Search Results (105)

Tripartite interaction among arbuscular mycorrhizal fungi (AMF), small grain cereals—including wheat, barley, oats, and rye—and pathogenic organisms constitute a highly complex ecological system with major implications for plant health, productivity and resilience. AMF colonization increases nutrient acquisition, particularly phosphorus and nitrogen, while concurrently priming host defense mechanisms that increase resistance to a broad spectrum of pathogens. These benefits, however, are strongly context-dependent and modulated by AMF species composition, host genotype, soil characteristics, and environmental conditions. AMF activate resistance pathways and modulate the rhizosphere microbiome, underscoring their central role in shaping plant–pathogen dynamics. Importantly, the relevance of these interactions extend beyond crop protection and yield stability to encompass food security and sustainability goals aligned with the One Health framework, which recognizes the interconnectedness of plant, environmental, and human health. Field implementation of AMF-based strategies has the potential to reduce reliance on chemical fertilizers and pesticides, thereby promoting sustainable cereal production, restoring soil biodiversity, and enhancing ecosystem services, with downstream benefits for human nutrition and environmental safety. This review integrates current knowledge on AMF–cereal–pathogen interactions, synthesizing mechanistic advances and applied perspectives while identifying critical knowledge gaps that must be addressed to effectively deploy AMF in resilient and sustainable agroecosystems within a One Health context. Full article

Phytoplasmas are obligate intracellular parasitic bacteria that infect over 1000 plant species globally, causing devastating diseases characterized by yellowing, witches’ broom, phyllody, and significant yield losses in economically important crops. The unculturable nature of these pathogens has historically hindered their study; however, advances in molecular biology and genomics have substantially accelerated progress over the past two decades. This review provides a comprehensive overview of current knowledge on phytoplasma diseases and control technologies. In terms of taxonomy, phytoplasmas are currently classified into 37 16Sr groups with over 150 subgroups based on 16S rRNA gene analysis, and approximately 50 ‘Candidatus Phytoplasma’ species have been formally named. Genomic studies have revealed that phytoplasmas possess highly reduced genomes (530–1350 kb) lacking many essential metabolic pathways, reflecting their obligate parasitic lifestyle. Regarding pathogenesis, secreted effector proteins such as SAP (Secreted Aster Yellows Witches’ Broom Protein), TENGU (tengu-su inducer), and SWP (Secreted Wheat Blue Dwarf Protein) manipulate plant hormone signaling and developmental processes, leading to characteristic disease symptoms. Detection technologies have evolved from traditional microscopy to molecular methods, including nested PCR, real-time quantitative PCR, loop-mediated isothermal amplification (LAMP), and CRISPR/Cas-based systems (Clustered Regularly Interspaced Short Palindromic Repeats/CRISPR-associated protein), with AI-based image recognition and remote sensing emerging as promising tools for large-scale field monitoring. Integrated management strategies encompassing agricultural practices, insect vector control, biological control agents, induced resistance, and breeding for resistance are discussed. Finally, future research directions, including functional genomics, microbiome-based approaches, and precision agriculture technologies, are highlighted. This review aims to provide researchers and practitioners with a systematic reference for understanding phytoplasma biology and developing effective disease management strategies. Full article

Land desertification poses a major ecological challenge and threatens agricultural productivity. This study investigated the seed endophytic microbiomes of desert plants as a potential resource for mitigating salt stress in crops. Using high-throughput sequencing, we characterized the bacterial and fungal communities within seeds of 12 desert plant species. Dominant taxa included Firmicutes (particularly Bacillus), Bacteroidota, Proteobacteria, Ascomycota, and Basidiomycota. Culturable bacteria were subsequently isolated from Haloxylon ammodendron (C.A.Mey.) Bunge (HB) and Hedysarum scoparium Fisch. & C.A.Mey. (HSA) seeds. These isolates were screened for plant growth-promoting (PGP) traits and tolerance to salt (NaCl) and alkali (NaHCO₃). Selected strains, including the high indole-3-acetic acid (IAA)-producing Bacillus sp. HB-4, were used to inoculate wheat (Triticum aestivum L.) under 150 mM NaCl or 150 mM NaHCO₃ stress. Inoculation with strain HB-4 significantly improved wheat growth under stress. This improvement was associated with increased chlorophyll and proline content, enhanced activities of the antioxidant enzymes catalase and peroxidase, and reduced levels of malondialdehyde, a marker of oxidative damage. Our results demonstrate that desert plant seeds harbor taxonomically distinct and functionally resilient endophytes. The successful application of a desert-adapted Bacillus strain to alleviate salt stress in wheat highlights the potential of such microbiomes as a novel source of inoculants for sustainable agriculture in saline-affected regions. Full article

The resident microbiota in agricultural soils strongly influences crop health and productivity. In this study, we evaluated the prokaryotic diversity of two clay soils with similar physicochemical characteristics but contrasting levels of maize (Zea mays L.) and wheat (Triticum aestivum L.) production using 16S rRNA gene sequencing. Yield records showed significant differences in grain production over five consecutive years. When comparing prokaryotic alpha diversity between the “non-productive” and “productive” soils, no major differences were found, and the abundance of ammonia-oxidizing archaea (AOA) and bacterial genera such as Arthrobacter, Neobacillus, and Microvirga remained consistent across soils. Analysis of the top 20 genera showing the greatest abundance shifts by compartment (bulk soil vs. rhizosphere) revealed that genera such as Priestia, Neobacillus, Sporosarcina, and Pontibacter decreased in the rhizosphere of the non-productive soil, while in the productive soil, these genera remained unchanged. In the non-productive soil, genera such as Flavisobacter decreased in abundance in the rhizosphere, whereas Arthrobacter increased. Principal coordinates analysis (PCoA) showed no clear clustering by compartment (bulk vs. rhizosphere), but two distinct clusters emerged when grouping by soil type (productive vs. non-productive). Interaction networks varied by soil type: non-productive soils showed positive Candidatus–Bacillus and negative Massilia links, while productive soils were dominated by Flavisolibacter and negative Pontibacter. Across soils, Rhizobium–Bradyrhizobium associations were positive, whereas Neobacillus and Priestia were negative. These findings highlight that a few potential beneficial microbiota and their interactions may be key drivers of soil productivity, representing targets for microbiome-based agricultural management. Full article

Chemical fungicides play a key role in protecting crops, but their use can result in environmental problems. We tested a novel fungicide, composed of endophytic microorganisms, for its effect on wheat yield, grain quality, plant development, and the rhizosphere microbiome, assessed by 16S and ITS metabarcoding. The fungicide increased the grain yield, the effect being similar to a well-known commercial bacterial fungicide, without affecting its quality. Ascomycota, Zygomycota and Mucoromycota together comprised 80% of the mycobiome. Mucoromycota/Mucoromycetes/Rhizopodaceae/Rhizopus arrhizus were significantly decreased. The dominant (≥10%) bacterial phyla were Pseudomonadota, Acidobacteriota, Bacteroidota and Actinomycetota, but their fungicide-related differences were small or random. Different modes of fungicide application (seeds only, seeds plus one or two foliar applications) had no effect on wheat characteristics. Neither of the fungicide’s agents (Raoultella ornithinolytica and Pantoea allii) were found in the rhizosphere. The changes in the mycobiome seemed more pronounced than in the bacteriobiome. The proposed preparation is concluded to have good prospects as a fungicide. However, the low species/strain resolution of the DNA metabarcoding did not allow us to fully interpret shifts in the microbiome diversity, both agronomically and environmentally. These aspects need more comprehensive investigation, using methodology with higher species resolution. Full article

Due to their high nutritional value and a lower environmental impact, Tenebrio molitor (T. molitor) larvae are regarded as an alternative protein and lipid source in food industries, animal husbandry, and fishery. This study aimed to investigate the effect of ω-3 PUFA intake on the nutritional value and gut microbiota of T. molitor larvae. Tenebrio molitor (T. molitor) larvae were reared with wheat bran at 20–32 °C for 4 weeks to screen for a suitable temperature. EPA ethyl esters (EE), DHA ethyl esters (ED), DHA triglycerides (TG), and krill oil (KO) were supplemented in wheat bran to rear larvae for 4 weeks, and the compositions including moisture, carbohydrates, crude protein, and crude fats were analyzed. Gut microbiome was analyzed using 16S rRNA amplicon sequencing. Larvae reared on wheat bran showed optimal growth at 28 °C. ω-3 PUFA supplements increased crude protein (1.07–1.16 fold) and crude fat (1.12–1.22 fold) contents without affecting survival. Gut microbiota composition shifted significantly in all ω-3 supplemented groups, altering over 10 genera. Bacteria with changed abundance (e.g., Clostridium), known for roles in protein/lipid metabolism, likely contributed to the enhanced nutritional contents. These findings demonstrate the benefits of ω-3 PUFA supplementation in T. molitor rearing and identify associated gut bacteria. Full article

Soil saline–alkali stress is a major problem faced by global agriculture, and there is an urgent need to develop efficient amelioration strategies. While both probiotics and plant stress-resistant molecules play critical roles in the alleviation of crop stress, their efficient retention in crop rhizosphere regions remains a great challenge. In this study, the nanocarrier ZIF-8@SPBP@betaine (ZSBet) was constructed by introduction of the synthesized polysaccharide-binding protein (SPBP) and the stress-resistant molecule betaine to the metal–organic framework ZIF-8. During co-incubation, the probiotic Novosphingobium capsulatum and ZSBet efficiently bound together to form ZSBet + Novo co-assemblies, i.e., the integrated protein-ZIF-8-probiotic complexes mediated by polysaccharide-receptor recognition, which exhibited strong root-binding abilities. Microbiome analysis revealed that ZSBet + Novo reduced the α-diversity of rhizosphere bacteria and increased the absolute abundance of biofilm formation-related bacteria, e.g., Novosphingobium, Sphingobium, and Lactococcus. During wheat cultivation in saline–alkali soil, ZSBet + Novo reduced soil pH by 0.63 units, decreased soil salt content by 0.11 g/kg, and increased soil nutrient levels. Furthermore, the co-assembly enhanced the wheat grain number by 145.05% and reduced root malondialdehyde and proline contents by 42.00% and 39.13%, respectively. This study provides a new strategy for improving crop resistance under saline–alkali stress in combination with nanotechnology and synthetic biology. Full article

The present study aimed to evaluate the effects of dietary supplementation with organic oregano (Origanum vulgare) essential oil (OEO) on the rumen microbial population, with a focus on methanogenic archaea, in lactating dairy goats. A total of nine age-matched goats (mean body weight 49 ± 1.8 kg) were assigned to three experimental groups (n = 3 per group) in a completely randomized design. All animals were fed a basal diet consisting of a corn-based concentrate and a forage mix composed of alfalfa hay, wheat straw and corn silage. Group 1 was the control group while Groups 2 and 3 received an OEO supplement at dosages of 1 mL/day and 2 mL/day per animal, respectively, incorporated into the concentrate feed. Rumen fluid samples were collected on days 15, 30 and 45 of the feeding trial and their microbial profile was assessed using NGS analysis. The results demonstrated a reduction in the relative abundance of methanobacteria in both OEO-supplemented groups compared to the control group. Statistical analysis revealed significant differences between feeding groups and days of sampling. These findings suggest that OEO has the potential to modulate the rumen microbiome by reducing methane-producing archaeal populations. In conclusion, dietary supplementation with OEO may serve as a natural strategy to mitigate enteric methane emissions in Alpine dairy goats. Full article

This study evaluated the effects of fermented banana agro-waste silage (BAWS) in finishing diets for KHAPS pigs (Duroc × MeiShan hybrid). BAWS was produced via 30 days of anaerobic fermentation of disqualified banana fruit, pseudostem, and wheat bran, doubling crude protein content and generating short-chain fatty acids, as indicated by a satisfactory Flieg’s score. Thirty-six pigs were assigned to control (0%), 5%, or 10% BAWS diets formulated to meet NRC nutritional guidelines. Over a 70-day period, BAWS inclusion caused no detrimental effects on growth performance, carcass traits, or meat quality; a transient decline in early-stage weight gain and feed efficiency occurred in the 10% group, while BAWS-fed pigs demonstrated reduced backfat thickness and increased lean area. Fore gut microbiome analysis revealed reduced Lactobacillus and elevated Clostridium sensu stricto 1, Terrisporobacter, Streptococcus, and Prevotella, suggesting enhanced fiber and carbohydrate fermentation capacity. Predictive COG (clusters of orthologous groups)-based functional profiling showed increased abundance of proteins associated with carbohydrate transport (COG2814, COG0561, COG0765) and stress-response regulation (COG2207). These results support BAWS as a sustainable feed ingredient that maintains production performance and promotes fore gut microbial adaptation, with implications for microbiota-informed nutrition and stress resilience in swine. Full article

(1) Background: This study aimed to investigate the bacterial microbiomes in the ingredients and final PBM products during a storage period of 28 days at 2–4 °C for food safety and quality. (2) Methods: DNA from raw ingredients (i.e., defatted soy flour, potato starch, wheat gluten, mung bean protein, and duckweed) and three PBM formulations were extracted and sequenced using 16S rRNA gene sequencing. (3) Results: Alpha diversity (Simpson and Shannon) was high in the raw ingredients (p ≤ 0.05). Beta diversity showed dissimilarities between the samples. Firmicutes and Proteobacteria were the core microflora in these ingredients. The heat-stable microbes in PBM (e.g., Nostocaceae in SF and Cyanobacteriale in MB and DW) survived after extrusion. After the ingredients were stored at room temperature, the bacterial communities shifted, with Paucibacter being the majority population in raw ingredients and PBM in the 2nd batch. The predictions of Potential_Pathogens related to the abundance of Aeromonadaceae and Enterobacteriaceae need to be monitored during storage. (4) Conclusions: Our results showed that the bacterial community in PBM containing 30% MB and 3% DW did not drastically change during 28 days of storage at cold temperatures. Uncovering bacterial microbiomes in the ingredients should be emphasized for quality and safety, as ingredients influence the microbiome in the final products. Full article

The bioavailability of heavy metals is profoundly influenced by their interactions with active soil components (microorganisms, organic matter, and iron minerals). However, the effects of urease-producing bacteria combined with organo-Fe hydroxide coprecipitates (OFCs) on Cd accumulation in wheat, as well as the mechanisms underlying these effects, remain unclear. In this study, pot experiments integrated with high-throughput sequencing were employed to investigate the impacts of the urease-producing bacterial strain TJ6, ferrihydrite (Fh), and OFCs on Cd enrichment in wheat grains, alongside the underlying soil–microbial mechanisms. The results demonstrate that the strain TJ6-Fh/OFC consortium significantly (p < 0.05) reduced (50.1–66.7%) the bioavailable Cd content in rhizosphere soil while increasing residual Cd fractions, thereby decreasing (77.4%) Cd accumulation in grains. The combined amendments elevated rhizosphere pH (7.35), iron oxide content, and electrical conductivity while reducing (14.5–21.1%) dissolved organic carbon levels. These changes enhanced soil-colloid-mediated Cd immobilization and reduced Cd mobility. Notably, the NH₄⁺ content and NH₄⁺/NO₃⁻ ratio were significantly (p < 0.05) increased, attributed to the ureolytic activity of TJ6, which concurrently alkalinized the soil and inhibited Cd uptake via competitive ion channel interactions. Furthermore, the relative abundance of functional bacterial taxa (Proteobacteria, Gemmatimonadota, Enterobacter, Rhodanobacter, Massilia, Nocardioides, and Arthrobacter) was markedly increased in the rhizosphere soil. These microbes exhibited enhanced abilities to produce extracellular polymeric substances, induce phosphate precipitation, facilitate biosorption, and promote nutrient (C/N) cycling, synergizing with the amendments to immobilize Cd. This study for the first time analyzed the effect and soil science mechanism of urease-producing bacteria combined with OFCs in blocking wheat’s absorption of Cd. Moreover, this study provides foundational insights and a practical framework for the remediation of Cd-contaminated wheat fields through microbial–organic–mineral collaborative strategies. Full article

The greenbug aphid (Schizaphis graminum (Rondani)) is a major pest of wheat and an important vector of wheat viruses. An RNA-seq study was conducted to investigate the microbial effects of two greenbug genotypes, the presence or absence of cereal yellow dwarf virus, and the condition of the wheat host over a 20-day time course of unrestricted greenbug feeding. Messenger RNA reads were mapped to ca. 47,000 bacterial, 1218 archaeal, 14,165 viral, 571 fungal, and 94 protozoan reference or representative genomes, plus greenbug itself and its wheat host. Taxon counts were analyzed with QIIME2 and DESeq2. Distinct early (days 1 through 10) and late (days 15 and 20) communities differed in the abundance of typical enteric genera (Shigella, Escherichia, Citrobacter), which declined in the late community, while the ratio of microbial to greenbug read counts declined 50% and diversity measures increased. The nearly universal aphid endosymbiont, Buchnera aphidicola, accounted for less than 25% of the read counts in both communities. There were 302 differentially expressed (populated) genera with respect to early and late dates, while 25 genera differed between the greenbug genotypes and nine differed between carrier and virus-free greenbugs. The late community was likely responding to starvation as the wheat host succumbed to aphid feeding. Our results add to basic knowledge about aphid microbiomes and offer an attractive alternative method to assess insect microbiomes. Full article

Background and Aims: Non-alcoholic beers (NABs) are gaining popularity as alternatives to alcoholic beverages, yet their metabolic and health effects compared to no consumption of these drinks remain unclear. Material and Methods: The investigator-blinded, single-center, randomized study compares the effects on the metabolism, health, and gut microbiome of the daily consumption of different NABs—pilsener, mixed beer, and wheat beer—on glucose and fat metabolism, body composition, and liver function in 44 healthy young men. The participants consumed 660 mL of one of these beers or water daily for 4 weeks. We measured indicators of glucose and lipid metabolism, liver enzymes, body composition, and the composition of the gut microbiota. Results: The findings revealed that mixed beer increased fasting glucose and triglycerides, and wheat beer increased insulin, C-peptide, and triglycerides. The intake of pilsener and water decreased cholesterol and LDL levels without significantly affecting glucose metabolism. Biomarkers of liver damage such as M30 lowered in water and pilsener, while ALT and AST lowered in mixed beer. The pattern of the gut microbiota also changed, as pilsener lowered Firmicutes and increased Actinobacteria. Conclusions: In summary, consumption of NABs, especially mixed and wheat beers, exerts an unfavorable metabolic impact on glucose and fat, while pilsener and water are more favorable from a metabolic perspective. We concluded that the metabolic alterations seen are probably due to the caloric and sugar content in NABs, rather than polyphenols. The chronic effects of NABs on health should be evaluated in future studies. Full article

Deoxynivalenol (DON) is a widespread mycotoxin which contaminates several crops, including maize, wheat, and barley. In this study, we investigated the effects of orally administered DON on growth performance, blood biochemistry, histology, the gut microbiome, and metabolism in rats. Six-week-old rats, acclimatized for one week, were subjected to different dietary treatments for 42 days, as follows: CON (control): 0.9% saline; T1: 0.5 ppm DON; T2: 50 ppm DON; and T3: 100 ppm DON. The T3 group had the lowest final body weight (298.5 ± 3.69 g) and average daily gain compared with the control group (338.9 ± 6.43 g, p < 0.05). The feed conversion ratio was highest in the T3 group (4.28 ± 0.28) compared with that in the control group (3.12 ± 0.13, p < 0.05). DON treatment significantly reduced serum levels of creatinine, amylase, urea nitrogen, and alkaline phosphatase, but not alanine aminotransferase. Fibrosis and apoptosis were exacerbated in various tissues with increasing DON concentration. The metabolite profiles of several tissues were significantly different in the DON-treated and control groups. In the cecum, DON treatment increased the abundance of Desulfobacteria, while decreasing that of Firmicutes. Our results indicate that DON levels above the maximum residue limit have serious health consequences for animals. Full article

Salinity is one of the most important abiotic stress factors affecting wheat production. Salt in the soil is a major environmental stressor that can affect the bacterial community in the rhizosphere of wheat. The bacteria in the plant’s rhizosphere promote growth and stress tolerance, which vary by variety and location. Nevertheless, the soil harbors some of the most diverse microbial communities, while the rhizosphere selectively recruits according to the needs of plants in a complex harmonic regulation. The microbial composition and diversity under normal and saline conditions were assessed by comparing the rhizosphere of wheat with soil using 16S rRNA gene amplicon sequencing, highlighting the number of operational taxonomic units (OTUs). Taxonomic analyzes showed that the bacterial community was predominantly and characteristically composed of the phyla Proteobacteria, Actinobacteria, Bacteroidetes, Firmicutes, Verrucomicrobia, and Fibrobacteres, representing the usual microbial profile for the rhizosphere of wheat. Idiomarinaceae, Rheinheimera, Halomonas, and Pseudomonas (a strain of Proteobacteria), together with Gracilibacillus (a strain of Firmicutes Bacilli), were recognized as microbial signatures for the rhizosphere microbiome under saline conditions. This was observed even with unchanged soil type and genotype. These patterns occurred despite the same soil type and genotype, with salinity being the only variable. The collective action of these bacterial phyla in the rhizosphere not only improves nutrient availability but also induces systemic resistance in the plants. This synergistic effect improves plant resistance to salt stress and supports the development of salt-tolerant wheat varieties. These microbial signatures could improve our understanding of plant–microbe interactions and support the development of microbiome-based solutions for salt stress. Full article