.3390/plants14132084 - 7 Jul 2025

Viewed by 365

Abstract

Mulberry (Morus spp.), as an economically significant crop in sericulture and medicinal applications, faces severe threats to leaf yield and quality from pest and disease infestations. Traditional detection methods relying on chemical pesticides and manual observation prove inefficient and unsustainable. Although computer [...] Read more.

Mulberry (Morus spp.), as an economically significant crop in sericulture and medicinal applications, faces severe threats to leaf yield and quality from pest and disease infestations. Traditional detection methods relying on chemical pesticides and manual observation prove inefficient and unsustainable. Although computer vision and deep learning technologies offer new solutions, existing models exhibit limitations in natural environments, including low recognition rates for small targets, insufficient computational efficiency, poor adaptability to occlusions, and inability to accurately identify structural features such as leaf veins. We propose Mamba-YOLO-ML, an optimized model addressing three key challenges in vision-based detection: Phase-Modular Design (PMSS) with dual blocks enhancing multi-scale feature representation and SSM selective mechanisms and Mamba Block, Haar wavelet downsampling preserving critical texture details, and Normalized Wasserstein Distance loss improving small-target robustness. Visualization analysis of the detection performance on the test set using GradCAM revealed that the enhanced Mamba-YOLO-ML model demonstrates earlier and more effective focus on characteristic regions of different diseases compared with its predecessor. The improved model achieved superior detection accuracy with 78.2% mAP50 and 59.9% mAP50:95, outperforming YOLO variants and comparable Transformer-based models, establishing new state-of-the-art performance. Its lightweight architecture (5.6 million parameters, 13.4 GFLOPS) maintains compatibility with embedded devices, enabling real-time field deployment. This study provides an extensible technical solution for precision agriculture, facilitating sustainable mulberry cultivation through efficient pest and disease management. Full article

(This article belongs to the Section Plant Modeling)

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19 pages, 3730 KiB

Open AccessArticle

Phylogenomic Analyses Reveal Species Relationships and Phylogenetic Incongruence with New Member Detected in Allium Subgenus Cyathophora

by Kun Chen, Zi-Jun Tang, Yuan Wang, Jin-Bo Tan, Song-Dong Zhou, Xing-Jin He and Deng-Feng Xie

Plants 2025, 14(13), 2083; https://doi.org/10.3390/plants14132083 - 7 Jul 2025

Viewed by 316

Abstract

Species characterized by undetermined clade affiliations, limited research coverage, and deficient systematic investigation serve as enigmatic entities in plant and animal taxonomy, yet hold critical significance for exploring phylogenetic relationships and evolutionary trajectories. Subgenus Cyathophora (Allium, Amayllidaceae), a small taxon comprising [...] Read more.

Species characterized by undetermined clade affiliations, limited research coverage, and deficient systematic investigation serve as enigmatic entities in plant and animal taxonomy, yet hold critical significance for exploring phylogenetic relationships and evolutionary trajectories. Subgenus Cyathophora (Allium, Amayllidaceae), a small taxon comprising approximately five species distributed in the Qinghai–Tibet Plateau (QTP) and adjacent regions might contain an enigmatic species that has long remained unexplored. In this study, we collected data on species from subgenus Cyathophora and its close relatives in subgenus Rhizirideum, as well as the enigmatic species Allium siphonanthum. Combining phylogenomic datasets and morphological evidence, we investigated species relationships and the underlying mechanism of phylogenetic discordance. A total of 1662 single-copy genes (SCGs) and 150 plastid loci were filtered and used for phylogenetic analyses based on concatenated and coalescent-based methods. Furthermore, to systematically evaluate phylogenetic discordance and decipher its underlying drivers, we implemented integrative analyses using multiple approaches, such as coalescent simulation, Quartet Sampling (QS), and MSCquartets. Our phylogenetic analyses robustly resolve A. siphonanthum as a member of subg. Cyathophora, forming a sister clade with A. spicatum. This relationship was further corroborated by their shared morphological characteristics. Despite the robust phylogenies inferred, extensive phylogenetic conflicts were detected not only among gene trees but also between SCGs and plastid-derived species trees. These significant phylogenetic incongruences in subg. Cyathophora predominantly stem from incomplete lineage sorting (ILS) and reticulate evolutionary processes, with historical hybridization events likely correlated with the past orogenic dynamics and paleoclimatic oscillations in the QTP and adjacent regions. Our findings not only provide new insights into the phylogeny of subg. Cyathophora but also significantly enhance our understanding of the evolution of species in this subgenus. Full article

(This article belongs to the Special Issue Plant Taxonomy, Phylogeny, and Evolution)

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19 pages, 1957 KiB

Open AccessArticle

Resource-Efficient Cotton Network: A Lightweight Deep Learning Framework for Cotton Disease and Pest Classification

by Zhengle Wang, Heng-Wei Zhang, Ying-Qiang Dai, Kangning Cui, Haihua Wang, Peng W. Chee and Rui-Feng Wang

Plants 2025, 14(13), 2082; https://doi.org/10.3390/plants14132082 - 7 Jul 2025

Viewed by 314

Abstract

Cotton is the most widely cultivated natural fiber crop worldwide, yet it is highly susceptible to various diseases and pests that significantly compromise both yield and quality. To enable rapid and accurate diagnosis of cotton diseases and pests—thus supporting the development of effective [...] Read more.

Cotton is the most widely cultivated natural fiber crop worldwide, yet it is highly susceptible to various diseases and pests that significantly compromise both yield and quality. To enable rapid and accurate diagnosis of cotton diseases and pests—thus supporting the development of effective control strategies and facilitating genetic breeding research—we propose a lightweight model, the Resource-efficient Cotton Network (RF-Cott-Net), alongside an open-source image dataset, CCDPHD-11, encompassing 11 disease categories. Built upon the MobileViTv2 backbone, RF-Cott-Net integrates an early exit mechanism and quantization-aware training (QAT) to enhance deployment efficiency without sacrificing accuracy. Experimental results on CCDPHD-11 demonstrate that RF-Cott-Net achieves an accuracy of 98.4%, an F1-score of 98.4%, a precision of 98.5%, and a recall of 98.3%. With only 4.9 M parameters, 310 M FLOPs, an inference time of 3.8 ms, and a storage footprint of just 4.8 MB, RF-Cott-Net delivers outstanding accuracy and real-time performance, making it highly suitable for deployment on agricultural edge devices and providing robust support for in-field automated detection of cotton diseases and pests. Full article

(This article belongs to the Special Issue Precision Agriculture in Crop Production)

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18 pages, 1746 KiB

Open AccessArticle

Genomic Insights and Plant Growth-Promoting Characterization of Priestia megaterium Strain 53B2, Isolated from Maize-Associated Soil in the Yaqui Valley, Mexico

by Alina Escalante-Beltrán, Pamela Helué Morales-Sandoval, Claudia Berenice González-Astorga, Amelia C. Montoya-Martínez, Edgar A. Cubedo-Ruiz, Gustavo Santoyo, Fannie Isela Parra-Cota and Sergio de los Santos-Villalobos

Plants 2025, 14(13), 2081; https://doi.org/10.3390/plants14132081 - 7 Jul 2025

Viewed by 517

Abstract

Strain 53B2 was isolated from a commercial maize (Zea mays L.) field located in the Yaqui Valley, Mexico. Its draft genome comprises 5,844,085 bp, with a G + C content of 37.5%, an N50 of 602,122 bp, an L50 of 4, and [...] Read more.

Strain 53B2 was isolated from a commercial maize (Zea mays L.) field located in the Yaqui Valley, Mexico. Its draft genome comprises 5,844,085 bp, with a G + C content of 37.5%, an N50 of 602,122 bp, an L50 of 4, and a total of 129 contigs. Genome-based taxonomic affiliation showed this strain belonged to Priestia megaterium. Genome annotation revealed 6394 coding DNA sequences (CDSs), organized into 332 subsystems. Among these, several CDSs were associated with traits relevant to plant growth promotion, including categories such as iron acquisition and metabolism (40 CDSs) and secondary metabolism (6 CDSs), among others. In vitro metabolic assays supported genomic predictions, confirming the strain’s ability to produce IAA, solubilize phosphate, and tolerate abiotic stress. Additionally, greenhouse trials demonstrated that inoculation with Priestia megaterium 53B2 significantly enhanced plant growth parameters (p ≤ 0.05) versus uninoculated control: stem height increased by 22.8%, root length by 35.7%, stem and root fresh weights by 39.6% and 66.1%, and stem and root dry weights by 33.7% and 44.7%, respectively. This first report on the beneficial potential of Priestia megaterium 53B2 highlights its potential as a sustainable bioinoculant for maize cultivation. Full article

(This article belongs to the Section Plant Protection and Biotic Interactions)

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19 pages, 5353 KiB

Open AccessArticle

Adaptive Symmetry Self-Matching for 3D Point Cloud Completion of Occluded Tomato Fruits in Complex Canopy Environments

by Wenqin Wang, Chengda Lin, Haiyu Shui, Ke Zhang and Ruifang Zhai

Plants 2025, 14(13), 2080; https://doi.org/10.3390/plants14132080 - 7 Jul 2025

Viewed by 322

Abstract

As a globally important cash crop, the optimization of tomato yield and quality is strategically significant for food security and sustainable agricultural development. In order to address the problem of missing point cloud data on fruits in a facility agriculture environment due to [...] Read more.

As a globally important cash crop, the optimization of tomato yield and quality is strategically significant for food security and sustainable agricultural development. In order to address the problem of missing point cloud data on fruits in a facility agriculture environment due to complex canopy structure, leaf shading and limited collection viewpoints, the traditional geometric fitting method makes it difficult to restore the real morphology of fruits due to the dependence on data integrity. This study proposes an adaptive symmetry self-matching (ASSM) algorithm. It dynamically adjusts symmetry planes by detecting defect region characteristics in real time, implements point cloud completion under multi-symmetry constraints and constructs a triple-orthogonal symmetry plane system to adapt to multi-directional heterogeneous structures under complex occlusion. Experiments conducted on 150 tomato fruits with 5–70% occlusion rates demonstrate that ASSM achieved coefficient of determination (R²) values of 0.9914 (length), 0.9880 (width) and 0.9349 (height) under high occlusion, reducing the root mean square error (RMSE) by 23.51–56.10% compared with traditional ellipsoid fitting. Further validation on eggplant fruits confirmed the cross-crop adaptability of the method. The proposed ASSM method overcomes conventional techniques’ data integrity dependency, providing high-precision three-dimensional (3D) data for monitoring plant growth and enabling accurate phenotyping in smart agricultural systems. Full article

(This article belongs to the Special Issue Modeling of Plants Phenotyping and Biomass)

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21 pages, 3766 KiB

Open AccessArticle

Comparative Genomic Analysis of COMT Family Genes in Three Vitis Species Reveals Evolutionary Relationships and Functional Divergence

by Yashi Liu, Zhiyuan Bian, Shan Jiang, Xiao Wang, Lin Jiao, Yun Shao, Chengmei Ma and Mingyu Chu

Plants 2025, 14(13), 2079; https://doi.org/10.3390/plants14132079 - 7 Jul 2025

Viewed by 333

Abstract

Caffeic acid-O-methyltransferase (COMT) is a key enzyme in lignin synthesis and secondary metabolism in plants, and it participates in the regulation of plant growth and development as well as plants’ stress response. To further investigate the function of COMT in grapevine, a total [...] Read more.

Caffeic acid-O-methyltransferase (COMT) is a key enzyme in lignin synthesis and secondary metabolism in plants, and it participates in the regulation of plant growth and development as well as plants’ stress response. To further investigate the function of COMT in grapevine, a total of 124 COMT family genes were identified from three Vitis species in this study, namely Pinot noir (Vitis vinifera L.), Vitis amurensis, and Vitis riparia. The amino acid sequence encoded by these genes ranged from 55 to 1422 aa, and their molecular mass ranged from 6640.82 to 77,034.43 Da. Subcellular localization prediction inferred that they were mainly located in the plasma membrane and cytoplasm. The prediction of secondary structures showed that α-helix and irregular coiled-coil were primary structural elements. These genes were unevenly distributed across 10 different chromosomes, respectively. Phylogenetic tree analysis of the amino acid sequences of VvCOMT, VaCOMT, VrCOMT, and AtCOMT proteins showed that they were closely related and were divided into four subgroups. The motif distribution was similar among the cluster genes, and the gene sequence was notably conserved. The 124 members of the COMT gene family possessed a variable number of exons, ranging from 2 to 13. The promoter region of all of these COMTs genes contained multiple cis-acting elements related to hormones (e.g., ABA, IAA, MeJA, GA, and SA), growth and development (e.g., endosperm, circadian, meristem, light response), and various stress responses (e.g., drought, low temperature, wounding, anaerobic, defense, and stress). The intraspecies collinearity analysis suggested that there were one pair, three pairs, and six pairs of collinear genes in Va, Pinot noir, and Vr, respectively, and that tandem duplication contributed more to the expansion of these gene family members. In addition, interspecific collinearity revealed that the VvCOMTs had the strongest homology with the VaCOMTs, followed by the VrCOMTs, and the weakest homology with the AtCOMTs. The expression patterns of different tissues and organs at different developmental stages indicated that the VvCOMT genes had obvious tissue expression specificity. The majority of VvCOMT genes were only expressed at higher levels in certain tissues. Furthermore, we screened 13 VvCOMT genes to conduct qRT-PCR verification according to the transcriptome data of VvCOMTs under abiotic stresses (NaCl, PEG, and cold). The results confirmed that these genes were involved in the responses to NaCl, PEG, and cold stress. This study lays a foundation for the exploration of the function of the COMT genes, and is of great importance for the genetic improvement of abiotic stress resistance in grapes. Full article

(This article belongs to the Section Plant Genetics, Genomics and Biotechnology)

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18 pages, 1462 KiB

Open AccessArticle

Hydrogen Peroxide and Vitexin in the Signaling and Defense Responses of Passiflora incarnata Under Drought Stress

by Felipe G. Campos, Gustavo R. Barzotto, Isabela Melo-Figueiredo, Jonas A. V. Pagassini and Carmen S. F. Boaro

Plants 2025, 14(13), 2078; https://doi.org/10.3390/plants14132078 - 7 Jul 2025

Viewed by 293

Abstract

Hydrogen peroxide (H₂O₂) functions as a signaling molecule that triggers physiological and biochemical adjustments that help plants cope with environmental stress. This study evaluated the effects of foliar application of 1.5 mM H₂O₂ on the physiological [...] Read more.

Hydrogen peroxide (H₂O₂) functions as a signaling molecule that triggers physiological and biochemical adjustments that help plants cope with environmental stress. This study evaluated the effects of foliar application of 1.5 mM H₂O₂ on the physiological and biochemical responses of Passiflora incarnata subjected to 14 days of drought stress followed by 5 days of rehydration. Drought reduced Fv/Fm and photochemical efficiency, as well as stomatal conductance and transpiration rates. H₂O₂ treatment under drought further reduced stomatal conductance and transpiration, suggesting enhanced water conservation. Drought-stressed plants treated with H₂O₂ exhibited increased concentrations of glucose, fructose, and mannose along with reduced sucrose levels, indicating osmotic adjustment and energy mobilization. Enzymatic antioxidant activity, particularly that of superoxide dismutase and catalase, increased with H₂O₂ treatment, while peroxidase activity remained low. The content of vitexin, arabinose, and trehalose decreased under drought, likely due to their roles in membrane protection, as MDA levels remained stable. After rehydration, Fv/Fm and ΦPSII recovered, and H₂O₂-treated plants showed higher carbon assimilation and carboxylation efficiency. These results indicate that H₂O₂ promotes drought acclimation and enhances post-stress recovery in P. incarnata. We conclude that H₂O₂ induces signaling pathways, with trehalose, arabinose, and vitexin contributing to the regeneration of the photochemical apparatus, as well as defense and acclimation under drought conditions. Full article

(This article belongs to the Special Issue Mitigation Strategies and Tolerance of Plants to Abiotic Stresses—2nd Edition)

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24 pages, 5910 KiB

Open AccessArticle

Transcriptome Profiling of Spike Development Reveals Key Genes and Pathways Associated with Early Heading in Wheat–Psathyrstachys huashanica 7Ns Chromosome Addition Line

by Binwen Tan, Yangqiu Xie, Hang Peng, Miaomiao Wang, Wei Zhu, Lili Xu, Yiran Cheng, Yi Wang, Jian Zeng, Xing Fan, Lina Sha, Haiqin Zhang, Peng Qin, Yonghong Zhou, Dandan Wu, Yinghui Li and Houyang Kang

Plants 2025, 14(13), 2077; https://doi.org/10.3390/plants14132077 - 7 Jul 2025

Viewed by 337

Abstract

Developing early-heading wheat cultivars is an important breeding strategy to utilize light and heat resources, facilitate multiple-cropping systems, and enhance annual grain yield. Psathyrostachys huashanica Keng (2n = 2x = 14, NsNs) possesses numerous agronomically beneficial traits for wheat improvement, such [...] Read more.

Developing early-heading wheat cultivars is an important breeding strategy to utilize light and heat resources, facilitate multiple-cropping systems, and enhance annual grain yield. Psathyrostachys huashanica Keng (2n = 2x = 14, NsNs) possesses numerous agronomically beneficial traits for wheat improvement, such as early maturity and resistance to biotic and abiotic stresses. In this study, we found that a cytogenetically stable wheat–P. huashanica 7Ns disomic addition line showed (9–11 days) earlier heading and (8–10 days) earlier maturation than its wheat parents. Morphological observations of spike differentiation revealed that the 7Ns disomic addition line developed distinctly faster than its wheat parents from the double ridge stage. To explore the potential molecular mechanisms underlying the early heading, we performed transcriptome analysis at four different developmental stages of the 7Ns disomic addition line and its wheat parents. A total of 10,043 differentially expressed genes (DEGs) were identified during spike development. Gene Ontology (GO) enrichment analysis showed that these DEGs were linked to the carbohydrate metabolic process, photosynthesis, response to abscisic acid, and the ethylene-activated signaling pathway. Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analysis showed that these DEGs were involved in plant hormone signal transduction (ARF, AUX/IAA, SAUR, DELLA, BRI1, and ETR), starch and sucrose metabolism (SUS1 and TPP), photosynthetic antenna proteins (Lhc), and circadian rhythm (PRR37, FT, Hd3a, COL, and CDF) pathways. In addition, several DEGs annotated as transcription factors (TFs), such as bHLH, bZIP, MADS-box, MYB, NAC, SBP, WRKY, and NF-Y, may be related to flowering time. Our findings reveal spike development-specific gene expression and critical regulatory pathways associated with early heading in the wheat–P. huashanica 7Ns addition line, and provide a new genetic resource for further dissection of the molecular mechanisms underlying the heading date in wheat. Full article

(This article belongs to the Special Issue Biosystematics and Breeding Application in Triticeae Species)

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20 pages, 7847 KiB

Open AccessArticle

Brassinosteroid-Mediated Resistance to Cobalt-Induced Toxicity by Regulating Hormonal Balance, Cellular Metabolism, and Antioxidant Defense in Maize

by Abdul Salam, Jinzhe Chang, Liupeng Yang, Muhammad Zeeshan, Anas Iqbal, Ali Raza Khan, Muhammad Siddique Afridi, Zaid Ulhassan, Wardah Azhar, Zhixiang Zhang and Peiwen Zhang

Plants 2025, 14(13), 2076; https://doi.org/10.3390/plants14132076 - 7 Jul 2025

Viewed by 357

Abstract

Brassinosteroids (BRs) play an essential role in regulating plant metabolic pathways that influence growth, development, and stress responses. However, their role in alleviating cobalt (Co) stress has not been extensively studied. This research aimed to assess the impact of exogenous BRs (0.1 µM) [...] Read more.

Brassinosteroids (BRs) play an essential role in regulating plant metabolic pathways that influence growth, development, and stress responses. However, their role in alleviating cobalt (Co) stress has not been extensively studied. This research aimed to assess the impact of exogenous BRs (0.1 µM) on maize subjected to Co stress (300 µM) in a hydroponic experiment. The results indicated that BR supplementation significantly decreased the accumulation of H₂O₂ by 17.79 and 16.66%, O₂^•− by 28.5 and 21.48%, and MDA by 37.5 and 37.9% in shoot and root, respectively, as compared to Co stress alone. Additionally, BRs enhanced endogenous levels of BRs (31.16%) and growth hormones (IAA 50.8%, JA 57.8%, GA 52.5%), and reduced Co contents by 26.3% in roots and 36.1% in shoots. BRs enhanced antioxidant enzyme activity both in the shoot and root, leading to reduced ROS levels as confirmed by laser scanning confocal microscopy. Furthermore, BRs increased phenols, flavonoids, and soluble sugars, and elevated total protein content. Observations from transmission electron microscopy indicated reduced ultrastructural damage in plants treated with BRs under Co stress. Taken together, this study highlights the role of BRs in alleviating Co stress in maize, demonstrating their efficiency in enhancing stress tolerance by modulating hormone levels and key metabolic processes. Full article

(This article belongs to the Special Issue Physiological Response and Molecular Mechanisms of Plants to Heavy Metal/Loid Toxicity)

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24 pages, 2148 KiB

Open AccessReview

Living Landmarks: A Review of Monumental Trees and Their Role in Ecosystems

by Ruben Budău, Claudia Simona Cleopatra Timofte, Ligia Valentina Mirisan, Mariana Bei, Lucian Dinca, Gabriel Murariu and Karoly Alexandru Racz

Plants 2025, 14(13), 2075; https://doi.org/10.3390/plants14132075 - 7 Jul 2025

Viewed by 501

Abstract

Monumental trees, defined by their exceptional size, form, and age, are critical components of both cultural heritage and ecological systems. However, their conservation faces increasing threats from habitat fragmentation, climate change, and inadequate public policies. This review synthesized global research on monumental trees [...] Read more.

Monumental trees, defined by their exceptional size, form, and age, are critical components of both cultural heritage and ecological systems. However, their conservation faces increasing threats from habitat fragmentation, climate change, and inadequate public policies. This review synthesized global research on monumental trees by analyzing 204 peer-reviewed articles published between 1989 and 2024 that were sourced from Web of Science and Scopus. Our bibliometric analysis highlighted Olea europaea and Castanea sativa as the most frequently studied species and identified a surge in publications after 2019, particularly from the USA, Italy, and Spain. Key research themes included conservation, biodiversity, and ecosystem services. The methodological approaches varied globally, encompassing ranking systems; GIS mapping; remote sensing; and non-invasive diagnostic tools, such as acoustic tomography and chlorophyll fluorescence. Conservation strategies discussed included vegetative propagation, cryopreservation, and legal risk management. Despite advances in these techniques, significant gaps remain in effectively addressing environmental pressures and integrating multidisciplinary approaches. We concluded that targeted, interdisciplinary strategies are essential to safeguard monumental trees as vital ecological and cultural landmarks. Full article

(This article belongs to the Special Issue Plant Functional Diversity and Nutrient Cycling in Forest Ecosystems)

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15 pages, 2584 KiB

Open AccessArticle

Calliviminone A from Callistemon citrinus Induces PANC-1 Pancreatic Cancer Cell Death by Targeting the PI3K/Akt/mTOR Pathway

by Juthamart Maneenet, Ahmed M. Tawila, Hung Hong Nguyen, Nguyen Duy Phan, Orawan Monthakantirat, Supawadee Daodee, Chantana Boonyarat, Charinya Khamphukdee, Yaowared Chulikhit and Suresh Awale

Plants 2025, 14(13), 2074; https://doi.org/10.3390/plants14132074 - 7 Jul 2025

Viewed by 1252

Abstract

Pancreatic cancer cells exhibit a remarkable ability to tolerate nutrient deprivation, a phenomenon termed “austerity,” which enables their survival within the hypovascular tumor microenvironment. Conventional anticancer therapies frequently fail to effectively target these resilient neoplastic cells, posing a significant challenge to the therapeutic [...] Read more.

Pancreatic cancer cells exhibit a remarkable ability to tolerate nutrient deprivation, a phenomenon termed “austerity,” which enables their survival within the hypovascular tumor microenvironment. Conventional anticancer therapies frequently fail to effectively target these resilient neoplastic cells, posing a significant challenge to the therapeutic management of pancreatic cancer. Consequently, targeting austerity, the ability of cancer cells to tolerate nutrient starvation, represents a promising anti-austerity strategy for developing novel pancreatic cancer therapeutics. In this study, we investigated calliviminone A (CVM-A), a phloroglucinol–meroterpenoid isolated from Callistemon citrinus leaves, for its anti-austerity activity against PANC-1 human pancreatic cancer cells. Calliviminone A exhibited potent preferential cytotoxicity in nutrient-deprived medium (NDM) with a PC₅₀ of 0.57 µM, while showing minimal toxicity in nutrient-rich Dulbecco’s Modified Eagle’s medium (IC₅₀ = 45.2 µM), indicating a favorable therapeutic index. Real-time live-cell imaging revealed that CVM-A induced significant morphological changes, including cell shrinkage and membrane blebbing, leading to cell death within 24 h of NDM. Furthermore, under normal nutrient conditions in Dulbecco’s Modified Eagle’s Medium (DMEM), CVM-A significantly inhibited PANC-1 cell migration (up to 47% reduction at 20 µM) and colony formation (over 80% suppression at 25 µM), suggesting its antimetastatic potential. Western blot studies demonstrated that CVM-A downregulated key survival components of the PI3K/Akt/mTOR signaling pathway, completely inhibiting Akt and p-Akt at 2.5 µM in NDM, and suppressing insulin-induced Akt activation. These findings highlight CVM-A as a promising lead compound for developing novel anticancer therapies that target the adaptive survival mechanisms and metastatic potential of pancreatic cancer in nutrient-deprived microenvironments. Full article

(This article belongs to the Section Phytochemistry)

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28 pages, 2886 KiB

Open AccessReview

Molecular Networks Governing Plant Responses to Heat and Cold Stress

by Ran Zhang, Lin Yang, Huan Zhang, Yingyu Yang, Lu Wen, Aoran Yin and Liwen Fu

Plants 2025, 14(13), 2073; https://doi.org/10.3390/plants14132073 - 7 Jul 2025

Viewed by 604

Abstract

Global warming is leading to an increase in extreme-temperature events, posing a significant threat to crop productivity and global food security. Plants have evolved sophisticated mechanisms to perceive and respond to both heat and cold stress. While these mechanisms share certain similarities, they [...] Read more.

Global warming is leading to an increase in extreme-temperature events, posing a significant threat to crop productivity and global food security. Plants have evolved sophisticated mechanisms to perceive and respond to both heat and cold stress. While these mechanisms share certain similarities, they also exhibit distinct differences, enabling plants to effectively cope with extreme temperatures. This review summarizes recent findings on the mechanisms underlying plant perception and response to extreme temperature stresses. Additionally, we compare the signaling pathways for heat and cold stress in plants and discuss the remaining challenges in the field. Finally, we address unresolved issues and propose future directions. Full article

(This article belongs to the Special Issue Physiological, Biochemical and Molecular Approaches to the Stress Response in Plants)

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25 pages, 5480 KiB

Open AccessArticle

Functional Trait Responses of Brasenia schreberi to Water and Soil Conditions Reveal Its Endangered Status

by Jingyu Yao, Zhenya Liu, Junbao Yu, Yun Zhang, Rui Xu, Jiahua Li, Yang Xu and Mei Sun

Plants 2025, 14(13), 2072; https://doi.org/10.3390/plants14132072 - 7 Jul 2025

Viewed by 324

Abstract

[Background] Brasenia schreberi is a perennial floating leaf aquatic plant with high ecological protection value and potential for economic development, and thus, its endangered mechanisms are of great concern. The rapid endangerment of this species in modern times may be primarily attributed to [...] Read more.

[Background] Brasenia schreberi is a perennial floating leaf aquatic plant with high ecological protection value and potential for economic development, and thus, its endangered mechanisms are of great concern. The rapid endangerment of this species in modern times may be primarily attributed to the deterioration of water and soil environmental conditions, as its growth relies on high-quality water and soil. [Objective] Exploring the responses of B. schreberi to water and soil conditions from the perspective of functional traits is of great significance for understanding its endangered mechanisms and implementing effective conservation strategies. [Methods] This study was conducted in the Tengchong Beihai Wetland, which has the largest natural habitat of B. schreberi in China. By measuring the key functional traits of B. schreberi and detecting the water and soil parameters at the collecting sites, the responses of these functional traits to the water and soil conditions have been investigated. [Results] (1) The growth status of B. schreberi affects the expression of its functional traits. Compared with sporadic distribution, B. schreberi in continuous patches have significantly higher stomatal conductance, intercellular CO₂ concentration, transpiration rate, and vein density, while these plants have significantly smaller leaf area and perimeter. (2) Good water quality directly promotes photosynthetic, morphological, and structural traits. However, high soil carbon, nitrogen, and phosphorus contents can inhibit the photosynthetic rate. The net photosynthetic rate is significantly positively correlated with dissolved oxygen content, pH value, ammonia nitrogen, and nitrate nitrogen contents in the water, as well as the magnesium, zinc, and silicon contents in the soil. In contrast, the net photosynthetic rate is significantly negatively correlated with the total phosphorus content in water and the total carbon, total nitrogen, and total phosphorus content in the soil. (3) Leaf area and perimeter show positive correlations with various water parameters, including the depth, temperature, pH value, dissolved oxygen content, ammonium nitrogen, and nitrate nitrogen content, yet they are negatively correlated with total phosphorus content, chemical oxygen demand, biological oxygen demand, and permanganate index of water. [Conclusions] This study supports the idea that B. schreberi thrives in oligotrophic water environments, while the notion that fertile soil is required for its growth still needs to be investigated more thoroughly. Full article

(This article belongs to the Special Issue Aquatic Plants and Wetland)

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18 pages, 5287 KiB

Open AccessArticle

Antimicrobial Effects of Abies alba Essential Oil and Its Application in Food Preservation

by Milena D. Vukić, Nenad L. Vuković, Marina Radović Jakovljević, Marija S. Ristić and Miroslava Kačániová

Plants 2025, 14(13), 2071; https://doi.org/10.3390/plants14132071 - 7 Jul 2025

Viewed by 347

Abstract

The emergence of antimicrobial resistance and the increasing demand for a healthier lifestyle have set new goals for science and industry. In the search for new, more effective, and environmentally friendly antimicrobial agents, special attention is being paid to natural resources. In this [...] Read more.

The emergence of antimicrobial resistance and the increasing demand for a healthier lifestyle have set new goals for science and industry. In the search for new, more effective, and environmentally friendly antimicrobial agents, special attention is being paid to natural resources. In this regard, essential oils derived from plants, which are widely used in the cosmetic, food, and pharmaceutical industries, are one of the solutions. In view of the above, this study aims to investigate the biological effects of Abies alba essential oil (AAEO). The chemical profile of AAEO was evaluated by GC/MS analysis, which revealed a high abundance of limonene (52.2%) and α-pinene (36.2%). Antioxidant activity evaluation showed a higher potential of AAEO in scavenging ABTS radical species with an IC₅₀ value of 1.18 ± 0.05 mg/mL. In vitro antimicrobial activity was determined by disc diffusion and minimum inhibitory concentration assays and showed that AAEO was more efficient in inhibiting the growth of G⁺ bacterial species. On contrary, in situ evaluations of antimicrobial effects of AAEO on different food models (strawberry, kiwi, white radish, and beetroot) resulted in more efficient suppression of G⁻ bacterial species. Although AAEO showed low effects on yeasts determined by in vitro methods, in situ investigations showed its higher potential in eradication of Candida yeast. The antibiofilm properties of the AAEO matrix were determined by means of crystal violet assay and MALDI-TOF MS Biotyper analysis against biofilm-forming Salmonella enterica. The analysis performed led to the conclusion that AAEO, when applied prior to biofilm formation, may contribute to the removal of planktonic cells and alter the abiotic surface, thereby reducing the suitability of Salmonella enterica for microbial attachment. Full article

(This article belongs to the Special Issue Chemical Composition and Biological Activities of Essential Oils)

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18 pages, 6140 KiB

Open AccessArticle

StomaYOLO: A Lightweight Maize Phenotypic Stomatal Cell Detector Based on Multi-Task Training

by Ziqi Yang, Yiran Liao, Ziao Chen, Zhenzhen Lin, Wenyuan Huang, Yanxi Liu, Yuling Liu, Yamin Fan, Jie Xu, Lijia Xu and Jiong Mu

Plants 2025, 14(13), 2070; https://doi.org/10.3390/plants14132070 - 6 Jul 2025

Viewed by 330

Abstract

Maize (Zea mays L.), a vital global food crop, relies on its stomatal structure for regulating photosynthesis and responding to drought. Conventional manual stomatal detection methods are inefficient, subjective, and inadequate for high-throughput plant phenotyping research. To address this, we curated a [...] Read more.

Maize (Zea mays L.), a vital global food crop, relies on its stomatal structure for regulating photosynthesis and responding to drought. Conventional manual stomatal detection methods are inefficient, subjective, and inadequate for high-throughput plant phenotyping research. To address this, we curated a dataset of over 1500 maize leaf epidermal stomata images and developed a novel lightweight detection model, StomaYOLO, tailored for small stomatal targets and subtle features in microscopic images. Leveraging the YOLOv11 framework, StomaYOLO integrates the Small Object Detection layer P2, the dynamic convolution module, and exploits large-scale epidermal cell features to enhance stomatal recognition through auxiliary training. Our model achieved a remarkable 91.8% mean average precision (mAP) and 98.5% precision, surpassing numerous mainstream detection models while maintaining computational efficiency. Ablation and comparative analyses demonstrated that the Small Object Detection layer, dynamic convolutional module, multi-task training, and knowledge distillation strategies substantially enhanced detection performance. Integrating all four strategies yielded a nearly 9% mAP improvement over the baseline model, with computational complexity under 8.4 GFLOPS. Our findings underscore the superior detection capabilities of StomaYOLO compared to existing methods, offering a cost-effective solution that is suitable for practical implementation. This study presents a valuable tool for maize stomatal phenotyping, supporting crop breeding and smart agriculture advancements. Full article

(This article belongs to the Special Issue Precision Agriculture Technology, Benefits & Application)

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24 pages, 1890 KiB

Open AccessReview

Plant Defense Proteins: Recent Discoveries and Applications

by Samuel O. Shobade, Marit Nilsen-Hamilton and Olga A. Zabotina

Plants 2025, 14(13), 2069; https://doi.org/10.3390/plants14132069 - 6 Jul 2025

Viewed by 727

Abstract

Proteins play pivotal roles in safeguarding plants against numerous biotic and abiotic stresses. Understanding their biological functions and mechanisms of action is essential for advancing plant biology, agriculture, and biotechnology. This review considers the diversity and potential applications of plant defense proteins including [...] Read more.

Proteins play pivotal roles in safeguarding plants against numerous biotic and abiotic stresses. Understanding their biological functions and mechanisms of action is essential for advancing plant biology, agriculture, and biotechnology. This review considers the diversity and potential applications of plant defense proteins including pathogenesis-related (PR) proteins, chitinases, glucanases, protease inhibitors, lectins, and antimicrobial peptides. Recent advances, such as the omics technologies, have enabled the discovery of new plant defense proteins and regulatory networks that govern plant defense responses and unveiled numerous roles of plant defense proteins in stress perception, signal transduction, and immune priming. The molecular affinities and enzymatic activities of plant defense proteins are essential for their defense functions. Applications of plant defense proteins span agriculture, biotechnology, and medicine, including the development of resistant crop varieties, bio-based products, biopharmaceuticals, and functional foods. Future research directions include elucidating the structural bases of defense protein functions, exploring protein interactions with ligands and other proteins, and engineering defense proteins for enhanced efficacy. Overall, this review illuminates the significance of plant defense proteins against biotic stresses in plant biology and biotechnology, emphasizing their potential for sustainable agriculture and environmental management. Full article

(This article belongs to the Collection Feature Papers in Plant Protection)

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18 pages, 269 KiB

Open AccessArticle

Effect of Plant Topping on Seasonal Development, Physiological Changes, and Grain Yield of Soybean

by Sora Lee, Chaelin Jo, Miri Choi, Jihyeon Lee, Nayoung Choi and Chaein Na

Plants 2025, 14(13), 2068; https://doi.org/10.3390/plants14132068 - 6 Jul 2025

Viewed by 403

Abstract

Soybean (Glycine max L.) is vulnerable to environmental stresses, such as heavy rainfall and high winds, which promote lodging and reduce plant performance during the monsoon season. To mitigate these issues, we evaluated the effects of plant topping, a practice involving the [...] Read more.

Soybean (Glycine max L.) is vulnerable to environmental stresses, such as heavy rainfall and high winds, which promote lodging and reduce plant performance during the monsoon season. To mitigate these issues, we evaluated the effects of plant topping, a practice involving the removal of apical buds, on plant architecture, physiological traits, and grain yield in four soybean cultivars over two growing seasons (2021–2022). Plant topping was performed at the V6-7 stage by cutting 30–35 cm above the ground. Plant topping reduced plant height by up to 23.5% and decreased leaf area index (by 8.0–16.4%), potentially improving light penetration into the lower canopy. Although chlorophyll concentration declined temporarily (297.8 vs. 272.8 mg m⁻² for non-topping vs. topping, respectively), NDVI remained stable, indicating delayed senescence. Chlorophyll fluorescence parameters revealed cultivar-specific stress responses, particularly in Taegwang, which showed elevated ABS/RC, TR₀/RC, and DI₀/CS values under plant topping. Grain yield was generally unaffected, except in Jinpung, which increased by 34% under plant topping in 2021 (2701 kg ha⁻¹ vs. 3621 kg ha⁻¹ for non-topping vs. topping). In conclusion, plant topping may help improve canopy structure and light distribution without compromising yield, potentially reducing lodging risk and offering a cultivar-specific management strategy. Full article

(This article belongs to the Special Issue Growth Regulation of Cereal Crops: Gene Control and Environmental Factors)

14 pages, 958 KiB

Open AccessArticle

Synergistic Effects of Partial Substitution of Sludge with Cattle Manure and Straw on Soil Improvement and Pinus sylvestris var. mongolica Growth in Horqin Sandy Land, China

by Dan Su, Meiqi Zhang, Yao Chang, Jie Bai, Guiyan Ai, Yanhui Peng, Zhongyi Pang and Xuekai Sun

Plants 2025, 14(13), 2067; https://doi.org/10.3390/plants14132067 - 6 Jul 2025

Viewed by 298

Abstract

Afforestation with Pinus sylvestris var. mongolica in northern China is hindered by soil degradation. This study evaluated a ternary amendment combining sewage sludge (SS), cattle manure (CM), and maize straw (MS) to rehabilitate degraded sandy soils in the Horqin Sandy Land. Five treatments [...] Read more.

Afforestation with Pinus sylvestris var. mongolica in northern China is hindered by soil degradation. This study evaluated a ternary amendment combining sewage sludge (SS), cattle manure (CM), and maize straw (MS) to rehabilitate degraded sandy soils in the Horqin Sandy Land. Five treatments were tested: control (CK), SS (T1), SS + CM (T2), SS+MS (T3), and SS + CM + MS (T4). The ternary amendment (T4) achieved optimal outcomes: soil pH decreased from 8.02 to 7.79, organic carbon increased 2.5–fold, and total nitrogen (127%) and phosphorus (87.5%) were enhanced compared to CK. Pinus sylvestris exhibited a 65.6% greater basal diameter and 29.5% height increase under T4, while heavy metal concentrations (Cd: −54.6%, Cu: −35.1%, Pb: −12.2% and Zn: −27.6%) were reduced. These findings highlight a synergistic waste valorization strategy for dryland afforestation, balancing soil fertility improvement with ecological safety. Future studies should prioritize long-term microbial community dynamics and field-scale validation. Full article

(This article belongs to the Special Issue Strategies to Improve Vegetation Restoration, Alleviate Land Degradation, and Sustainable Management in the Desert Ecosystem)

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13 pages, 841 KiB

Open AccessArticle

Silicon Protects Rice Plants Against Striped Stem Borer by Disturbing Herbivory-Induced Putrescine Accumulation

by Hao Zhang, Xiaodong Liu, Cunyan Li, Linzhi Fang, Chaoyue Gai, Rensen Zeng, Qiongli Wang, Yuanyuan Song and Daoqian Chen

Plants 2025, 14(13), 2066; https://doi.org/10.3390/plants14132066 - 6 Jul 2025

Viewed by 304

Abstract

Silicon (Si) protects plants against insect herbivores; however, the underlying mechanisms remain unclear. Polyamines (PAs) play a crucial role in plant–insect interactions. Here, the involvement of Si in putrescine (Put) metabolism and its role in rice resistance against striped stem borer (SSB, Chilo [...] Read more.

Silicon (Si) protects plants against insect herbivores; however, the underlying mechanisms remain unclear. Polyamines (PAs) play a crucial role in plant–insect interactions. Here, the involvement of Si in putrescine (Put) metabolism and its role in rice resistance against striped stem borer (SSB, Chilo suppressalis Walker) were investigated. The results showed that SSB larval infestation led to a substantial accumulation of free Put in rice seedlings. Si application increased rice resistance against SSB and repressed the SSB attack-induced accumulation of Put, in parallel with a decreased expression of Put biosynthesis genes encoding arginine decarboxylase (ADC1 and ADC2). Moreover, Si application had no significant effect on the wounding-induced expression of ADC1 and ADC2, but attenuated the further elevation in the transcription of ADC1 and ADC2 induced by SSB larvae oral secretion. Simultaneously, Si addition reduced the Put and spermidine contents in SSB-attacked plants. Furthermore, the exogenous application of Put attenuated Si-enhanced resistance against SSB larvae, whereas exogenous D-arginine, an inhibitor of ADC, showed similar effects to Si on rice resistance against SSB. Our findings indicate that Si improves rice resistance to SSB, at least partly by reducing herbivory-stimulated putrescine accumulation. Full article

(This article belongs to the Special Issue Sustainable Strategies for Managing Plant Diseases)

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21 pages, 1530 KiB

Open AccessArticle

Synergistic Effects of Salt-Tolerant PGPR and Foliar Silicon on Pak Choi Antioxidant Defense Under Salt Stress

by Jieru Zhao, Qibiao Han, Bingjian Cui, Juan Wang, Chao Hu, Rui Li, Yanyu Lin, Ying Xu and Chuncheng Liu

Plants 2025, 14(13), 2065; https://doi.org/10.3390/plants14132065 - 6 Jul 2025

Viewed by 382

Abstract

Salinization severely impairs crop growth by inducing oxidative stress and disrupting cellular homeostasis. This study systematically investigates the synergistic effects of salt-tolerant plant-growth-promoting rhizobacteria (ST-PGPR) and foliar silicon fertilizer spraying (FSFS) on antioxidant responses in Pak choi under salt stress. Two-season pot experiments [...] Read more.

Salinization severely impairs crop growth by inducing oxidative stress and disrupting cellular homeostasis. This study systematically investigates the synergistic effects of salt-tolerant plant-growth-promoting rhizobacteria (ST-PGPR) and foliar silicon fertilizer spraying (FSFS) on antioxidant responses in Pak choi under salt stress. Two-season pot experiments were carried out to evaluate key indicators, including antioxidant enzyme activities (superoxide dismutase: SOD; peroxidase: POD; catalase: CAT), oxidative stress (malondialdehyde: MDA), osmolyte accumulation (proline, soluble protein), and hormones (Jasmonic Acid: JA; Salicylic Acid: SA; Abscisic acid: ABA). The results demonstrate that combining ST-PGPR with FSFS significantly enhances SOD (6.18–2353.85%), POD (3.44–153.29%), and CAT (25.71–319.29%) activities while reducing MDA content (8.12–35.87%). Proline and soluble protein levels increased by 1.56–15.71% and 5.03–188.87%, respectively. Hormonal regulation increased JA, SA, and ABA levels by 1.05–31.81%, 2.09–34.29%, and 3.18–30.09%, respectively. Notably, ST-PGPR treatments at 10⁴ and 10⁶ cfu·mL⁻¹, combined with foliar silicon application, consistently ranked highest in overall antioxidant performance across both seasons based on a principal component analysis. These findings provide novel insights into microbial–mineral interactions for sustainable saline agriculture. Full article

(This article belongs to the Special Issue Plant Surfaces: Physico-Chemical Properties, Interaction with Deposited Matter and Permeability)

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15 pages, 1018 KiB

Open AccessArticle

Phenolic Compounds in Nectar of Crataegus monogyna Jacq. and Prunus spinosa L.

by Katja Malovrh, Blanka Ravnjak, Mitja Križman and Jože Bavcon

Plants 2025, 14(13), 2064; https://doi.org/10.3390/plants14132064 - 6 Jul 2025

Viewed by 344

Abstract

Crataegus monogyna Jacq. and Prunus spinosa L. are common spring-flowering species in Slovenia. They occur in large stands and sometimes overgrow in unmanaged meadows. They are known as an excellent source of nectar for bees and other pollinators. Phenolic compounds are known as [...] Read more.

Crataegus monogyna Jacq. and Prunus spinosa L. are common spring-flowering species in Slovenia. They occur in large stands and sometimes overgrow in unmanaged meadows. They are known as an excellent source of nectar for bees and other pollinators. Phenolic compounds are known as antioxidant for both pollinators and plants. We were interested in comparing plant species in terms of their phenolic compound content: rutin, quercetin, (iso)quercitrin, chlorogenic acid, and hyperoside. Their nectar was obtained from both plant species in 2024 in Ljubljana and the area surrounding Ljubljana. We took 96 samples of each species. The nectar was sampled with microcapillary tubes and analysed by HPLC. When studying the influence of abiotic factors on the concentration of phenolic compounds, the correlations were weak, so we cannot say with certainty which environmental factors affect which phenolic compounds and in what way. Rutin is predominant in the nectar of P. spinosa and chlorogenic acid is predominant in the nectar of C. monogyna. Hyperoside is found in the lowest concentration in both plant species. We found that although C. monogyna secreted much less nectar at midday, it was more concentrated in phenolic compounds at this time than in the morning. In P. spinosa, nectar secretion was highest in the morning, and the concentration of phenolic compounds was also highest in the morning. Full article

(This article belongs to the Special Issue Chemical Composition and Biological Activity of Plant Secondary Metabolites)

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12 pages, 1407 KiB

Open AccessArticle

Glucosinolate and Sugar Profiles in Space-Grown Radish

by Karl H. Hasenstein, Syed G. A. Moinuddin, Anna Berim, Laurence B. Davin and Norman G. Lewis

Plants 2025, 14(13), 2063; https://doi.org/10.3390/plants14132063 - 6 Jul 2025

Viewed by 351

Abstract

The quest to establish permanent outposts in space, the Moon, and Mars requires growing plants for nutrition, water purification, and carbon/nutrient recycling, as well as the psychological well-being of crews and personnel on extra-terrestrial platforms/outposts. To achieve these essential goals, the safety, quality, [...] Read more.

The quest to establish permanent outposts in space, the Moon, and Mars requires growing plants for nutrition, water purification, and carbon/nutrient recycling, as well as the psychological well-being of crews and personnel on extra-terrestrial platforms/outposts. To achieve these essential goals, the safety, quality, and sustainability of plant material grown in space should be comparable to Earth-grown crops. In this study, radish plants were grown at 2500 ppm CO₂ in two successive grow-outs on the International Space Station and at similar CO₂ partial pressure at the Kennedy Space Center. An additional control experiment was performed at the University of Louisiana Lafayette laboratory, at ambient CO₂. Subsequent analyses of glucosinolate and sugar species and content showed that regardless of growth condition, glucoraphasatin, glucoraphenin, glucoerucin, glucobrassicin, 4-hydroxyglucobrassicin, 4-methoxyglucobrassicin, and three aliphatic GSLs tentatively assigned to 3-methylpentyl GSL, 4-methylpentyl GSL, and n-hexyl GSL were present in all examined plants. The most common sugars were fructose, glucose, and sucrose, but some plants also contained galactose, maltose, rhamnose, and trehalose. The variability of individual secondary metabolite abundances was not related to gravity conditions but appeared more sensitive to CO₂ concentration. No indication was found that radish cultivation in space resulted in stress(es) that increased glucosinolate secondary metabolism. Flavor and nutrient components in space-grown plants were comparable to cultivation on Earth. Full article

(This article belongs to the Section Plant Physiology and Metabolism)

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16 pages, 8263 KiB

Open AccessArticle

Genome-Wide Identification of PP2C Gene Family in Oat (Avena sativa L.) and Its Functional Analyses in Response to ABA and Abiotic Stresses

by Panpan Huang, Kuiju Niu, Jikuan Chai, Wenping Wang, Yanming Ma, Yanan Cao and Guiqin Zhao

Plants 2025, 14(13), 2062; https://doi.org/10.3390/plants14132062 - 5 Jul 2025

Viewed by 385

Abstract

Plant protein phosphatase 2C (PP2C) represents the largest and most functionally diverse group of protein phosphatases in plants, playing pivotal roles in regulating metabolic processes, hormone signaling, stress responses, and growth regulation. Despite its significance, a comprehensive genome-wide analysis of the PP2C gene [...] Read more.

Plant protein phosphatase 2C (PP2C) represents the largest and most functionally diverse group of protein phosphatases in plants, playing pivotal roles in regulating metabolic processes, hormone signaling, stress responses, and growth regulation. Despite its significance, a comprehensive genome-wide analysis of the PP2C gene family in oat (Avena sativa L.) has remained unexplored. Leveraging the recently published oat genome, we identified 194 AsaPP2C genes, which were unevenly distributed across all 21 chromosomes. A phylogenetic analysis of PP2C classified these genes into 13 distinct subfamilies (A-L), with conserved motif compositions and exon-intron structures within each subfamily, suggesting evolutionary functional specialization. Notably, a promoter analysis revealed an abundance of stress-responsive cis-regulatory elements (e.g., MYB, MYC, ARE, and MBS), implicating AsaPP2Cs in hormones and biotic stress adaptation. To elucidate their stress-responsive roles, we analyzed transcriptomic data and identified seven differentially expressed AsaPP2C (Asa_chr6Dg00217, Asa_chr6Ag01950, Asa_chr3Ag01998, Asa_chr5Ag00079, Asa_chr4Cg03270, Asa_chr6Cg02197, and Asa_chr7Dg02992) genes, which were validated via qRT-PCR. Intriguingly, these genes exhibited dynamic expression patterns under varying stress conditions, with their transcriptional responses being both time-dependent and stress-dependent, highlighting their regulatory roles in oat stress adaptation. Collectively, this study provides the first comprehensive genomic and functional characterization of the PP2C family in oat, offering valuable insights into their evolutionary diversification and functional specialization. Full article

(This article belongs to the Section Plant Genetics, Genomics and Biotechnology)

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16 pages, 2702 KiB

Open AccessArticle

Cytological Observation of Distant Hybridization Barrier and Preliminary Investigation of Hybrid Offspring in Tea Plants

by Xiaoli Mo, Yihao Wang, Yahui Huang, Zhen Zeng and Changyu Yan

Plants 2025, 14(13), 2061; https://doi.org/10.3390/plants14132061 - 5 Jul 2025

Viewed by 343

Abstract

The undertaking of distant hybridization holds paramount significance for the innovation of tea germplasm resources and the cultivation of superior, specialized tea varieties. However, challenges manifest during the process of tea plant distant hybridization breeding, with reproductive barriers impeding the successful acquisition of [...] Read more.

The undertaking of distant hybridization holds paramount significance for the innovation of tea germplasm resources and the cultivation of superior, specialized tea varieties. However, challenges manifest during the process of tea plant distant hybridization breeding, with reproductive barriers impeding the successful acquisition of hybrid progeny; the precise stages at which these barriers occur remain unclear. In this study, utilizing Camellia sinensis cv. Jinxuan as the maternal parent, as well as C. gymnogyna Chang and C. sinensis cv. Yinghong No.9 as the paternal parents, interspecific distant hybridization (DH) and intraspecific hybridization (IH) were conducted. The investigation involved the observation of pollen germination and pollen tube behavior on the stigma, the scrutiny of the developmental dynamics of the ovary post-hybridization, and the examination of the stages and reasons for reproductive disorders during tea tree distant hybridization. The findings indicate that both IH and DH exhibit pre-fertilization barriers. The pre-embryonic development of hybrids obtained from DH is normal, but there is a significant fruit drop during the stage of fruit development. The germination rate of mature seeds obtained from DH is low, and there are pronounced post-fertilization disorders, which are the primary reasons for the difficulty in achieving successful tea plant distant hybridization. An analysis of the genetic variation in phenotypes and chemical components in the progeny after distant hybridization revealed widespread variation and rich genetic diversity. The identification of progeny with a high amino acid and caffeine content holds promise for future production and breeding, providing valuable theoretical references for the selection of parents in the creation of low-caffeine-content tea germplasm resources. Full article

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20 pages, 2130 KiB

Open AccessArticle

Intercropping Lettuce with Alfalfa Under Variable Nitrate Supply: Effects on Growth Performance and Nutrient Dynamics in a Vertical Hydroponic System

by Luis D-Andrade, Nivia Escalante-Garcia, Ernesto Olvera-Gonzalez, Francesco Orsini, Giuseppina Pennisi, Felix Vega de Luna, Hector Silos-Espino and Cinthia Najera

Plants 2025, 14(13), 2060; https://doi.org/10.3390/plants14132060 - 5 Jul 2025

Viewed by 373

Abstract

Vertical farming systems offer an efficient solution for sustainable food production in urban areas. However, managing nitrate (NO₃⁻) levels remains a significant challenge for improving crop yield, quality, and safety. This study evaluated the effects of nitrate availability on growth [...] Read more.

Vertical farming systems offer an efficient solution for sustainable food production in urban areas. However, managing nitrate (NO₃⁻) levels remains a significant challenge for improving crop yield, quality, and safety. This study evaluated the effects of nitrate availability on growth performance, nutrient uptake, and water use efficiency in a vertical hydroponic system that intercropped lettuce (Lactuca sativa) with alfalfa (Medicago sativa). The experiment was conducted in a controlled vertical hydroponic system using Nutrient Film Technique (NFT) channels, with nitrogen levels set at 0, 33, 66, 100, and 133% of the standard concentration. The results indicated that the intercropping treatment with 66% nitrate (IC-N_66%) improved water use efficiency by 38% and slightly increased leaf area compared to the other intercropping treatments. However, the control group, which consisted of a monoculture with full nitrate supply, achieved the highest overall biomass. Ion concentrations, including nitrate, calcium, magnesium, and micronutrients, were moderately affected by the intercropping strategy and nitrate levels. These findings suggest that moderate nitrate input, combined with nitrogen-fixing legumes, can enhance resource efficiency in hydroponic systems without significantly compromising yield. These findings offer a promising framework for incorporating legumes into hydroponic systems, minimizing the need for synthetic inputs while maintaining yield. These results support the use of agroecological intensification strategies in highly efficient soilless systems. Full article

(This article belongs to the Section Plant Physiology and Metabolism)

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17 pages, 5753 KiB

Open AccessProtocol

Protoplast-Based Regeneration Enables CRISPR/Cas9 Application in Two Temperate Japonica Rice Cultivars

by Marion Barrera, Blanca Olmedo, Matías Narváez, Felipe Moenne-Locoz, Anett Rubio, Catalina Pérez, Karla Cordero-Lara and Humberto Prieto

Plants 2025, 14(13), 2059; https://doi.org/10.3390/plants14132059 - 5 Jul 2025

Viewed by 504

Abstract

Rice (Oryza sativa L.), a staple food for over half of the global population, plays a pivotal role in food security. Among its two primary groups, japonica and indica, temperate japonica varieties are particularly valued for their high-quality grain and culinary [...] Read more.

Rice (Oryza sativa L.), a staple food for over half of the global population, plays a pivotal role in food security. Among its two primary groups, japonica and indica, temperate japonica varieties are particularly valued for their high-quality grain and culinary uses. Although some of these varieties are adapted to cooler climates, they often suffer from reduced productivity or increased disease susceptibility when cultivated in warmer productive environments. These limitations underscore the need for breeding programs to incorporate biotechnological tools that can enhance the adaptability and resilience of the plants. However, New Genomic Techniques (NGTs), including CRISPR-Cas9, require robust in vitro systems, which are still underdeveloped for temperate japonica genotypes. In this study, we developed a reproducible and adaptable protocol for protoplast isolation and regeneration from the temperate japonica cultivars ‘Ónix’ and ‘Platino’ using somatic embryos as the starting tissue. Protoplasts were isolated via enzymatic digestion (1.5% Cellulase Onozuka R-10 and 0.75% Macerozyme R-10) in 0.6 M AA medium over 18–20 h at 28 °C. Regeneration was achieved through encapsulation in alginate beads and coculture with feeder extracts in 2N6 medium, leading to embryogenic callus formation within 35 days. Seedlings were regenerated in N6R and N6F media and acclimatized under greenhouse conditions within three months. The isolated protoplast quality displayed viability rates of 70–99% within 48 h and supported transient PEG-mediated transfection with GFP. Additionally, the transient expression of a gene editing CRISPR-Cas9 construct targeting the DROUGHT AND SALT TOLERANCE (OsDST) gene confirmed genome editing capability. This protocol offers a scalable and genotype-adaptable system for protoplast-based regeneration and gene editing in temperate japonica rice, supporting the application of NGTs in the breeding of cold-adapted cultivars. Full article

(This article belongs to the Special Issue Applications of Plant Biotechnology: In Vitro Propagation and Plant Transformations)

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12 pages, 2388 KiB

Open AccessArticle

Secondary Metabolites of Bacillus zhangzhouensis from Zygophyllum oxianum and Their Antifungal and Plant Growth-Regulating Properties

by Zokir O. Toshmatov, Fazliddin A. Melikuziev, Ilkham S. Aytenov, Ma’ruf Z. Isokulov, Gulnaz Kahar, Tohir A. Bozorov and Daoyuan Zhang

Plants 2025, 14(13), 2058; https://doi.org/10.3390/plants14132058 - 4 Jul 2025

Viewed by 414

Abstract

Plant species harbor diverse rhizospheric bacteria within their resilient root zones, serving as a valuable reservoir of bioactive microorganisms with strong potential for natural antifungal and plant growth-promoting applications. This study aimed to investigate the antagonistic potential of Bacillus zhangzhouensis, isolated from [...] Read more.

Plant species harbor diverse rhizospheric bacteria within their resilient root zones, serving as a valuable reservoir of bioactive microorganisms with strong potential for natural antifungal and plant growth-promoting applications. This study aimed to investigate the antagonistic potential of Bacillus zhangzhouensis, isolated from Zygophyllum oxianum in the Aral Sea region, Uzbekistan, against the fungal pathogen Cytospora mali. Due to its strong antifungal activity, B. zhangzhouensis was selected for bioactive compound profiling. Methanolic extracts were fractionated via silica and Sephadex gel chromatography, followed by antifungal screening using the agar diffusion method. A highly active fraction (dichloromethane/methanol, 9:1) underwent further purification, yielding twelve antifungal sub-fractions. Mass spectrometry analysis across positive and negative ion modes identified 2475 metabolites, with polar solvents—particularly methanol—enhancing compound recovery. Refinement using Bacillus-specific references identified six known antibiotics. Four pure compounds were isolated and structurally characterized using NMR: oleanolic acid, ursolic acid, cyclo-(Pro-Ser), and uracil. Their growth regulatory activity was assessed on Amaranthus retroflexus, Nicotiana benthamiana, triticale, and Triticum aestivum at concentrations of 5, 20, 100, and 500 mg L−1. All compounds negatively affected root growth in a concentration-dependent manner, especially in monocots. Interestingly, some treatments enhanced stem growth, particularly in N. benthamiana. These findings indicate that B. zhangzhouensis produces diverse bioactive compounds with dual antifungal and plant growth-modulatory effects, highlighting its potential as a biocontrol agent and a source of natural bioactive compounds. Full article

(This article belongs to the Section Plant Protection and Biotic Interactions)

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23 pages, 335 KiB

Open AccessReview

Urban Phytoremediation: A Nature-Based Solution for Environmental Reclamation and Sustainability

by Luca Di Stasio, Annamaria Gentile, Dario Nicola Tangredi, Paolo Piccolo, Gianmaria Oliva, Giovanni Vigliotta, Angela Cicatelli, Francesco Guarino, Werther Guidi Nissim, Massimo Labra and Stefano Castiglione

Plants 2025, 14(13), 2057; https://doi.org/10.3390/plants14132057 - 4 Jul 2025

Viewed by 682

Abstract

Starting from the Industrial Revolution in the 18th century to date, urban areas have faced increasing environmental challenges due to the diffusion of harmful substances, resulting from vehicular traffic, the activities of different industries, waste, and building construction, etc. These pollutants are dangerous, [...] Read more.

Starting from the Industrial Revolution in the 18th century to date, urban areas have faced increasing environmental challenges due to the diffusion of harmful substances, resulting from vehicular traffic, the activities of different industries, waste, and building construction, etc. These pollutants are dangerous, since they pose a threat to both the environment and human health. Phytoremediation is an environmentally friendly and low-cost technique that uses plants and their associated microorganisms to clean-up contaminated sites. In this review, we explore its main applications in urban settings. Specifically, we investigate how phytoremediation works, highlighting the most effective plants for its success in a city context. Moreover, we also describe the main factors influencing its effectiveness, such as soil, climate, and pollutants. In this regard, several case studies, conducted worldwide, have reported on how phytoremediation can successfully reclaim contaminated areas, transforming them into reusable city green spaces, with reduced costs compared to traditional remediation techniques (e.g., soil replacement, soil washing, etc.). Moreover, by integrating it into urban planning, cities can address environmental pollution, while promoting biodiversity, enhancing the landscape, and increasing its social acceptance. This nature-based solution offers a practical path toward more sustainable and resilient urban environments, especially in regard to the climate change framework. Full article

(This article belongs to the Special Issue Advances in Phytomanagement for Soil Health Restoration and Sustainability)

20 pages, 5419 KiB

Open AccessArticle

Analysis of Biomorphs in the Teleorman County of Romania

by Maria Magdalena Cernat Popa and Carmen Otilia Rusănescu

Plants 2025, 14(13), 2056; https://doi.org/10.3390/plants14132056 - 4 Jul 2025

Viewed by 265

Abstract

The study of flora is crucial for conserving natural resources and assessing human impact on the environment. This paper explores floristic diversity, the role of plants, and the integration of technology in botanical research. In the studied area, 462 plant species were identified. [...] Read more.

The study of flora is crucial for conserving natural resources and assessing human impact on the environment. This paper explores floristic diversity, the role of plants, and the integration of technology in botanical research. In the studied area, 462 plant species were identified. Bioform analysis revealed a predominance of hemicryptophytes (45.45%) and therophytes (26.19%), suggesting a warm climate and significant zoo-anthropogenic influences. Other bioforms were present in lower percentages. Most plant species in Teleorman County are mesophilic (39.39%) and mesoxerophilic (30.95%), indicating adaptation to moderate or slightly dry environments. Regarding temperature affinity, the majority are micromesotherms (62.98%), suited for mild thermal conditions. Soil reaction analysis showed a preference for weakly acidic neutrophilic (39.82%) and euryionic (33.76%) soils, indicating tolerance for neutral to slightly acidic pH levels. The research evaluates the structure and diversity of flora in Teleorman County and emphasizes the influence of climate factors such as humidity, temperature, and soil pH on species distribution. Using the transect method and fractal analysis, this study concludes that temperature is the dominant climatic factor shaping local biodiversity. Full article

(This article belongs to the Special Issue Plant Diversity and Classification)

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18 pages, 3950 KiB

Open AccessArticle

Optimization of Irrigation Amount and Nitrogen Rate of Drip-Fertigated Sugar Beet Based on Sugar Yield, Nitrogen Use Efficiency, and Critical Nitrogen Dilution Curve in the Arid Southern Xinjiang of China

by Ying Wang, Fulai Yan, Junliang Fan and Fucang Zhang

Plants 2025, 14(13), 2055; https://doi.org/10.3390/plants14132055 - 4 Jul 2025

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Abstract

The critical nitrogen (N) dilution curve is widely used to diagnose crop N status, but no such model has been developed for sugar beet. This study evaluated the effects of irrigation amount and N rate on sugar yield, N use efficiency, and soil [...] Read more.

The critical nitrogen (N) dilution curve is widely used to diagnose crop N status, but no such model has been developed for sugar beet. This study evaluated the effects of irrigation amount and N rate on sugar yield, N use efficiency, and soil nitrate-N (NO₃-N) residue of drip-fertigated sugar beet in the arid southern Xinjiang of China. A reliable N nutrition index (NNI) for sugar yield was also established based on a critical N dilution curve derived from the dry matter of sugar beet. A three-year field experiment was established with six N rates (25–480 kg N ha⁻¹) and three irrigation levels based on crop evapotranspiration (ET_c) (0.6, 0.8, and 1.0 ET_c in 2019 and 2020, and 0.4, 0.6, and 0.8 ET_c in 2021). Results showed that sugar yield and N uptake increased and then generally stabilized with increasing N rate, while N use efficiency decreased. Most soil NO₃-N was mainly distributed in the 0–60 cm soil layer, but increasing irrigation amount reduced residual NO₃-N in the 0–80 cm soil layer. Additionally, the established critical N dilution curve of sugar beet was considered stable (Normalized RMSE = 16.6%), and can be used to calculate plant N requirements and further N rates during sugar beet growth. The results indicated that the optimal NNI was 0.97 under 0.6 ET_c for sugar yield production of sugar beet in this study. This study provides a basis for efficient water and N management in sugar beet production in arid and semi-arid regions globally. Full article

(This article belongs to the Special Issue Nutrient Requirements and Fertilizer Management Strategies in Plant Cultivation)

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Plants, Volume 14, Issue 13 (July-1 2025) – 194 articles

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