Plant Microbe Research Articles

Epigallocatechin Gallate Adjuvant Immunomodulatory Therapy for Hypersensitivity Pneumonitis

The current research aims to investigate the management of Hypersensitivity Pneumonitis (HP), a respiratory ailment affecting the lung parenchyma, particularly the alveoli, terminal bronchioli, and alveolar interstitium, due to a delayed allergic response. Various factors, such as microbial agents, animal and plant proteins, organic and inorganic compounds, and environmental substances, can contribute to respiratory issues. The inflammatory reaction in the alveolar mucosa is a hypersensitive response of type-3 (immune-complex-mediated) or type-4 (T-lymphocytes-mediated) that plays a role in the development of HP. Depending on the frequency and intensity of exposure to the causative antigens, the disease is categorized into acute, subacute, and chronic forms. The research shows the success for subacute and chronic forms of the disease as an alternative to corticosteroids. Although corticosteroids can provide relief for subacute and chronic HP as well as acute symptoms, they do not appear to alter the disease's long-term progression. As corticosteroids are only suitable for certain patients, there is a pressing need for an alternative treatment option to advance patient care. Sea Buckthorn is known to exhibit various beneficial effects, such as antioxidative, cytoprotective, wound-healing, immunomodulatory, and cardioprotective properties, among others. In contrast, Epigallocatechin gallate (EGCG) possesses antioxidant properties and can also mitigate the production of inflammatory cytokines, which are responsible for inducing inflammation in the body. The study postulates that incorporating EGCG alongside deciduous plant extracts could serve as a supplementary agent for HP treatment. Consequently, the research confirms the efficacy of the test medications in managing HP. It is essential to continue exploring alternative treatments and novel therapies to address the multifaceted aspects of HP and improve patients' overall quality of life. By broadening our understanding of the disease and potential treatment approaches, medical professionals can develop more personalized and effective interventions tailored to each patient's needs. Further investigations into the interplay between various therapeutic agents and their mechanisms of action will undoubtedly pave the way for more advanced and comprehensive strategies for combating HP. The study focuses on the Toluene di-isocyanate induced Hypersensitivity Pneumonitis rats with the prophylactic as well as therapeutic dose of the Sea Buckthorn berries extract along with the Epigallocatechin gallate for around 2.5 months. The paper also shows the various parameters on which the research has been successfully conducted. The research confirms the effectiveness of the test medications in modern HP treatment. This gives a basis for replacing the steroid therapy and opt for the better prolonged lifestyle.

Exploring the Frequency and Distribution of Ecological Non-monotonicity in Associations among Ecosystem Constituents

Complex links between biotic and abiotic constituents are fundamental for the functioning of ecosystems. Although non-monotonic interactions and associations are known to increase the stability, diversity, and productivity of ecosystems, they are frequently ignored by community-level standard statistical approaches. Using the copula-based dependence measure qad, capable of quantifying the directed and asymmetric dependence between variables for all forms of (functional) relationships, we determined the proportion of non-monotonic associations between different constituents of an ecosystem (plants, bacteria, fungi, and environmental parameters). Here, we show that up to 59% of all statistically significant associations are non-monotonic. Further, we show that pairwise associations between plants, bacteria, fungi, and environmental parameters are specifically characterized by their strength and degree of monotonicity, for example, microbe–microbe associations are on average stronger than and differ in degree of non-monotonicity from plant–microbe associations. Considering directed and non-monotonic associations, we extended the concept of ecosystem coupling providing more complete insights into the internal order of ecosystems. Our results emphasize the importance of ecological non-monotonicity in characterizing and understanding ecosystem patterns and processes.

Drought conditioning of rhizosphere microbiome influences maize water use traits

Background and AimsBeneficial plant–microbe interactions can improve plant performance under drought; however, we know less about how drought-induced shifts in microbial communities affect plant traits.MethodsWe cultivated Zea mays in fritted clay with soil microbiomes originating from contrasting environments (agriculture or forest) under two irrigation treatments (well-watered or water limited). Using this design, we investigated whether water conditioning was carried forward through the microbiome to affect a subsequent plant cohort that was subjected to either a well-watered or water limited treatment.ResultsRegardless of the microbiome-origin, plants inoculated with a microbiome from a water limited legacy had traits that allowed them to avoid stress but conserve water. They produced longer roots to explore soil, generated greater soil dissolved organic carbon, potentially stimulating the microbiome, and slower soil water content loss during drought. A well-watered legacy resulted in plants that delayed permanent stomatal closure and higher photosynthetic nitrogen use efficiency. In plants with a forest-originated microbiome, a well-watered legacy and water treatment also resulted in higher rates of photosynthesis and stomatal conductance.ConclusionThese results demonstrate that soil microbiomes can be developed to influence plant drought performance, impacting crop resilience, using short-term microbial conditioning.

Divergent sequences of tetraspanins enable plants to specifically recognize microbe-derived extracellular vesicles

Extracellular vesicles (EVs) are important for cell-to-cell communication in animals. EVs also play important roles in plant–microbe interactions, but the underlying mechanisms remain elusive. Here, proteomic analyses of EVs from the soybean (Glycine max) root rot pathogen Phytophthora sojae identify the tetraspanin family proteins PsTET1 and PsTET3, which are recognized by Nicotiana benthamiana to trigger plant immune responses. Both proteins are required for the full virulence of P. sojae. The large extracellular loop (EC2) of PsTET3 is the key region recognized by N. benthamiana and soybean cells in a plant receptor-like kinase NbSERK3a/b dependent manner. TET proteins from oomycete and fungal plant pathogens are recognized by N. benthamiana thus inducing immune responses, whereas plant-derived TET proteins are not due to the sequence divergence of sixteen amino acids at the C-terminal of EC2. This feature allows plants to distinguish self and non-self EVs to trigger active defense responses against pathogenic eukaryotes.

Illuminating plant–microbe interaction: How photoperiod affects rhizosphere and pollutant removal in constructed wetland?

Rhizosphere is a crucial area in comprehending the interaction between plants and microorganisms in constructed wetlands (CWs). However, influence of photoperiod, a key factor that regulates photosynthesis and rhizosphere microbial activity, remains largely unknown. This study investigated the effect of photoperiod (9, 12, 15 h/day) on pollutant removal and underlying mechanisms. Results showed that 15-hour photoperiod treatment exhibited the highest removal efficiencies for COD (87.26%), TN (63.32%), and NO3–-N (97.79%). This treatment enhanced photosynthetic pigmentation and root activity, which increased transport of oxygen and soluble organic carbon to rhizosphere, thus promoting microbial nitrification and denitrification. Microbial community analysis revealed a more stable co-occurrence network due to increased complexity and aggregation in the 15-hour photoperiod treatment. Phaselicystis was identified as a key connector, which was responsible for transferring necessary carbon sources, ATP, and electron donors that supported and optimized nitrogen metabolism in the CWs. Structural equation model analysis emphasized the importance of plant–microbe interactions in pollutant removal through increased substance, information, and energy exchange. These findings offer valuable insights for CWs design and operation in various latitudes and rural areas for small-scale decentralized systems.

Agricultural tillage practice and rhizosphere selection interactively drive the improvement of soybean plant biomass.

Rhizosphere microbes play key roles in plant growth and productivity in agricultural systems. One of the critical issues is revealing the interaction of agricultural management (M) and rhizosphere selection effects (R) on soil microbial communities, root exudates and plant productivity. Through a field management experiment, we found that bacteria were more sensitive to the M × R interaction effect than fungi, and the positive effect of rhizosphere bacterial diversity on plant biomass existed in the bacterial three two-tillage system. In addition, inoculation experiments demonstrated that the nitrogen cycle-related isolate Stenotrophomonas could promote plant growth and alter the activities of extracellular enzymes N-acetyl- d-glucosaminidase and leucine aminopeptidase in rhizosphere soil. Microbe-metabolites network analysis revealed that hubnodes Burkholderia-Caballeronia-Paraburkholderia and Pseudomonas were recruited by specific root metabolites under the M × R interaction effect, and the inoculation of 10 rhizosphere-matched isolates further proved that these microbes could promote the growth of soybean seedlings. Kyoto Encyclopaedia of Genes and Genomes pathway analysis indicated that the growth-promoting mechanisms of these beneficial genera were closely related to metabolic pathways such as amino acid metabolism, melatonin biosynthesis, aerobactin biosynthesis and so on. This study provides field observation and experimental evidence to reveal the close relationship between beneficial rhizosphere microbes and plant productivity under the M × R interaction effect.

Rhizosphere effects on the microbial community: Specificity and conservatism across geographically disjunct Panax species

A deeper understanding of plant control over the rhizosphere, especially from the evolutionary perspective, is needed for environmentally friendly breeding to take advantage of soil microbes. In the present study, paired bulk and rhizosphere soil samples from 810 plants of three Panax species (P. ginseng, PG; P. quinquefolium, PQ; P. notoginseng, PN) were used to assess rhizosphere effects on microbial diversity, phylogenetic structure, and community composition. The rhizosphere effects were generally stronger in tetraploid PG/PQ than in diploid PN, and the edaphic factors capable of explaining within-species effect variations differed among the three species. However, these species were consistent in terms of the greater biodiversity and stronger phylogenetic clustering in the rhizosphere than in bulk soil, as well as the upward trend of effect strength with plant age. The rhizosphere-enriched taxa of the three species showed strong phylogenetic clustering, as indicated by phylogenetic sampling theory (z score = −11.33) and UniFrac distances, and the coenrichment was mainly reflected in specific orders of Alpha- and Gammaproteobacteria. The potential ecological similarity of rhizosphere-enriched taxa might represent the evolutionarily conserved part of genetic traits involved in rhizosphere recruitment and microbial function requirements in the three species. In summary, this study reveals the specificity and conservatism of rhizosphere effect evolution in these related but Holarctic disjunct Panax species, which advances our understanding of plant–microbe coevolution in the rhizosphere.

Plant communities can attenuate flooding induced N2O fluxes by altering nitrogen cycling microbial communities and plant nitrogen uptake

Plant communities comprising species with different growth strategies and belonging to different functional groups can ensure stable productivity under variable climatic conditions. However, how plant communities can influence the response of nitrogen (N) cycling, in particular, soil microbial N cycling communities, N leaching and N2O fluxes under flooding, and their capacity to suppress flooding-induced N2O fluxes, remains unresolved. The aim of this study was to examine the effect of different plant communities composed of grasses and/or legumes on N cycling soil microorganisms and N2O fluxes, and how these effects are influenced by flooding. Our field experiment consisted of monocultures and two- and four-species mixtures of two grass and two legume species with different growth strategies (slow- and fast-growing species), grown in a fertilised sandy soil in the Netherlands. One year after plant establishment, we imposed paired control and flooding treatments for three weeks. We found that flooding significantly reduced plant N uptake and increased N2O fluxes. This increase was associated with higher abundances of N cycling microbial communities (except for ammonia-oxidising bacteria). Legume presence increased N2O fluxes, irrespective of the legume growth strategy or flooding, but this was not driven by changes in N cycling microbial communities; instead, it was related to an increase in soil nitrate availability. Mixing grasses with legumes promoted high plant N uptake and reduced N losses under control and flooded conditions, in particular when combining slow-growing species, and in the four-species mixture. Our results show that flooding exerted a strong influence on N cycling by increasing N leaching, N2O fluxes, microbial community abundances and decreasing plant N uptake. However, plant communities with slow-growing strategy had lowest relative abundance of nosZII bacteria and ameliorated flooding effects by both reducing N losses and enhancing plant N uptake.

Starving the enemy: how plant and microbe compete for sugar on the border.

As the primary energy source for a plant host and microbe to sustain life, sugar is generally exported by Sugars Will Eventually be Exported Transporters (SWEETs) to the host extracellular spaces or the apoplast. There, the host and microbes compete for hexose, sucrose, and other important nutrients. The host and microbial monosaccharide transporters (MSTs) and sucrose transporters (SUTs) play a key role in the "evolutionary arms race". The result of this competition hinges on the proportion of sugar distribution between the host and microbes. In some plants (such as Arabidopsis, corn, and rice) and their interacting pathogens, the key transporters responsible for sugar competition have been identified. However, the regulatory mechanisms of sugar transporters, especially in the microbes require further investigation. Here, the key transporters that are responsible for the sugar competition in the host and pathogen have been identified and the regulatory mechanisms of the sugar transport have been briefly analyzed. These data are of great significance to the increase of the sugar distribution in plants for improvement in the yield.

Plant–microbe interactions: Plant-exuded myo-inositol attracts specific bacterial taxa

Plants exude a plethora of metabolites that transform the microbiome composition. Initiated from genome-wide association studies of either a plant or a bacterium, two new studies dissect the impact of plant-secreted myo-inositol on recruitment of certain bacterial taxa by Arabidopsis.

Microbial–Plant Collaborative Remediation of Cd-Contaminated Wastewater and Soil in the Surrounding Area of Nuclear Power Plants and Risk Assessment

The continuous development of China’s nuclear industry has caused an increasingly serious problem of heavy metal pollution in the ecological environment. A survey of the current situation shows that the quality of China’s groundwater bodies and their surrounding ecological environment has been severely affected. China has started to devote more attention to the issue of nuclear emissions and pollution. In view of this, this study takes an area contaminated by nuclear power plant emissions as the object of research and uses plant–microbe synergy to remediate the cadmium-contaminated environment. Cadmium-tolerant strains were isolated from the soil and identified as Serratia marcescens. The morphological characteristics of the cadmium-tolerant strains were observed with electron microscopy in the presence or absence of cadmium ions. The removal of Cd2+ from wastewater was analyzed in four experimental groups: Cd2+ removal from Cd2+-contaminated wastewater by combining a Cd-tolerant strain with Cd-flower, Cd-tolerant strain with Cd-flower, Cd-flower with alkali treatment, and Cd-tolerant strain with alkali treatment. This study innovatively treated Cd ion concentrations of 50 mg/L, 100 mg/L, 200 mg/L, and 300 mg/L. The results showed that the cadmium-tolerant strains were more densely concentrated in the treated Phyllostachys than in the untreated condition. This indicates that the Cd-tolerant strains were effectively enhanced by the alkali treatment of Phyllostachys spp. and that the adsorption of Cd ions to the Cd-tolerant strains was improved. In the presence of Cd2+ flowers only, the best removal of Cd2+ was achieved at a concentration of 50 mg/L, with a removal rate of 74.10%; the addition of Cd-tolerant strains resulted in a removal rate of 91.21%. When the alkali treatment was applied to the flat bamboo flowers, the removal rate was 84.36% when the concentration of Cd2+ was 100 mg/L. Then, when the cadmium-tolerant strain was added to the treated flat bamboo flower group, the maximum removal rate was 89.74% when the concentration of Cd2+ was 100 mg/L. The cadmium ion content of Cd2+ increased positively with increasing experimental time. In addition, the quasi-secondary correlation coefficients for cadmium ions in Lobelia were all greater than 0.9905, indicating that the adsorption kinetics were significantly correlated with the quasi-secondary kinetics. The analysis of heavy metal enrichment in Lobelia was divided into four groups, with Lobelia showing the best tolerance and cadmium adsorption capacity at a cadmium concentration of 20 mg/L. The results of super-enrichment coefficients showed that the enrichment coefficients of Lobelia ranged from 1.03 to 1.97, with values greater than 1. All these results indicate that the combination of cadmium-tolerant strains and plants can effectively remediate nuclear-contaminated soil and wastewater, thus improving soil availability and water regeneration, and improving the human living environment.

Insight into functional mechanisms of percarbamide and nitrification inhibitors in degrading fungicide residues and shaping microbial communities in soil-plant systems

Fungicides and nitrogen (N) fertilizers are essential to maintain plant yield in current intensive agriculture. Percarbamide is a novel type of N fertilizer with strong oxidizing property, and the nitrification inhibitor is widely used in agricultural production. It may be feasible to apply percarbamide and nitrification inhibitor as N management to promote fungicide dissipations in soil-plant system. This study quantified the effects of percarbamide and nitrification inhibitor dicyandiamide (DCD) and 3, 4-dimethylpyrazole phosphate (DMPP) on carbendazim residues, and microbial communities of soil-plant systems, and relationships among carbendazim residues, soil and endophytic microbial communities and plant yields were also comprehensively quantified. Compared with the control, the percarbamide significantly reduced soil carbendazim residues by 29.4% but enhanced the lettuce yield by 28.0%. Soil carbendazim residues were significantly and negatively correlated with the soil total N and NO3−-N contents. Soil microbial community structures and co-occurrence networks were more sensitive to N management than their endophytic counterparts. In comparison to the percarbamide alone, the DCD significantly increased the nodes of soil fungal community co-occurrence network which were positively correlated with the plant yield. The DCD outweighed DMPP in increasing the lettuce yield and soil fungal community stability and reshaping soil bacterial community structure. Our study suggested that soil microbial communities were more sensitive to percarbamide and nitrification inhibitor applications than their endophytic counterparts under fungicide pressure and that the DCD outweighed DMPP in reshaping microbial communities. The integrated applications of percarbamide and nitrification inhibitors were promising soil N management strategies to promote fungicide removal and stimulate microbial community in the soil-plant systems.

Bayesian network highlights the contributing factors for efficient arsenic phytoextraction by Pteris vittata in a contaminated field

Phytoextraction is a low-cost and eco-friendly method for removing pollutants, such as arsenic (As), from contaminated soil. One of the most studied As hyperaccumulators for soil remediation include Pteris vittata. Although phytoextraction using plant-assisted microbes has been considered a promising soil remediation method, microbial harnessing has not been achieved due to the complex and difficult to understand interactions between microbes and plants. This problem can possibly be addressed with a multi-omics approach using a Bayesian network. However, limited studies have used Bayesian networks to analyze plant–microbe interactions. Therefore, to understand this complex interaction and to facilitate efficient As phytoextraction using microbial inoculants, we conducted field cultivation experiments at two sites with different total As contents (62 and 8.9 mg/kg). Metabolome and microbiome data were obtained from rhizosphere soil samples using nuclear magnetic resonance and high-throughput sequencing, respectively, and a Bayesian network was applied to the obtained multi-omics data. In a highly As-contaminated site, inoculation with Pseudomonas sp. strain m307, which is an arsenite-oxidizing microbe having multiple copies of the arsenite oxidase gene, increased As concentration in the shoots of P. vittata to 157.5 mg/kg under this treatment; this was 1.5-fold higher than that of the other treatments. Bayesian network demonstrated that strain m307 contributed to As accumulation in P. vittata. Furthermore, the network showed that microbes belonging to the MND1 order positively contributed to As accumulation in P. vittata. Based on the ecological characteristics of MND1, it was suggested that the rhizosphere of P. vittata inoculated with strain m307 was under low-nitrogen conditions. Strain m307 may have induced low-nitrogen conditions via arsenite oxidation accompanied by nitrate reduction, potentially resulting in microbial iron reduction or the prevention of microbial iron oxidation. These conditions may have enhanced the bioavailability of arsenate, leading to increased As accumulation in P. vittata.

A root-knot nematode effector manipulates the rhizosphere microbiome for establishing parasitism relationship with hosts.

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. 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. 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.

Rhizobia Inoculation Supplemented with Nitrogen Fertilization Enhances Root Nodulation, Productivity, and Nitrogen Dynamics in Soil and Black Gram (Vigna mungo (L.) Hepper)

The potential interactions of rhizobium bacteria in enhancing nodulation, nitrogen (N) fixation for boosting N availability, and the yield of black gram under a temperate environment continue to remain unexplored. Therefore, this study aimed to evaluate the agronomic performance of black gram cultivars, their yield comparisons, and shoot–grain–soil N dynamics in a prevalently rainfed farming system. Two black gram cultivars, NARC Mash-I and NARC Mash-II, were subjected to rhizobia inoculation combined with different N doses (0, 25, 50, 75, 100 kg ha−1). The response variables included root nodulation, agronomic yield attributes, grain yield, shoot–grain and soil N dynamics, and biological productivity. Black gram cultivar NARC Mash-II showed the maximum nodule formation (41 per plant), while each nodule obtained 0.69 g weight in response to RI combined with 25 kg N ha−1. Additionally, this combination showed the highest pods per plant and thousand grain weight, which maximized the grain yield (1777 kg ha−1) and biological productivity (3007 kg ha−1). In contrast, NARC Mash-I under 50 kg N recorded the highest shoot N content, while the same cultivar under 100 kg N exhibited the maximum soil N content. The correlation analyses indicated a significantly robust association among the nodule numbers, grain weight, and N contents in different plant organs. These results give mechanistic insights into plant–microbe interactions based on the eco-friendly, sustainable, and smart agricultural practice of black gram production in a temperate environment.

Dynamic of active microbial diversity in rhizosphere sediments of halophytes used for bioremediation of earthen shrimp ponds

BackgroundIn New-Caledonia, at the end of each shrimp production cycle, earthen ponds are drained and dried to enhance microbial decomposition of nutrient-rich waste trapped in the sediment during the rearing. However, excessive ponds drying may not be suitable for the decomposition activities of microorganisms. Halophytes, salt tolerant plants, naturally grow at vicinity of shrimp ponds; due to their specificity, we explored whether halophytes cultivation during the pond drying period may be suitable for pond bioremediation. In addition, plants are closely associated with microorganisms, which may play a significant role in organic matter decomposition and therefore in bioremediation. Thus, in this study we aimed to determine the impact of 3 halophyte species (Suaeda australis, Sarcocornia quinqueflora and Atriplex jubata) on active sediment microbial communities and their implications on organic matter degradation.ResultsDrying significantly decreased the microbial diversity index compared to those of wet sediment or sediment with halophytes. Microbial profiles varied significantly over time and according to the experimental conditions (wet, dry sediment or sediment with halophyte species). Halophytes species seemed to promote putative microbial metabolism activities in the sediment. Taxa related to nitrogen removal, carbon mineralisation, sulphur reduction and sulphide oxidation were significant biomarkers in sediment harbouring halophytes and may be relevant for bioremediation. Whereas microbial communities of dry sediment were marked by soil limited-moisture taxa with no identification of microbial metabolic functions. Nitrogen reduction in sediments was evidenced in wet sediment and in sediments with halophytes cultures, along with putative microbial denitrification activities. The greatest nitrogen reduction was observed in halophytes culture.ConclusionThe efficiency of sediment bioremediation by halophytes appears to be the result of both rhizosphere microbial communities and plant nutrition. Their cultures during the pond drying period may be used as aquaculture diversification by being a sustainable system.

Nanopore sequencing technology and its applications.

Since the development of Sanger sequencing in 1977, sequencing technology has played a pivotal role in molecular biology research by enabling the interpretation of biological genetic codes. Today, nanopore sequencing is one of the leading third-generation sequencing technologies. With its long reads, portability, and low cost, nanopore sequencing is widely used in various scientific fields including epidemic prevention and control, disease diagnosis, and animal and plant breeding. Despite initial concerns about high error rates, continuous innovation in sequencing platforms and algorithm analysis technology has effectively addressed its accuracy. During the coronavirus disease (COVID-19) pandemic, nanopore sequencing played a critical role in detecting the severe acute respiratory syndrome coronavirus-2 virus genome and containing the pandemic. However, a lack of understanding of this technology may limit its popularization and application. Nanopore sequencing is poised to become the mainstream choice for preventing and controlling COVID-19 and future epidemics while creating value in other fields such as oncology and botany. This work introduces the contributions of nanopore sequencing during the COVID-19 pandemic to promote public understanding and its use in emerging outbreaks worldwide. We discuss its application in microbial detection, cancer genomes, and plant genomes and summarize strategies to improve its accuracy.

Grassland responses to elevated CO2 determined by plant–microbe competition for phosphorus

Grassland responses to elevated CO2 determined by plant–microbe competition for phosphorus

Multi-Omics Approaches in Plant–Microbe Interactions Hold Enormous Promise for Sustainable Agriculture

Plants do not grow in isolation; they interact with diverse microorganisms in their habitat. The development of techniques to identify and quantify the microbial diversity associated with plants contributes to our understanding of the complexity of environmental influences to which plants are exposed. Identifying interactions which are beneficial to plants can enable us to promote healthy growth with the minimal application of agrochemicals. Beneficial plant–microbial interactions assist plants in acquiring inaccessible nutrients to promote plant growth and help them to cope with various stresses and pathogens. An increased knowledge of plant–microbial diversity can be applied to meet the growing demand for biofertilizers for use in organic agriculture. This review highlights the beneficial effects of soil–microbiota and biofertilizers on improving plant health and crop yields. We propose that a multi–omics approach is appropriate to evaluate viability in the context of sustainable agriculture.

Mechanistic approaches to investigate soil microbe‐mediated plant competition

Abstract Interactions between plants and soil microbes can influence plant population dynamics and diversity in plant communities. Traditional theoretical paradigms view the microbial community as a black box with net effects described by phenomenological models. This approach struggles to quantify the importance of plant–microbe interactions relative to other competition and coexistence mechanisms and to explain context dependence in microbe effects. We argue that a mechanistic framework focused on microbial functional groups will lead to conceptual and empirical advances, as demonstrated by extending resource ratio theory to plant–microbe interactions. We review the diverse pathways by which different microbial functional groups can influence plant resource competition. Finally, we suggest approaches to link theory with observations to measure the key parameters of our framework. Synthesis: Our review highlights recent experimental advancements for uncovering microbial mechanisms that alter plant host resource competition and coexistence. We synthesize these mechanisms into a conceptual model that provides a framework for future experiments to investigate the importance of plant–microbe interactions in structuring plant populations and communities.