Soil Suppressiveness Research Articles

Deciphering bacteria associated with a pre-parasitic stage of the root-knot nematode Meloidogyne hapla in nemato-suppressive and nemato-conducive soils

Nematode-suppressive soils are characterized by the ability of soil microbial communities to reduce populations of plant-parasitic nematodes (PPN) either directly or by inducing systemic resistance in plants. Various microorganisms have been recognized as antagonists of PPN in suppressive soils using culture-dependent and culture-independent methods. However, the associations that PPN form with microorganisms in nematode-conducive soils have been poorly studied. Here we drenched tomato rhizospheres with microbial suspensions from nine different soils and followed their effects on plant growth and root invasion of the infective second-stage juveniles (J2) of the northern root-knot nematode species Meloidogyne hapla. Based on the number of invaded J2, four soils were determined as nematode-suppressive, while five soils were categorized as nematode-conducive. To reveal bacteria attached to the J2 cuticle in soils with varying suppressiveness, we incubated J2 in suspensions from three suppressive and three conducive soils, and analyzed J2-attached bacteria using amplicon sequencing of the V3-V4 region of 16S rRNA gene. Our results suggest that the soil origin had a major effect on the composition of J2-attached bacteria, while the highest bacterial abundance and richness were observed on J2 from two suppressive soils. In addition, the highest number of indicator amplicon sequence variants (ASVs) was associated with J2 in two suppressive soils, but they had a very distinct bacterial profile. Further studies are needed to resolve the complexity of nemato-microbial interactions in soil and to determine the exact function of nematode-attached microorganisms in suppressive and conducive soils and their role in nematode suppression and protection.

Efficiency of Reductive Soil Disinfestation Affected by Soil Water Content and Organic Amendment Rate

Reductive Soil Disinfestation (RSD) is a good method which can restore degraded greenhouse soil and effectively inactivate soil-borne pathogens. However, the approach needs to be optimized in order to facilitate its practical application in various regions. In the present work, we investigated the effect of soil water content (60% water holding capacity (WHC), 100% WHC and continuous flooding) and maize straw application rates (0, 5, 10, and 20 g kg−1 soil) on the improvement of soil properties and suppression of soil-borne pathogens (Fusarium oxysporum, Pythium and Phytophthora). The results showed that increasing the soil water content and maize straw application rate accelerated the removal of excess sulfate and nitrate in the soil and elevated the soil pH. Elevating the water content and maize straw application rate also produced much more organic acids, which could strongly inhibit soil-borne pathogens. Soil properties were improved significantly after RSD treatment with a maize straw amendment rate of more than 5 g kg−1, regardless of the water content. However, RSD treatments with 60% WHC could not effectively inactivate soil-borne pathogens and even stimulated their growth by increasing the maize application rate. RSD treatments of both 100% WHC and continuous flooding could inactivate soil-borne pathogens and increase the pathogens mortality indicated by cultural cells relatively effectively. The inhibited pathogens were significantly increased with the increasing maize application rate from 5 g kg−1 to 10 g kg−1, but were not further increased from 10 g kg−1 to 20 g kg−1. A further increased mortality of F. oxysporum, indicated by gene copies, was also observed when the soil water content and maize straw application rate were increased. Therefore, RSD treatment with 60% WHC could improve soil properties significantly, whereas irrigation with 100% WHC or continuous flooding was a necessity for effective soil-borne pathogens suppression. Holding 100% WHC and applicating maize straw at 10 g kg−1 soil were optimum conditions for RSD field operation to restore degraded greenhouse soil.

Mixtures of organic amendments and biochar promote beneficial soil microbiota and affect Fusarium oxysporum f. sp. lactucae, Rhizoctonia solani and Sclerotinia minor disease suppression

AbstractThe use of soil fumigants and fungicides to control soilborne pathogens is reduced due to awareness of their negative drawbacks. Long‐term application of such agrochemicals negatively affects soil microbiota and reduces natural soil suppressiveness. We investigated long‐term impacts of biochar and not‐pyrogenic organic amendment (OAs: manure, alfalfa straw and glucose), on disease suppression compared with conventional management in three pathosystems: Fusarium oxysporum f. sp. lactucae (FOL)–lettuce, Rhizoctonia solani–tomato and Sclerotinia sclerotiorum–lettuce, by conditioning soil for 2 years. Soil analyses included pH, electrical conductivity, organic carbon, total nitrogen, C:N ratio, N‐NO3−, N‐NH4+, cation exchange capacity, available phosphorus, Ca2+, Mg2+, K+, Na+, fluorescein diacetate (FDA), and total and active limestone. Soil microbiota was characterized by combining BIOLOG EcoPlates with next‐generation sequencing of 16S and 18S rRNA genes. Soil amended with OAs generally suppressed disease by S. sclerotiorum and FOL compared to fumigants and synthetic fertilizers. However, the incidence of R. solani infection was lower in soil treated with synthetic fertilizers than soil amended with OAs. EC, pH, C:N, N‐NO3−, N‐NH4+, FDA and BIOLOG were significantly correlated with disease, depending on pathosystem. Bacterial richness and diversity, presence of some genera like Acidobacteria, Chloracidobacteria, Solibacteres, Anaerolineae, Nitrospira and Deltaproteobacteria were negatively related to disease incidence of FOL and S. sclerotiorum, whereas damping‐off caused by R. solani was negatively affected by the presence of Flavobacterium and Chitinofagha. Therefore, we concluded that long‐term application of OAs can effectively improve soil suppressiveness and reduce disease incidence against root pathogens, although the effects vary considerably depending upon pathosystem.

Discovering naturally-occurring microbiota in disease suppressive soil: Potential role of biological elements in suppressing Ganoderma boninense

Blenheim soil (Typic Quartzipsamment) and Bernam soil (Typic Endoaquept) with low and high Ganoderma basal stem rot (BSR) incidence, respectively, were studied to determine the role of naturally-occurring microbiota in suppressing basal stem rot (BSR) disease in oil palm. These coastal soils were also compared against a typical soil for nursery use, the inland Bungor soil (Typic Kandiudults). For each soil type, half of the soils were sterilized by autoclaving, and the other half were non-sterilized. These soils were then used for the microbiome analysis, evaluation of disease incidences, and effect on plant growth. Soil microbial communities were profiled using 16S and 18S ribosomal RNA gene amplicon sequencing on the Illumina MiSeq. Polybag trials were conducted over a period of 20 weeks. Results showed that by eliminating or inactivating the indigenous microbial communities from BSR-suppressive Blenheim soil through sterilization, this increased BSR incidences (from 50 to 92%) and severity (from 28 to 78%), and affected plant growth (reduction of 35% leaf area, 11% height, and 19% bole’s girth). Soil microbiome analysis revealed that Acidobacteriota, Nitrospirota, Latesbaciterota, Nanoarchaeota, Entotheonellaeta, Zixibacteria, Candidatus Yanofskybacteria (Patescibacteria), MB-A2-108 (Actinobacteriota), Cnidaria and Acaulospora (Mucoromycota) were less prevalent in sterilized Blenheim soil compared to non-sterilized Blenheim soil. Relative abundance of the genus Ganoderma was also lower in BSR-suppressive Blenheim soil compared to sterilized Blenheim soil. In contrast, disease development and plant growth remained unaffected by sterilization of BSR-conducive Bernam and Bungor soils, suggesting that naturally-occurring microbiota in these two soils played minimal roles in contributing to conducive conditions for disease development. Relative abundance of Ganoderma was higher in BSR-conducive Bernam and Bungor soils as well, compared to BSR-suppressive Blenheim. Results from this study provides the first insights into the soil microbiota in BSR suppressive soils and their role in BSR disease progression and growth of oil palms.

Chemical characters of disease suppressive and conducive soil of Moler on shallot in Brebes Central Java

In the latest years, a disease epidemy of Moler caused by Fusarium oxysporum f.sp. cepae have just occurred in Brebes Central Java. The disease intensity, however, varies between the shallot production lands. Some lands show suppressive with disease intensity lower than 5%, and others are conducive to disease intensity over 50%. It is interesting that in Brebes occur suppressive and conducive soil to moler disease. The suppressiveness may be determined by environmental conditions, including chemical soil characters. This paper reports the chemical character of suppressive and conducive soil to moler disease in Brebes. The evidence shows that the suppressive soil is more fertile than that conducive one. The suppressive soil is chemically characterized by significantly higher organic mineral, C-organic, P-available, K-exchangeable, and Cation Exchange Capacity than that conducive one.

Conditioned soils reveal plant-selected microbial communities that impact plant drought response

Rhizobacterial communities can contribute to plant trait expression and performance, including plant tolerance against abiotic stresses such as drought. The conditioning of microbial communities related to disease resistance over generations has been shown to develop suppressive soils which aid in plant defense responses. Here, we applied this concept for the development of drought resistant soils. We hypothesized that soils conditioned under severe drought stress and tomato cultivation over two generations, will allow for plant selection of rhizobacterial communities that provide plants with improved drought resistant traits. Surprisingly, the plants treated with a drought-conditioned microbial inoculant showed significantly decreased plant biomass in two generations of growth. Microbial community composition was significantly different between the inoculated and control soils within each generation (i.e., microbial history effect) and for the inoculated soils between generations (i.e., conditioning effect). These findings indicate a substantial effect of conditioning soils on the abiotic stress response and microbial recruitment of tomato plants undergoing drought stress.

Development of fungal-mediated soil suppressiveness against Fusarium wilt disease via plant residue manipulation

BackgroundThe 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.ResultsThe 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.ConclusionsThese 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__Z9ZHp7dVcVVideo

The soil-borne ultimatum, microbial biotechnology and sustainable agriculture.

The soil-borne ultimatum, microbial biotechnology and sustainable agriculture.

Efficient Biocontrol of Gaeumannomyces graminis var. Tritici in Wheat: Using Bacteria Isolated from Suppressive Soils

“Take-all” disease is the most important biotic factor affecting cereal productivity, causing 30–50% of crop losses. The causal agent is the ascomycete soil-borne pathogen Gaeumannomyces graminis var. tritici (Ggt). Current control measures are ineffective, because Ggt can remain saprophytic in soils for long periods. Therefore, the study of the microbiome residing in suppressive soils (SS) is a promising niche of Ggt biocontrol. Here, we evaluated the efficiency of Serratia sp., Bacillus sp., and Acinetobacter sp. isolated from SS against the incidence of Ggt on wheat. Our results demonstrated that plants inoculated with the bacterial consortium in both greenhouse and field conditions were highly efficient in Ggt biocontrol, more so than individual strains. The disease reduction was evidenced by higher biomass production, fewer copies of the Ggt genome with a concomitant curtailment of blackening of roots, a decrease of lipid peroxidation, and an increase of superoxide dismutase activity. The ability of the microbial consortium over that of single strains could be attributable to interspecies communication as a strategy to biocontrol; i.e., higher chitinase activity. In conclusion, bacterial consortia from SS are an important niche of Ggt biocontrol, serving as a model for other soil-borne pathogens.

Metabolic Footprints of Burkholderia Sensu Lato Rhizosphere Bacteria Active against Maize Fusarium Pathogens.

Consistent with their reported abundance in soils, several Burkholderia sensu lato strains were isolated from the rhizosphere of maize plants cultivated at different sites in central México. Comparative analysis of their 16S rRNA gene sequences permitted their separation into three distinctive clades, which were further subdivided into six other clusters by their close resemblance to (1) Trinickia dinghuensis; (2) Paraburkholderia kirstenboschensis, P. graminis, P. dilworthii and P. rhynchosiae; (3) B. gladioli; (4) B. arboris; (5) B. contaminans, or (6) B. metallica representative species. Direct confrontation assays revealed that these strains inhibited the growth of pathogenic Fusarium oxysporum f. sp. radicis-lycopersici, and F. verticillioides within a roughly 3–55% inhibition range. The use of a DIESI-based non-targeted mass spectroscopy experimental strategy further indicated that this method is an option for rapid determination of the pathogen inhibitory capacity of Burkholderia sensu lato strains based solely on the analysis of their exometabolome. Furthermore, it showed that the highest anti-fungal activity observed in B. contaminans and B. arboris was associated with a distinctive abundance of certain m/z ions, some of which were identified as components of the ornbactin and pyochelin siderophores. These results highlight the chemical diversity of Burkholderia sensu lato bacteria and suggest that their capacity to inhibit the Fusarium-related infection of maize in suppressive soils is associated with siderophore synthesis.

Factors influencing suppressiveness of soils to powdery scab of potato

Factors influencing suppressiveness of soils to powdery scab of potato

Optimizing Safe Approaches to Manage Plant-Parasitic Nematodes.

Plant-parasitic nematodes (PPNs) infect and cause substantial yield losses of many foods, feed, and fiber crops. Increasing concern over chemical nematicides has increased interest in safe alternative methods to minimize these losses. This review focuses on the use and potential of current methods such as biologicals, botanicals, non-host crops, and related rotations, as well as modern techniques against PPNs in sustainable agroecosystems. To evaluate their potential for control, this review offers overviews of their interactions with other biotic and abiotic factors from the standpoint of PPN management. The positive or negative roles of specific production practices are assessed in the context of integrated pest management. Examples are given to reinforce PPN control and increase crop yields via dual-purpose, sequential, and co-application of agricultural inputs. The involved PPN control mechanisms were reviewed with suggestions to optimize their gains. Using the biologicals would preferably be backed by agricultural conservation practices to face issues related to their reliability, inconsistency, and slow activity against PPNs. These practices may comprise offering supplementary resources, such as adequate organic matter, enhancing their habitat quality via specific soil amendments, and reducing or avoiding negative influences of pesticides. Soil microbiome and planted genotypes should be manipulated in specific nematode-suppressive soils to conserve native biologicals that serve to control PPNs. Culture-dependent techniques may be expanded to use promising microbial groups of the suppressive soils to recycle in their host populations. Other modern techniques for PPN control are discussed to maximize their efficient use.

New insights into the role of constitutive bacterial rhizobiome and phenolic compounds in two Pinus spp. with contrasting susceptibility to pine pitch canker.

The rhizobiome is being increasingly acknowledged as a key player in plant health and breeding strategies. The pine pitch canker (PPC), caused by the fungus Fusarium circinatum, affects pine species with varying susceptibility degrees. Our aims were to explore the bacterial rhizobiome of a susceptible (Pinus radiata) and a resistant (Pinus pinea) species together with other physiological traits, and to analyze shifts upon F. circinatum inoculation. Pinus seedlings were stem inoculated with F. circinatum spores and needle gas exchange and antioxidant-related parameters were analyzed in non-inoculated and inoculated plants. Rhizobiome structure was evaluated through 16S rRNA gene massive parallel sequencing. Species (non-inoculated plants) harbored distinct rhizobiomes (<40% similarity), where P. pinea displayed a rhizobiome with increased abundance of taxa described in suppressive soils, displaying plant growth promoting (PGP) traits and/or anti-fungal activity. Plants of this species also displayed higher levels of phenolic compounds. F. circinatum induced slight changes in the rhizobiome of both species and a negative impact in photosynthetic-related parameters in P. radiata. We concluded that the rhizobiome of each pine species is distinct and higher abundance of bacterial taxa associated to disease protection was registered for the PPC-resistant species. Furthermore, differences in the rhizobiome are paralleled by a distinct content in phenolic compounds, which are also linked to plants' resistance against PPC. This study unveils a species-specific rhizobiome and provides insights to exploit the rhizobiome for plant selection in nurseries and for rhizobiome-based plant-growth-promoting strategies, boosting environmentally friendly disease control strategies.

Engineering Multigenerational Host-Modulated Microbiota against Soilborne Pathogens in Response to Global Climate Change.

Simple SummaryIn order to face the challenges posed by climate change, scientific research should be directed towards global needs while also keeping into account the need for increased plant productivity. In this sense, our scientific group from the Biocontrol Research Laboratory BIOREN (Temuco, Chile) and our collaborators, have been studying the enormous potential to enhance productivity by using suppressive soils. In this review, we highlight soil-suppressive microbiota as a natural source of biocontrol agents and we propose a strategy to create microbial assemblages, where the plant selects its own inoculants (when plants “cry for help”). This approach is based on the selection of specific taxa during the transition from a conducive to a suppressive soil. We hope that this strategy leads to generation of personalized bioinoculants to counteract the effects of climate change and increase agricultural sustainability.Crop migration caused by climatic events has favored the emergence of new soilborne diseases, resulting in the colonization of new niches (emerging infectious diseases, EIDs). Soilborne pathogens are extremely persistent in the environment. This is in large part due to their ability to reside in the soil for a long time, even without a host plant, using survival several strategies. In this regard, disease-suppressive soils, characterized by a low disease incidence due to the presence of antagonist microorganisms, can be an excellent opportunity for the study mechanisms of soil-induced immunity, which can be applied in the development of a new generation of bioinoculants. Therefore, here we review the main effects of climate change on crops and pathogens, as well as the potential use of soil-suppressive microbiota as a natural source of biocontrol agents. Based on results of previous studies, we also propose a strategy for the optimization of microbiota assemblages, selected using a host-mediated approach. This process involves an increase in and prevalence of specific taxa during the transition from a conducive to a suppressive soil. This strategy could be used as a model to engineer microbiota assemblages for pathogen suppression, as well as for the reduction of abiotic stresses created due to global climate change.

Phosphorus availability increases pathobiome abundance and invasion of rhizosphere microbial networks by Ralstonia.

Soil disease-suppressiveness depends on complex interactions among pathogens, native microbiota, and physicochemical properties, while these interactions remain understudied. Comparing field and microcosm experiments, we investigated the significance of these interactions in disease emergence or suppression using structural equation modelling (SEM) and receiver operating characteristic curve (ROC) analyses. We observed significant differences in the relative abundance of pathogenic and beneficial microbes, alpha and beta diversity indices between disease-conducive and -suppressive rhizosphere soils. The pathogenic (Ralstonia) and beneficial (Bacillus) taxa dominated disease-conducive and -suppressive rhizosphere soils, respectively. Moreover, the co-occurrences of Ralstonia with native microorganisms were positive and negative in the disease-conducive and -suppressive soils, respectively. These results suggest the supportive (Rudaea) and suppressive (Enterobacter, Bacillus) role of indigenous microbes in the invasion of soil and plant systems by Ralstonia. The SEM and ROC analysis predicted that Ralstonia invaded rhizospheric microbial networks and caused peanut wilt under high than low soil phosphorus conditions. Our results suggest the importance of soil phosphorus availability in altering the microbial interactions, thus leading to soil invasion by Ralstonia. Thus, we conclude by saying that feeding soil with high amounts of available phosphorus could deplete plant-beneficial microbes and increase the pathobiome abundance that may compromise plant health.

A Novel Bio-Fertilizer Produced by Prickly Ash Seeds with Biochar Addition Induces Soil Suppressiveness against Black Shank Disease on Tobacco

A novel bio-fertilizer, produced from prickly ash seeds (PAS), Bacillus subtilis and biochar, was evaluated for its disease-preventing potential on tobacco black shank caused by Phytophthora nicotianae. The results showed that biochar promoted the growth of Tpb55 in PAS and increased the pH of the organic fertilizer. The final concentration of B. subtilis could reach 1.7 × 1010 cfu g−1 in the biological organic fertilizer (PBB) under the optimal medium under conditions of solid-state fermentation. PBB exhibited a strong fumigation effect on P. nicotianae, including inhibiting mycelium growth, reducing the disease severity and decreasing the pathogen population in rhizospheric soil. PBB treatment also could significantly increase the pH of acidified soil and improve soil nutrition content such as available K, alkali hydrolysable N and organic carbon. High-throughput pyrosequencing of 16S and 18S rRNA genes revealed that 4% PBB addition in soil had significant effects on the diversity and richness of fungi but not on that of bacteria. The microbial community structure was also shifted after PBB treatment. Some potentially beneficial microbes such as Bacillus, Mucor, Cunninghamella, Chitinophaga and Phenylobacterium were enriched, while potential pathogen Fusarium was significantly decreased. In conclusion, the agricultural waste PAS combined with biochar can replace soybean as a source for the production of biocontrol B. subtilis Tpb55, and the novel bio-fertilizer could effectively control tobacco black shank by pathogen inhibition, soil nutrient improvement and shifting the rhizomicrobial community.

Revealing the role of Plant Growth Promoting Rhizobacteria in suppressive soils against Fusarium oxysporum f.sp. cubense based on metagenomic analysis

Fusarium oxysporum f.sp. cubense (Foc) is a soil-borne pathogen causing fusarium wilt banana disease. Management of soil-borne disease generally required the application of toxic pesticides or fungicides strongly affect the soil microbiomes ecosystem. Suppressive soil is a promising method for controlling soil-borne pathogens in which soil microbiomes may affect the suppressiveness. The comparative analysis of microbial diversity was conducted from suppressive and conducive soils by analyzing whole shotgun metagenomic DNA data. Two suppressive soil samples and two conducive soil samples were collected from a banana plantation in Sukabumi, West Java, Indonesia. Each soil sample was prepared by mixing the soil samples collected from three points sampling sites with 20 cm depth. Analysis of microbial abundance, diversity, co-occurrence network using Metagenome Analyzer 6 (MEGAN6) and functional analysis using Kyoto Encyclopedia of Genes and Genomes (KEGG) was performed. Data showed the abundance of Actinobacteria, Betaproteobacteria, Rhizobiales, Burkholderiales, Bradyrhizobiaceae, Methylobacteriaceae, Rhodopseudomonas palustris, and Methylobacterium nodulans were higher in the suppressive than conducive soils. Interestingly, those bacteria groups are known functionally as members of Plant Growth Promoting Rhizobacteria (PGPR). The co-occurrence analysis showed Pseudomonas, Burkholderia, and Streptomyces were present in the suppressive soils, while Bacillus and more Streptomyces were found in the conducive soils. Furthermore, the relative abundance of Pseudomonas, Burkholderia, Bacillus, and Streptomyces was performed. The analysis showed that the relative abundance of Pseudomonas and Burkholderia was higher in the suppressive than conducive soils. Therefore, it assumed Pseudomonas and Burkholderia play a role in suppressing Foc based on co-occurrence and abundance analysis. Functional analysis of Pseudomonas and Burkholderia showed that the zinc/manganese transport system was higher in the suppressive than conducive soils. In contrast, the phosphate transport system was not found in conducive soils. Both functions are may be responsible for the synthesis of a siderophore and phosphate solubilization. In conclusion, this study provides information that PGPR may be contributing to Foc growth suppressing by releasing secondary metabolites.

Soil and plant health in relation to dynamic sustainment of Eh and pH homeostasis: A review

Plants perform in a specific Eh–pH spectrum and they rely on various processes to ensure their homeostasis, which plays a central role in their defense. The effects of multiple stresses, all translated into oxidative stress into the plant, and the capacity of the latter to respond to these stresses results in specific Eh–pH states in plants. We reviewed plant-invertebrate pests and plant-pathogens interactions under a Eh–pH homeostasis perspective by extensively analyzing the literature, which converges and supports a set of hypotheses. We report examples showing how the development and attacks of pests are correlated to spatio-temporal variations of Eh–pH in plants. We provide evidence-based discussion on how Eh–pH homeostasis can open a new perspective on plant health, and help unravel and disentangle the many Genotype x Environment x Management x Pest and Pathogen interactions. We propose an original perspective on energy allocation and growth-defense tradeoff by plants based on the Eh–pH homeostasis model. Finally, we show how Eh–pH conditions in the rhizosphere are the results of multiple interactions between the root system and microorganisms. Based on this, we hypothesize that soil suppressiveness is derived from soil structure leading to diverse Eh–pH niches that harbor a diversity of microorganisms. The Eh–pH homeostasis model proposed herein is central to soil and plant health. An Eh–pH perspective could become a very powerful tool to develop a “one health approach” unifying a large range of bio-physical processes in a very coherent and consistent manner.

Effect of Early and Conventional Sowings on Soybean Establishment Quality, Nodulation, and Early Biomass Development Under Inoculation with Rhizoctonia solani

Early sowing has potential to reduce negative impacts of summer drought on soybean productivity in southern Europe. However, performing early sowing into cool and moist soil conditions may increase risks of soilborne pathogens that cause damping-off disease. We investigated whether and to what extent soybean germination, emergence, nodulation, and early biomass growth was affected when inoculated with Rhizoctonia solani, an important causal agent of damping-off disease. We conducted this study through four complementary approaches: (i) in vitro laboratory tests, (ii) field experiments including two sowing dates (early and conventional), (iii) growth-chamber experiments, and (iv) modeling. The pathogen caused disease symptoms and significantly reduced (P ≤ 0.001) radicle growth in vitro but failed to cause disease under field or growth-chamber conditions. No biological suppressiveness of the field soil to R. solani was found when tested in the growth chamber. Final field emergence rates ranged from 72 to 92% for early and conventional sowing, respectively, while those in the growth chamber ranged from 80 to 100%. Under field conditions, abiotic stresses were the major causes of nonemergence while biotic stresses had only minor impact on seedling emergence. A significant effect of sowing date (P &lt; 0.001) was observed on the average shoot and root length and on the number of average nodules per plantlet. The overall prediction quality of the SIMPLE model was very good for both sowing dates. The contrasts between laboratory and field experiments in terms of disease development, time to emergence, and early growth parameters are discussed. [Formula: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .

Bacterial community analysis on Sclerotium-suppressive soil.

Difficulties in controlling the soil-borne plant pathogenic fungus Sclerotium rolfsii favoured the analysis of its suppressive soil for better understanding. In the present study, culture-independent molecular technique was used to analyse the bacterial communities of suppressive soil and conducive soil. Hence, metagenomic DNAs from both kinds of soils were directly extracted and their sequence polymorphism was analysed by targeting hypervariable domains, V4 + V5, of the 16S rRNA gene. The results of 16S rRNA gene-driven bacterial community diversity analysis along with soil physicochemical and biological properties clearly discriminated S. rolfsii suppressive soil from conducive soil. The dominant phylogenetic group of suppressive soil is Actinobacteria followed by Proteobacteria. The other groups include Acidobacteria, Firmicutes and Cyanobacteria. In contrast, conducive soil had very few Actinobacterial sequences and was dominated by Gamma- and Betaproteobacteria. Based on the relative proportion of different bacterial communities, their diversity and species richness were observed more in suppressive soil than in conducive soil. The present study identifies the dominant bacterial community which shares S. rolfsii suppressiveness.