Organic Farming, Soil Health, and Food Quality: Considering Possible Links

Soil fungi are key component of soil biota having an important role in many ecological processes. As pathogens, decomposers and plant mutualists they can affect plant and soil health in agro-ecosystems significantly. The impact of crop management practices on soil fungal communities is diverse and still poorly studied. The lack of knowledge is mainly related to their hidden life mode, high phenotypic diversity, the great heterogeneity of soil microhabitats, difficulty for culturing and species identification. Collecting data with high accuracy to detect effects relevant to ecosystem management is an ongoing challenge for soil ecological studies and biomonitoring. However, the combination of DNA-based identification methods and Next Generation Sequencing technology was recognized as a powerful tool to evaluate biodiversity in environmental samples, especially soil biodiversity. In the frame of the National Research Program "Healthy Foods for a Strong Bio-Economy and Quality of Life", soil microbiome diversity (fungi, prokaryotes and archaea) will be used as indicator for assessing soil and plant health, and ecosystem services in several agricultural ecosystems. Four crop types (apple, lavender, rose and pea) located in southern Bulgaria, and managed by conventional and organic farming have been selected. Two general objectives related to soil biodiversity study were envisaged: to examine the impact of cropping systems on microbiome structural and functional diversity, and to propose management measures and agronomic practices improving soil and plant health. to examine the impact of cropping systems on microbiome structural and functional diversity, and to propose management measures and agronomic practices improving soil and plant health. Here we present some preliminary results on soil fungal communities evaluated by using amplicon DNA sequencing of the internal transcribed spacer 2 (ITS2) rDNA region. Multiple core soil samples were collected from 18 sampling plots in June 2019. Fungal diversity and community structure were evaluated at different taxonomic levels. The most common and abundant taxa at all sites were Fusarium Link 1809, Solicoccozyma X.Z.Liu, F.Y.Bai, M.Groenew. & Boekhout 2015, Cladosporium Link 1816, Alternaria Nees ex Wallroth 1816, and Mortierella E.Coemans 1863. The multivariate statistics (PCA) comparing the overall microbial composition revealed loose clusters linked to crops and localities. The study provides a new comprehensive overview of soil fungal communities (composition and diversity) from Bulgarian agro-ecosystems using high-throughput DNA sequencing.

Climate change imposes biotic and abiotic stresses on soil and plant health all across the planet. Beneficial rhizobacterial genera, such as Bacillus, Pseudomonas, Paraburkholderia, Rhizobium, Serratia, and others, are gaining popularity due to their ability to provide simultaneous nutrition and protection of plants in adverse climatic conditions. Plant growth-promoting rhizobacteria are known to boost soil and plant health through a variety of direct and indirect mechanisms. However, various issues limit the wider commercialization of bacterial biostimulants, such as variable performance in different environmental conditions, poor shelf-life, application challenges, and our poor understanding on complex mechanisms of their interactions with plants and environment. This study focused on detecting the most recent findings on the improvement of plant and soil health under a stressful environment by the application of beneficial rhizobacteria. For a critical and systematic review story, we conducted a non-exhaustive but rigorous literature survey to assemble the most relevant literature (sorting of a total of 236 out of 300 articles produced from the search). In addition, a critical discussion deciphering the major challenges for the commercialization of these bioagents as biofertilizer, biostimulants, and biopesticides was undertaken to unlock the prospective research avenues and wider application of these natural resources. The advancement of biotechnological tools may help to enhance the sustainable use of bacterial biostimulants in agriculture. The perspective of biostimulants is also systematically evaluated for a better understanding of the molecular crosstalk between plants and beneficial bacteria in the changing climate towards sustainable soil and plant health.

Microplastic contamination poses a significant threat to agroecosystem functioning, provoking a move away from the use of conventional oil-based plastics in agriculture, to biodegradable alternatives that may be degraded over a shorter timescale. The impact of these bioplastics on plant and soil health, however, has received relatively little attention. Here, we investigated the effect of soil loading (0.01%, 0.1%, 1% and 10%) of biobased microplastic poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV) on soil and plant ( Zea mays L.) health and function. We showed that PHBV caused a dose-dependent reduction in plant growth and foliar nitrogen (N) content while untargeted metabolite analysis revealed significant shifts in foliar metabolic function. These results were also reflected in soil, where PHBV led to reduced plant availability of both ammonium and nitrate. Soil 14 C-isotope tracing and 16 S metabarcoding revealed that PHBV supressed microbial activity, reduced bacterial diversity and shifted microbial community structure, inducing a major shift in soil metabolic pathways, and thus functioning. Overall, our data suggests that the bioplastic PHBV is not environmentally benign and that contamination levels as low as 0.01% (0.01 mg kg -1 ) can induce significant short-term changes in both plant and soil microbial functioning, with potential implications for long term agroecosystem health. • Effect of biopolymer PHBV microplastic on soil and plant health was investigated • PHBV addition caused a dose-dependent negative effect on soil and plant health • PHBV addition altered foliar metabolism and reduced plant growth and foliar N • PHBV reduced soil microbial activity and changed the bacterial community structure • Bioplastics may not be environmentally benign

The sub‐mountainous tea gardens of the Dooars region of West Bengal, which contribute approximately 25% of the national tea yield, are constantly fighting with diminishing soil fertility. Inorganic alternatives like chemical fertilizers can provide easier yet short‐term solutions, as their prolonged and indiscriminate usage leaches the soil, devouring its productivity, increasing the soil's heavy metal contents, and subsequently accumulating those heavy metals in leaves. A plausible substitution in this scenario could be the use of organic alternatives like composting or biofertilizer. Although references to such alternative means are found in the literature, a holistic approach targeting plant growth promotion along with mitigating soil metal toxicity is lacking. Keeping this background in mind, this pilot study was designed to optimize the dosage of novel biofertilizers (using resident and alien flora) that can reduce heavy metal loads and residual toxicity in soil, thereby improving overall soil health and tea production. Two potential metallophilic plant growth‐promoting strains of Bacillus sp. (previously reported) were selected and applied to potted tea plants of two different varieties of tea: TV9 and TV25. Among the two modes of treatment tested: solid treatment (compost amended with bacterial culture) and liquid treatment (cell pellets mixed in water suspension), the water suspension‐based direct application of resident soil bacteria showed the highest physiological growth with reduced metal toxicity. Based on physiological data and physico‐chemical data collected, it was observed that direct application of bacteria showed better results in both plant and soil health improvement in comparison to regular compost amended with beneficial microflora. Therefore, this small‐scale pilot study aimed to optimize the dosage and mode of application of novel biofertilizers for improved soil and plant health.

Soil health and global sustainability: translating science into practice

The human eye does not have sufficient resolution to unravel the mysteries of soil and plant health. Corn is one of the major grains grown in Canada. The proposed maximum theoretical yield of corn is 450-500 bu/acre, but average growers are producing 150 bu/acre. The main aim of this study is to understand the factors associated with soil health and plant productivity beyond the cropping system and practices. We measure the aspects of soil physical, chemical properties and differences in microorganism communities will be related to yield responses collected from plants harvested from 40 diverse sites across Ontario using aerial infrared photography to identify sections of fields where plants appear healthy or stressed (as we discovered that when corn plants were randomly selected for testing, their microbiomes were quite similar). In this way, we hope to identify some of the primary reasons that confer the unevenness in crop yield seen across the same field when the same farm inputs had been applied. Such findings will be used to improve low production sites, thereby increasing overall yields significantly. Based on results from our previous studies we hypothesized that the difference in the plant productivity at different sites are due the abundance and diversity of microbial communities, and the impacts of their specific activities such as nitrogen fixation, phosphorous solubilisation, root growth promotion, and suppression of plant pathogens. The ratio of different soil chemical parameters affects microbial community richness and diversity in many ways. The study results will be integral in our understanding of the microbial community structures that influence crop productivity either negatively or positively. We expect to find out who are the key microorganisms and their roles in corn growth and productivity. Our initial analysis of data generated through TRFLP and next generation based sequencing of microbial communities showed, the endophytic microbial communities were distinct between low and high producing sites across most of the field sites tested. The high producing area had significantly higher bacterial richness and less diversity than the low producing area. Initial correlation analysis revealed potential positive interactions between the general fertility index, potassium to magnesium ratio, the gram negative and nitrogen fixer bacterial communities with yield and yield related parameters. Taken together, the corn sap bacterial community composition and richness was greatly influenced by soil chemical properties, which may indicate shifts in their functionality despite equal levels of total bacterial loads. The talk will identify factors associated with high and poor yielding sites and how this relates to soil and crop health.

Core Ideas Farmers struggle to maintain and balance economic and environmental sustainability. Identification of knowledge gaps related to crop residue management. Discussion of crop residue manage expanded from the U.S. Midwest to a global perspective. Use of carbon flux tower data to validate simulation models. Crop residue harvesting impacts soil health, productivity, and greenhouse gas emissions. The amount of crop residues that can be sustainability removed is highly variable and is a function of many factors including the soil, climatic, and plant characteristics. For example, leaving an insufficient amount of crop residue on the soil surface can be detrimental for soil quality, result in loss of soil organic matter (SOM), and increase soil erosion, whereas leaving excessive amounts can impair soil‐seed contact, immobilize N, and/or keep soils cool and wet. This special issue evolved as an outcome of, “Crop Residues for Advanced Biofuels: Effects on Soil Carbon” workshop held in Sacramento, CA, in 2017. The goal of the special issue is to provide a forum for identifying knowledge gaps associated with crop residue management and to expand the discussion from a regional Midwestern U.S. to a global perspective. Several crop residue experiments as well as simulation modeling studies are included to examine effects of tillage, crop rotation, livestock grazing, and cover crops on greenhouse gas (GHG) emissions, crop yield, and soil or plant health. The special issue is divided into 4 sections that include (i) Estimating Crop Residue Removal and Modeling; (ii) Cultural Practice Impact on Soil Health; (iii) Residue Removal Impact on Soil and Plant Health; and (iv) Cultural Practice Impact on Carbon Storage and Greenhouse Gas Emissions.

Soil health and sustainability: managing the biotic component of soil quality

A participatory approach was used to improve smallholder tomato farmers’ understanding of and access to soil health monitoring in the Morogoro Region of Tanzania. Baseline soil characteristics were gathered from 50 tomato fields in the region, local soil knowledge was elicited from farmers and used to develop a soil health card to qualitatively assess soil health, and farmers (n = 32) were trained on the use of a low-cost soil test kit to quantitatively assess soil health. Farmers most often described local indicators of soil health in terms of soil texture and tilth, soil color, soil water relations, and soil fertility. Following use of the soil test kit, farmers indicated increased awareness of soil testing services (Wilcoxon signed rank Z = –3.0, P = 0.001), more agreed they had access to soil testing services (Z = –2.7, P = 0.004), and more agreed that soil management recommendations were easy to understand (Z = –3.4, P < 0.0001) compared with pre-exposure results. Farmers continued to use the soil health test kit and soil health card based on a follow-up survey administered 1 year after project completion. Participatory soil health monitoring projects can improve farmers’ ability to monitor and manage soil health, potentially impacting sustained soil and plant health.

Field application of biodegradable microplastics has no significant effect on plant and soil health in the short term

Soil is a outer most surface on earth which is a home for different microorganisms. Biodiversity of soil is a mixed population of different type biological organisms. It is one of the most biologically diverse upper most part of Earth. Soil structure and health depends on interaction of microbes and soil organic materials. Soil microbes also interact with plants and influence soil health and production of crop. The soil organic mater is a food for soil bacteria and other microorganism. Soil bacteria improve the soil quality by interaction with organic mater as a result increase the entry and storage of soil water, resistance to soil erosion. Different soil bacteria has different ability to react with soil organic mater and control soil health from season to season. Soil microbes play a wide range of essential role with sustainable function on all ecosystems. They are also help to maintain the soil nutrients, nitrogen, phosphorus, soil organic matter, carbon for plants. Some beneficial soil microbes helps to reduce soil-borne disease of plants. By the use of these beneficial microbes inoculums we increase the yield of crop and reduce of plant disease. These advance technology is essential and important resource for the development of sustainable agricultural systems.KeywordsSoil microbesSoil healthDisease suppression

In the present investigations it is proved that the inoculation of multifunctional microbial formulation to the soil improves soil quality, soil health, plant health, growth, yield, and quality of a broad spectrum of crops reducing chemical fertilizer and pesticide input. These microbial populations consist of selected species including plant growth promoting rhizo-bacteria, N2-fixing bacteria, Phosphate solubilizers, phytohormone producers, plant disease suppressive bacteria and fungi. To make it very simple a different dimension as „Bio Protectant” is given in this presentation to the collective synergistic effects of beneficial microbes stimulating soil, plant and environmental health reducing chemical fertilizer and pesticide application. A healthy plant does not require unwanted, poisonous chemical pesticides. Review of literature is focused in multiple ways on the growth promoting ability along with the biological activity of beneficial microorganisms. The present SumaGrow-F2 formulation contains multi-functional Rhizobium species, Pseudomonas spp., Bacillus, and Trichoderma spp. The recorded novel benefits of SumaGrow-F2 formulation in the Green House and Field are discussed here as microbes increasing plant health, soil health, and root health of a broad spectrum of crops. Not only can it eliminate almost all insect infestations and reduce fungal or bacterial infection, it also creates a healthier environment for plant growth. The result is healthy crops with a corresponding increase in the yield of fruits or vegetables or grains. Modern trend is to look for inspiring intelligent multi-functional microbial Plant protectant or bio protectant for sustainable agriculture.

This chapter aims to demonstrate that agriculture, and specifically crop nutrition, is a key entry point for positive human health outcomes. Potassium has been selected for this review, because it is a mineral element that originates in the soil and the K nutrition of plants and humans largely rely on the transition of K from the soil to the plants and human via the food chain. The initial search focused on individual components, K, and soil health; K and plant health; and K and human health. Quantitative soil health indexes have yet to be applied to potato-production areas. Soil health has been declining along with potato productivity. Comprehensive data sets capturing the fates of nutrients and other quality parameters offer promise to deepen our understanding of how soil, plant, and human health interact to meet the energy and nutritional needs of humans to create desired health outcomes in system.

Many soil health assessment methods are being developed. However, they often lack assessment of soil-borne diseases. To better address management strategies for soil-borne disease and overall soil and plant health, the concept of Integrated Soil Health Management (ISHM) is explored. Applying the concept of Integrated Pest Management and an agroecological transdisciplinary approach, ISHM offers a framework under which a structure for developing and implementing biointensive soil health management strategies for a particular agroecosystem is defined. As a case study, a history of soil-borne disease management in California strawberries is reviewed and contrasted with a history of arthropod pest management to illustrate challenges associated with soil-borne disease management and the future directions of soil health research and soil-borne disease management. ISHM system consists of comprehensive soil health diagnostics, farmers' location-specific knowledge and adaptability, a suite of soil health management practices, and decision support tools. As we better understand plant-soil-microorganism interactions, including the mechanisms of soil suppressiveness, a range of diagnostic methodologies and indicators and their action thresholds may be developed. These knowledge-intensive and location-specific management systems require transdisciplinary approaches and social learning to be co-developed with stakeholders. The ISHM framework supports research into the broader implications of soil health such as the “One health” concept, which connects soil health to the health of plants, animals, humans, and ecosystems and research on microbiome and nutrient cycling that may better explain these interdependencies.

Controversy has long surrounded the question of nutritional differences between crops grown organically or using now-conventional methods, with studies dating back to the 1940s showing that farming methods can affect the nutrient density of crops. More recent studies have shown how reliance on tillage and synthetic nitrogen fertilizers influence soil life, and thereby soil health, in ways that can reduce mineral micronutrient uptake by and phytochemical production in crops. While organic farming tends to enhance soil health and conventional practices degrade it, relying on tillage for weed control on both organic and conventional farms degrades soil organic matter and can disrupt soil life in ways that reduce crop mineral uptake and phytochemical production. Conversely, microbial inoculants and compost and mulch that build soil organic matter can increase crop micronutrient and phytochemical content on both conventional and organic farms. Hence, agronomic effects on nutritional profiles do not fall out simply along the conventional vs. organic distinction, making the effects of farming practices on soil health a better lens for assessing their influence on nutrient density. A review of previous studies and meta-studies finds little evidence for significant differences in crop macronutrient levels between organic and conventional farming practices, as well as substantial evidence for the influence of different cultivars and farming practices on micronutrient concentrations. More consistent differences between organic and conventional crops include that conventional crops contain greater pesticide levels, whereas organically grown crops contain higher levels of phytochemicals shown to exhibit health-protective antioxidant and anti-inflammatory properties. Thus, part of the long-running controversy over nutritional differences between organic and conventional crops appears to arise from different definitions of what constitutes a nutrient—the conventional definition of dietary constituents necessary for growth and survival, or a broader one that also encompasses compounds beneficial for maintenance of health and prevention of chronic disease. For assessing the effects of farming practices on nutrient density soil health adds a much needed dimension—the provisioning of micronutrients and phytochemicals that support human health.