Microbial diversity and functions in saline soils: A review from a biogeochemical perspective

Freshwater Salinization Mitigated N2O Emissions in Submerged Plant-Covered Systems: Insights from Attached Biofilms

Submerged plants (SMPs) play a critical role in improving water quality and reducing N2O greenhouse gas emissions. However, freshwater salinization represents a major environmental challenge in aquatic systems. To investigate the impact of salinization on N2O emissions, this study conducted indoor mesocosm experiments simulating SMP and nonsubmerged plant (Non_SMP) areas in freshwater lakes. The objective was to explore the effects and microbial mechanisms of the attached biofilm on N2O emission in freshwater salinization. Salinization systems (700-1500 μS cm-1) reduced N2O flux by 37.0 and 40.5% compared to freshwater systems (<700 μS cm-1) of SMPs and Non_SMPs, respectively. Kinetic experiments showed that the reduction in N2O emissions was mainly attributed to the attached biofilm rather than the sediment or water. The N2O net emission rates of the attached biofilm decreased by 47.1 and 71.8% in salinization systems of SMPs and Non_SMPs, respectively, compared with freshwater systems. Additionally, biofilms in salinization systems exhibited lower denitrification rates. Furthermore, salinization reduced the N2O production potential ((nirS + nirK)/(nosZI + nosZII)), thereby further decreasing N2O emissions. This study provides valuable insights into the role and mechanisms of biofilms in mitigating N2O emissions in salinized freshwater lakes.

Metagenomic analysis reveal the phytoremediation effects of monocropping and intercropping of halophytes Halogeton glomeratus and Suaeda glauca in saline soil of Northwestern China

AIMS

Planting halophytes is a widely used method of phytoremediation for saline soils. The succulent halophytes Halogeton glomeratus and Suaeda glauca are widely used for remediation of saline soil in the arid region of Northwestern China. However, whether intercropping of H. glomeratus and S. glauca can increase the improvement effect for saline soil is yet to be proved.

MATERIALS AND METHODS

Therefore, this study analyzed three phytoremediation planting modes: monocropping of H. glomeratus (Hg), monocropping of S. glauca (Sg), and H. glomeratus and S. glauca intercropping (Hg||Sg). These were applied in field experiments, with biomass and soil physicochemical properties measured for each treatment, and the mechanism was analyzed using macrogenomics.

RESULTS

After harvesting the halophytes after one season, the Hg treatment had the highest dry biomass and soil total dissolved salt content was reduced; correspondingly, soil pH were decreased and soil organic matter content were increased. The results showed that Actinobacteria, Acidobacteria and Proteobacteria were the dominant phylum under the four treatments. This suggests that Hg treatment was more capable of producing microorganisms favorable to saline soil remediation.

CONCLUSIONS

Thus, H. glomeratus monocropping is a more effective phytoremediation strategy for saline soil in the dry zone of Northwestern China.

Unraveling the Rhubarb (Rheum officinale Baill.) Root and Rhizosphere Microbial Communities in Response to Pathogen Exposure

This study investigated the microbial community composition and structure in healthy and diseased rhubarb (Rheum rhabarbarum) root systems, examining both root tissue and rhizosphere environments. Alpha diversity analysis revealed significantly higher microbial abundance in the rhizosphere compared to root tissues, with notable differences between healthy and diseased plants. Principal coordinate analysis demonstrated that bacterial community composition was primarily influenced by ecological niches (47.5% variation explained), whereas fungal communities segregated based on plant health status. Network analysis revealed increased bacterial community complexity in diseased plants rhizosphere (579 nodes, 13,016 edges) compared to healthy plants (542 nodes, 8700 edges), while fungal networks showed opposite trends with significant reduction in diseased conditions (147 nodes, 30 edges vs. 205 nodes, 418 edges). Correlation analysis identified significant associations between specific microbial taxa and soil properties, with notable positive correlations between certain bacteria (Oscillospirales) and fungi (Barnettozyma, Mortierella) with soil organic matter and nutrient availability. Pathogenic taxa, including Fusarium and members of Burkholderiales, showed negative correlations with beneficial microorganisms, suggesting potential antagonistic relationships. These findings provide crucial insights into the complex interactions within the rhubarb root microbiome and their implications for plant health, contributing to our understanding of root rot disease dynamics and potential management strategies.

Diverse adaptation strategies of generalists and specialists to metal and salinity stress in the coastal sediments

Understanding the distinct roles and responses of bacterial community to environmental stressors is crucial for effective ecosystem management and conservation. Despite this, there is limited research on how environmental gradients specifically impact generalist and specialist subcommunities. This study investigates these subcommunities in the sediments of Jinzhou Bay, highlighting their distinct responses to environmental gradients. Generalists thrive in disturbed environments due to their broad ecological tolerances, while specialists show higher diversity in the stable, less contaminated upstream areas. At the genus level, Porphyrobacter and Subgroup_23 were identified as the dominant taxa of generalists, while Woeseia and Lutibacter were the dominant species of specialists. Physicochemical parameters, especially metals and salinity, significantly influence subcommunity composition. Generalists are adaptable to a wider range of factors, whereas specialists are affected by specific parameters, reflecting their narrower niches. The generalists exhibit a greater abundance of salinity tolerance genes compared to the specialists; however, this trend does not extend to metal resistance genes. Keystone taxa, primarily specialists, play crucial roles in maintaining community stability. Our results underscore the importance of considering both generalists and specialists in ecological assessments, offering insights for the management and conservation of bacterial microbial diversity in coastal ecosystems.

Ameliorating salt stress in tomato by a top-down approach of acclimatizing the rhizosphere microbiome

Soil salinization adversely impacts plant and soil health. While amendment with chemicals is not sustainable, the application of bioinoculants suffers from competition with indigenous microbes. Hence, microbiome-based rhizosphere engineering, focussing on acclimatization of rhizosphere microbiome under selection pressure to facilitate plant growth, exhibits promise. This study aimed to acclimatize a salt-susceptible tomato cultivar to high salt concentration through a microbiome-based top-down approach of rhizosphere engineering. Multiple passaging of the rhizosphere microbiome of the cultivar was performed for twelve plant growth cycles in the presence of increasing salt stress. The rhizosphere microbiome of the phenotypically best-grown plant under stress was transferred as inoculum to the next plant growth cycle. Plant growth attributes and stress marker levels were assessed, expression levels of plant salt stress-responsive genes were examined, and the bacterial community composition in the initial and final plant growth cycles was analysed. Rhizosphere microbiome inoculation promoted plant growth under increasing salt concentrations. Stress markers were reduced in plants inoculated with an acclimatized microbiome, while the root architecture was enhanced, indicating salt tolerance. The salt stress-responsive genes were downregulated in salt-treated plants, whereas upregulation of these genes was observed upon microbiome inoculation. The relative abundance of Exiguobacterium, Arthrobacter, and Lysobacter was higher in microbiome-treated plants under salt stress compared to the salt-treated plants without microbiome inoculation. The strategy of acclimatizing the rhizosphere microbiome of a salt-susceptible tomato cultivar was successfully implemented for stress amelioration and plant growth promotion, thereby offering a sustainable means with immense potential for application in other crops.

Study of the mechanism by which Bacillus subtilis improves the soil bacterial community environment in severely saline-alkali cotton fields

Soil salinization severely damages the soil bacterial community environment. Bacillus subtilis can improve bacterial communities and enhance crop nutrient absorption. However, the mechanism by which B. subtilis improves the bacterial community environment in heavily saline-alkali-treated cotton fields is currently unclear. Therefore, this study adopted a field plot experiment and established four bacterial treatments (0, 9, 12, and 15 kg·ha-1) to investigate the environmental improvement mechanism of B. subtilis on soil bacterial communities in severely saline alkali cotton fields was studied. Compared with the CK treatment, the application of B. subtilis significantly increased the available nitrogen (25.34 %), available phosphorus (50.894 %), available potassium (86.87 %), and urease (112.961 %) contents but significantly reduced the soil pH (1.07 %) and salt content (39.73 %) and significantly increased the proline (245.116 %) and superoxide dismutase (237.46 %) contents in the leaves and significantly reduced the malondialdehyde content (47.30 %). This is mainly because B. subtilis enhances the diversity of bacterial communities and affects catalase, urease, phosphatase, and protease activities, thereby promoting nutrient release in the soil and improving soil fertility; specifically, B. subtilis promotes the secretion of oxalic acid, formic acid, malic acid, and soluble total sugars in cotton roots. The organic acids in root exudates lower the soil pH and chelate with salt ions in the soil, reducing the concentration of soluble salts and providing a suitable environment for B. subtilis. Soluble total sugars can provide energy and carbon sources for bacteria, maintaining the health and diversity of rhizosphere bacterial communities. The results of the principal component analysis revealed that the application rate of B. subtilis was 12 kg·ha-1, which had the greatest effect on improving the soil bacterial community in severely saline-alkali cotton fields. The research results provide a theoretical basis and practical reference for microbial improvement in severely saline-alkali land in arid areas.

Variation of bacterial community diversity and composition in saline-alkali soils reclaimed with flood irrigation and crop cultivation is driven by salinity and edaphic factors

Reclamation is crucial for improving the fertility and productivity of saline-alkali soils, but the evolution of soil bacterial communities during the course of reclamation, which is an important feedback of soil micro-ecosystem, has received little attention. This study was conducted to investigate the variation of bacterial community diversity and composition in reclaimed saline-alkali soils based on space-for-time substitution, elucidate the underlying ecological mechanisms of bacterial community assembly processes, and identify the key driving factors of bacterial community evolution. The soil bacterial communities in undeveloped saline-alkali land and farmlands with different reclamation history (1-4, 5-6, and 10-25 years) in the Yellow River Delta, China, was analyzed by 16S rRNA gene amplicon sequencing. Soil bacterial diversity was found to increase significantly with reclamation history, and the entire bacterial community composition varied remarkably in the saline-alkali soils at different stages of reclamation. Halophilic and halotolerant bacteria dominated in the soils of undeveloped saline-alkali land (33.7 %), but their abundance diminished largely in the reclaimed soils. Analysis of bacterial community assembly processes suggested that heterogeneous selection dominated the change of bacterial communities in the saline-alkali soils that had been reclaimed for 1-4 years (52.8 %), 5-6 years (93.1 %), and 10-25 years (94.4 %). Salinity, soil organic carbon, pH, and moisture content were found to be the key environmental factors driving the evolution of bacterial communities in the reclaimed saline-alkali soils. While salinity directly shaped the bacterial community diversity, the other key drivers primarily governed the composition of bacterial communities in the saline-alkali soils during reclamation. These findings shed light on the probable ecological mechanisms of assembly processes and the environmental factors driving the soil bacterial communities during reclamation of saline-alkali lands, which could help better understand the evolution of soil bacterial communities under declining saline stress and optimize strategies to improve the agroecosystem health of saline-alkali lands.

Impact of Acacia-derived biochar to mitigate salinity stress in Zea mays L. by morpho-physiological and biochemical indices

Climate change has caused many challenges to soil ecosystems, including soil salinity. Consequently, many strategies are advised to mitigate this issue. In this context, biochar is acknowledged as a useful addition that can alleviate the detrimental impacts of salt stress on plants. The objective of this study is to evaluate the effects of different levels of salt (Control; T0 0 gl-1, T1; 1.50, and T2; 3 gl-1) and biochar addition rates (A0; 0 g kg-1, A1; 40 g kg-1, and A2; 80 g kg-1) on the agronomic, physiological, and biochemical responses of corn plants. The results of our study showed a significant increase in the biomass of corn plants when exposed to salt stress and treated with 40 g kg-1 of biochar. The result underscores the significant function of Acacia-biochar in mitigating salt toxicity. The application of A1 biochar at a specified rate mitigated the adverse effects of salt-induced oxidative stress by augmenting the activities of catalase (CAT) and glutathione-S-transferase (GST). Furthermore, the utilization of biochar led to an increase in chlorophyll b concentrations in maize plants subjected to saline water treatment. Biochar is generally considered an efficient method for alleviating the adverse effects of salinity. To enhance plant growth and development while mitigating salinity-induced toxicity, the application of biochar in saline soils must be implemented appropriately.

Growth-promoting effects of self-selected microbial community on wheat seedlings in saline-alkali soil environments

Saline-alkali land is a type of soil environment that causes poor crop growth and low yields. Its management and utilization are, therefore of great significance for increasing arable land resources, ensuring food security, and enhancing agricultural production capacity. The application of plant growth-promoting rhizobacteria (PGPR) is an effective way to promote the establishment of symbiotic relationships between plants and the rhizosphere microenvironment, plant growth and development, and plant resistance to saline-alkali stress. In this study, multiple saline-alkali-resistant bacteria were screened from a saline-alkali land environment and some of them were found to have significantly promotive effects on the growth of wheat seedlings under saline-alkali stress. Using these PGPR, a compound microbial community was selectively obtained from the root-zone soil environment of wheat seedlings, and the metagenomic sequencing analysis of wheat root-zone soil microbiomes was performed. As a result, a compound microbial agent with a Kocuria dechangensis 5-33:Rossellomorea aquimaris S-3:Bacillus subtilis BJYX:Bacillus velezensis G51-1 ratio of 275:63:5:1 was obtained through the self-selection of wheat seedlings. The synthetic compound microbial agent significantly improved the growth of wheat seedlings in saline-alkali soil, as the physiological plant height, aboveground and underground fresh weights, and aboveground and underground dry weights of 21-day-old wheat seedlings were increased by 27.39% (p < 0.01), 147.33% (p < 0.01), 282.98% (p < 0.01), 194.86% (p < 0.01), and 218.60% (p < 0.01), respectively. The promoting effect of this compound microbial agent was also greater than that of each strain on the growth of wheat seedlings. This microbial agent could also regulate some enzyme activities of wheat seedlings and the saline-alkali soil, thereby, promoting the growth of these seedlings. In this study, we analyze an efficient microbial agent and the theoretical basis for promoting the growth of wheat seedlings under saline-alkali stress, thereby, suggesting an important solution for the management and utilization of saline-alkali land.

The influence of soil salinization, induced by the backwater effect of the Yellow River, on microbial community dynamics and ecosystem functioning in arid regions

Irrigation practices and groundwater levels are critical factors contributing to soil salinization in arid and semi-arid regions. However, the impact of soil salinization resulting from Yellow River water irrigation and recharge on microbial communities and their functions in the Huinong District has not been thoroughly documented. In this study, high-throughput sequencing technology was employed to analyze the diversity, composition, and structure of bacterial and fungal communities across a gradient of salinized soils. The results indicated that the alpha diversity of bacterial communities was significantly higher in slightly saline soils compared to highly saline soils. Soil salinization notably influenced the composition of both bacterial and fungal communities. Highly salinized soils were enriched with bacterial taxa such as Halomonas, Salinimicrobium, Pseudomonas, Solibacillus, and Kocuria, as well as fungal taxa including Emericellopsis, Alternaria, and Podospora. In these highly saline soils, bacterial taxa associated with iron respiration, sulfur respiration, and hydrocarbon degradation were more prevalent, whereas fungal taxa linked to functions such as soil animal pathogens, arbuscular mycorrhizal symbiosis, endophytes, dung saprotrophy, leaf saprotrophy, soil saprotrophy, fungal parasitism, and plant pathogenicity were less abundant. Random forest analysis identified nine bacterial and eighteen fungal taxa as potential biomarkers for salinity discrimination in saline soils. Symbiotic network analysis further revealed that soil salinization pressure reduced the overall complexity and stability of bacterial and fungal communities. Additionally, bacterial community assembly showed a tendency shift from stochastic to deterministic processes in response to increasing salinity, while fungal community assembly remained dominated by deterministic processes. provide robust evidence that soil salinity is a major inhibitor of soil biogeochemical processes in the Huinong District and plays a critical role in shaping bacterial and fungal communities, their symbiotic networks, and their assembly processes.

Soil microbial community and associated functions response to salt stresses: Resistance and resilience

Soil microbial communities and related ecological functions are influenced by salinization, but their resistance and resilience to different salinity stresses are still not well-understood. In this study, we investigated the changes in bacterial community and associated ecological functions under different NaCl and Na2SO4 stresses, and their resilience after removal of the stresses. The alpha diversity of bacterial community significantly increased under the slight to strong stresses of NaCl and Na2SO4 compared with the control, but no significant differences were observed at the end of the recovery period. The structures of bacterial community distinctly altered under the stresses of NaCl and Na2SO4 because they affected different salinity-tolerant microbiota. After the elimination of salt stresses, the bacterial community structures could not recover to their original states, and shifted to alternative states. NaCl and Na2SO4 stresses reduced the complexity and stability of bacterial co-occurrence network in comparison with the control. The bacterial co-occurrence networks became more complex and stable when salt stresses were removed. The accumulative CO2 and N2O emissions reduced under the slight to extreme stresses of NaCl and Na2SO4, but NaCl stress exhibited a greater suppression than Na2SO4. In the recovery period, the cumulative CO2 and N2O emissions were lower than those in the stress period, but CO2 and N2O emissions fluxes approached to those in the control at the end of stress period. The findings can provide implications for the management and reclamation of salt-affected farmland.

Planting halophytes increases the rhizosphere ecosystem multifunctionality via reducing soil salinity

Soil salinization poses a significant global challenge, exerting adverse effects on both agriculture and ecosystems. Planting halophytes has the potential ability to improve saline-alkali land and enhance ecosystem multifunctionality (EMF). However, it remains unclear which halophytes are effective in improving saline-alkali land and what impact they have on the rhizosphere microbial communities and EMF. In this study, we evaluated the Na+ absorption capability of five halophytes (Grubovia dasyphylla, Halogeton glomeratus, Suaeda salsa, Bassia scoparia, and Reaumuria songarica) and assessed their rhizosphere microbial communities and EMF. The results showed that S. salsa possessed the highest shoot (3.13 mmol g-1) and root (0.92 mmol g-1) Na+ content, and its soil Na+ absorption, along with B. scoparia, was significantly higher than that of other plants. The soil pH, salinity, and Na+ content of the halophyte rhizospheres decreased by 6.21%, 23.49%, and 64.29%, respectively, when compared to the bulk soil. Extracellular enzymes in the halophyte rhizosphere soil, including α-glucosidase, β-glucosidase, β-1,4-N-acetyl-glucosaminidase, neutral phosphatase, and alkaline phosphatase, increased by 70.1%, 78.4%, 38.5%, 79.1%, and 64.9%, respectively. Furthermore, the halophyte rhizosphere exhibited higher network complexity of bacteria and fungi and EMF than bulk soil. The relative abundance of the dominant phyla Proteobacteria, Firmicutes, and Ascomycota in the halophyte rhizosphere soil increased by 9.4%, 8.3%, and 22.25%, respectively, and showed higher microbial network complexity compared to the bulk soil. Additionally, keystone taxa, including Muricauda, Nocardioides, and Pontibacter, were identified with notable effects on EMF. This study confirmed that euhalophytes are the best choice for saline-alkali land restoration. These findings provided a theoretical basis for the sustainable use of saline-alkali cultivated land.

Tree species selection for optimizing soil carbon storage: Insights from litter decomposition and bacterial community analysis in coastal ecosystems

Coastal wetland ecosystems are critical sinks for atmospheric carbon dioxide, playing a vital role in global carbon cycling and climate regulation. The decomposition of leaf litter plays a crucial role in the formation and stability of soil organic carbon (SOC) in these environments. This study investigated the impact of leaf litter decomposition from five tree species (Populus deltoids, Ligustrum lucidum, Taxodium 'Zhongshanshan', Hibiscus hamabo, and Nerium oleander) on SOC dynamics, humus composition, and soil bacterial community structure in a tidal flat. Litterbags were used to monitor the mass loss and changes in litter chemical composition over 270 days. The results revealed significant differences in decomposition rates among the tree species, with Nerium oleander exhibiting the fastest decomposition and Populus deltoids the slowest. Surprisingly, initial litter chemistry did not correlate with decomposition rates; however, changes in lignin and hemicellulose content during decomposition were significantly related to mass loss. Despite its rapid decomposition, Nerium oleander litter resulted in the highest accumulation of SOC, total humus, and humin compared to the other species, challenging the conventional view that slower decomposition leads to greater SOC storage. The soil microbial community structure was significantly influenced by SOC, humus, and litter components, with distinct microbial assemblages associated with each tree species. A random forest model identified key bacterial taxa, predominantly Proteobacteria, as important predictors of SOC content, highlighting the role of bacterial diversity in regulating SOC dynamics. These findings underscore the importance of considering litter quality, decomposition dynamics, and bacterial community composition in strategies aimed at enhancing soil carbon sequestration. This study suggests that selecting tree species with rapidly decomposing litter, such as Nerium oleander, in coastal plantations can be an effective management tool for optimizing soil carbon storage, offering valuable insights for mitigating climate change impacts.

Structure and Function of Soil Bacterial Communities in the Different Wetland Types of the Liaohe Estuary Wetland

Soil bacterial communities play a crucial role in the functioning of estuarine wetlands. Investigating the structure and function of these communities across various wetland types, along with the key factors influencing them, is essential for understanding the relationship between bacteria and wetland ecosystems. The Liaohe Estuary Wetland formed this study's research area, and soil samples from four distinct wetland types were utilized: suaeda wetlands, reed wetlands, pond returning wetlands, and tidal flat wetlands. The structure and function of the soil bacterial communities were examined using Illumina MiSeq high-throughput sequencing technology in conjunction with the PICRUSt analysis method. The results indicate that different wetland types significantly affect the physical and chemical properties of soil, as well as the structure and function of bacterial communities. The abundance and diversity of soil bacterial communities were highest in the suaeda wetland and lowest in the tidal flat wetland. The dominant bacterial phyla identified were Proteobacteria and Bacteroidota. Furthermore, the dominant bacterial genera identified included RSA9, SZUA_442, and SP4260. The primary functional pathways associated with the bacterial communities involved the biosynthesis of valine, leucine, and isoleucine, as well as lipoic acid metabolism, which are crucial for the carbon and nitrogen cycles. This study enhances our understanding of the mutual feedback between river estuary wetland ecosystems and environmental changes, providing a theoretical foundation for the protection and management of wetlands.

Enhanced salt tolerance in Glycyrrhiza uralensis Fisch. via Bacillus subtilis inoculation alters microbial community

The widespread prevalence of saline environments poses a significant global environmental challenge. Salt stress, induced by saline soils, disrupts soil microecology and affects the plant-microbe-soil cycling process. Utilizing microbial fungicides stands as a primary strategy to mitigate salt stress-induced damage to plants and soils. This study investigated the influence of Bacillus subtilis (Bs) inoculation on the microbial community, assembly processes, and functional changes in bacteria and fungi in Glycyrrhiza uralensis Fisch. (licorice) seedlings under varying salt stress levels, primarily employing microbiomics techniques. Soil enzyme activities displayed a declining trend with increasing salt stress, which was mitigated by Bs inoculation. Microbiome analysis revealed a significant increase in bacterial and fungal operational taxonomic units, particularly in Ascomycetes and Nitrogen-fixing Bacteria, thereby enhancing soil denitrification. The abundance of Proteobacteria, Actinobacteriota, Bacteroidota, and Firmicutes in bacteria, as well as Ascomycota in fungi, increased with higher salt stress levels, a process facilitated by Bs inoculation. However, functional predictions indicated a reduction in the relative abundance of Dung Saprotrophs with Bs inoculation. Salt stress disrupted soil assembly processes, showcasing a continuous decline in diffusion limitation with increased salt concentration, where Bs inoculation reached a peak under moderate stress. In summary, this research elucidates the communication mechanism of Bs in enhancing salt tolerance in licorice from a microbiome perspective, contributing to a comprehensive understanding of abiotic and biotic factors.IMPORTANCELicorice is a herb that grows in deserts or saline soils. Enhancing the salt tolerance of licorice is necessary to maintain the quality of cultivated licorice and to ensure the supply of medicinal herbs. In the past, we have demonstrated the effectiveness of inoculation with Bacillus subtilis (Bs) to enhance the salt tolerance of licorice and revealed the key metabolic pathways for the development of salt tolerance through multi-omics. In this study, we used the microbiomics approach to reveal the plant-microbe-soil interactions at the level of inoculation of Bs affecting the dynamics of soil microbial communities from bacterial and fungal perspectives, thus bridging the interactions between biotic and abiotic factors.

Global hierarchical meta-analysis to identify the factors for controlling effects of antibiotics on soil microbiota

It is widely known that antibiotics can affect the structure and function of soil microbial communities, but the specific degree of impact and controlled factors on different indicators remain inconclusive. We conducted a multiple hierarchical mixed effects meta-analysis on 2564 observations that were extracted from 60 publications, to comprehensively assess the impact of antibiotics on soil microbiota. The results showed that antibiotics had significant negative effects on soil microbial biomass, α-diversity and soil enzyme activity. Under neutral initial soil, when soil was derived from agricultural land or had a fine-textured, the negative impacts of antibiotics on soil microbial community were exacerbated. Both single and mixed additions of antibiotics had significant inhibitory effects on soil microbial enzyme activities. The Random Forest model predicted the following key moderators involved in the effects of antibiotics on the soil microbiome, and antibiotics type, soil texture were key moderators on the severity of soil microbial biomass changes. Soil texture, temperature and single or combined application constitute of antibiotics were the main drivers of effects on soil enzyme activities. The reported results can be helpful to assess the ecological risk of antibiotics in a soil environment and provides a scientific basis for the rational of antibiotics use in the soil environment.

Assessing the Efficacy of Cyanobacterial Strains as Oryza sativa Growth Biostimulants in Saline Environments

Soil salinity, which affects plant photosynthesis mechanisms, significantly limits plant productivity. Soil microorganisms, including cyanobacteria, can synthesize various exometabolites that contribute to plant growth and development in several ways. These microorganisms can increase plant tolerance to salt stress by secreting various phytoprotectants; therefore, it is highly relevant to study soil microorganisms adapted to high salinity and investigate their potential to increase plant resistance to salt stress. This study evaluated the antioxidant activity of four cyanobacterial strains: Spirulina platensis Calu-532, Nostoc sp. J-14, Trichormus variabilis K-31, and Oscillatoria brevis SH-12. Among these, Nostoc sp. J-14 presented the highest antioxidant activity. Their growth-stimulating effects under saline conditions were also assessed under laboratory conditions. These results indicate that Nostoc sp. J-14 and T. variabilis K-31 show significant promise in mitigating the harmful effects of salinity on plant size and weight. Both strains notably enhanced the growth of Oryza sativa plants under saline conditions, suggesting their potential as biostimulants to improve crop productivity in saline environments. This research underscores the importance of understanding the mechanisms by which cyanobacteria increase plant tolerance to salt stress, paving the way for sustainable agricultural practices in saline areas.

The role of halophyte-induced saline fertile islands in soil microbial biogeochemical cycling across arid ecosystems

Halophyte shrubs, prevalent in arid regions globally, create saline fertile islands under their canopy. This study investigates the soil microbial communities and their energy utilization strategies associated with tamarisk shrubs in arid ecosystems. Shotgun sequencing revealed that high salinity in tamarisk islands reduces functional gene alpha-diversity and relative abundance compared to bare soils. However, organic matter accumulation within islands fosters key halophilic archaea taxa such as Halalkalicoccus, Halogeometricum, and Natronorubrum, linked to processes like organic carbon oxidation, nitrous oxide reduction, and sulfur oxidation, potentially strengthening the coupling of nutrient cycles. In contrast, bare soils harbor salt-tolerant microbes with genes for autotrophic energy acquisition, including carbon fixation, H2 or CH4 consumption, and anammox. Additionally, isotope analysis shows higher microbial carbon use efficiency, N mineralization, and denitrification activity in tamarisk islands. Our findings demonstrate that halophyte shrubs serve as hotspots for halophilic microbes, enhancing microbial nutrient transformation in saline soils.

Neglected role of microelements in determining soil microbial communities and fruit micronutrients in loquat orchards

Introduction

The relationships among microelements and soil microbial communities are essential for understanding the maintenance of soil's ecological functions and their effects on fruit quality in orchards. However, these relationships have not been adequately studied, despite the importance of microelements for the growth of microorganisms and plants.

Methods

To address this research gap, we investigated the relationships among microelements (K, Ca, Na, Mg, Fe, Mn, Zn, and Cu), the diversity and composition of soil microbiomes, and fruit quality in loquat orchards.

Results

We found that microelements explained more variations in microbial community structures than geographic position, basic soil properties, and macroelements, with 19.6-42.6% of bacterial, 4.3-27.7% of fungal, and 5.9-18.8% of protistan genera significantly correlated with microelements. Among the microelements, AMg and ACu were the most influential in determining the soil microbiome. The soil microbes exhibited varied threshold values for environmental breadth among the microelements, with the broadest range for AMg and the narrowest for AZn. Additionally, the microbes showed significant phylogenetic signals for all microelements, with an increasing divergence of soil microelements. The dominant community assembly shifted from homogeneous selection to stochastic, and then to heterogeneous selection. Moreover, microelements and the microbiome were the top two factors individually explaining 11.0 and 11.4% of fruit quality variation, respectively.

Discussion

These results highlight the importance of microelement fertilization in orchard management and provide scientific guidance for improving fruit quality.

The impact of salinization on soil bacterial diversity, yield and quality of Glycyrrhiza uralensis Fisch

Soil salinization seriously affects soil microbial diversity, and crop yield and quality worldwide. Microorganisms play a vital role in the process of crop yield and quality. Traditional Chinese medicine Glycyrrhiza uralensis Fisch. (licorice) can grow tenaciously in the heavily salinized land. However, the relationship between licorice plants and soil microorganisms is not clear. A field experiment was carried out to explore the effects of three different degrees of salinized soils on (i) licorice crop performance indicators, (ii) soil physical and chemical properties, and (iii) the changes in soil bacterial community structure and functional diversity in a semi-arid area of northwest China. The results showed that with the aggravation of soil salinization, the licorice yield, soil nutrients, and the bacterial abundance of Gemmatimonadetes and Myxococcota showed a downward trend, while the concentration of glycyrrhizic acid and liquiritin, and the bacterial abundance of Actinobacteria and Firmicutes showed an upward trend. The change of licorice yield mainly depended on the soil physical and chemical properties (e.g., EC and alkaline hydrolysable nitrogen). The change of licorice quality was more closely related to the change of bacterial diversity. The effect of bacterial diversity on liquiritin was greater than that on glycyrrhizic acid. Among them, Gemmatimonadetes were significantly negatively correlated with liquiritin and glycyrrhizic acid. These findings suggest that the increased soil Actinobacteria and Firmicutes or reduced Gemmatimonadetes and Myxococcota may provide a healthy and suitable living condition for the sustainable development of medicinal plant crops in a salinized soil ecosystem.

Uncovering the Antifungal Potential of Plant-Associated Cultivable Bacteria from the Aral Sea Region against Phytopathogenic Fungi

Two freshwater rivers, the Amu Darya and Syr Darya, flow into the Aral Sea, but they began to diminish in the early 1960s, and by the 1980s, the lake had nearly ceased to exist due to excessive water consumption for agriculture and the unsustainable management of water resources from rivers, which transformed the Aral Sea into a hypersaline lake. Despite this, the flora and fauna of the region began to evolve in the high-salinity seabed soil, which has received little attention in studies. In this study, we isolated approximately 1400 bacterial strains from the rhizosphere and phyllosphere of plant species of distinct families. Bacterial isolates were examined for antifungal activities against a range of pathogenic fungi such as Rhizoctonia gossypii, Trichothecium ovalisporum, Fusarium annulatum, F. oxysporum, F. culmorum, F. brachygibbosum, F. tricinctum, F. verticillioides, Alternaria alternata, A. terreus, Aspergillus niger, and As. flavus. Eighty-eight bacterial isolates exhibited varying antagonistic ability against pathogenic fungi. Furthermore, DNA barcoding of isolates using the 16S rRNA gene indicated that most antagonistic bacteria belonged to the Bacillus and Pseudomonas genera. The study also explored the activity of hydrolytic and cell-wall-degrading enzymes produced by antagonistic bacteria. The findings revealed that antagonistic bacteria can be utilized to widely protect seabed plants and plants growing in saline areas against pathogenic fungi, as well as agricultural crops.

Exploring the Potential of Halotolerant Actinomycetes from Rann of Kutch, India: A Study on the Synthesis, Characterization, and Biomedical Applications of Silver Nanoparticles

A tremendous increase in the green synthesis of metallic nanoparticles has been noticed in the last decades, which is due to their unique properties at the nano dimension. The present research work deals with synthesis mediated by the actinomycete Streptomyces tendae of silver nanoparticles (AgNPs), isolated from Little and Greater Rann of Kutch, India. The confirmation of the formation of AgNPs by the actinomycetes was carried out by using a UV-Vis spectrophotometer where an absorbance peak was obtained at 420 nm. The X-ray diffraction pattern demonstrated five characteristic diffraction peaks indexed at the lattice plane (111), (200), (231), (222), and (220). Fourier transform infrared showed typical bands at 531 to 1635, 2111, and 3328 cm-1. Scanning electron microscopy shows that the spherical-shaped AgNPs particles have diameters in the range of 40 to 90 nm. The particle size analysis displayed the mean particle size of AgNPs in aqueous medium, which was about 55 nm (±27 nm), bearing a negative charge on their surfaces. The potential of the S. tendae-mediated synthesized AgNPs was evaluated for their antimicrobial, anti-methicillin-resistant Staphylococcus aureus (MRSA), anti-biofilm, and anti-oxidant activity. The maximum inhibitory effect was observed against Pseudomonas aeruginosa at (8 µg/mL), followed by Escherichia coli and Aspergillus niger at (32 µg/mL), and against Candida albicans (64 µg/mL), whereas Bacillus subtilis (128 µg/mL) and Staphylococcus aureus (256 µg/mL) were much less sensitive to AgNPs. The biosynthesized AgNPs displayed activity against MRSA, and the free radical scavenging activity was observed with an increase in the dosage of AgNPs from 25 to 200 µg/mL. AgNPs in combination with ampicillin displayed inhibition of the development of biofilm in Pseudomonas aeruginosa and Streptococcus pneumoniae at 98% and 83%, respectively. AgNPs were also successfully coated on the surface of cotton to prepare antimicrobial surgical cotton, which demonstrated inhibitory action against Bacillus subtilis (15 mm) and Escherichia coli (12 mm). The present research integrates microbiology, nanotechnology, and biomedical science to formulate environmentally friendly antimicrobial materials using halotolerant actinomycetes, evolving green nanotechnology in the biomedical field. Moreover, this study broadens the understanding of halotolerant actinomycetes and their potential and opens possibilities for formulating new antimicrobial products and therapies.

Improving crop salt tolerance through soil legacy effects

Soil salinization poses a critical problem, adversely affecting plant development and sustainable agriculture. Plants can produce soil legacy effects through interactions with the soil environments. Salt tolerance of plants in saline soils is not only determined by their own stress tolerance but is also closely related to soil legacy effects. Creating positive soil legacy effects for crops, thereby alleviating crop salt stress, presents a new perspective for improving soil conditions and increasing productivity in saline farmlands. Firstly, the formation and role of soil legacy effects in natural ecosystems are summarized. Then, the processes by which plants and soil microbial assistance respond to salt stress are outlined, as well as the potential soil legacy effects they may produce. Using this as a foundation, proposed the application of salt tolerance mechanisms related to soil legacy effects in natural ecosystems to saline farmlands production. One aspect involves leveraging the soil legacy effects created by plants to cope with salt stress, including the direct use of halophytes and salt-tolerant crops and the design of cropping patterns with the specific crop functional groups. Another aspect focuses on the utilization of soil legacy effects created synergistically by soil microorganisms. This includes the inoculation of specific strains, functional microbiota, entire soil which legacy with beneficial microorganisms and tolerant substances, as well as the application of novel technologies such as direct use of rhizosphere secretions or microbial transmission mechanisms. These approaches capitalize on the characteristics of beneficial microorganisms to help crops against salinity. Consequently, we concluded that by the screening suitable salt-tolerant crops, the development rational cropping patterns, and the inoculation of safe functional soils, positive soil legacy effects could be created to enhance crop salt tolerance. It could also improve the practical significance of soil legacy effects in the application of saline farmlands.

The Effects of Heavy Metal Pollution on Soil Nitrogen Transformation and Rice Volatile Organic Compounds under Different Water Management Practices

One of the most concerning global environmental issues is the pollution of agricultural soils by heavy metals (HMs), especially cadmium, which not only affects human health through Cd-containing foods but also impacts the quality of rice. The soil's nitrification and denitrification processes, coupled with the release of volatile organic compounds by plants, raise substantial concerns. In this review, we summarize the recent literature related to the deleterious effects of Cd on both soil processes related to the N cycle and rice quality, particularly aroma, in different water management practices. Under both continuous flooding (CF) and alternate wetting and drying (AWD) conditions, cadmium has been observed to reduce both the nitrification and denitrification processes. The adverse effects are more pronounced in alternate wetting and drying (AWD) as compared to continuous flooding (CF). Similarly, the alteration in rice aroma is more significant in AWD than in CF. The precise modulation of volatile organic compounds (VOCs) by Cd remains unclear based on the available literature. Nevertheless, HM accumulation is higher in AWD conditions compared to CF, leading to a detrimental impact on volatile organic compounds (VOCs). The literature concludes that AWD practices should be avoided in Cd-contaminated fields to decrease accumulation and maintain the quality of the rice. In the future, rhizospheric engineering and plant biotechnology can be used to decrease the transport of HMs from the soil to the plant's edible parts.

Biochar and nano biochar: Enhancing salt resilience in plants and soil while mitigating greenhouse gas emissions: A comprehensive review

Salinity stress poses a significant challenge to agriculture, impacting soil health, plant growth and contributing to greenhouse gas (GHG) emissions. In response to these intertwined challenges, the use of biochar and its nanoscale counterpart, nano-biochar, has gained increasing attention. This comprehensive review explores the heterogeneous role of biochar and nano-biochar in enhancing salt resilience in plants and soil while concurrently mitigating GHG emissions. The review discusses the effects of these amendments on soil physicochemical properties, improved water and nutrient uptake, reduced oxidative damage, enhanced growth and the alternation of soil microbial communities, enhance soil fertility and resilience. Furthermore, it examines their impact on plant growth, ion homeostasis, osmotic adjustment and plant stress tolerance, promoting plant development under salinity stress conditions. Emphasis is placed on the potential of biochar and nano-biochar to influence soil microbial activities, leading to altered emissions of GHG emissions, particularly nitrous oxide(N2O) and methane(CH4), contributing to climate change mitigation. The comprehensive synthesis of current research findings in this review provides insights into the multifunctional applications of biochar and nano-biochar, highlighting their potential to address salinity stress in agriculture and their role in sustainable soil and environmental management. Moreover, it identifies areas for further investigation, aiming to enhance our understanding of the intricate interplay between biochar, nano-biochar, soil, plants, and greenhouse gas emissions.

Interactive Effects of Microbial Fertilizer and Soil Salinity on the Hydraulic Properties of Salt-Affected Soil

Significant research has been conducted on the effects of fertilizers or agents on the sustainable development of agriculture in salinization areas. By contrast, limited consideration has been given to the interactive effects of microbial fertilizer (MF) and salinity on hydraulic properties in secondary salinization soil (SS) and coastal saline soil (CS). An incubation experiment was conducted to investigate the effects of saline soil types, salinity levels (non-saline, low-salinity, and high-salinity soils), and MF amounts (32.89 g kg-1 and 0 g kg-1) on soil hydraulic properties. Applied MF improved soil water holding capacity in each saline soil compared with that in CK, and SS was higher than CS. Applied MF increased saturated moisture, field capacity, capillary fracture moisture, the wilting coefficient, and the hygroscopic coefficient by 0.02-18.91% in SS, while it was increased by 11.62-181.88% in CS. It increased soil water supply capacity in SS (except for high-salinity soil) and CS by 0.02-14.53% and 0.04-2.34%, respectively, compared with that in CK. Soil available, readily available, and unavailable water were positively correlated with MF, while soil gravity and readily available and unavailable water were positively correlated with salinity in SS. Therefore, a potential fertilization program with MF should be developed to increase hydraulic properties or mitigate the adverse effects of salinity on plants in similar SS or CS areas.

Distribution of organophosphorus pesticides and its potential connection with probiotics in sediments of a shallow freshwater lake

Despite the serious health threats due to wide use of organophosphorus pesticides (OPPs) have been experimentally claimed to be remediated by probiotic microorganisms in various food and organism models, the interactions between OPPs and probiotics in the natural wetland ecosystem was rarely investigated. This study delves into the spatial and temporal distribution, contamination levels of OPPs in the Baiyangdian region, the diversity of probiotic communities in varying environmental contexts, and the potential connection with OPPs on these probiotics. In typical shallow lake wetland ecosystem-Baiyangdian lake in north China, eight OPPs were identified in the lake sediments, even though their detection rates were generally low. Malathion exhibited the highest average content among these pesticides (9.51 ng/g), followed by fenitrothion (6.70 ng/g). Conversely, chlorpyrifos had the lowest detection rate at only 2.14%. The region near Nanliu Zhuang (F10), significantly influenced by human activities, displayed the highest concentration of total OPPs (136.82 ng/g). A total of 145 probiotic species spanning 78 genera were identified in Baiyangdian sediments. Our analysis underscores the relations of environmental factors such as phosphatase activity, pH, and electrical conductivity (EC) with probiotic community. Notably, several high-abundance probiotics including Pseudomonas chlororaphis, Clostridium sp., Lactobacillus fermentum, and Pseudomonas putida, etc., which were reported to exhibit significant potential for the degradation of OPPs, showed strongly correlations with OPPs in the Baiyangdian lake sediments. The outcomes of this research offer valuable insights into the spatiotemporal dynamics of OPPs in natural large lake wetland and the probability of their in-situ residue bioremediation through the phosphatase pathway mediated by probiotic such as Lactic acid bacteria in soils/sediments contaminated with OPPs.

Juvenile Plant-Microbe Interactions Modulate the Adaptation and Response of Forest Seedlings to Rapid Climate Change

The negative impacts of climate change on native forest ecosystems have created challenging conditions for the sustainability of natural forest regeneration. These challenges arise primarily from abiotic stresses that affect the early stages of forest tree development. While there is extensive evidence on the diversity of juvenile microbial symbioses in agricultural and fruit crops, there is a notable lack of reports on native forest plants. This review aims to summarize the critical studies conducted on the diversity of juvenile plant-microbe interactions in forest plants and to highlight the main benefits of beneficial microorganisms in overcoming environmental stresses such as drought, high and low temperatures, metal(loid) toxicity, nutrient deficiency, and salinity. The reviewed studies have consistently demonstrated the positive effects of juvenile plant-microbiota interactions and have highlighted the potential beneficial attributes to improve plantlet development. In addition, this review discusses the beneficial attributes of managing juvenile plant-microbiota symbiosis in the context of native forest restoration, including its impact on plant responses to phytopathogens, promotion of nutrient uptake, facilitation of seedling adaptation, resource exchange through shared hyphal networks, stimulation of native soil microbial communities, and modulation of gene and protein expression to enhance adaptation to adverse environmental conditions.

Technogenic soil salinisation, vegetation, and management shape microbial abundance, diversity, and activity

The importance of the microbiome in the functioning of degraded lands in industrialised zones is significant. However, little is known about how environmental parameters affect microbial abundance, structure, diversity, and especially specific guilds involved in the nitrogen cycle in saline soils influenced by the soda industry. To address this knowledge gap, our research focused on assessing the microbiota in relation to soil properties and plant species composition across two transects representing different types of land use: saline wasteland and arable fields. Our findings show that the microbial communities were the most affected not only by soil salinity but also by pH and the composition of plant species. Taxonomic variability was the most shaped by salinity together with management type and CaCO3 content. The impact of salinity on the soil microbiome was manifested in a reduced abundance of bacteria and fungi, a lower number of observed phylotypes, reduced modularity, and a lower abundance of the nitrifying guild. Denitrification and nitrogen fixation were less affected by salinity. The last process was correlated with calcium carbonate. CaCO3 was also associated with microbial taxonomic variability and the overall microbial activity caused by hydrolases, which could aid organic matter turnover in saline but carbonate-rich sites. Bacterial genera such as Bacillus, Peanibacillus, and Rhodomicrobium, in addition to fungal taxa such as Cadophora, Mortierella globalpina, Preussia flanaganii, and Chrysosporium pseudomerdarium, show potential as favourable candidates for possible bioremediation initiatives. These results can be applied to future land reclamation projects. FUNDING INFORMATION: This research received no specific grant from funding agencies in the public, commercial, or not-for-profit sectors.