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Plant diseases caused by soil-borne fungi and oomycetes significantly reduce yield and quality of many crops in the agricultural systems and are difficult to control. We herein examine Pseudomonas rhodesiae HAI-0804, a bacterial biological control agent that was originally developed for control of bacterial diseases on the surface of vegetables, and assessed its efficacy at controlling soil-borne diseases caused by oomycetes. Strain HAI-0804 did not exhibit detectable antibiotic activity toward Pythium ultimum , a causal agent of damping-off and root rot; however, it effectively protected against Pythium damping-off and root rot in cucumber. Exogenous glutamate enhanced the efficacy of biocontrol, the production of siderophore pyoverdine, root colonization in cucumber plants, and the ratio of biofilm formation to planktonic cells. The epiphytic fitness of strain HAI-0804 appears to contribute to plant protection efficacy against a broad spectrum of pathogens for both above-ground plant parts and the rhizosphere. [ABSTRACT FROM AUTHOR]

Root exudates serve as a bridge connecting plant roots and rhizosphere microbes, playing a key role in influencing the assembly and function of the rhizobiome. Recent studies have fully elucidated the role of root exudates in recruiting rhizosphere microbes to enhance plant performance, particularly in terms of plant resistance to soil-borne pathogens; however, it should be noted that the composition and amount of root exudates are primarily quantitative traits regulated by a large number of genes in plants. As a result, there are knowledge gaps in understanding the contribution of the rhizobiome to soil-borne plant disease resistance and the ternary link of plant genes, root exudates, and disease resistance-associated microbes. Advancements in technologies such as quantitative trait loci (QTL) mapping and genome-wide association studies (GWAS) offer opportunities for the identification of genes associated with quantitative traits. In the present review, we summarize recent studies on the interactions of plant and rhizosphere microbes through root exudates to enhance soil-borne plant disease resistance and also highlight methods for quantifying the contribution of the rhizobiome to plant disease resistance and identifying the genes responsible for recruiting disease resistance-associated microbes through root exudates. [ABSTRACT FROM AUTHOR]

Grapevine crown gall (GCG), a soil-borne plant disease caused by tumorigenic Allorhizobium vitis (TAV) (=tumorigenic Rhizobium vitis) strains, poses a significant threat to grapevines worldwide. Recently, outbreaks of GCG have been reported in several vineyards, necessitating investigation into potential alternative infection pathways beyond soil transmission. The spatiotemporal distribution of GCG in vineyards from 2020 to 2022 was analyzed using the binary power law (BPL) model, with variations in quadrat shapes. Both total and newly observed diseased plants exhibited an aggregated distribution, indicating that new infections clustered around existing diseased plants, with secondary infections appearing as independent cluster points. This study provides evidence that infected pruning tools can transmit the pathogen to healthy grapevines and that TAV inoculation through spraying contributes more to GCG incidence than planting in infected soil alone. This represents the first documented case of secondary above-ground TAV infection contributing to GCG in commercial vineyards. [ABSTRACT FROM AUTHOR]

Simple Summary: Fritillaria ussuriensis holds significance as one of the most crucial traditional Chinese medicinal plants utilized in the prevention and treatment of various human diseases. Currently, its availability depends on large-scale cultivation, with wilt disease posing a significant challenge during the planting process. Endophytic microorganisms within the plants play a vital role in maintaining plant health; however, disparities in microbial communities between diseased and healthy plants remain unclear. This study aimed to compare these variances, elucidate the distribution patterns of pathogens, and identify antagonistic microorganisms with biocontrol properties. The research revealed that these microorganisms were effective not only in combatting wilt in F. ussuriensis but also in controlling rot in other plants within the Liliaceae family. This discovery offers a promising avenue for the sustainable management and prevention of soil-borne diseases in plants. The cultivation of Fritillaria ussuriensis faces challenges due to the prevalent Fritillaria wilt disease, hindering large-scale production. To address this, we aimed to understand the disease's characteristics and develop effective prevention measures. Microbial communities of diseased F. ussuriensis plants were analyzed, pathogenic and antagonistic strains were screened, and biocontrol feasibility was tested. We identified Botryotinia predominance in aboveground parts and variations in Mrakia, Humicola, llyonectria, and Fusarium in underground parts. The pathogens Fusarium oxysporum IFM-1 and Fusarium solani IFM-52 isolated from diseased F. ussuriensis not only caused severe Fritillaria wilt but were also pathogenic to Lilium lancifolium and Allium cepa var. aggregatum in Liliaceae. The antagonistic Bacillus tequilensis LFM-30 and Trichoderma koningiopsis IFM-47 isolated from diseased plants significantly alleviated plant wilt and showed promise in preventing wilt disease caused by Fusarium in Liliaceae plants. Our study highlights distinct microbial differences between healthy and diseased F. ussuriensis and underscores the pathogenicity of Fusarium. Using T. koningiopsis and B. tequilensis either singly or in combination could offer effective biocontrol against F. solani and F. oxysporum, benefiting F. ussuriensis and related Liliaceae plants. [ABSTRACT FROM AUTHOR]

Panax plants are known for their significant medicinal and economic value. Being perennial, they are prone to soil-borne diseases during cultivation. However, there has been limited research on the pathogenesis of soil-borne diseases and the diversity of pathogens. While biological control has gained attention for its efficacy and environmental benefits, the factors affecting its efficiency still need thorough evaluation. This review summarizes the influence of biotic factors, such as pathogens and hosts, and environmental factors on the occurrence of soil-borne diseases and pathogen diversity. Additionally, we synthesized bacterial, actinobacterial, and fungal diversity for the biocontrol of soil-borne diseases and their functional mechanisms. Moreover, the review delves into the factors influencing the efficacy of biocontrol, including microbial species, the inoculation method and inoculation volume, and inoculant composition. This article serves as a valuable resource for enhancing the efficiency of biological control and optimizing strategies for managing soil-borne diseases in Panax cultivation in the future. [ABSTRACT FROM AUTHOR]

Grapevine crown gall (GCG), a soil-borne plant disease caused by tumorigenic Allorhizobium vitis (TAV) (=tumorigenic Rhizobium vitis) strains, poses a significant threat to grapevines worldwide. Recently, outbreaks of GCG have been reported in several vineyards, necessitating investigation into potential alternative infection pathways beyond soil transmission. The spatiotemporal distribution of GCG in vineyards from 2020 to 2022 was analyzed using the binary power law (BPL) model, with variations in quadrat shapes. Both total and newly observed diseased plants exhibited an aggregated distribution, indicating that new infections clustered around existing diseased plants, with secondary infections appearing as independent cluster points. This study provides evidence that infected pruning tools can transmit the pathogen to healthy grapevines and that TAV inoculation through spraying contributes more to GCG incidence than planting in infected soil alone. This represents the first documented case of secondary above-ground TAV infection contributing to GCG in commercial vineyards. [ABSTRACT FROM AUTHOR]

Bacterial wilt (BW) is a devastating plant disease caused by the soil-borne bacterium Ralstonia solanacearum species complex (Rssc). Numerous efforts have been exerted to control BW, but effective, economical, and environmentally friendly approaches are still not available. Bacteriophages are a promising resource for the control of bacterial diseases, including BW. So, in this study, a crop BW pathogen of lytic bacteriophage was isolated and named PQ43W. Biological characterization revealed PQ43W had a short latent period of 15 min, 74 PFU/cell of brust sizes, and good stability at a wide range temperatures and pH but a weak resistance against UV radiation. Sequencing revealed phage PQ43W contained a circular double-stranded DNA genome of 47,156 bp with 65 predicted open reading frames (ORFs) and genome annotation showed good environmental security for the PQ43W that no tRNA, antibiotic resistance, or virulence genes contained. Taxonomic classification showed PQ43W belongs to a novel genus of subfamily Kantovirinae under Caudoviricetes. Subsequently, a dose of PQ43W for phage therapy in controlling crop BW was determined: 108 PFU*20 mL per plant with non-invasive irrigation root application twice by pot experiment. Finally, a field experiment of PQ43W showed a significantly better control effect in crop BW than the conventional bactericide Zhongshengmycin. Therefore, bacteriophage PQ43W is an effective bio-control resource for controlling BW diseases, especially for crop cultivation. [ABSTRACT FROM AUTHOR]

Background: Soil-borne plant diseases represent a severe problem that negatively impacts the production of food crops. Actinobacteria play a vital role in biocontrolling soil-borne fungi. Aim and objectives: The target of the present study is to test the antagonistic activity of chitinase-producing Streptomyces cellulosae Actino 48 (accession number, MT573878) against Rhizoctonia solani. Subsequently, maximization of Actino 48 production using different fermentation processes in a stirred tank bioreactor. Finally, preparation of bio-friendly formulations prepared from the culture broth of Actino 48 using talc powder (TP) and bentonite in a natural as well as nano forms as carriers. Meanwhile, investigating their activities in reducing the damping-off and root rot diseases of peanut plants, infected by R. solani under greenhouse conditions. Results: Actino 48 was found to be the most significant antagonistic isolate strain at p ≤ 0.05 and showed the highest inhibition percentage of fungal mycelium growth, which reached 97%. The results of scanning electron microscope (SEM) images analysis showed a large reduction in R. solani mycelia mass. Additionally, many aberrations changes and fungal hypha damages were found. Batch fermentation No. 2, which was performed using agitation speed of 200 rpm, achieved high chitinase activity of 0.1163 U mL− 1 min− 1 with a yield coefficient of 0.004 U mL− 1 min− 1 chitinase activity/g chitin. Nano-talc formulation of Actino 48 had more a significant effect compared to the other formulations in reducing percentages of damping-off and root rot diseases that equal to 19.05% and 4.76% with reduction percentages of 60% and 80%, respectively. The healthy survival percentage of peanut plants recorded 76.19%. Furthermore, the nano-talc formulation of Actino 48 was sufficient in increasing the dry weight of the peanut plants shoot, root systems, and the total number of peanut pods with increasing percentages of 47.62%, 55.62%, and 38.07%, respectively. Conclusion: The bio-friendly formulations of actinobacteria resulting from this investigation may play an active role in managing soil-borne diseases. [ABSTRACT FROM AUTHOR]

Simple Summary: Black soldier fly larvae (BSFL) frass, the residual material resulting from the bioconversion of organic matter by BSFL, is gaining attention as a potential organic amendment for plant growth. Studies have reported the potential of BSFL frass to replace commercial inorganic fertilizers in food crops. Besides improving soil fertility, BSFL frass was recently shown to have antifungal activity against different fungal plant pathogens, suggesting that it could suppress fungal plant diseases. This study investigated the effect of BSFL frass derived from BSFL reared on a diet composed of fruit/vegetable/bakery/brewery residues (FVBB diet) and on the Gainesville diet (GV diet) on the development of Fusarium wilt in tomato plants caused by the fungus Fusarium oxysporum f. sp. lycopersici (FOL). The results show that frass from BSFL reared on the GV diet, treated with heat (70 °C, 1 h) or not, inhibited FOL root colonization and reduced the severity of the disease to a far greater extent than frass from BSFL reared on a FVBB diet and commercial compost made of peat, seaweed, and shrimps. This study suggests that BSFL frass, depending on the larval rearing diet, could serve as a soil amendment to control FOL in tomato plants, opening new avenues of research for the valorization of BSFL frass. This study investigated the effect of black soldier fly larvae (BSFL) frass derived from BSFL reared on a diet composed of fruit/vegetable/bakery/brewery residues (FVBB diet) and on the Gainesville diet (GV diet) on the development of tomato (Solanum lycopersicum) Fusarium wilt caused by Fusarium oxysporum f. sp. lycopersici (FOL). Tomato plants were grown in a substrate inoculated with FOL that was amended (10%, v:v) or not (control) with either a commercial compost, pasteurized (70 °C for 1 h) frass from BSFL reared on a FVBB diet, non-pasteurized frass from BSFL reared on a FVBB diet, pasteurized frass from BSFL reared on the GV diet, or non-pasteurized frass from BSFL reared on the GV diet. The results show that frass from BSFL reared on the GV diet, irrespective of pasteurization, inhibited FOL root colonization and reduced the severity of tomato Fusarium wilt to a far greater extent than frass from BSFL reared on a FVBB diet and commercial compost made of peat, seaweed, and shrimps. This study suggests that BSFL frass, depending on the larval rearing diet, has the potential to serve as a pasteurized or non-pasteurized soil amendment with prophylactic properties against FOL in tomato plants, opening new avenues of research for the valorization of BSFL frass. [ABSTRACT FROM AUTHOR]

Vermicompost is applied as a soil amendment to promote plant growth and yield. It also helps to significantly reduce the incidence of soil-borne diseases. However, its efficiency depends on the type of earthworm from which it is formed. The current study aims to compare the effects of two vermicompost types derived from African nightcrawler (AF) and Tiger worm (TG) as a soil amendment to evaluate its potential for suppressing damping-off disease both in vitro and in vivo. It also aims to determine the effects of both vermicompost types on the growth and yield-related traits of potted Thai vegetable soybean [Glycine max (L.) Merrill] variety "Chiang Mai 84–2" grown under greenhouse conditions when amended to the soil at various application rates (1%, 2%, 3% w/w). AF vermicompost exhibited better suppression of damping-off disease than TG vermicompost in vitro and under greenhouse conditions. AF vermicompost performed significantly greater suppressive efficacy on the mycelial growth of Athelia rolfsii in vitro than TG vermicompost, indicated by 50% and 16% inhibition, respectively. Damping-off incidence on vegetable soybean seedlings grown in soil amended with AF vermicompost was significantly lower (21%) than in soil amended with TG vermicompost (32%) under greenhouse conditions. With an increased application rate of 1% to 2% or 3% for each vermicompost type, plant yields significantly enhanced, with no significant variations among the 2% and 3% rates. Applying vermicompost at 2% w/w through soil amendment was the appropriate rate for promoting the growth and yield of potted vegetable soybeans. The results can be used to guide the application of vermicompost to control soil-borne plant diseases, promote plant growth, and enhance yields, especially in terms of organic crop production. Further research is needed to evaluate its potential for other potted crops and protect against soil-borne diseases. [ABSTRACT FROM AUTHOR]

This document is a corrigendum for an article titled "Active substances of myxobacteria against plant diseases and their action mechanisms." The corrigendum addresses errors in the article, including an incorrect article title and missing citations. The article discusses the active substances produced by myxobacteria and their potential for biological control of plant diseases. It explores the mechanisms of action, including the role of carbohydrate-active enzymes and small molecule compounds. The authors are affiliated with the College of Life Sciences and the College of Science at Inner Mongolia Agricultural University in China. Myxobacteria are microorganisms known for their complex life cycles and unique social behaviors. They have a wide range of habitats, including soil, rotting wood, animal dung, and marine environments. Myxobacteria have become a valuable resource for new natural compounds, with approximately 40% of their metabolites having novel chemical structures. These metabolites play important roles in regulating cell-cell interactions within the colony and in prey hunting. Myxobacteria have great potential in plant disease control due to their ability to produce enzymes and small molecule compounds that can degrade cell walls, inhibit biofilm formation, and interfere with protein synthesis in plant pathogens. [Extracted from the article]

The stability of microbial communities, especially among core taxa, is essential for supporting plant health. However, the impacts of disease infection on the stability of rhizosphere fungal core microbiome remain largely unexplored. In this study, we delved into the effects of root rot infestation on the community structure, function, network complexity, and stability of Sanqi fungal core microbiomes, employing amplicon sequencing combined with co-occurrence network and cohesion analyses. Our investigation revealed that root rot disease led to a decrease in the α-diversity but an increase in the β-diversity of the Sanqi fungal core microbiomes in the rhizosphere. Notably, Ilyonectria, Plectosphaerella, and Fusarium emerged as indicator species in the rhizosphere core microbiome of root rot-infected Sanqi plants, while Mortierella predominated as the dominant biomarker taxa in healthy soils. Additionally, root rot diminished the complexity and modularity of the rhizosphere networks by reducing the metrics associated with nodes, edges, degrees, and modularity. Furthermore, root rot resulted in a reduction in the proportion of negative connections in the network and the negative/positive cohesion of the entire core fungal microbiome. Particularly noteworthy was the observation that root rot infection destabilized the rhizosphere core fungal microbiome by weakening the negative connectivity associated with beneficial agents. Collectively, these results highlight the significance of the negative connectivity of beneficial agents in ensuring the stability of core microbial community. IMPORTANCE Root rot disease has been reported as the most devastating disease in the production process of artificial cultivated Sanqi ginseng, which seriously threatens the Sanqi industry. This study provides valuable insights into how root rot influence s microbial relationships within the community. These findings open up opportunities for disease prevention and the promotion of plant health by regulating microbial interactions. In summary, the research sheds light on the ecological consequences of root rot on rhizosphere fungal microbiomes and offers potential strategies for managing soil-borne diseases and enhancing plant health. [ABSTRACT FROM AUTHOR]

The utilization of Trichoderma longibrachiatum filtrate as a safe biocontrol method for producing zinc nanoparticles is a promising approach for managing pests and diseases in agricultural crops. The identification of Trichoderma sp. was achieved through PCR amplification and sequencing of 18s as ON203115, while the synthesis of ZnO-NPs was accomplished by employing Trichoderma filtration. The presence of ZnO-NPs was confirmed by observing a color change to dark green, along with the use of visible and UV spectrophotometers, and the formation and chemical structure of ZnO-NPs were examined. Direct exposure to ZnO-NPs exhibited a significant inhibitory effect on the growth of Fusarium oxysporum at 80.73% compared with control. Also, the percent mortality of Meloidogyne incognita second juveniles stage (J2s) results showed 11.82%, 37.63%, 40.86%, and 89.65% after 6, 12, 24, and 72 h, respectively in vitro. Disease resistance was assessed in the greenhouse against M. incognita and F. oxysporum using the drench application of ZnO-NPs. The application of ZnO-NPs significantly reduced the disease severity of F. oxysporum and improved the quality and quantity of sweet pepper yield. In addition, the application of ZnO-NPs to M. incognita resulted in a significant reduction in the number of nematode galls, egg masses per root, eggs/egg mass, and females by 98%, 99%, 99.9%, and 95.5% respectively. Furthermore, it was observed that the application of ZnO-NPs to pepper plants not only inhibited the growth of F. oxysporum and M. incognita, but also promoted the recovery of pepper plants as indicated by improvements in stem length by 106%, root length 102%, fresh weight 112%, root fresh weight 107%, and leaf area 118% compared to healthy control plants. Additionally, real-time PCR application and DD-PCR technique revealed that the application of ZnO-NPs stimulated the secretion of certain enzymes. These findings suggest that the biosynthesized ZnO-NPs possess anti-nematode and antifungal properties, making them effective for protecting plants against M. incognita and F. oxysporum invasion in soil. This study significantly contributes to our understanding of the nematicidal and fungicidal activities of ZnO-NPs in suppressing soil-borne diseases. [ABSTRACT FROM AUTHOR]

Introduction: Aspergillus nomiae is known as a pathogenic fungus that infects humans and plants but has never been reported as an entomophagous fungus (EPF) that can provide other functions as an endotype. Methods: A strain of EPF was isolated and identified from diseased larvae of Spodoptera litura in a soybean field and designated AnS1Gzl-1. Pathogenicity of the strain toward various insect pests was evaluated, especially the ability to colonize plants and induce resistance against phytopathogens and insect pests. Results: The isolated EPF strain AnS1Gzl-1 was identified as A. nomiae; it showed strong pathogenicity toward five insect pests belonging to Lepidoptera and Hemiptera. Furthermore, the strain inhibited the growth of Sclerotinia sclerotiorum in vitro, a causal agent of soil-borne plant disease. It colonized plants as an endophyte via root irrigation with a high colonization rate of 90%, thereby inducing plant resistance against phytopathogen infection, and disrupting the feeding selectivity of S. litura larvae. Discussion: This is the first record of a natural infection of A. nomiae on insects. A. nomiae has the potential to be used as a dual biocontrol EPF because of its ability to not only kill a broad spectrum of insect pests directly but also induce resistance against phytopathogens via plant colonization. [ABSTRACT FROM AUTHOR]

This study reports on the effects of pretreated biogas slurry on degraded farm soil properties, microflora and the production of Capsicum spp. The responses of soil properties, microorganisms and Capsicum spp. production to biogas slurry pretreated soil were determined. The biogas slurry pretreatment of degraded soil increases the total nitrogen (0.15–0.32 g/kg), total phosphorus (0.13–0.75 g/kg), available phosphorus (102.62–190.68 mg/kg), available potassium (78.94–140.31 mg/kg), organic carbon content (0.67–3.32 g/kg) and pH value of the soil, while the population, diversity and distribution of soil bacteria and fungi were significantly affected. Interestingly, soil ammonium nitrogen, soil pH and soil nitrate nitrogen were highly correlated with the population of bacteria and fungi present in the pretreated soil. The soil with biogas slurry pretreatment of 495 m3/hm2 favored the seedling survival rate, flowering rate and fruit-bearing rate of Capsicum spp. and significantly reduced the rate of rigid seedlings. In this study, the application of 495 m3/hm2 biogas slurry to pretreat degraded soil has achieved the multiple goals of biogas slurry valorization, soil biofertilization and preventing and controlling plant diseases caused by soil-borne pathogenic microorganisms. These findings are of significant importance for the safe and environmentally friendly application of biogas slurry for soil pretreatment. [ABSTRACT FROM AUTHOR]

Chili (Capsicum annuum L.) is highly susceptible to soilborne diseases, thereby presenting a significant threat that results in considerable yield losses in chili production. The exploration of genes conferring resistance and the underlying defense mechanisms presents a promising strategy for bolstering plant disease control. In this study, we selected two distinct cultivars, the disease-sensitive 'Hailan 99' and the disease-tolerant 'Sanxiaqing', to elucidate the molecular basis of their responses to soilborne disease intervention. We conducted a comprehensive analysis of root morphological characteristics and transcriptome profiles under stress conditions. Our findings revealed that, when subjected to soilborne disease intervention, these two cultivars exhibited contrasting root system characteristics and responses, reflecting diverse defense strategies. The disease-resistant cultivar demonstrated superior adaptability, possibly owing to its capacity for swift recognition of pathogen effectors, activation of defense responses, and effective containment of infection at localized sites, thus impeding disease progression. Noteworthy genes such as T459_04053, implicated in effector recognition; MSTRG.26158, MSTRG.30886, and T459_22510, associated with secondary metabolite biosynthesis; and T459_05615, partaking in the autophagy pathway, along with other differentially expressed genes linked to effector recognition, immune activation, and modulation of cell death processes, offer valuable insights into enhancing soilborne disease resistance in chili. Furthermore, these findings contribute to an enhanced understanding of the molecular mechanisms underlying soilborne disease resistance in diverse plant crops. [ABSTRACT FROM AUTHOR]

The soil microbiome is known to be crucial for the control of soil-borne plant diseases. However, there is still little knowledge on how to modify the soil microbiome to induce or increase disease suppressiveness. In the present study, we applied eleven soil health treatments combined with conventional and organic agricultural management in a long-term field experiment. Suppressiveness against Pythium ultimum and Rhizoctonia solani was assessed in bioassays for 2 years. In addition, the microbiome community composition and microbial abundance were determined. We found that while several treatments changed the microbial community composition compared to the control, only a combination treatment of anaerobic soil disinfestation, hair meal, and compost addition resulted in suppressiveness against P. ultimum. Pythium suppressiveness is likely to have been caused by an increased microbial abundance and activity. Moreover, the increased abundance of several bacterial taxa, such as Pseudomonas sp., Chryseobacterium sp., members of the family Chitinophagaceae, and the fungal genus Mortierella sp. and family Trichosporonaceae, was measured. There was no overall difference in suppressiveness between conventional and organic land management. Also, no suppressiveness against R. solani could be detected. Our results indicate that a treatment combining the reduction of microorganisms followed by a recovery phase with high amounts of organic amendments may be more effective in inducing suppressiveness than treatments consisting of only one of these measures. [ABSTRACT FROM AUTHOR]

Wheat sharp eyespot, a stem disease caused by the soilborne fungus Rhizoctonia cerealis van der Hoeven, has become a threat to wheat production worldwide. Exploiting resistance resources from wild relatives of wheat is a promising strategy for controlling this disease. In this study, a new wheat-Dasypyrum villosum T2DS.2V#4L translocation line in the background of Chinese Spring (CS) showed stable resistance to R. cerealis. Introgression of the T2DS.2V#4L chromosome into wheat cultivar Aikang 58 by backcrossing produced a marked increase in sharp eyespot resistance in NIL-T2DS.2V#4L in comparison with NILT2DS .2DL, and no detrimental effects of 2V#4L on agronomic traits were observed in the BC2F2, BC2F2:3, and BC2F2:4 generations. Flow-sorted sequencing of 2V#4L yielded 384.3 Mb of assembled sequence, and 8836 genes were predicted of which 6154 had orthologs in at least one of the 2AL, 2BL, and 2DL arms of CS, whereas 1549 genes were unique to 2V#4L. About 100,000 SNPs were detected in genes of 2V#4L and 2DL in 10 sequenced bread wheat cultivars. A Kompetitive Allele Specific Polymerase chain reaction and 30 conserved ortholog sequence markers were developed to trace the 2V#4L chromatin in wheat backgrounds. T2DS.2V#4L compensating translocation lines represent novel germplasm with sharp eyespot resistance and the markers will allow rapid detection in breeding programs. [ABSTRACT FROM AUTHOR]

This document is an editorial published in the journal Frontiers in Plant Science. It discusses the topic of plant resistance to soil-borne diseases, which continue to pose challenges to global agriculture. The editorial highlights the genetic basis of plant resistance and effective strategies for managing these diseases. The document categorizes the research articles included in the topic into three themes: pathogenesis of soil-borne diseases, identification of key genes involved in plant resistance, and biological control of these diseases. The editorial provides insights into autotoxins in plants, tobacco target spot disease, basal stalk rot disease in sunflowers, brown stem rot disease in soybeans, Phytophthora-associated diseases, and charcoal rot disease. It also mentions the importance of understanding the mechanisms of soil-borne disease resistance for developing disease control technologies. [Extracted from the article]

Background: Allyl isothiocyanate (AITC) is a natural product with high volatility that is used as a biofumigant to alleviate soil-borne plant diseases, and problems such as root knot nematodes (RKNs) that necessitate continuous cropping. However, little research has assessed the effects of AITC fumigation on medicinal plants. Results: AITC significantly reduced the population of RKNs in soil (p < 0.0001) and showed an excellent RKN disease control effect within 6 months after sowing Panax notoginseng (p < 0.0001). The seedling survival rate of 2-year-old P. notoginseng was approximately 1.7-fold higher after soil treatment with AITC (p = 0.1008). 16S rRNA sequencing indicated that the AITC treatment affected bacterial richness rather than diversity in consecutively cultivated (CC) soil. Furthermore, biomarkers with statistical differences between AITC-treated and untreated CC soil showed that Pirellulales (order), Pirellulaceae (family), Pseudomonadaceae (family), and Pseudomonas (genus) played important roles in the AITC-treated group. In addition, the microbiome functional phenotypes predicted using the BugBase tool suggested that AITC treatment is more conducive to improving CC soil through changes in the bacterial community structure. Crucially, our research also suggested that AITC soil treatment significantly increases soil organic matter (p = 0.0055), total nitrogen (p = 0.0054), and available potassium (p = 0.0373), which promotes the survival of a succeeding medicinal plant (Polygonatum kingianum). Conclusion: AITC is an ecologically friendly soil treatment that affects the top 10 bacterial richness but not diversity. It could also provide a basis for a useful agricultural soil management measure to alleviate soil sickness. [ABSTRACT FROM AUTHOR]

Global population is increasing massively and so is the demand for food. To meet the requirements, crops are being grown and harvested by using modern technologies. Also, food crops are at risk of some abiotic and biotic factors mainly pathogens (soil or airborne). To boost the production of food crops and to reduce the damage caused by biotic factors the farmer community increases the use of chemical fertilizers, insecticides, and pesticides. However, these are effective to overcome the problems but also make the pathogens resistant, affecting food quality and polluting the environment. To minimize the pathogenic attack and enhance the crop yield there is a need of adapting an ecofriendly way. Soil organic amendments are the best preventive practice for the suppression of soil-borne pathogens. Improving the soil’s physical, chemical, and microbial characteristics. Some organic amendments enhance the soil particles, increase pore size, and decrease soil bulk density which influences a positive effect on soil aeration and structure. Different types of organic amendments such as biochar, animal manure, green manure, and compost are reported to be effective against diseases caused by different pathogens and enhance plant nutrient uptake ability, and improve soil health. This current review focuses on the use of different soil organic amendments and their capability for suppressing plant disease caused by soil-borne pathogens in a natural and eco-friendly manner. [ABSTRACT FROM AUTHOR]

Introduction: Root-knot nematode (RKN; Meloidogyne spp.) is one of the most infamous soilborne plant diseases, causing severe crop losses every year. Effector proteins secreted by RKNs play crucial roles during plant-nematode interaction. However, less is known about whether RKN effector proteins can impact the rhizosphere microbial environment. Methods: In this study, we investigated the rhizosphere microbiome community of MiMIF-2 (a plant immunity-modulating effector) transgenic Arabidopsis thaliana with or without nematode infection using the Illumina high-throughput sequencing analysis. Results and discussion: The results showed that the bacterial species richness index increased, while the fungi species richness index decreased in M. incognita-infected MiMIF-2 transgenic A. thaliana plants. The relative abundance of genera such as Clitopilus, Komagataeibacter, Lactobacillus, Prevotella, Moritella, Vibrio, Escherichia-Shigella, and Pseudomonas was reduced in MiMIF-2 transgenic A. thaliana plants compared to wild type, but was significantly increased after inoculation with M. incognita. The Cluster of Orthologous Genes (COG) function classification analysis revealed a decrease in the relative abundance of defense mechanisms, secondary metabolite biosynthesis, transport, and nematode infection catabolism-related functions in MiMIF-2 lines compared to the wild type. These differences may be the reason for the increased susceptibility of MiMIF-2 transgenic A. thaliana to nematode infection. Our results provide a new insight into RKN effector proteins and their association with the microbial community, host, and plant pathogens, which will lead to the exploration of new innovative ideas for future biological control of RKNs. [ABSTRACT FROM AUTHOR]

Soil-borne plant diseases seriously threaten the tomato industry worldwide. Currently, eco-friendly biocontrol strategies have been increasingly considered as effective approaches to control the incidence of disease. In this study, we identified bacteria that could be used as biocontrol agents to mitigate the growth and spread of the pathogens causing economically significant diseases of tomato plants, such as tomato bacterial wilt and tomato Fusarium wilt. Specifically, we isolated a strain of Bacillus velezensis (RC116) from tomato rhizosphere soil in Guangdong Province, China, with high biocontrol potential and confirmed its identity using both morphological and molecular approaches. RC116 not only produced protease, amylase, lipase, and siderophores but also secreted indoleacetic acid, and dissolved organophosphorus in vivo. Moreover, 12 Bacillus biocontrol maker genes associated with antibiotics biosynthesis could be amplified in the RC116 genome. Extracellular secreted proteins of RC116 also exhibited strong lytic activity against Ralstonia solanacearum and Fusarium oxysporum f. sp. Lycopersici. Pot experiments showed that the biocontrol efficacy of RC116 against tomato bacteria wilt was 81%, and consequently, RC116 significantly promoted the growth of tomato plantlets. Based on these multiple biocontrol traits, RC116 is expected to be developed into a broad-spectrum biocontrol agent. Although several previous studies have examined the utility of B. velezensis for the control of fungal diseases, few studies to date have evaluated the utility of B. velezensis for the control of bacterial diseases. Our study fills this research gap. Collectively, our findings provide new insights that will aid the control of soil-borne diseases, as well as future studies of B. velezensis strains. [ABSTRACT FROM AUTHOR]

The cliff rose (Armeria maritima), like other halophytes, has a phenolics-based antioxidant system that allows it to grow in saline habitats. Provided that antioxidant properties are usually accompanied by antimicrobial activity, in this study we investigated the phytochemicals present in a hydromethanolic extract of A. maritima flowers and explored its antifungal potential. The main phytocompounds, identified by gas chromatography–mass spectrometry, were: hexadecanoic acid, octadecanoic acid, 9-octadecenoic acid, 3-(3,4-dihydroxy-phenyl)-acrylic acid ethyl ester, and benzeneacetaldehyde. The antifungal activity of the extract and its main constituents—alone and in combination with chitosan oligomers—was tested against six pathogenic taxa associated with soil-borne diseases of plant hosts in the family Cucurbitaceae: Fusarium equiseti, F. oxysporum f. sp. niveum, Macrophomina phaseolina, Neocosmospora falciformis, N. keratoplastica, and Sclerotinia sclerotiorum. In in vitro tests, EC90 effective concentrations in the 166−865 μg·mL−1 range were obtained for the chitosan oligomers–A. maritima extract conjugate complexes, lower than those obtained for fosetyl-Al and azoxystrobin synthetic fungicides tested for comparison purposes, and even outperforming mancozeb against F. equiseti. In ex situ tests against S. sclerotiorum conducted on artificially inoculated cucumber slices, full protection was achieved at a dose of 250 μg·mL−1. Thus, the reported results support the valorization of A. maritima as a source of biorationals for Cucurbitaceae pathogens protection, suitable for both organic and conventional agriculture. [ABSTRACT FROM AUTHOR]

Simple Summary: Verticillium dahliae (Vd) is a kind of soil-borne filamentous fungus that can cause Verticillium wilt in many crops and serious damage to agricultural production. Vd 991 is a main pathogen of cotton Verticillium wilt. Previously, we isolated C17 mycosubtilin from Bacillus subtilis J15 (BS J15) broth and showed a significant inhibitory effect on cotton Verticillium wilt. However, the specific fungistatic mechanism by which C17 mycosubtilin antagonizes Vd 991 is not clear. Here, we found that C17 mycosubtilin inhibited the growth and spore germination of Vd 991. C17 mycosubtilin treatment caused shrinking, sinking, and even damage to spores, resulting in rough deformation and uneven distribution of hyphal contents, damage to the cell membrane and cell wall, and mitochondrial swelling of fungi. Moreover, C17 mycosubtilin induced necrosis of Vd 991 in a time-dependent manner. Differential transcription analysis showed that C17 mycosubtilin inhibited fungal growth mainly by destroying the cell structure, blocking the cell cycle, disturbing substance, energy metabolism, and so on. Our results reveal the potential mechanism by which C17 mycosubtilin antagonizes Vd 991, providing useful information for development of more effective antimicrobials. Verticillium wilt is a kind of soil-borne plant fungal disease caused by Verticillium dahliae (Vd). Vd 991 is a strong pathogen causing cotton Verticillium wilt. Previously, we isolated a compound from the secondary metabolites of Bacillus subtilis J15 (BS J15), which showed a significant control effect on cotton Verticillium wilt and was identified as C17 mycosubtilin. However, the specific fungistatic mechanism by which C17 mycosubtilin antagonizes Vd 991 is not clear. Here, we first showed that C17 mycosubtilin inhibits the growth of Vd 991 and affects germination of spores at the minimum inhibitory concentration (MIC). Morphological observation showed that C17 mycosubtilin treatment caused shrinking, sinking, and even damage to spores; the hyphae became twisted and rough, the surface was sunken, and the contents were unevenly distributed, resulting in thinning and damage to the cell membrane and cell wall and swelling of mitochondria of fungi. Flow cytometry analysis with ANNEXINV-FITC/PI staining showed that C17 mycosubtilin induces necrosis of Vd 991 cells in a time-dependent manner. Differential transcription analysis showed that C17 mycosubtilin at a semi-inhibitory concentration (IC50) treated Vd 991 for 2 and 6 h and inhibited fungal growth mainly by destroying synthesis of the fungal cell membrane and cell wall, inhibiting its DNA replication and transcriptional translation process, blocking its cell cycle, destroying fungal energy and substance metabolism, and disrupting the redox process of fungi. These results directly showed the mechanism by which C17 mycosubtilin antagonizes Vd 991, providing clues for the mechanism of action of lipopeptides and useful information for development of more effective antimicrobials. [ABSTRACT FROM AUTHOR]

Bacillus subtilis strain NCD-2 is a promising biocontrol agent for soil-borne plant diseases and shows potential for promoting the growth of some crops. The purposes of this study were to analyze the colonization ability of strain NCD-2 in different crops and reveal the plant growth promotion mechanism of strain NCD-2 by rhizosphere microbiome analysis. qRT-PCR was used to determine the populations of strain NCD-2, and microbial communities' structures were analyzed through amplicon sequencing after application of strain NCD-2. Results demonstrated that strain NCD-2 had a good growth promotion effect on tomato, eggplant and pepper, and it was the most abundant in eggplant rhizosphere soil. There were significantly differences in the types of beneficial microorganisms recruited for different crops after application of strain NCD-2. PICRUSt analysis showed that the relative abundances of functional genes for amino acid transport and metabolism, coenzyme transport and metabolism, lipid transport and metabolism, inorganic ion transport and metabolism, and defense mechanisms were enriched in the rhizospheres of pepper and eggplant more than in the rhizospheres of cotton, tomato and maize after application of strain NCD-2. In summary, the colonization ability of strain NCD-2 for five plants was different. There were differences in microbial communities' structure in rhizosphere of different plants after application of strain NCD-2. Based on the results obtained in this study, it was concluded that the growth promoting ability of strain NCD-2 were correlated with its colonization quantity and the microbial species it recruited. [ABSTRACT FROM AUTHOR]

• Bacillus velezensis GX1 represents a promising biocontrol agent against lily bulb rot. • Crude extracts of lipopeptides from the GX1 fermentation broth inhibited Fusarium commune. • GX1 has the potential to synthesize four antimicrobial peptides (AMPs). Bulb rot of lily (Lilium brownii var. viridulum), caused by Fusarium commune, is a serious soilborne disease of lily plants. In this study, several bacterial isolates were obtained from the rhizosphere of healthy lily plants and evaluated for biocontrol potential. Among the obtained isolates, GX1 had the highest level of antifungal activity in vitro, inhibiting the growth of F. commune by 52.0 %, relative to the control (CK). The isolate was identified as Bacillus velezensis based on its morphology and 16S rRNA and gyrB gene sequence analysis. The fermentation broth of GX1 after 12 d of fermentation at 25 °C (pH 7) exhibited strong antifungal activity. A crude lipopeptide extracts of GX1 fermentation broth was as effective (50.3 %) at inhibiting the mycelial growth of F. commune as living cultures of GX1. GX1 possesses fenD, bmyB, srfAA and bacA antimicrobial peptide (AMP) genes, which may be the primary source of its antifungal activity. GX1 significantly reduced the disease severity index of lily bulb rot in pot experiments, indicating that B. velezensis GX1 has substantial potential for the biological control of lily bulb rot. [ABSTRACT FROM AUTHOR]

Soil-borne plant diseases significantly threaten agricultural sustainability, leading to substantial crop loss. Although chemical pesticides are effective, their environmental and health risks are concerning. Recently, compost has gained attention as a sustainable alternative for managing plant pathogens. Its effectiveness is due to its physical (e.g., particle aggregation and moisture retention), chemical (e.g., pH, electrical conductivity, nutrient balance, and humic substances), and biological properties (e.g., diverse microbial communities). These properties contribute to pathogen suppression through direct mechanisms, involving the release of toxic compounds and competition with compost-introduced microbiota, and indirect mechanisms, including the modulation of plant biochemical pathways, alleviation of oxidative damage, enhancement of defense-related enzymatic activities, and induction of systemic resistance. Overall, this review groups and classify the mechanisms induced by compost, highlighting its potential as a natural substitute to chemical pesticides. [Display omitted] • Compost outperforms chemical pesticides in controlling pathogens and promoting plant health. • Compost with specific traits creates an unfavorable environment for plant pathogens. • Compost modulates plant physiological process to combat pathogens. • Compost restores plant homeostasis and improves plant growth and development. [ABSTRACT FROM AUTHOR]

Accurately predicting soil-borne fungal diseases linked to plant diseases through the analysis of soil microbial communities is advantageous for early disease detection and monitoring. In this study, a meta-analysis was conducted to establish a classification model for two soil-borne plant fungal diseases, Fusarium and Verticillium wilt disease, based on soil microbiome datasets. The study integrated a scalable denoising method and an imbalanced data processing strategy for processing imbalanced data. The findings reveal a substantial enhancement in model performance when employing denoised and balanced datasets as opposed to the original dataset. Overall, the model based on bacterial ASV features outperformed the model based on fungal ASV features, achieving an accuracy of over 90 % in predicting Fusarium and Verticillium wilt disease on the independent test set. Some bacteria, such as those classified as the Chitinophagaceae , Nocardioides , and Sphingomonas , have been identified as biomarkers for distinguishing between healthy and diseased soils. Despite this achievement, the models exhibited suboptimal classification precision, underscoring the necessity for additional training sets or more comprehensive environmental information to augment disease prediction capabilities. Our analysis highlights the importance of microbiome-based deep learning (DL) models to make plant disease predictions based on microbiome characteristics. [ABSTRACT FROM AUTHOR]

The use of wood-derived materials in soilless substrates for horticultural crop production is increasing; however, there is little information about the effects of wood on the incidence and severity of soilborne diseases of container-grown plants. The objectives of this research were to compare three differently processed wood substrate components blended with sphagnum peat and to investigate the effect of the peat:wood blend ratio on damping-off disease caused by Rhizoctonia solani using radish as a model system. In objective one, raw sphagnum peat was blended with three types of processed pine wood, screw-extruded, twin disc-refined, and hammer-milled, at a volumetric ratio of 70:30 and compared to a 70:30 peat:perlite mix. Radish plants grown in the hammer-milled wood and disc-refined wood had significantly lower damping-off disease severity compared to plants grown in the peat–perlite control. In objective two, sphagnum peat was blended with the three types of processed wood at a volumetric ratio of 90:10, 80:20, and 70:30 and compared to a 70:30 peat–perlite mix. The effect of the blend ratio varied by wood processing type. Higher percentages of Forest Gold and pine tree substrate resulted in lower disease severity. In both objectives, radish plants grown in any of the substrate treatments containing wood infested with R. solani tended to have lower disease severity compared to plants in the control. Results of this study indicate that the blending of processed pine wood-derived components into peat may enhance the natural suppression of damping-off disease of radish. Further research is needed to elucidate the mode of action of wood-derived materials on disease suppression in container-grown crops and to study the effects for other plant pathogens and crop species. [ABSTRACT FROM AUTHOR]

Pseudomonas fluorescens 2P24 is a beneficial plant root-associated microorganism capable of suppressing several soilborne plant diseases. The capacity of P. fluorescens to aggressively colonize the rhizosphere is an important requirement for its biocontrol trait. We previously found that the PcoI/PcoR quorum-sensing system (QS) is involved in regulating the rhizosphere colonization of P. fluorescens. Here, we revealed a sophisticated regulatory network that connects PcoR, RsaL, and MvaT proteins to fine-tune the PcoI/PcoR QS system. Our data showed that PcoR could directly bind to the promoter region of pcoI thereby inducing the PcoI/PcoR QS system, whereas RsaL binds simultaneously with PcoR to the promoter region of pcoI and represses the PcoR-dependent activation of pcoI gene. In addition, RsaL indirectly downregulates the expression of pcoR. Furthermore, we showed that disruption of mvaT enhanced the expression of pcoI, pcoR, and rsaL, whereas MvaT controls the PcoI/PcoR QS in a RsaL-independent manner. Overall, this study elucidates that PcoR, RsaL, and MvaT regulate the PcoI/PcoR QS through a multi-tiered regulatory mechanism and that PcoR is necessary in the RsaL- and MvaT-mediated repression on the expression of pcoI. [ABSTRACT FROM AUTHOR]

Containerized crop production faces increasing sustainability challenges with both soilless substrate and water use. To facilitate use of sustainable practices, we evaluated plant health impacts of two substrates, bark and wood fiber, which we contrasted with peat, a substrate that is slower to renew; this was overlaid with an analysis of the effects of watersaving-targeted irrigation reductions, compared with typical well-watered conditions. Health impacts were evaluated in two crops, considering both physiological and disease impacts for tomato with and without Phytophthora capsici, and chrysanthemum with and without Phytopythium helicoides. Substrate type was a strong determinant of plant health, wherein crops grown in a HydraFiber-peat mix ("fiber") performed worse than those in bark and peat, with up to a 50% and 45% reduction in shoot biomass in tomato and chrysanthemum, respectively (P < 0.001). Tomato decline incidence from P. capsici was 3-6 times higher in fiber than other substrates, and fiber was the only substrate where the effect of P. capsici enhanced decline and rot development compared with noninoculated plants (P < 0.05). In bark, reduced irrigation consistently inhibited tomato and chrysanthemum growth and shoot water content (typically P < 0.001). In peat, whereas tomato growth was inhibited under reduced irrigation (P 5 0.012-0.013), chrysanthemum growth was often unaffected. Growth in fiber was uniformly poor regardless of irrigation regime for both crops, and an irrigation treatment effect was not typically apparent. Reduced irrigation enhanced pathogen effects in fiber and peat for tomato and fiber and bark for chrysanthemum(P < 0.05). This is perhaps the first study to evaluateHydraFiber interactions with disease and reduced irrigation and suggests that this product consistently incurs costs to crop productivity. However, the peat-replacing bark substrate has strong potential to optimize plant growth physiologically and via disease suppression and can be used under reduced irrigation without compromising economic productivity of the system. [ABSTRACT FROM AUTHOR]

Host nutrient supply can mediate host–pathogen and pathogen–pathogen interactions. In terrestrial systems, plant nutrient supply is mediated by soil microbes, suggesting a potential role of soil microbes in plant diseases beyond soil‐borne pathogens and induced plant defenses. Long‐term nitrogen (N) enrichment can shift pathogenic and nonpathogenic soil microbial community composition and function, but it is unclear if these shifts affect plant–pathogen and pathogen–pathogen interactions. In a growth chamber experiment, we tested the effect of long‐term N enrichment on infection by Barley Yellow Dwarf Virus (BYDV‐PAV) and Cereal Yellow Dwarf Virus (CYDV‐RPV), aphid‐vectored RNA viruses, in a grass host. We inoculated sterilized growing medium with soil collected from a long‐term N enrichment experiment (ambient, low, and high N soil treatments) to isolate effects mediated by the soil microbial community. We crossed soil treatments with a N supply treatment (low, high) and virus inoculation treatment (mock‐, singly‐, and co‐inoculated) to evaluate the effects of long‐term N enrichment on plant–pathogen and pathogen–pathogen interactions, as mediated by N availability. We measured the proportion of plants infected (i.e., incidence), plant biomass, and leaf chlorophyll content. BYDV‐PAV incidence (0.96) declined with low N soil (to 0.46), high N supply (to 0.61), and co‐inoculation (to 0.32). Low N soil mediated the effect of N supply on BYDV‐PAV: instead of N supply reducing BYDV‐PAV incidence, the incidence increased. Additionally, ambient and low N soil ameliorated the negative effect of co‐inoculation on BYDV‐PAV incidence. BYDV‐PAV infection only reduced chlorophyll when plants were grown with low N supply and ambient N soil. There were no significant effects of long‐term N soil on CYDV‐RPV incidence. Soil inoculant with different levels of long‐term N enrichment had different effects on host–pathogen and pathogen–pathogen interactions, suggesting that shifts in soil microbial communities with long‐term N enrichment may mediate disease dynamics. [ABSTRACT FROM AUTHOR]

The fumigant pesticide methyl bromide (MB) is no longer used in most countries due to its carcinogenic effects. It is followed by carbon bisulfide and chloropicrin which are the most effective liquid synthetic chemicals in pesticide formulations. They are converted to gas to penetrate soil particles and eliminate plant pests such as insects, weeds, and causal plant diseases of viruses, bacteria, fungi, and nematodes under greenhouse, field and storage conditions. These fumigants are non specific pesticides and highly hazardous to humans, environmental resources, and deplete the ozone layers. Furthermore, increasing the cost of crop production by inceasing the amount of pesticides treatments was increased the cost of research on the alternatives of green pesticides from eco-friendly agents, natural organic soil amendments of organic wastes, green manure, biofumigation crops, compost, and essential oils, as well as formulations, are examples of this. Organic fumigants that are non toxic, non-residual, highly degradable and decomposable are available as eco-friendly alternatives to chemical pesticides to manage soil borne pests and diseases of plants. This article summarizes the development of applicable eco-friendly formulations which use natural organic materials to disinfest soil in order to reduce plant diseases caused by soil- -borne pathogens. [ABSTRACT FROM AUTHOR]

Rhizospheric bacteria may induce resistance to plant diseases. However, the underlying plant resistance mechanisms are unclear. We demonstrated the potential ability of the rhizobacterial strain Bacillus subtilis IAGS174 to elicit systemic resistance in tomato plants against Fusarium wilt pathogens. Comparative biochemical, histological, and molecular analyses were conducted to screen the differential responses between non-inoculated and B. subtilis IAGS174-inoculated tomato plants followed by pathogen challenge. B. subtilis IAGS174 had a significant inhibitory effect on disease development and reduced the disease index. B. subtilis IAGS174-primed plants exhibited significantly improved synthesis of total phenolics, flavonoids, and plant defense enzymes. Furthermore, priming increased the production of physical defense barriers including lignin. Additionally, RT-qPCR analysis revealed that disease resistance in bacteria-treated tomato plants was associated with increased expression levels of lignin-related and phenylpropanoid biosynthetic genes. Our findings support a positive role of B. subtilis IAGS174 in triggering immunity of tomato plants against a soil-borne disease. [ABSTRACT FROM AUTHOR]

ZnO-based nanomaterials have high antifungal effects, such as inhibition of growth and reproduction of some pathogenic fungi, such as Fusarium sp., Rhizoctonia solani and Macrophomina phaseolina. Therefore, we report the extracellular synthesis of ZnONPs using a potential fungal antagonist (Trichoderma harzianum). ZnONPs were then characterized for their size, shape, charge and composition by visual analysis, UV–visible spectrometry, X-ray diffraction (XRD), Zeta potential, transmission electron microscopy (TEM), scanning electron microscopy (SEM) and energy-dispersive X-ray analysis (EDX). The TEM test confirmed that the size of the produced ZnONPs was 8–23 nm. The green synthesized ZnONPs were characterized by Fourier transform infrared spectroscopy (FTIR) studies to reveal the functional group attributed to the formation of ZnONPs. For the first time, trichogenic ZnONPs were shown to have fungicidal action against three soil–cotton pathogenic fungi in the laboratory and greenhouse. An antifungal examination was used to evaluate the bioactivity of the mycogenic ZnONPs in addition to two chemical fungicides (Moncut and Maxim XL) against three soil-borne pathogens, including Fusarium sp., Rhizoctonia solani and Macrophomina phaseolina. The findings of this study show a novel fungicidal activity in in vitro assay for complete inhibition of fungal growth of tested plant pathogenic fungi, as well as a considerable reduction in cotton seedling disease symptoms under greenhouse conditions. The formulation of a trichogenic ZnONPs form was found to increase its antifungal effect significantly. Finally, the utilization of biocontrol agents, such as T. harzianum, could be a safe strategy for the synthesis of a medium-scale of ZnONPs and employ it for fungal disease control in cotton. [ABSTRACT FROM AUTHOR]

Background: The development of suppressive soils is a promising strategy to protect plants against soil-borne diseases in a sustainable and viable manner. The use of crop rotation and the incorporation of plant residues into the soil are known to alleviate the stress imposed by soil pathogens through dynamics changes in soil biological and physicochemical properties. However, relatively little is known about the extent to which specific soil amendments of plant residues trigger the development of plant-protective microbiomes. Here, we investigated how the incorporation of pineapple residues in soils highly infested with the banana Fusarium wilt disease alleviates the pathogen pressure via changes in soil microbiomes. Results: The addition of above- and below-ground pineapple residues in highly infested soils significantly reduced the number of pathogens in the soil, thus resulting in a lower disease incidence. The development of suppressive soils was mostly related to trackable changes in specific fungal taxa affiliated with Aspergillus fumigatus and Fusarium solani, both of which displayed inhibitory effects against the pathogen. These antagonistic effects were further validated using an in vitro assay in which the pathogen control was related to growth inhibition via directly secreted antimicrobial substances and indirect interspecific competition for nutrients. The disease suppressive potential of these fungal strains was later validated using microbial inoculation in a well-controlled pot experiment. Conclusions: These results mechanistically demonstrated how the incorporation of specific plant residues into the soil induces trackable changes in the soil microbiome with direct implications for disease suppression. The incorporation of pineapple residues in the soil alleviated the pathogen pressure by increasing the relative abundance of antagonistic fungal taxa causing a negative effect on pathogen growth and disease incidence. Taken together, this study provides a successful example of how specific agricultural management strategies can be used to manipulate the soil microbiome towards the development of suppressive soils against economically important soil-borne diseases. CyJuYsbKET__Z9ZHp7dVcV Video Abstract [ABSTRACT FROM AUTHOR]

Background: The plant microbiome is an integral part of the host and increasingly recognized as playing fundamental roles in plant growth and health. Increasing evidence indicates that plant rhizosphere recruits beneficial microbes to the plant to suppress soil-borne pathogens. However, the ecological processes that govern plant microbiome assembly and functions in the below- and aboveground compartments under pathogen invasion are not fully understood. Here, we studied the bacterial and fungal communities associated with 12 compartments (e.g., soils, roots, stems, and fruits) of chili pepper (Capsicum annuum L.) using amplicons (16S and ITS) and metagenomics approaches at the main pepper production sites in China and investigated how Fusarium wilt disease (FWD) affects the assembly, co-occurrence patterns, and ecological functions of plant-associated microbiomes. Results: The amplicon data analyses revealed that FWD affected less on the microbiome of pepper reproductive organs (fruit) than vegetative organs (root and stem), with the strongest impact on the upper stem epidermis. Fungal intra-kingdom networks were less stable and their communities were more sensitive to FWD than the bacterial communities. The analysis of microbial interkingdom network further indicated that FWD destabilized the network and induced the ecological importance of fungal taxa. Although the diseased plants were more susceptible to colonization by other pathogenic fungi, their below- and aboveground compartments can also recruit potential beneficial bacteria. Some of the beneficial bacterial taxa enriched in the diseased plants were also identified as core taxa for plant microbiomes and hub taxa in networks. On the other hand, metagenomic analysis revealed significant enrichment of several functional genes involved in detoxification, biofilm formation, and plant-microbiome signaling pathways (i.e., chemotaxis) in the diseased plants. Conclusions: Together, we demonstrate that a diseased plant could recruit beneficial bacteria and mitigate the changes in reproductive organ microbiome to facilitate host or its offspring survival. The host plants may attract the beneficial microbes through the modulation of plant-microbiome signaling pathways. These findings significantly advance our understanding on plant-microbiome interactions and could provide fundamental and important data for harnessing the plant microbiome in sustainable agriculture. DwWQb6Dg7ZT1-tarvfq632 Video abstract [ABSTRACT FROM AUTHOR]

Premise: A comprehensive field‐based screening protocol is lacking for dry root rot (DRR) disease in chickpea, which is caused by Macrophomina phaseolina (formerly referred to as Rhizoctonia bataticola). Here, we describe a protocol for establishing a sick plot for DRR to enable disease assessment of a large number of chickpea plants during the natural growing season. Methods and Results: We used a chickpea plot with >30% DRR incidence, and enriched the inoculum by cultivating highly susceptible chickpea plant genotypes and incorporating infected plant material into the soil. The chickpea plants were then subjected to infection in developed sick plots with various levels of soil moisture under natural field conditions. Conclusions: Our protocol provides a robust way to impose M. phaseolina infection on chickpea plants under natural field conditions and to investigate plant responses to the infection at morphological, physiological, and molecular levels. This method can also be used to screen for other soil‐borne diseases in a variety of plants. [ABSTRACT FROM AUTHOR]

The production of tobacco (Nicotiana tabacum L.) in Argentina is centered in the northwestern region (NWA), where the incidence of root rots and stem diseases caused by Fusarium spp. has increased considerably in recent years. This study aimed to evaluate the pathogenicity levels of isolates of the F. oxysporum and F. solani complexes in different varieties of Virginia Type tobacco. The commercial varieties MB47, PVH229, NC71, K346, K326, and K394 were inoculated with six isolates of both complexes. The variables evaluated were the incidence and severity of the symptoms. The area under the disease progress curves (AUDPC) was calculated and subjected to analysis of variance (ANOVA). Also, disease epidemiological models were fitted to the experimental data. The MB47 variety was significantly less infected and the varieties K346, K326, and K394 had the highest AUDPC means, showing susceptibility to the isolates. The disease intensity curves were adequately described by the monomolecular and logistic models. The results provide, for the first time, information about the levels of tolerance to vascular wilt and root rot under controlled conditions for the main varieties of Virginia-type tobacco grown in NWA. [ABSTRACT FROM AUTHOR]

Background: Bacillus cereus 0–9, a Gram-positive, endospore-forming bacterium isolated from healthy wheat roots in our previous research, is considered to be an effective biocontrol strain against several soil-borne plant diseases. SpoVG, a regulator that is broadly conserved among many Gram-positive bacteria, may help this organism coordinate environmental growth and virulence to survive. This study aimed to explore the multiple functions of SpoVG in B. cereus 0–9. Methods: The gene knockout strains were constructed by homologous recombination, and the sporulation process of B. cereus 0–9 and its mutants were observed by fluorescence staining method. We further determined the spore yields and biofilm formation abilities of test strains. Transcriptional fusion strains were constructed by overlapping PCR technique, and the promoter activity of the target gene was detected by measuring its fluorescence intensity. The biofilm production and colonial morphology of B. cereus 0–9 and its mutants were determined to study the functions of the target genes, and the transcription level of the target gene was determined by qRT-PCR. Results: According to observation of the sporulation process of B. cereus 0–9 in germination medium, SpoVG is crucial for regulating sporulation stage V of B. cereus 0–9, which is identical to that of Bacillus subtilis but differs from that of Bacillus anthracis. In addition, SpoVG could influence biofilm formation of B. cereus 0–9. The transcription levels of two genes closely related to biofilm-formation, sipW and calY, were downregulated in a ΔspoVG mutant. The role of SpoVG in regulating biofilm formation was further explored by deleting the genes abrB and sinR in the ΔspoVG mutant, respectively, generating the double mutant strains ΔspoVGΔabrB and ΔspoVGΔsinR. The phenotypes of these double mutants were congruent with those of the single abrB and sinR deletion strains, respectively, which showed increased biofilm formation. This indicated that spoVG was located upstream of abrB and sinR in the regulatory pathway of B. cereus biofilm formation. Further, the results of qRT-PCR and the luminescence intensity of transcriptional fusion strains indicated that spoVG gene deletion could inhibit the transcription of Spo0A. Conclusions: SpoVG, an important regulator in the sporulation of B. cereus, is located upstream of Spo0A and participates in regulation of biofilm formation of B. cereus 0–9 through regulating the transcription level of spo0A. Sporulation and biofilm formation are crucial mechanisms by which bacteria respond to adverse conditions. SpoVG is therefore an important regulator of Spo0A and is crucial for both sporulation and biofilm formation of B. cereus 0–9. This study provides a new insight into the regulatory mechanism of environmental adaptation in bacteria and a foundation for future studies on biofilm formation of B. cereus. [ABSTRACT FROM AUTHOR]

Sunflower Verticillium Wilt and Leaf Mottle (SVW), caused by Verticillium dahliae (Kleb.; Vd), is a soil-borne disease affecting sunflower worldwide. A single dominant locus, known as V1, was formerly effective in controlling North-American Vd races, whereas races from Argentina, Europe and an emerging race from USA overcome its resistance. This emphasizes the need for identifying broad-spectrum genetic resistance (BSR) sources. Here we characterize two sunflower mapping populations (MPs) for SVW resistance: a biparental MP and the association MP from the National Institute of Agricultural Technology (INTA), under field growing conditions. Nine field-trials (FTs) were conducted in highly infested fields in the most SVW-affected region of Argentina. Several disease descriptors (DDs), including incidence and severity, were scored across four phenological stages. Generalized linear models were fitted according to the nature of each variable, adjusting mean phenotypes for inbred lines across and within FTs. Comparison of these responses allowed the identification of novel BSR sources. Furthermore, we present the first report of SVW resistance heritability, with estimates ranging from 35 to 45% for DDs related to disease incidence and severity, respectively. This study constitutes the largest SVW resistance characterization reported to date in sunflower, identifying valuable genetic resources for BSR-breeding to cope with a pathogen of increasing importance worldwide. [ABSTRACT FROM AUTHOR]

Background: Microbes benefit plants by increasing nutrient availability, producing plant growth hormones, and protecting against pathogens. However, it is largely unknown how plants change root microbial communities. Results: In this study, we used a multi-cycle selection system and infection by the soilborne fungal pathogen Rhizoctonia solani AG8 (hereafter AG8) to examine how plants impact the rhizosphere bacterial community and recruit beneficial microorganisms to suppress soilborne fungal pathogens and promote plant growth. Successive plantings dramatically enhanced disease suppression on susceptible wheat cultivars to AG8 in the greenhouse. Accordingly, analysis of the rhizosphere soil microbial community using deep sequencing of 16S rRNA genes revealed distinct bacterial community profiles assembled over successive wheat plantings. Moreover, the cluster of bacterial communities formed from the AG8-infected rhizosphere was distinct from those without AG8 infection. Interestingly, the bacterial communities from the rhizosphere with the lowest wheat root disease gradually separated from those with the worst wheat root disease over planting cycles. Successive monocultures and application of AG8 increased the abundance of some bacterial genera which have potential antagonistic activities, such as Chitinophaga, Pseudomonas, Chryseobacterium, and Flavobacterium, and a group of plant growth-promoting (PGP) and nitrogen-fixing microbes, including Pedobacter, Variovorax, and Rhizobium. Furthermore, 47 bacteria isolates belong to 35 species were isolated. Among them, eleven and five exhibited antagonistic activities to AG8 and Rhizoctonia oryzae in vitro, respectively. Notably, Janthinobacterium displayed broad antagonism against the soilborne pathogens Pythium ultimum, AG8, and R. oryzae in vitro, and disease suppressive activity to AG8 in soil. Conclusions: Our results demonstrated that successive wheat plantings and pathogen infection can shape the rhizosphere microbial communities and specifically accumulate a group of beneficial microbes. Our findings suggest that soil community selection may offer the potential for addressing agronomic concerns associated with plant diseases and crop productivity. 3FhJ1hdeeZhKLKmh2i-2hc Video Abstract [ABSTRACT FROM AUTHOR]

Roots act as a biological filter that exclusively allows only a portion of the soil-associated microbial diversity to infect the plant. This microbial diversity includes organisms both beneficial and detrimental to plants. Phytophthora species are among the most important groups of detrimental microbes that cause various soil-borne plant diseases. We used a metabarcoding approach with Phytophthora-specific primers to compare the diversity and richness of Phytophthora species associated with roots of native and non-native trees, using different types of soil inocula collected from native and managed forests. Specifically, we analysed (1) roots of two non-native tree species (Eucalyptus grandis and Acacia mearnsii) and native trees, (2) roots of two non-native tree species from an in vivo plant baiting trial, (3) roots collected from the field versus those from the baiting trial, and (4) roots and soil samples collected from the field. The origin of the soil and the interaction between root and soil significantly influenced Phytophthora species richness. Moreover, species richness and community composition were significantly different between the field root samples and field soil samples with a higher number of Phytophthora species in the soil than in the roots. The results also revealed a substantial and previously undetected diversity of Phytophthora species from South Africa. [ABSTRACT FROM AUTHOR]

Pseudomonas fluorescens 2P24 is a rhizosphere bacterium that protects many crop plants against soilborne diseases caused by phytopathogens. The PcoI/PcoR quorum-sensing (QS) system and polyketide antibiotic 2,4-diacetylphloroglucinol (2,4-DAPG) are particularly relevant to the strain's biocontrol potential. In this study, we investigated the effects of c-di-GMP on the biocontrol activity of strain 2P24. The expression of the Escherichia coli diguanylate cyclase (YedQ) and phosphodiesterase (YhjH) in P. fluorescens 2P24 significantly increased and decreased the cellular concentration of c-di-GMP, respectively. The production of the QS signals N-acyl homoserine lactones (AHLs) and 2,4-DAPG was negatively regulated by c-di-GMP in 2P24. The regulatory proteins RsmA and RsmE were positively regulated by c-di-GMP. Genomic analysis revealed that 2P24 has 23 predicted proteins that contain c-di-GMP-synthesizing or -degrading domains. Among these proteins, C0J56_12915, C0J56_13325, and C0J56_27925 contributed to the production of c-di-GMP and were also involved in the regulation of the QS signal and antibiotic 2,4-DAPG production in P. fluorescens. Overexpression of C0J56_12915, C0J56_13325, and C0J56_27925 in 2P24 impaired its root colonization and biocontrol activities. Taken together, these results demonstrated that c-di-GMP played an important role in fine-tuning the biocontrol traits of P. fluorescens. [ABSTRACT FROM AUTHOR]

Bacillus cereus 0-9, a Gram-positive endospore-forming bacterium isolated from healthy wheat roots, has biological control capacity against several soil-borne plant diseases of wheat such as sharp eyespot and take-all. The bacterium can produce various biofilms that differ in their architecture and formation mechanisms, possibly for adapting to different environments. The gapB gene, encoding a glyceraldehyde-3-phosphate dehydrogenase (GAPDH), plays a key role in B. cereus 0-9 biofilm formation. We studied the function of GapB and the mechanism of its involvement in regulating B. cereus 0-9 biofilm formation. GapB has GAPDH activities for both NAD+- and NADP+-dependent dehydrogenases and is a key enzyme in gluconeogenesis. Biofilm yield of the Δ gapB strain decreased by 78.5% compared with that of wild-type B. cereus 0-9 in lysogeny broth supplemented with some mineral salts (LBS), and the Δ gapB :: gapB mutants were recovered with gapB gene supplementation. Interestingly, supplementing the LBS medium with 0.1–0.5% glycerol restored the biofilm formation capacity of the Δ gapB mutants. Therefore, GapB regulates biofilm formation relative to its function in gluconeogenesis. To illustrate how GapB is involved in regulating biofilm formation through gluconeogenesis, we carried out further research. The results indicate that the GapB regulated the B. cereus 0-9 biofilm formation independently of the exopolysaccharides and regulatory proteins in the typical SinI/R system, likely owing to the release of extracellular DNA in the matrix. Transcriptome analysis showed that the gapB deletion caused changes in the expression levels of only 18 genes, among which, lrgAB was the most significantly increased by 6.17-fold. We confirmed this hypothesis by counting the dead and living cells in the biofilms and found the number of living cells in the biofilm formed by the Δ gapB strain was nearly 7.5 times than that of wild-type B. cereus 0-9. Therefore, we concluded that the GapB is involved in the extracellular DNA release and biofilm formation by regulating the expression or activities of LrgAB. These results provide a new insight into the regulatory mechanism of bacterial biofilm formation and a new foundation for further studying the stress resistance of B. cereus. [ABSTRACT FROM AUTHOR]

To maintain the world population demand, a sustainable agriculture is needed. Since current global vision is more friendly with the environment, eco-friendly alternatives are desirable. In this sense, plant growth–promoting rhizobacteria could be the choice for the management of soil-borne diseases of crop plants. These rhizobacteria secrete chemical compounds which act as phytohormones. Indole-3-acetic acid (IAA) is the most common plant hormone of the auxin class which regulates various processes of plant growth. IAA compound, in which structure can be found a carboxylic acid attached through a methylene group to the C-3 position of an indole ring, is produced both by plants and microorganisms. Plant growth–promoting rhizobacteria and fungi secrete IAA to promote the plant growth. In this review, IAA production and mechanisms of action by bacteria and fungi along with the metabolic pathways evolved in the IAA secretion and commercial prospects are revised. Key points • Many microorganisms produce auxins which help the plant growth promotion. • These auxins improve the plant growth by several mechanisms. • The auxins are produced through different mechanisms. [ABSTRACT FROM AUTHOR]

Major losses of crop yield and quality caused by soil-borne plant diseases have long threatened the ecology and economy of agriculture and forestry. Biological control using beneficial microorganisms has become more popular for management of soil-borne pathogens as an environmentally friendly method for protecting plants. Two major barriers limiting the disease-suppressive functions of biocontrol microbes are inadequate colonization of hosts and inefficient inhibition of soil-borne pathogen growth, due to biotic and abiotic factors acting in complex rhizosphere environments. Use of a consortium of microbial strains with disease inhibitory activity may improve the biocontrol efficacy of the disease-inhibiting microbes. The mechanisms of biological control are not fully understood. In this review, we focus on bacterial and fungal biocontrol agents to summarize the current state of the use of single strain and multi-strain biological control consortia in the management of soil-borne diseases. We discuss potential mechanisms used by microbial components to improve the disease suppressing efficacy. We emphasize the interaction-related factors to be considered when constructing multiple-strain biological control consortia and propose a workflow for assembling them by applying a reductionist synthetic community approach. [ABSTRACT FROM AUTHOR]