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Plant‒Microbe Interaction in Developing Climate-Resilient Crop Species
Abstract
Climate change is one of the most pressing challenges facing agriculture today, with its adverse effects on crop productivity and global food security. To combat the impacts of climate change, the development of climate-resilient crop species is crucial. Plant‒microbe interactions play a significant role in enhancing plant resilience to various stressors, including drought, heat, salinity, and pathogen attacks. This chapter explores the intricate relationship between plants and microbes and their potential role in developing climate-resilient crop species. It delves into the various mechanisms involved, highlighting the importance of harnessing these interactions for sustainable agriculture in the face of a changing climate.
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Integrated pest management (IPM) is a holistic approach to pest control that aims to minimize the use of chemical pesticides in horticulture. IPM involves the integration of multiple control methods to maintain pest populations below the ETL, reduce the impact of pesticides on non-target organisms, and promote biodiversity. Different components of an IPM program, including cultural, biological, and chemical control methods have been explored discussing their effectiveness in reducing pest damage and improving crop yields. Despite the potential benefits of IPM, there are several challenges to its adoption, including a lack of knowledge and technical expertise, a traditional reliance on chemical pesticides, the need for investment in research and development, and a lack of supportive policies and regulations. Addressing these challenges requires a collaborative effort between farmers, policymakers, researchers, and extension agents to promote sustainable agricultural practices and ensure the long-term viability of horticultural production. We have examined the benefits and challenges of implementing IPM strategies in horticulture and conclude with a discussion of the future of IPM in horticulture and the need for further research to improve IPM strategies and their implementation.
Climate change and environmental degradation remain the most complex challenges that present and future generations of humankind face and raise several security risks that have received relatively little attention in the literature. This paper aims to review the evidence of security risks arising from these challenges in the Global South and to provide forward-looking perspectives on how to increase the resilience of affected individuals and communities. We see diverse land use strategies as a key element to drive a transformation towards greater sustainability and resilience. We propose that rural land use in the Global South should be geared towards the promotion of resource and biodiversity conservation, the development of agroforestry, tree-based farming systems, the diversification of crops, and the utilization of climate-resilient cultivars, and neglected and under-utilized plants. These actions would contribute to addressing the security risks stemming from the interconnected challenges of climate change and environmental degradation.
Bacillus thuringiensis (Bt) and its products are commonly used to control insect pests. The main issue with these bacteria is their limited field stability. These constraints fueled interest in using several molecular, biological, and biotechnological techniques to develop new recombinant Bt toxins with a broader insect spectrum, improved environmental stability and more efficient delivery of toxins to pest insects control. However, the potential environmental impact of using recombinant Bt strains and genetically engineered Bt crops includes gene flows into wild species and their unintended consequences on parasitoids and predators. The development of new hybrid/mutated Bt insecticidal toxins, with enhanced insecticidal activity and/or a broader spectrum of target insects, will continue to be a useful strategy for controlling resistant insect pests and delaying resistance evolution. Furthermore, the use of other genes encoding non-Bt proteins with insecticidal properties and different modes of action, such as protease inhibitors, lectins, cholesterol oxidases and chitinases, isolated from various sources will be critical in providing new weapons for the fight against insect damage.
This review thoroughly describes recent advances and the most recent updates in the new potential applications of Bt, making it a remarkable new cell factory that can be employed to control pests.
Agroforestry integrates woody perennials with arable crops, livestock, or fodder in the same piece of land, promoting the more efficient utilization of resources as compared to monocropping via the structural and functional diversification of components. This integration of trees provides various soil-related ecological services such as fertility enhancements and improvements in soil physical, biological, and chemical properties, along with food, wood, and fodder. By providing a particular habitat, refugia for epigenic organisms, microclimate heterogeneity, buffering action, soil moisture, and humidity, agroforestry can enhance biodiversity more than monocropping. Various studies confirmed the internal restoration potential of agroforestry. Agroforestry reduces runoff, intercepts rainfall, and binds soil particles together, helping in erosion control. This trade-off between various non-cash ecological services and crop production is not a serious constraint in the integration of trees on the farmland and also provides other important co-benefits for practitioners. Tree-based systems increase livelihoods, yields, and resilience in agriculture, thereby ensuring nutrition and food security. Agroforestry can be a cost-effective and climate-smart farming practice, which will help to cope with the climate-related extremities of dryland areas cultivated by smallholders through diversifying food, improving and protecting soil, and reducing wind erosion. This review highlighted the role of agroforestry in soil improvements, microclimate amelioration, and improvements in productivity through agroforestry, particularly in semi-arid and degraded areas under careful consideration of management practices. Citation: Fahad, S.; Chavan, S.B.; Chichaghare, A.R.; Uthappa, A.R.; Kumar, M.; Kakade, V.; Pradhan, A.; Jinger, D.; Rawale, G.; Yadav, D.K.; et al. Agroforestry Systems for Soil Health Improvement and Maintenance. Sustainability 2022, 14,
Background
Climate change in Nepal has posed a considerable challenge to agricultural productivity and has threatened food and nutritional security at multiple levels. This study aims to assess the impacts of climate change on national food production and food and nutritional security as well as document issue-based prioritized adaptation options for a resilient food production system.
Methods
This study considers temperature, precipitation, and their anomalies as the key factors affecting food production in Nepal. Nationwide precipitation trends along with their association with the annual production of major cereal crops in Nepal were assessed using data from the last three decades (1990–2018). The annual productions of the major cereal crops were summed and normalized to calculate the production index scores in the districts. Scores were plotted and visualized into maps using the Geographical Information System. In three ecological regions, the distribution of flood and extreme rainfall events and cases of malnutrition from 2005 to 2018 were plotted. The effects of climate change and highest priority adaptation options at the district level were documented through a review of national policies and literature studies and qualitative research based on Focus Group Discussions (FGDs).
Results
Between 1990 and 2018, the overall average production of major cereal crops in Nepal was increased by around 2,245 MT annually. In the district level index analysis, the highest production score was found for Jhapa and Morang while the lowest production score was found for Humla. Cases of malnutrition in some districts coincided with flood and heavy rainfall events, indicating that climate change and extreme climatic events have a role to play in food production and security. Growing drought-tolerant crops, changes in crop cycle, riverbed farming practices, developing short-term strategies, such as contingency crop planning, changing planting dates, planting short duration varieties, schemes evacuation, and long-term strategies, such as encouraging out-migration of population to safer locations, resettlement programs with transformative livelihood options, and sustainable agricultural practices were found to be key prioritized adaptation measures for a resilient food production system.
Conclusion
In Nepal, climate change and the increasing frequency and magnitude of extreme climatic events adversely affect the food production system, which has become a serious threat to food and nutritional security. The implementation of evidence-based practices to build a resilient food system specific to climate-vulnerable hotspots at the district and local levels is the nation's current need.
Main Conclusion
The responses of plants to different abiotic stresses and mechanisms involved in their mitigation are discussed. Production of osmoprotectants, antioxidants, enzymes and other metabolites by beneficial microorganisms and their bioengineering ameliorates environmental stresses to improve food production.
Abstract
Progressive intensification of global agriculture, injudicious use of agrochemicals and change in climate conditions have deteriorated soil health, diminished the microbial biodiversity and resulted in environment pollution along with increase in biotic and abiotic stresses. Extreme weather conditions and erratic rains have further imposed additional stress for the growth and development of plants. Dominant abiotic stresses comprise drought, temperature, increased salinity, acidity, metal toxicity and nutrient starvation in soil, which severely limit crop production. For promoting sustainable crop production in environmentally challenging environments, use of beneficial microbes has emerged as a safer and sustainable means for mitigation of abiotic stresses resulting in improved crop productivity. These stress-tolerant microorganisms play an effective role against abiotic stresses by enhancing the antioxidant potential, improving nutrient acquisition, regulating the production of plant hormones, ACC deaminase, siderophore and exopolysaccharides and accumulating osmoprotectants and, thus, stimulating plant biomass and crop yield. In addition, bioengineering of beneficial microorganisms provides an innovative approach to enhance stress tolerance in plants. The use of genetically engineered stress-tolerant microbes as inoculants of crop plants may facilitate their use for enhanced nutrient cycling along with amelioration of abiotic stresses to improve food production for the ever-increasing population. In this chapter, an overview is provided about the current understanding of plant–bacterial interactions that help in alleviating abiotic stress in different crop systems in the face of climate change. This review largely focuses on the importance and need of sustainable and environmentally friendly approaches using beneficial microbes for ameliorating the environmental stresses in our agricultural systems.
Improving Biological Nitrogen Fixation (BNF) in cereal crops is a long‐sought objective, however no successful modification of cereal crops showing increased BNF has been reported. Here, we described a novel approach in which rice plants were modified to increase the production of compounds that stimulated biofilm formation in soil diazotrophic bacteria, promoted bacterial colonization of plant tissues, improved BNF with increased grain yield at limiting soil nitrogen contents. We first used a chemical screening to identify plant‐produced compounds that induced biofilm formation in nitrogen‐fixing bacteria and demonstrated that apigenin and other flavones induced BNF. We then used CRISPR‐based gene editing targeting apigenin breakdown in rice, increasing plant apigenin contents and apigenin root exudation. When grown at limiting soil nitrogen conditions, modified rice plants displayed increased grain yield. Biofilm production also modified the root microbiome structure, favoring the enrichment of diazotrophic bacteria recruitment. Our results support the manipulation of the flavone biosynthetic pathway as a feasible strategy for the induction of biological nitrogen fixation in cereals and a reduction in the use of inorganic nitrogen fertilizers.
Lichen-forming fungi are mutualistic symbionts of green algae or cyanobacteria. We report the comparative analysis of six genomes of lichen-forming fungi in classes Eurotiomycetes and Lecanoromycetes to identify genomic information related to their symbiotic lifestyle. The lichen-forming fungi exhibited genome reduction via the loss of dispensable genes encoding plant-cell-wall-degrading enzymes, sugar transporters, and transcription factors. The loss of these genes reflects the symbiotic biology of lichens, such as the absence of pectin in the algal cell wall and obtaining specific sugars from photosynthetic partners. The lichens also gained many lineage- and species-specific genes, including those encoding small secreted proteins. These genes are primarily induced during the early stage of lichen symbiosis, indicating their significant roles in the establishment of lichen symbiosis.Our findings provide comprehensive genomic information for six lichen-forming fungi and novel insights into lichen biology and the evolution of symbiosis.
We designed this review to describe a compilation of studies to enlighten the concepts of plant–microbe interactions, adopted protocols in smart crop farming, and biodiversity to reaffirm sustainable agriculture. The ever-increasing use of agrochemicals to boost crop production has created health hazards to humans and the environment. Microbes can bring up the hidden strength of plants, augmenting disease resistance and yield, hereafter, crops could be grown without chemicals by harnessing microbes that live in/on plants and soil. This review summarizes an understanding of the functions and importance of indigenous microbial communities; host–microbial and microbial–microbial interactions; simplified experimentally controlled synthetic flora used to perform targeted operations; maintaining the molecular mechanisms; and microbial agent application technology. It also analyzes existing problems and forecasts prospects. The real advancement of microbiome engineering requires a large number of cycles to obtain the necessary ecological principles, precise manipulation of the microbiome, and predictable results. To advance this approach, interdisciplinary collaboration in the areas of experimentation, computation, automation, and applications is required. The road to microbiome engineering seems to be long; however, research and biotechnology provide a promising approach for proceeding with microbial engineering and address persistent social and environmental issues.
Achieving sustainable agricultural productivity and global food security are two of the biggest challenges of the new millennium. Addressing these challenges requires innovative technologies that can uplift global food production, while minimizing collateral environmental damage and preserving the resilience of agroecosystems against a rapidly changing climate. Nanomaterials with the ability to encapsulate and deliver pesticidal active ingredients (AIs) in a responsive (for example, controlled, targeted and synchronized) manner offer new opportunities to increase pesticidal efficacy and efficiency when compared with conventional pesticides. Here, we provide a comprehensive analysis of the key properties of nanopesticides in controlling agricultural pests for crop enhancement compared with their non-nanoscale analogues. Our analysis shows that when compared with non-nanoscale pesticides, the overall efficacy of nanopesticides against target organisms is 31.5% higher, including an 18.9% increased efficacy in field trials. Notably, the toxicity of nanopesticides toward non-target organisms is 43.1% lower, highlighting a decrease in collateral damage to the environment. The premature loss of AIs prior to reaching target organisms is reduced by 41.4%, paired with a 22.1% lower leaching potential of AIs in soils. Nanopesticides also render other benefits, including enhanced foliar adhesion, improved crop yield and quality, and a responsive nanoscale delivery platform of AIs to mitigate various pressing biotic and abiotic stresses (for example, heat, drought and salinity). Nonetheless, the uncertainties associated with the adverse effects of some nanopesticides are not well-understood, requiring further investigations. Overall, our findings show that nanopesticides are potentially more efficient, sustainable and resilient with lower adverse environmental impacts than their conventional analogues. These benefits, if harnessed appropriately, can promote higher crop yields and thus contribute towards sustainable agriculture and global food security.
Food security has become the most challenging task in the current scenario of population growth and the future perspective in the everchanging environment. Cultivation and management of plants is now a major challenge for modern food production, which is further compounded by the lack of common background among many disease control disciplines. All crop plants simultaneously engage with billions of microbes from their surroundings, most of which are harmless and rather beneficial to the plant as they promote plant growth and provide protection in opposition to diseases. However, a few species-specific adapted microbes cause diseases with devastating effects on crop yields. To prevent pathogen infection, plants have evolved an innate immune system that recognises conserved cell surface molecules that most pathogen species possess. Activation of the plant immune system ceases the non-adapted pathogen invasion, but this comes with a fitness cost that significantly reduces plant growth and leads to a yield penalty. Apart from their innate immune systems controlling pre-programmed defence reactions, plants can also increase the responsiveness of their immune systems in response to selected environmental signals. This phenomenon is known as "defence priming". The fitness costs of priming are lower than those of constitutively activated defences, suggesting that priming functions as an ecological adaptation of the plant to respond faster to a hostile environment. Although defence priming rarely provides full protection, its broad spectrum effectiveness, long-lasting durability, and inheritance to future generations make it attractive for integrated disease management.
The plant faces different pedological and climatic challenges that influence its growth and their enhancement. While, plant-microbes interactions throught the rhizosphere offer several privileges to this hotspot in the service of plant, by attracting multi-beneficial mutualistic and symbiotic microorganisms plant growth-promoting rhizobacteria (PGPR), archaea, mycorrhizal fungi, endophytic fungi, and others…). Currently, numerous investigations showed the beneficial effects of these microbes on growth and plant health. Indeed, rhizospheric microorganisms offer to host plants the essential assimilable nutrients (phosphate solubilization, siderophores production...), stimulate the growth and development of host plants (phytohormones production, plant secondary metabolites induction…), and induce antibiotics production. They also attributed to host plants numerous phenotypes involved in the increase the resistance to abiotic and biotic stresses. The investigations and the studies on the rhizosphere can offer a way to find a biological and sustainable solution to confront these environmental problems. Therefore, interactions between microbes and plants may lead to interesting biotechnological applications on plant improvement and adaptation in different climates to obtain biological sustainable agricultures without the use of chemical fertilizers.
Crop production systems need to expand their outputs sustainably to feed a burgeoning human population. Advances in genome sequencing technologies combined with efficient trait mapping procedures accelerate the availability of beneficial alleles for breeding and research. Enhanced interoperability between different omics and phenotyping platforms, leveraged by evolving machine learning tools, will help provide mechanistic explanations for complex plant traits. Targeted and rapid assembly of beneficial alleles using optimized breeding strategies and precise genome editing techniques could deliver ideal crops for the future. Realizing desired productivity gains in the field is imperative for securing an adequate future food supply for 10 billion people.
Climate-Smart Agriculture (CSA) is seeking to overcome the food security problem and develop rural livelihoods while minimizing negative impacts on the environment. However, when such synergies exist, the situation of small-scale farmers is often overlooked, and they are unable to implement new practices and technologies. Therefore, the main aim of this study is to improve CSA by adding the neglected but very important element “small-scale farmer”, and introduce Vulnerable-Smart Agriculture (VSA) as a complete version of CSA. VSA indicates, based on the results of this study, that none of the decisions made by policymakers can be realistic and functional as long as the voice of the farmers influenced by their decisions is not heard. Therefore, to identify different levels for possible interventions and develop VSA monitoring indicators, a new conceptual framework needs to be developed. This study proposed such a framework consisting of five elements: prediction of critical incidents by farmers, measuring the consequences of incidents, identifying farmers' coping strategies, assessing farmers' livelihood capital when facing an incident, and adapting to climate incidents. The primary focus of this study is on farmers’ learning and operational preparation to deal with tension and disasters at farm level. Understanding the implications of threats from climate change and the recognition of coping mechanisms will contribute to an increase in understanding sustainable management.
Biopesticides are natural, biologically occurring compounds that are used to control various agricultural pests infesting plants in forests, gardens, farmlands, etc. There are different types of biopesticides that have been developed from various sources. This paper underscores the utility of biocontrol agents composed of microorganisms including bacteria, cyanobacteria, and microalgae, plant-based compounds, and recently applied RNAi-based technology. These techniques are described and suggestions are made for their application in modern agricultural practices for managing crop yield losses due to pest infestation. Biopesticides have several advantages over their chemical counterparts and are expected to occupy a large share of the market in the coming period.
The ever-growing human population globally has resulted in the quest for solutions to the problem of hunger by providing food security. The importance of plant-root-associated microorganisms cannot be overlooked, plants rely on them. These root colonizers dominate the rhizosphere due to the abundance of available nutrients, relying on their host plant for nutrients and other essential requirements. The relationships between microbial communities and plants are controlled by the type of plant and microorganism involved. Advances in modern molecular techniques have led to the evolution of omic technology using nucleic acid molecules to study plant-microorganism associations capable of stimulating plant growth, improve yield, and induce disease suppression. This review elucidates the activities of microbial communities, especially nitrogen-fixing rhizobacteria associated with plant roots, nitrogen fixation as a mechanism of promoting plant growth, their importance, and the challenges employing bioinoculants. Prospecting plant growth promoters using omic technology will advance sustainable agriculture globally.
The rhizosphere is undoubtedly the most complex microhabitat, comprised of an integrated network of plant roots, soil, and a diverse consortium of bacteria, fungi, eukaryotes, and archaea. The rhizosphere conditions have a direct impact on crop growth and yield. Nutrient-rich rhizosphere environments stimulate plant growth and yield and vice versa. Extensive cultivation exhaust most of the soils which need to be nurtured before or during the next crop. Chemical fertilizers are the major source of crop nutrients but their uncontrolled and widespread usage has posed a serious threat to the sustainability of agriculture and stability of an ecosystem. These chemicals are accumulated in the soil, drained in water, and emitted to the air where they persist for decades causing a serious threat to the overall ecosystem. Plant growth-promoting rhizobacteria (PGPR) present in the rhizosphere convert many plant-unavailable essential nutrients e.g., nitrogen, phosphorous, zinc, etc. into available forms. PGPR produces certain plant growth hormones (such as auxin, cytokinin, and gibberellin), cell lytic enzymes (chitinase, protease, hydrolases, etc.), secondary metabolites, and antibiotics, and stress alleviating compounds (e.g., 1-Aminocyclopropane-1- carboxylate deaminase), chelating agents (siderophores), and some signaling compounds (e.g., N-Acyl homoserine lactones) to interact with the beneficial or pathogenic counterparts in the rhizosphere. These multifarious activities of PGPR improve the soil structure, health, fertility, and functioning which directly or indirectly support plant growth under normal and stressed environments. Rhizosphere engineering with these PGPR has a wide-ranging application not only for crop fertilization but developing eco-friendly sustainable agriculture. Due to severe climate change effects on plants and rhizosphere biology, there is growing interest in stress-resilient PGPM and their subsequent application to induce stress (drought, salinity, and heat) tolerance mechanism in plants. This review describes the three components of rhizosphere engineering with an explicit focus on the broader perspective of PGPM that could facilitate rhizosphere engineering in selected hosts to serve as an efficient component for sustainable agriculture.
The changing climate scenarios harshen the biotic stresses including boosting up the population of insect/pest and disease, uplifting weed growth, declining soil beneficial microbes, threaten pollinator, and boosting up abiotic stresses including harsh drought/waterlogging, extremisms in temperature, salinity/alkalinity, abrupt rainfall pattern)) and ulitamtely affect the plant in multiple ways. This nexus review paper will cover four significant points viz (1) the possible impacts of climate change; as the world already facing the problem of food security, in such crucial period, climatic change severely affects all four dimensions of food security (from production to consumption) and will lead to malnutrition/malnourishment faced by low-income peoples. (2) How some major crops (wheat, cotton, rice, maize, and sugarcane) are affected by stress and their consequent loss. (3) How to develop a strategic work to limit crucial factors, like their significant role in climate-smart breeding, developing resilience to stresses, and idiotypic breeding. Additionally, there is an essence of improving food security, as much of our food is wasted before consumption for instance post-harvest losses. (4) Role of biotechnology and genetic engineering in adaptive introgression of the gene or developing plant transgenic against pests. As millions of dollars are invested in innovation and research to cope with future climate change stresses on a plant, hence community base adaptation of innovation is also considered an important factor in crop improvements. Because of such crucial predictions about the future impacts of climate change on agriculture, we must adopt measures to evolve crop.
Adverse environmental conditions due to climate change, combined with declining soil fertility, threaten food security. Modern agriculture is facing a pressing situation where novel strategies must be developed for sustainable food production and security. Biostimulants, conceptually defined as non-nutrient substances or microorganisms with the ability to promote plant growth and health, represent the potential to provide sustainable and economically favorable solutions that could introduce novel approaches to improve agricultural practices and crop productivity. Current knowledge and phenotypic observations suggest that biostimulants potentially function in regulating and modifying physiological processes in plants to promote growth, alleviate stresses, and improve quality and yield. However, to successfully develop novel biostimulant-based formulations and programs, understanding biostimulant-plant interactions, at molecular, cellular and physiological levels, is a prerequisite. Metabolomics, a multidisciplinary omics science, offers unique opportunities to predictively decode the mode of action of biostimulants on crop plants, and identify signatory markers of biostimulant action. Thus, this review intends to highlight the current scientific efforts and knowledge gaps in biostimulant research and industry, in context of plant growth promotion and stress responses. The review firstly revisits models that have been elucidated to describe the molecular machinery employed by plants in coping with environmental stresses. Furthermore, current definitions, claims and applications of plant biostimulants are pointed out, also indicating the lack of biological basis to accurately postulate the mechanisms of action of plant biostimulants. The review articulates briefly key aspects in the metabolomics workflow and the (potential) applications of this multidisciplinary omics science in the biostimulant industry.
Plant–herbivore interactions have evolved in response to coevolutionary dynamics, along with selection driven by abiotic conditions. We examine how abiotic factors influence trait expression in both plants and herbivores to evaluate how climate change will alter this long‐standing interaction. The paleontological record documents increased herbivory during periods of global warming in the deep past. In phylogenetically corrected meta‐analyses, we find that elevated temperatures, CO2 concentrations, drought stress and nutrient conditions directly and indirectly induce greater food consumption by herbivores. Additionally, elevated CO2 delays herbivore development, but increased temperatures accelerate development. For annual plants, higher temperatures, CO2 and drought stress increase foliar herbivory. Our meta‐analysis also suggests that greater temperatures and drought may heighten florivory in perennials. Human actions are causing concurrent shifts in CO2, temperature, precipitation regimes and nitrogen deposition, yet few studies evaluate interactions among these changing conditions. We call for additional multifactorial studies that simultaneously manipulate multiple climatic factors, which will enable us to generate more robust predictions of how climate change could disrupt plant–herbivore interactions. Finally, we consider how shifts in insect and plant phenology and distribution patterns could lead to ecological mismatches, and how these changes may drive future adaptation and coevolution between interacting species.
Microorganisms surrounding plant roots may benefit invasive species through enhanced mutualism or decreased antagonism, when compared to surrounding native species. We surveyed the rhizosphere soil microbiome of a prominent invasive plant, Phragmites australis, and its co-occurring native subspecies for evidence of microbial drivers of invasiveness. If the rhizosphere microbial community is important in driving plant invasions, we hypothesized that non-native Phragmites would cultivate a different microbiome from native Phragmites, containing fewer pathogens, more mutualists, or both. We surveyed populations of native and non-native Phragmites across Michigan and Ohio USA, and we described rhizosphere microbial communities using culture-independent next-generation sequencing. We found little evidence that native and non-native Phragmites cultivate distinct bacterial, fungal, or oomycete rhizosphere communities. Microbial community differences in our Michigan survey were not associated with plant lineage but were mainly driven by environmental factors, such as soil saturation and nutrient concentrations. Intensive sampling along transects consisting of dense monocultures of each lineage and mixed zones revealed bacterial community differences between lineages in dense monoculture, but not in mixture. We found no evidence of functional differences in the microbial communities surrounding each lineage. We extrapolate that the invasiveness of non-native Phragmites, when compared to its native congener, does not result from the differential cultivation of beneficial or antagonistic rhizosphere microorganisms.
Viticulture is one of the most important crop industries in the world and its cultivation is on the upward trend globally. Global water and soil resources continued to decline sharply and rampant extreme weather conditions are becoming a serious threat to sustainable agriculture and food security. Further, the changes in climatic conditions are increasingly becoming favorable for rearing certain harmful biotic organisms, which are hostile to sustained grape cultivation. The environmental changes have shown a projected negative impact on viticulture by increased biotic and abiotic stresses. Range of strategies can be employed to mitigate such scenarios, however, integration of rootstocks to combat such challenges is a sustainable nature. Grape rootstocks have exhibited their role in mitigating the problems raised due to a variety of environmental stresses. For example, certain Vitis species are used as rootstock against phylloxera and other harmful pests of grapes. Similarly, there are certain rootstocks developed which have their tolerance against salinity, drought, cold, and iron chlorosis. With ever-changing environmental conditions, it is not essential that one rootstock perfors better at a specific place may perform well in another place. This article reviewed several grape rootstocks which have their specific resistance or tolerance features against a variety of stresses, including pests, disease, salinity, and drought. Consistent endeavors in grapevine rootstock improvement and utilization are critical for the sustainability of the grape industry, in particular during the ever-increasing environmental stresses.
Plant growth‐promoting rhizobacteria (PGPR) are diverse groups of plant‐associated microorganisms, which can reduce the severity or incidence of disease during antagonism among bacteria and soil‐borne pathogens, as well as by influencing a systemic resistance to elicit defense response in host plants. An amalgamation of various strains of PGPR has improved the efficacy by enhancing the systemic resistance opposed to various pathogens affecting the crop. Many PGPR used with seed treatment causes structural improvement of the cell wall and physiological/biochemical changes leading to the synthesis of proteins, peptides, and chemicals occupied in plant defense mechanisms. The major determinants of PGPR‐mediated induced systemic resistance (ISR) are lipopolysaccharides, lipopeptides, siderophores, pyocyanin, antibiotics 2,4‐diacetylphoroglucinol, the volatile 2,3‐butanediol, N‐alkylated benzylamine, and iron‐regulated compounds. Many PGPR inoculants have been commercialized and these inoculants consequently aid in the improvement of crop growth yield and provide effective reinforcement to the crop from disease, whereas other inoculants are used as biofertilizers for native as well as crops growing at diverse extreme habitat and exhibit multifunctional plant growth‐promoting attributes. A number of applications of PGPR formulation are needed to maintain the resistance levels in crop plants. Several microarray‐based studies have been done to identify the genes, which are associated with PGPR‐induced systemic resistance. Identification of these genes associated with ISR‐mediating disease suppression and biochemical changes in the crop plant is one of the essential steps in understanding the disease resistance mechanisms in crops. Therefore, in this review, we discuss the PGPR‐mediated innovative methods, focusing on the mode of action of compounds authorized that may be significant in the development contributing to enhance plant growth, disease resistance, and serve as an efficient bioinoculants for sustainable agriculture. The review also highlights current research progress in this field with a special emphasis on challenges, limitations, and their environmental and economic advantages.
Plant growth‐promoting rhizobacteria (PGPR) are diverse groups of plant‐associated microorganisms, which can reduce the severity or incidence of disease during antagonism among bacteria and soil‐borne pathogens, as well as by influencing a systemic resistance to elicit defense response in host plants. An amalgamation of various strains of PGPR has improved the efficacy by enhancing the systemic resistance opposed to various pathogens affecting the crop. Many PGPR used with seed treatment causes structural improvement of the cell wall and physiological/biochemical changes leading to the synthesis of proteins, peptides, and chemicals occupied in plant defense mechanisms. The major determinants of PGPR‐mediated induced systemic resistance (ISR) are lipopolysaccharides, lipopeptides, siderophores, pyocyanin, antibiotics 2,4‐diacetylphoroglucinol, the volatile 2,3‐butanediol, N‐alkylated benzylamine, and iron‐regulated compounds. Many PGPR inoculants have been commercialized and these inoculants consequently aid in the improvement of crop growth yield and provide effective reinforcement to the crop from disease, whereas other inoculants are used as biofertilizers for native as well as crops growing at diverse extreme habitat and exhibit multifunctional plant growth‐promoting attributes. A number of applications of PGPR formulation are needed to maintain the resistance levels in crop plants. Several microarray‐based studies have been done to identify the genes, which are associated with PGPR‐induced systemic resistance. Identification of these genes associated with ISR‐mediating disease suppression and biochemical changes in the crop plant is one of the essential steps in understanding the disease resistance mechanisms in crops. Therefore, in this review, we discuss the PGPR‐mediated innovative methods, focusing on the mode of action of compounds authorized that may be significant in the development contributing to enhance plant growth, disease resistance, and serve as an efficient bioinoculants for sustainable agriculture. The review also highlights current research progress in this field with a special emphasis on challenges, limitations, and their environmental and economic advantages.
Soil degradation is a worsening global phenomenon driven by socio‐economic pressures, poor land management practices and climate change. A deterioration of soil structure at time scales ranging from seconds to centuries is implicated in most forms of soil degradation including the depletion of nutrients and organic matter, erosion and compaction. New soil‐crop models that could account for soil structure dynamics at decadal to centennial time scales would provide insights into the relative importance of the various underlying physical (e.g. tillage, traffic compaction, swell/shrink and freeze/thaw) and biological (e.g. plant root growth, soil microbial and faunal activity) mechanisms, their impacts on soil hydrological processes and plant growth, as well as the relevant time‐scales of soil degradation and recovery. However, the development of such a model remains a challenge due to the enormous complexity of the interactions in the soil‐plant system. In this paper, we focus on the impacts of biological processes on soil structure dynamics, especially the growth of plant roots and the activity of soil fauna and microorganisms. We first define what we mean by soil structure and then review current understanding of how these biological agents impact soil structure. We then develop a new framework for modelling soil structure dynamics, which is designed to be compatible with soil‐crop models that operate at the soil profile scale and for long temporal scales (i.e. decades, centuries). We illustrate the modelling concept with a case study on the role of root growth and earthworm bioturbation in restoring the structure of a severely compacted soil.
Systemic acquired resistance (SAR) and induced systemic resistance (ISR) are two forms of induced resistance wherein plant defences are preconditioned by prior infection or treatment that results in resistance against subsequent challenge by a pathogen or parasite. Systemic acquired resistance (SAR) is a form of induced resistance that is activated throughout a plant after being exposed to elicitors from virulent, avirulent or non-pathogenic microbes or artificial chemical stimuli such as chitosan or salicylic acid (SA). Induced systemic resistance (ISR) is a resistance mechanism in plants that is activated by infection. Its mode of action does not depend on direct killing or inhibition of the invading pathogen but rather on increasing physical or chemical barrier of the host plant. Elicited by a local infection, plants respond with a salicylic-dependent signalling cascade that leads to the systemic expression of a broad-spectrum and long-lasting disease resistance that is efficient against fungi, bacteria and viruses. In this chapter we are summarising the systemic acquired resistance and induced systemic resistance and its role and mechanism of action against phytopathogens.
Although it is well known that insects are sensitive to temperature, how they will be affected by ongoing global warming remains uncertain because these responses are multifaceted and ecologically complex. We reviewed the effects of climate warming on 31 globally important phytophagous (plant‐eating) insect pests to determine whether general trends in their responses to warming were detectable. We included four response categories (range expansion, life history, population dynamics, and trophic interactions) in this assessment. For the majority of these species, we identified at least one response to warming that affects the severity of the threat they pose as pests. Among these insect species, 41% showed responses expected to lead to increased pest damage, whereas only 4% exhibited responses consistent with reduced effects; notably, most of these species (55%) demonstrated mixed responses. This means that the severity of a given insect pest may both increase and decrease with ongoing climate warming. Overall, our analysis indicated that anticipating the effects of climate warming on phytophagous insect pests is far from straightforward. Rather, efforts to mitigate the undesirable effects of warming on insect pests must include a better understanding of how individual species will respond, and the complex ecological mechanisms underlying their responses.
Pathogen-associated molecular patterns (PAMPs), microbe-associated molecular patterns (MAMPs), herbivore-associated molecular patterns (HAMPs), and damage-associated molecular patterns (DAMPs) are molecules produced by microorganisms and insects in the event of infection, microbial priming, and insect predation. These molecules are then recognized by receptor molecules on or within the plant, which activates the defense signaling pathways, resulting in plant’s ability to overcome pathogenic invasion, induce systemic resistance, and protect against insect predation and damage. These small molecular motifs are conserved in all organisms. Fungi, bacteria, and insects have their own specific molecular patterns that induce defenses in plants. Most of the molecular patterns are either present as part of the pathogen’s structure or exudates (in bacteria and fungi), or insect saliva and honeydew. Since biotic stresses such as pathogens and insects can impair crop yield and production, understanding the interaction between these organisms and the host via the elicitor–receptor interaction is essential to equip us with the knowledge necessary to design durable resistance in plants. In addition, it is also important to look into the role played by beneficial microbes and synthetic elicitors in activating plants’ defense and protection against disease and predation. This review addresses receptors, elicitors, and the receptor–elicitor interactions where these components in fungi, bacteria, and insects will be elaborated, giving special emphasis to the molecules, responses, and mechanisms at play, variations between organisms where applicable, and applications and prospects.
Climate change and variability are a major threat to the agricultural sector globally. It is widely accepted that the changes in temperature, rainfall patterns, sea water level and concentration of CO2 in the atmosphere will have the most devastating impacts on agricultural production. This paper examines the past and future crop production and food security in Kenya under variable climate. From the review, it is evident that the country is already experiencing episodes of climate change, manifested by seasonal changes in precipitation and temperature of varying severity and duration despite overreliance on rain-fed agriculture. The findings also reveal that climate change would continue to negatively affect crop production and food security to the already vulnerable communities in the arid and semi-arid areas. Future projections also indicate that climate variability will likely alter cropping patterns and yields in several regions. As the country is faced with a high population growth rate and rapid urbanization, crop production and food security systems need to become more adaptive as uncertainties of projected climate variability and change unfold. This study is important in providing decision makers and interested stakeholders with a detailed assessment of climate impacts and adaptation strategies geared towards improved crop production and food security.
Plant growth-promoting bacteria (PGPB) are known to increase plant tolerance to several abiotic stresses, specifically those from dry and salty environments. In this study, we examined the endophyte bacterial community of five plant species growing in the Thar desert of Pakistan. Among a total of 368 culturable isolates, 58 Bacillus strains were identified from which the 16 most divergent strains were characterized for salt and heat stress resilience as well as antimicrobial and plant growth-promoting (PGP) activities. When the 16 Bacillus strains were tested on the non-host plant Arabidopsis thaliana, B. cereus PK6-15, B. subtilis PK5-26 and B. circulans PK3-109 significantly enhanced plant growth under salt stress conditions, doubling fresh weight levels when compared to uninoculated plants. B. circulans PK3-15 and PK3-109 did not promote plant growth under normal conditions, but increased plant fresh weight by more than 50% when compared to uninoculated plants under salt stress conditions, suggesting that these salt tolerant Bacillus strains exhibit PGP traits only in the presence of salt. Our data indicate that the collection of 58 plant endophytic Bacillus strains represents an important genomic resource to decipher plant growth promotion at the molecular level.
Abstract Soil microorganisms play an important role in enhancing soil fertility and plant health. Arbuscular mycorrhizal fungi and plant growth promoting rhizobacteria form a key component of the soil microbial population. Arbuscular mycorrhizal fungi form symbiotic association with most of the cultivated crop plants and they help plants in phosphorus nutrition and protecting them against biotic and abiotic stresses. Many species of Bacillus occurring in soil are also known to promote plant growth through phosphate solubilization, phytohormone production and protection against biotic and abiotic stresses. Synergistic interaction between AMF and Bacillus spp. in promoting plant growth compared to single inoculation with either of them has been reported. This is because of enhanced nutrient uptake, protection against plant pathogens and alleviation of abiotic stresses (water, salinity and heavy metal) through dual inoculation compared to inoculation with either AMF or Bacillus alone.
Climate-smart agriculture (CSA) as a credible alternative to tackle food insecurity under the changing climate is gaining wide acceptance. However, many developing countries have realized that concepts that have been recommended as solutions to existing problems are not suitable in their contexts. This paper synthesizes a subset of literature on CSA in the context of small-scale agriculture in sub-Saharan Africa as it relates to the need for CSA, factors influencing CSA adoption, and the challenges involved in understanding and scaling up CSA. Findings from the literature reveal that age, farm size, the nature of farming, and access to extension services influence CSA adoption. Many investments in climate adaptation projects have found little success because of the sole focus on the technology-oriented approach whereby innovations are transferred to farmers whose understanding of the local farming circumstances are limited. Climate-smart agriculture faces the additional challenge of a questionable conceptual understanding among policymakers as well as financing bottlenecks. This paper argues that the prospects of CSA in small-scale agriculture rest on a thorough socio-economic analysis that recognizes the heterogeneity of the small farmer environment and the identification and harnessing of the capacities of farming households for its adoption and implementation.
Crop yields are projected to decrease under future climate conditions, and recent research suggests that yields have already been impacted. However, current impacts on a diversity of crops subnationally and implications for food security remains unclear. Here, we constructed linear regression relationships using weather and reported crop data to assess the potential impact of observed climate change on the yields of the top ten global crops–barley, cassava, maize, oil palm, rapeseed, rice, sorghum, soybean, sugarcane and wheat at ~20,000 political units. We find that the impact of global climate change on yields of different crops from climate trends ranged from -13.4% (oil palm) to 3.5% (soybean). Our results show that impacts are mostly negative in Europe, Southern Africa and Australia but generally positive in Latin America. Impacts in Asia and Northern and Central America are mixed. This has likely led to ~1% average reduction (-3.5 X 10¹³ kcal/year) in consumable food calories in these ten crops. In nearly half of food insecure countries, estimated caloric availability decreased. Our results suggest that climate change has already affected global food production.
Agriculture and climate change are internally correlated with each other in various aspects, as climate change is the main cause of biotic and abiotic stresses, which have adverse effects on the agriculture of a region. The land and its agriculture are being affected by climate changes in different ways, e.g., variations in annual rainfall, average temperature, heat waves, modifications in weeds, pests or microbes, global change of atmospheric CO2 or ozone level, and fluctuations in sea level. The threat of varying global climate has greatly driven the attention of scientists, as these variations are imparting negative impact on global crop production and compromising food security worldwide. According to some predicted reports, agriculture is considered the most endangered activity adversely affected by climate changes. To date, food security and ecosystem resilience are the most concerning subjects worldwide. Climate-smart agriculture is the only way to lower the negative impact of climate variations on crop adaptation, before it might affect global crop production drastically. In this review paper, we summarize the causes of climate change, stresses produced due to climate change, impacts on crops, modern breeding technologies, and biotechnological strategies to cope with climate change, in order to develop climate resilient crops. Revolutions in genetic engineering techniques can also aid in overcoming food security issues against extreme environmental conditions, by producing transgenic plants.
Significance and impact of the study:
Increasing human populations demand more crop yield for food security while crop production is adversely affected by abiotic stresses like drought, salinity and high temperature. Development of stress tolerance in plants is a strategy to cope with the negative effects of adverse environmental conditions. Endophytes are well recognized for plant growth promotion and production of natural compounds. The property of endophytes to induce stress tolerance in plants can be applied to increase crop yields. With this review, we intend to promote application of endophytes in biotechnology and genetic engineering for the development of stress-tolerant plants.
Agriculture in the 21st century faces the challenge of meeting food demands while satisfying sustainability goals. The challenge is further complicated by climate change which affects the distribution of crop pests (intended as insects, plants and pathogenic agents injurious to crops) and the severity of their outbreaks. Increasing concerns over health and the environment as well as new legislation on pesticide use, particularly in the European Union, urge us to find sustainable alternatives to pesticide-based pest management. Here, we review the effect of climate change on crop protection and propose strategies to reduce the impact of future invasive as well as rapidly-evolving resident populations. The major points are the following: 1) the main consequence of climate change and globalization is a heightened level of unpredictability of spatial and temporal interactions between weather, cropping systems and pests; 2) the unpredictable adaptation of pests to a changing environment primarily creates uncertainty and projected changes do not automatically translate into doom and gloom scenarios; 3) faced with uncertainty, policy, research and extension should prepare for worst-case scenarios following a 'no regrets' approach that promotes resilience vis-à-vis pests which, at the biophysical level, entails uncovering what currently makes cropping systems resilient while at the organizational level the capacity to adapt needs to be recognized and strengthened; 4) more collective approaches involving extension and other stakeholders will help meet the challenge of developing more robust cropping systems; 5) farmers can take advantage of Web 2.0 and other new technologies to make the exchange of updated information quicker and easier; 6) cooperation between historically compartmentalized experts in plant health and crop protection could help develop anticipation strategies; and 7) the current decline in skilled crop protection specialists in Europe should be reversed and shortcomings in local human and financial resources can be overcome by pooling resources across borders.
The chemical complexity of metabolomes goes hand in hand with the functional diversity. Small molecules have many essential roles, many of which are executed by binding and modulating the function of a protein partner. The complex and dynamic protein-metabolite interactions network underlies most if not all biological processes but remains under-characterized. Herein, we highlight how co-fractionation mass-spectrometry (CF-MS), a well-established approach to map protein assemblies, can be used for proteome and metabolome identification of the protein-metabolite interactions. We will review the recent CF-MS studies, discuss the main advantages and limitations, summarize available CF-MS guidelines, and outline future challenges and opportunities.
Large-scale food waste (FW) disposal has resulted in severe environmental degradation and financial losses around the world. Although FW has a high biomass energy contents and a growing large number of national projects to recover energy from FW by anaerobic digestion (AD) are being developed. AD is a promising solution for FW management and energy generation when compared to typical disposal options including landfill disposal, incineration , and composting. AD of FW can be combined with an existing AD operation or linked to the manufacture of value-added products to reduce costs and increase income. AD is a metabolic process that requires four different types of microbes: hydrolyzers, acidogens, acetogens, and methanogens. Microbes use a variety of strategies to avoid difficult situations in the AD, such as competition for the same substrate between sulfate-reducing bacteria and methane-forming bacteria. An improved comprehension of the microbiology involved in the anaerobic digestion of FW will provide new insight into the circumstances needed to maximize this procedure, including its possibilities for use in co-digestion mechanisms. This paper reviewed the present scientific knowledge of microbial community during the AD and the connection between microbial diversity during the AD of FW.
Plants can achieve their proper growth and development with the help of microorganisms associated with them. Plant-associated microbes convert the unavailable nutrients to available form and make them useful for plants. Besides nutrient acquisition, soil microbes also inhibit the pathogens that cause harm to plant growth and induces defense response. Due to the beneficial activities of soil nutrient-microbe-plant interactions, it is necessary to study more on this topic and develop microbial inoculant technology in the agricultural field for better crop improvement. The soil microbes can be engineered, and plant growth-promoting rhizobacteria (PGPR) and plant growth-promoting bacteria (PGPB) technology can be developed as well, as its application can be improved for utilization as biofertilizer, biopesticides, etc., instead of using harmful chemical biofertilizers. Moreover, plant growth-promoting microbe inoculants can enhance crop productivity. Although, scientists have discussed several tools and techniques by omics and gene editing approaches for crop improvement to avoid biotic and abiotic stress and make the plant healthier and more nutritive. However, beneficial soil microbes that help plants with the nutrient acquisition, development, and stress resistance were ignored, and farmers started utilizing chemical fertilizers. Thus, this review attempts to summarize the interaction system of plant microbes, the role of beneficiary soil microbes in the rhizosphere zone, and their role in plant health promotion, particularly in the nutrition acquisition of the plant. The review will also provide a better understanding of soil microbes that can be exploited as biofertilizers and plant growth promoters in the field to create environmentally friendly, sustainable agriculture systems.
Climate change scenarios predict an increased occurrence of droughts and heatwaves, as well as extreme rainfall events in Central Europe. Alley cropping, which is the inclusion of rows of trees and shrubs in agricultural land, could enhance the resilience of cropping systems, as these systems are expected to positively modify the microclimate and water balance of croplands. This review analyses the effect of alley cropping on the micro-climate and water balance, based on the available evidence from temperate alley cropping systems. Within alley cropping systems, the tree rows generate gradients in microclimatic variables, whereby strongest effects are observed in or close to the tree rows. Field-scale studies on light intensity (n=20), wind speed (n=4) and surface runoff (n=3) all reported a reduction compared to sole cropping systems. Effects on air temperature (n=10), relative humidity (n=5) and evapotranspiration (n=6) varied among studies, with the majority reporting a decrease in daytime temperatures (50% of studies), variable effects on relative humidity (60%) and an increase in evapotranspiration (50%) due to higher evapotranspiration by trees. Highest variation among studies was found for soil moisture, with 41% of studies reporting temporal and spatial differences within the system. This variation among studies likely depends on the purpose of the trees (short rotation coppice vs. fruit and/or timber trees) and design of the system. Also site context, such as topography, landscape diversity and climate, could play a role, but these factors are rarely taken into account. Only few studies investigated landscape-scale effects (n=3), such as groundwater recharge and moisture recycling. Future research should investigate the role of site context in the functioning of alley cropping systems and quantify landscape-scale effects. The process understanding gained from those studies will contribute to designing alley cropping systems that enhance the climate change resilience of current central European cropping systems.
Arbuscular mycorrhizal fungi (AMF) and plant growth-promoting rhizobacteria (PGPR) are increasingly being used to enhance crop abiotic stress resistance. Common myrtle is an economically important essential oil-producing plant but knowledge about its drought resistance mechanisms and the drought mitigation potential of AMF and PGPR is scant. Here, we investigated the effects of single and dual AMF (Funneliformis mosseae, Rhizophagus irregularis) and PGPR (Pseudomonas fluorescens, P. putida) inoculation on seedling survival, growth, physiology, and biochemical traits under soil water deficit (100%, 60%, and 30% of field capacity). Under severe drought, all inoculations increased survival compared to non-inoculated seedlings. Drought-related growth impairment was more strongly compensated belowground than aboveground, especially in dual-inoculated plants, indicating prioritized resource allocation to roots probably linked to AMF- and PGPR-induced phytohormone changes. Particularly dual inoculation significantly improved leaf physiology, reduced electrolyte leakage, malondialdehyde, and proline concentrations and mitigated oxidative pigment losses under drought through upregulation of the antioxidant defense as evidenced by (non-)enzymatic antioxidant accumulation, including essential oils. Our findings indicate similarly significant AMF- and PGPR-mediated boosts in myrtle drought resistance through enhanced water and nutrient supply and stimulation of the antioxidant defense. Dual inoculations proved most effective and provide a low-cost approach to optimizing myrtle cultivation and restoration programs.
New technologies that enhance soil biodiversity and minimize the use of scarce resources while boosting crop production are highly sought to mitigate the increasing threats that climate change, population growth, and desertification pose on the food infrastructure. In particular, solutions based on plant-growth-promoting bacteria (PGPB) bring merits of self-replication, low environmental impact, tolerance to biotic and abiotic stressors, and reduction of inputs, such as fertilizers. However, challenges in facilitating PGPB delivery in the soil still persist and include survival to desiccation, precise delivery, programmable resuscitation, competition with the indigenous rhizosphere, and soil structure. These factors play a critical role in microbial root association and development of a beneficial plant microbiome. Engineering the seed microenvironment with protein and polysaccharides is one proposed way to deliver PGPB precisely and effectively in the seed spermosphere. In this review, we will cover new advancements in the precise and scalable delivery of microbial inoculants, also highlighting the latest development of multifunctional rhizobacteria solutions that have beneficial impact on not only legumes but also cereals. To conclude, we will discuss the role that legislators and policymakers play in promoting the adoption of new technologies that can enhance the sustainability of crop production.
Glyphosate is the most used herbicide globally. It is a unique non-selective herbicide with a mode of action that is ideal for vegetation management in both agricultural and non-agricultural settings. Its use was more than doubled by the introduction of transgenic, glyphosate-resistant (GR) crops. All of its phytotoxic effects are the result of inhibition of only 5-enolpyruvylshikimate-3-phosphate synthase (EPSPS), but inhibition of this single enzyme of the shikimate pathway results in multiple phytotoxicity effects, both upstream and downstream from EPSPS, including loss of plant defenses against pathogens. Degradation of glyphosate in plants and microbes is predominantly by a glyphosate oxidoreductase to produce aminomethylphosphonic acid and glyoxylate and to a lesser extent by a C-P lyase to produce sarcosine and phosphate. Its effects on non-target plant species are generally less than that of many other herbicides, as it is not volatile and is generally sprayed in larger droplet sizes with a relatively low propensity to drift and is inactivated by tight binding to most soils. Some microbes, including fungal plant pathogens, have glyphosate-sensitive EPSPS. Thus, glyphosate can benefit GR crops by its activity on some plant pathogens. On the other hand, glyphosate can adversely affect some microbes that are beneficial to agriculture, such as Bradyrhizobium species, although GR crop yield data indicate that such an effect has been minor. Effects of glyphosate on microbes of agricultural soils are generally minor and transient, with other agricultural practices having much stronger effects.
Plants harbour highly diversified and distinctive microbial communities including eubacteria, archaebacteria and fungi. The microbial communities harboured in host plants characteristically influence the metabolic and physiological responses in the host plants. The phyllosphere, rhizosphere and endosphere represent the three distinct levels where the microbial communities colonize the plant communities. The co‐evolution of host plants and microbial communities has proven to be instrumental in the developmental and health dynamics of plants for mankind, for ecosystem functioning and environmental sustainability. The phyllosphere symbolizes the vibrant and pulsating habitats colonizing highly diverse microbial communities. The phyllosphere forms the basis of the interface between the host, inhabiting microbiota and intervening atmosphere, and thus regulates the interplay of different biochemical and physiological responses. Understanding the phyllosphere, phyllosphere harbouring microbiota and the dynamics of plant–microbe interaction may facilitate new dimensions for sustainable agriculture including growth promotion, enhanced crop productivity, tolerance to different abiotic and biotic stress conditions, sustainability in the agro‐ecosystem, enhanced ecosystem functioning and environmental management. This chapter delivers an insight into the structure, composition and dynamics of the phyllospheric microbiome, and its functional role in environmental management, ecosystem services and sustainability in agriculture.
New and Future Developments in Microbial Biotechnology and Bioengineering: Trends of Microbial Biotechnology for Sustainable Agriculture and Biomedicine Systems: Diversity and Functional Perspectives describes how specific techniques can be used to generalize the metabolism of bacteria that optimize biologic improvement strategies and bio-transport processes. Microbial biotechnology focuses on microbes of agricultural, environmental, industrial, and clinical significance. This volume discusses several methods based on molecular genetics, systems, and biology of synthetic, genomic, proteomic, and metagenomics. Recent developments in our understanding of the role of microbes in sustainable agriculture and biotechnology have created a highly potential research area. The soil and plant microbiomes have a significant role in plant growth promotion, crop yield, soil health and fertility for sustainable developments. The microbes provide nutrients and stimulate plant growth through different mechanisms, including solubilization of phosphorus, potassium, and zinc; biological nitrogen fixation; production of siderophore, ammonia, HCN and other secondary metabolites which are antagonistic against pathogenic microbes. This new book provides an indispensable reference source for engineers/bioengineers, biochemists, biotechnologists, microbiologists, agrochemists, and researchers who want to know about the unique properties of this microbe and explore its sustainable agriculture future applications
Agricultural manipulation of potentially beneficial rhizosphere microbes is increasing rapidly due to their multi-functional plant-protective and growth related benefits. Plant growth promoting rhizobacteria (PGPR) are mostly non-pathogenic microbes which exert direct benefits on plants while there are rhizosphere bacteria which indirectly help plant by ameliorating the biotic and/or abiotic stress or induction of defense response in plant. Regulation of these direct or indirect effect takes place via highly specialized communication system induced at multiple levels of interaction i.e., inter-species, intra-species, and inter-kingdom. Studies have provided insights into the functioning of signaling molecules involved in communication and induction of defense responses. Activation of host immune responses upon bacterial infection or rhizobacteria perception requires comprehensive and precise gene expression reprogramming and communication between hosts and microbes. Majority of studies have focused on signaling of host pattern recognition receptors (PRR) and nod-like receptor (NLR) and microbial effector proteins under mining the role of other components such as mitogen activated protein kinase (MAPK), microRNA, histone deacytylases. The later ones are important regulators of gene expression reprogramming in plant immune responses, pathogen virulence and communications in plant-microbe interactions. During the past decade, inoculation of PGPR has emerged as potential strategy to induce biotic and abiotic stress tolerance in plants; hence, it is imperative to expose the basis of these interactions. This review discusses microbes and plants derived signaling molecules for their communication, regulatory and signaling networks of PGPR and their different products that are involved in inducing resistance and tolerance in plants against environmental stresses and the effect of defense signaling on root microbiome. We expect that it will lead to the development and exploitation of beneficial microbes as source of crop biofertilizers in climate changing scenario enabling more sustainable agriculture.
In the last decades, many studies were addressed to focus the interplay between plant and microbial community into the soil and especially in the small soil zone in contact to plant root, called rhizosphere, which can be considered as a hotspot for interactions and therefore is a major target for improving nutrient use efficiency in crops. In this regard, unraveling the microbial activities that can be used to improve nutrient use efficiency may be the major challenge considering a sustainable agricultural contest. However, although using different approaches (metabolomics and transcriptomic) it has made it possible to characterize many interaction mechanisms, more remains largely unknown. Here, we summarize and discuss the abiotic and biotic factors that may manage plant-microbe interactions in the rhizosphere as well as in those parts of the soil furthest from the root, focusing on root architecture and nitrate as well.