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Search Results (245)

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Keywords = soil microbial and enzymatic activities

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15 pages, 4340 KiB  
Article
Variations in Fine-Root Traits of Pseudotsuga sinensis Across Different Rocky-Desertification Gradients
by Wangjun Li, Shun Zou, Dongpeng Lv, Bin He and Xiaolong Bai
Diversity 2025, 17(8), 533; https://doi.org/10.3390/d17080533 - 29 Jul 2025
Viewed by 121
Abstract
Plant functional traits serve as vital tools for understanding vegetation adaptation mechanisms in changing environments. As the primary organs for nutrient acquisition from soil, fine roots are highly sensitive to environmental variations. However, current research on fine-root adaptation strategies predominantly focuses on tropical, [...] Read more.
Plant functional traits serve as vital tools for understanding vegetation adaptation mechanisms in changing environments. As the primary organs for nutrient acquisition from soil, fine roots are highly sensitive to environmental variations. However, current research on fine-root adaptation strategies predominantly focuses on tropical, subtropical, and temperate forests, leaving a significant gap in comprehensive knowledge regarding fine-root responses in rocky-desertification habitats. This study investigates the fine roots of Pseudotsuga sinensis across varying degrees of rocky desertification (mild, moderate, severe, and extremely severe). By analyzing fine-root morphological and nutrient traits, we aim to elucidate the trait differences and correlations under different desertification intensities. The results indicate that root dry matter content increases significantly with escalating desertification severity. Fine roots in mild and extremely severe desertification exhibit notably higher root C, K, and Mg concentrations compared to those in moderate and severe desertification, while root Ca concentration shows an inverse trend. Our correlation analyses reveal a highly significant positive relationship between specific root length and specific root area, whereas root dry matter content demonstrates a significant negative correlation with elemental concentrations. The principal component analysis (PCA) further indicates that the trait associations adopted by the forest in mild- and extremely severe-desertification environments are different from those in moderate- and severe-desertification environments. This study did not account for soil nutrient dynamics, microbial diversity, or enzymatic activity—key factors influencing fine-root adaptation. Future research should integrate root traits with soil properties to holistically assess resource strategies in rocky-desertification ecosystems. This study can serve as a theoretical reference for research on root characteristics and adaptation strategies of plants in rocky-desertification habitats. Full article
(This article belongs to the Section Plant Diversity)
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20 pages, 2984 KiB  
Article
Influence of Rice–Crayfish Co-Culture Systems on Soil Properties and Microbial Communities in Paddy Fields
by Dingyu Duan, Dingxuan He, Liangjie Zhao, Chenxi Tan, Donghui Yang, Wende Yan, Guangjun Wang and Xiaoyong Chen
Plants 2025, 14(15), 2320; https://doi.org/10.3390/plants14152320 - 27 Jul 2025
Viewed by 351
Abstract
Integrated rice–crayfish (Oryza sativaProcambarus clarkii) co-culture (RC) systems have gained prominence due to their economic benefits and ecological sustainability; however, the interactions between soil properties and microbial communities in such systems remain poorly understood. This study evaluated the effects [...] Read more.
Integrated rice–crayfish (Oryza sativaProcambarus clarkii) co-culture (RC) systems have gained prominence due to their economic benefits and ecological sustainability; however, the interactions between soil properties and microbial communities in such systems remain poorly understood. This study evaluated the effects of the RC systems on soil physicochemical characteristics and microbial dynamics in paddy fields of southern Henan Province, China, over the 2023 growing season and subsequent fallow period. Using a randomized complete design, rice monoculture (RM, as the control) and RC treatments were compared across replicated plots. Soil and water samples were collected post-harvest and pre-transplanting to assess soil properties, extracellular enzyme activity, and microbial community structure. Results showed that RC significantly enhanced soil moisture by up to 30.2%, increased soil porosity by 9.6%, and nearly tripled soil organic carbon compared to RM. The RC system consistently elevated nitrogen (N), phosphorus (P), and potassium (K) throughout both the rice growth and fallow stages, indicating improved nutrient availability and retention. Elevated extracellular enzyme activities linked to carbon, N, and P cycling were observed under RC, with enzymatic stoichiometry revealing increased microbial nutrient limitation intensity and a shift toward P limitation. Microbial community composition was significantly altered under RC, showing increased biomass, a higher fungi-to-bacteria ratio, and greater relative abundance of Gram-positive bacteria, reflecting enhanced soil biodiversity and ecosystem resilience. Further analyses using the Mantel test and Random Forest identified extracellular enzyme activities, PLFAs, soil moisture, and bulk density as major factors shaping microbial communities. Redundancy analysis (RDA) confirmed that total potassium (TK), vector length (VL), soil pH, and total nitrogen (TN) were the strongest environmental predictors of microbial variation, jointly explaining 74.57% of the total variation. Our findings indicated that RC improves soil physicochemical conditions and microbial function, thereby supporting sustainable nutrient cycling and offering a promising, environmentally sound strategy for enhancing productivity and soil health in rice-based agro-ecosystems. Full article
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21 pages, 2263 KiB  
Article
Elevational Patterns and Drivers of Soil Total, Microbial, and Enzymatic C:N:P Stoichiometry in Karst Peak-Cluster Depressions in Southwestern China
by Siyu Chen, Chaohao Xu, Cong Hu, Chaofang Zhong, Zhonghua Zhang and Gang Hu
Forests 2025, 16(8), 1216; https://doi.org/10.3390/f16081216 - 24 Jul 2025
Viewed by 269
Abstract
Elevational gradients in temperature, moisture, and vegetation strongly influence soil nutrient content and stoichiometry in mountainous regions. However, exactly how total, microbial, and enzymatic carbon (C), nitrogen (N), and phosphorus (P) stoichiometry vary with elevation in karst peak-cluster depressions remains poorly understood. To [...] Read more.
Elevational gradients in temperature, moisture, and vegetation strongly influence soil nutrient content and stoichiometry in mountainous regions. However, exactly how total, microbial, and enzymatic carbon (C), nitrogen (N), and phosphorus (P) stoichiometry vary with elevation in karst peak-cluster depressions remains poorly understood. To address this, we studied soil total, microbial, and enzymatic C:N:P stoichiometry in seasonal rainforests within karst peak-cluster depressions in southwestern China at different elevations (200, 300, 400, and 500 m asl) and depths (0–20 and 20–40 cm). We found that soil organic carbon (SOC), total nitrogen (TN), and the C:P and N:P ratios increased significantly with elevation, whereas total phosphorus (TP) decreased. Microbial phosphorus (MBP) also declined with elevation, while the microbial N:P ratio rose. Activities of nitrogen- (β-N-acetylglucosaminidase and L-leucine aminopeptidase combined) and phosphorus-related enzymes (alkaline phosphatase) increased markedly with elevation, suggesting potential phosphorus limitation for plant growth at higher elevations. Our results suggest that total, microbial, and enzymatic soil stoichiometry are collectively shaped by topography and soil physicochemical properties, with elevation, pH, and exchangeable calcium (ECa) acting as the key drivers. Microbial stoichiometry exhibited positive interactions with soil stoichiometry, while enzymatic stoichiometry did not fully conform to the expectations of resource allocation theory, likely due to the functional specificity of phosphatase. Overall, these findings enhance our understanding of C–N–P biogeochemical coupling in karst ecosystems, highlight potential nutrient limitations, and provide a scientific basis for sustainable forest management in tropical karst regions. Full article
(This article belongs to the Section Forest Soil)
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19 pages, 3162 KiB  
Article
Diversity and Functional Differences in Soil Bacterial Communities in Wind–Water Erosion Crisscross Region Driven by Microbial Agents
by Tao Kong, Tong Liu, Zhihui Gan, Xin Jin and Lin Xiao
Agronomy 2025, 15(7), 1734; https://doi.org/10.3390/agronomy15071734 - 18 Jul 2025
Cited by 1 | Viewed by 480
Abstract
Soil erosion-prone areas require effective microbial treatments to improve soil bacterial communities and functional traits. Understanding the driving effects of different microbial interventions on soil ecology is essential for restoration efforts. Single and combined microbial treatments were applied to soil. Bacterial community structure [...] Read more.
Soil erosion-prone areas require effective microbial treatments to improve soil bacterial communities and functional traits. Understanding the driving effects of different microbial interventions on soil ecology is essential for restoration efforts. Single and combined microbial treatments were applied to soil. Bacterial community structure was analyzed via 16S IRNA high-throughput sequencing, and functional groups were predicted using FAPROTAX. Soil microbial carbon, nitrogen, metabolic entropy, and enzymatic activity were assessed. Microbial Carbon and Metabolic Activity: The Arbuscular mycorrhizal fungi (AMF) and Bacillus mucilaginosus (BM) (AMF.BM) treatment exhibited the highest microbial carbon content and the lowest metabolic entropy. The microbial carbon-to-nitrogen ratio ranged from 1.27 to 3.69 across all treatments. Bacterial Community Composition: The dominant bacterial phyla included Firmicutes, Proteobacteria, Acidobacteria, Bacteroidetes, and Actinobacteria. Diversity and Richness: The AMF and Trichoderma harzianum (TH) (AMF.TH) treatment significantly reduced diversity, richness, and phylogenetic diversity indices, while the AMF.BM treatment showed a significantly higher richness index (p < 0.05). Relative Abundance of Firmicutes: Compared to the control, the AMF, TH.BM, and TH treatments decreased the relative abundance of Firmicutes, whereas the AMF.TH treatment increased their relative abundance. Environmental Correlations: Redundancy and correlation analyses revealed significant correlations between soil organic matter, magnesium content, and sucrase activity and several major bacterial genera. Functional Prediction: The AMF.BM treatment enhanced the relative abundance and evenness of bacterial ecological functions, primarily driving nitrification, aerobic ammonia oxidation, and ureolysis. Microbial treatments differentially influence soil bacterial communities and functions. The AMF.BM combination shows the greatest potential for ecological restoration in erosion-prone soils. Full article
(This article belongs to the Section Agroecology Innovation: Achieving System Resilience)
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21 pages, 1206 KiB  
Article
Evaluation of Olive Mill Waste Compost as a Sustainable Alternative to Conventional Fertilizers in Wheat Cultivation
by Ana García-Rández, Silvia Sánchez Méndez, Luciano Orden, Francisco Javier Andreu-Rodríguez, Miguel Ángel Mira-Urios, José A. Sáez-Tovar, Encarnación Martínez-Sabater, María Ángeles Bustamante, María Dolores Pérez-Murcia and Raúl Moral
Agriculture 2025, 15(14), 1543; https://doi.org/10.3390/agriculture15141543 - 17 Jul 2025
Viewed by 344
Abstract
This study evaluates the agronomic and environmental performance of pelletized compost derived from olive mill waste as a sustainable alternative to mineral fertilizers for cultivating wheat (Triticum turgidum L.) under conventional tillage methods. A field experiment was conducted in semi-arid Spain, employing [...] Read more.
This study evaluates the agronomic and environmental performance of pelletized compost derived from olive mill waste as a sustainable alternative to mineral fertilizers for cultivating wheat (Triticum turgidum L.) under conventional tillage methods. A field experiment was conducted in semi-arid Spain, employing three fertilization strategies: inorganic (MAP + Urea), sewage sludge (SS), and organic compost pellets (OCP), each providing 150 kg N ha−1. The parameters analyzed included wheat yield, grain quality, soil properties, and greenhouse gas (GHG) emissions. Inorganic fertilization yielded the highest productivity and nutrient uptake. However, the OCP treatment reduced grain yield by only 15%, while improving soil microbial activity and enzymatic responses. The SS and OCP treatments showed increased CO2 and N2O emissions compared to the control and inorganic plots. However, the OCP treatment also acted as a CH4 sink. Nutrient use efficiency was greatest under mineral fertilization, though the OCP treatment outperformed the SS treatment. These results highlight the potential of OCP as a circular bio-based fertilizer that can enhance soil function and partially replace mineral inputs. Optimizing application timing is critical to aligning nutrient release with crop demand. Further long-term trials are necessary to evaluate their impact on the soil and improve environmental outcomes. Full article
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15 pages, 845 KiB  
Article
Aboveground and Belowground Input Effects on Soil Health in Urban Camphor Tree Forests
by Xuejia Huang, Yuanying Peng, Wende Yan, Tianyi Yan, Xiaocui Liang, Junjie Lei, Xiaoyong Chen and Yaqin Qi
Sustainability 2025, 17(14), 6358; https://doi.org/10.3390/su17146358 - 11 Jul 2025
Viewed by 231
Abstract
Urban forests provide essential ecosystem services, including improving soil health, sequestering carbon (C), and supporting biodiversity. However, the effects of anthropogenic litter and root management on soil biogeochemical processes in urban environments remain poorly understood. This study applied the Detritus Inputs and Removal [...] Read more.
Urban forests provide essential ecosystem services, including improving soil health, sequestering carbon (C), and supporting biodiversity. However, the effects of anthropogenic litter and root management on soil biogeochemical processes in urban environments remain poorly understood. This study applied the Detritus Inputs and Removal Treatment (DIRT) framework to examine how aboveground and belowground organic inputs influence soil organic carbon (SOC), total nitrogen (TN), soil water content (SWC), and enzymatic activities in subtropical urban camphor tree forests in China. Six treatments were implemented: litter removal (LR), litter addition (LA), root exclusion (RE), combined litter and root removal (LR + RE), combined litter addition and root exclusion (LA + RE), and an undisturbed litter control (LC). The results showed that the LA treatment significantly enhanced SOC, TN, SWC, and key soil enzyme activities (protease, catalase, and urease) compared to the LC, highlighting the crucial role of litter in enhancing soil fertility and microbial functioning. These elevated enzyme activities suggest intensified microbial nutrient cycling and metabolic activity in response to organic matter inputs. In contrast, the combined LR + RE treatment reduced SOC and enzyme activities but unexpectedly increased TN, indicating disrupted nutrient cycling, possibly due to accelerated microbial nitrogen mineralization and decomposition of existing soil organic matter in the absence of fresh carbon inputs. The LA treatment also showed the highest carbon-to-nitrogen (C:N) ratio, reflecting a carbon-enriched environment that may favor long-term carbon stabilization. Additionally, SWC was most improved under the LA + RE treatment, suggesting its potential for enhancing soil moisture retention in urban settings. These findings underscore the complementary roles of litter and root inputs in maintaining soil health and biogeochemical balance in urban forests. The study provides insights into enzyme-mediated soil processes under varying organic input regimes and highlights the value of targeted organic matter management to enhance urban ecosystem services. Full article
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21 pages, 3177 KiB  
Article
The Physiological and Biochemical Mechanisms Bioprimed by Spermosphere Microorganisms on Ormosia henryi Seeds
by Meng Ge, Xiaoli Wei, Yongming Fan, Yan Wu, Mei Fan and Xueqing Tian
Microorganisms 2025, 13(7), 1598; https://doi.org/10.3390/microorganisms13071598 - 7 Jul 2025
Viewed by 327
Abstract
The hard-seed coat of Ormosia henryi significantly impedes germination efficiency in massive propagation, while conventional physical dormancy-breaking methods often result in compromised seed vigor, asynchronous seedling emergence, and diminished stress tolerance. Seed biopriming, an innovative technique involving the inoculation of beneficial microorganisms onto [...] Read more.
The hard-seed coat of Ormosia henryi significantly impedes germination efficiency in massive propagation, while conventional physical dormancy-breaking methods often result in compromised seed vigor, asynchronous seedling emergence, and diminished stress tolerance. Seed biopriming, an innovative technique involving the inoculation of beneficial microorganisms onto seed surfaces or into germination substrates, enhances germination kinetics and emergence uniformity through microbial metabolic functions and synergistic interactions with seed exudates. Notably, spermosphere-derived functional bacteria isolated from native spermosphere soil demonstrate superior colonization capacity and sustained bioactivity. This investigation employed selective inoculation of these indigenous functional strains to systematically analyze dynamic changes in endogenous phytohormones, enzymatic activities, and storage substances during critical germination phases, thereby elucidating the physiological mechanisms underlying biopriming-enhanced germination. The experimental results demonstrated significant improvements in germination parameters through biopriming. Inoculation with the Bacillus sp. strain achieved a peak germination rate (76.19%), representing a 16.19% increase over the control (p < 0.05). The biopriming treatment effectively improved the seed vigor, broke the impermeability of the seed coat, accelerated the germination speed, and positively regulated physiological indicators, especially amylase activity and the ratio of gibberellic acid to abscisic acid. This study establishes a theoretical framework for microbial chemotaxis and rhizocompetence in seed priming applications while providing an eco-technological solution for overcoming germination constraints in O. henryi cultivation. The optimized biopriming protocol addresses both low germination rates and post-germination growth limitations, providing technical support for the seedling cultivation of O. henryi. Full article
(This article belongs to the Section Plant Microbe Interactions)
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14 pages, 1278 KiB  
Article
High Ratio of Manure Substitution Enhanced Soil Organic Carbon Storage via Increasing Particulate Organic Carbon and Nutrient Availability
by Xiaoyu Hao, Xingzhu Ma, Lei Sun, Shuangquan Liu, Jinghong Ji, Baoku Zhou, Yue Zhao, Yu Zheng, Enjun Kuang, Yitian Liu and Shicheng Zhao
Plants 2025, 14(13), 2045; https://doi.org/10.3390/plants14132045 - 3 Jul 2025
Viewed by 414
Abstract
Replacing partial chemical fertilizers with organic fertilizer can increase organic carbon input, change soil nutrient stoichiometry and microbial metabolism, and then affect soil organic carbon (SOC) storage. A 6-year field experiment was used to explore the mechanism of SOC storage under different ratios [...] Read more.
Replacing partial chemical fertilizers with organic fertilizer can increase organic carbon input, change soil nutrient stoichiometry and microbial metabolism, and then affect soil organic carbon (SOC) storage. A 6-year field experiment was used to explore the mechanism of SOC storage under different ratios of manure substitution in northeast China, with treatments including chemical fertilizer application alone (nitrogen, phosphorus, and potassium, NPK) and replacing 1/4 (1/4M), 2/4 (2/4M), 3/4 (3/4M), and 4/4 (4/4M) of chemical fertilizer N with manure N. Soil nutrients, enzymatic activity, and SOC fractions were analyzed to evaluate the effect of different manure substitution ratios on SOC storage. A high ratio of manure substitution (>1/4) significantly increased soil total N, total P, total K, and available nutrients (NO3-N, available P, and available K), and the 4/4M greatly decreased the C/N ratio compared to the NPK. Manure incorporation increased microbial biomass carbon (MBC) by 18.3–53.0%. Treatments with 50%, 75%, and 100% manure substitution (2/4M, 3/4M, and 4/4M) enhanced bacterial necromass carbon (BNC), fungal necromass carbon (FNC), and total microbial necromass carbon (MNC) by 31.9–63.5%, 25.5–107.1%, and 27.4–94.2%, respectively, compared to the NPK treatment. Notably, the increase in FNC was greater than that of BNC as the manure substitution ratio increased. The increasing manure substitution significantly enhanced particulate organic C (POC) and total SOC but did not affect mineral-associated organic C (MAOC). High soil N and P supplies decreased leucine aminopeptidases (LAPs) and alkaline phosphatase activities but increased the activity ratio of β-glucosidase (BG)/(N-acetyl-glucosaminidase (NAG) + LAP). Treatments with 25% manure substitution (1/4M) maintained maize and soybean yield, but with increasing manure rate, the maize yield decreased gradually. Overall, the high ratio of manure substitution enhanced SOC storage via increasing POC and MNC, and decreasing the decomposition potential of manure C and soil C resulting from low N- and P-requiring enzyme activities under high nutrient supplies. This study provides empirical evidence that the rational substitution of chemical fertilizers with manure is an effective measure to improve the availability of nutrients, and its effect on increasing crop yields still needs to be continuously observed, which is still a beneficial choice for enhancing black soil fertility. Full article
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22 pages, 4324 KiB  
Article
Effect of Grassland Vegetation Units on Soil Biochemical Properties and the Abundance of Selected Microorganisms in the Obra River Valley
by Justyna Mencel, Anna Wojciechowska and Agnieszka Mocek-Płóciniak
Agronomy 2025, 15(7), 1573; https://doi.org/10.3390/agronomy15071573 - 27 Jun 2025
Viewed by 244
Abstract
The study examined seasonal variability in soil enzymatic activity and microbial abundance across five grassland vegetation units: Molinietum caeruleae, Alopecuretum pratensis, Arrhenatheretum elatioris, LolioCynosuretum, and com. Poa pratensisFestuca rubra. Soils under Molinietum caeruleae showed [...] Read more.
The study examined seasonal variability in soil enzymatic activity and microbial abundance across five grassland vegetation units: Molinietum caeruleae, Alopecuretum pratensis, Arrhenatheretum elatioris, LolioCynosuretum, and com. Poa pratensisFestuca rubra. Soils under Molinietum caeruleae showed higher fungal abundance and greater plant diversity, while LolioCynosuretum was notable for elevated Azotobacter spp. populations. Actinobacteria preferred soils with more organic matter, whereas Azotobacter spp. favored higher pH. A negative correlation was observed between the Shannon diversity index (H′) and heterotrophic bacterial abundance in Arrhenatheretum elatioris and with fungal abundance in com. Poa pratensisFestuca rubra. Acid and alkaline phosphatase and catalase activities were also negatively correlated with H′. Redundancy analysis showed these enzymes were related to total nitrogen content, and enzyme activity decreased with rising soil pH. In autumn 2022, high fungal abundance coincided with a reduction in other microorganisms. Seasonal trends were evident: catalase and urease activities peaked in autumn 2023, while other enzymes were more active in spring 2022. The results emphasize the significance of seasonal shifts in shaping microbial and enzymatic soil processes, which are vital for nutrient cycling, carbon sequestration, and climate regulation. Further research is essential to guide sustainable grassland soil management. Full article
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16 pages, 1643 KiB  
Article
Interactive Effect of Microplastics and Fungal Pathogen Rhizoctonia solani on Antioxidative Mechanism and Fluorescence Activity of Invasive Species Solidago canadensis
by Muhammad Anas, Irfan Ullah Khan, Rui-Ke Zhang, Shan-Shan Qi, Zhi-Cong Dai and Dao-Lin Du
Plants 2025, 14(13), 1972; https://doi.org/10.3390/plants14131972 - 27 Jun 2025
Viewed by 578
Abstract
Microplastics and invasive species, driven by anthropogenic activities, significantly disrupt ecosystems and microbial communities. This study investigated the interactive effects of biodegradable microplastics (polylactic acid, or PLA, and polyhydroxyalkanoates, or PHAs) and the fungal pathogen Rhizoctonia solani on the invasive plant Solidago canadensis [...] Read more.
Microplastics and invasive species, driven by anthropogenic activities, significantly disrupt ecosystems and microbial communities. This study investigated the interactive effects of biodegradable microplastics (polylactic acid, or PLA, and polyhydroxyalkanoates, or PHAs) and the fungal pathogen Rhizoctonia solani on the invasive plant Solidago canadensis. One plant of Solidago canadensis/pot was cultivated in forest soil amended with 1% (w/w) microplastics and/or R. solani. PLA exhibited greater toxicity than PHAs, reducing the plant height, root length, and biomass by 68%, 44%, and 70%, respectively. Microplastics impaired the maximum quantum yield of photosystem II more severely than R. solani. However, S. canadensis demonstrated adaptive antioxidative and extracellular enzymatic mechanisms under combined stresses. A heatmap analysis revealed a positive correlation between PHAs and plant growth traits, while a redundancy analysis explained the 15.96% and 4.19% variability for the first two components (r2 = 0.95). A structural equation model indicated the negative effects of morphology and physiology on biomass (β = −1.694 and β = −0.932; p < 0.001), countered by positive antioxidant contributions (β = 1.296; p < 0.001). These findings highlight complex interactions among microplastics, pathogens, and invasive species, offering insights into ecological management strategies under dual environmental pressures. Future studies should assess the long-term field effects and microbial mediation of these interactions. Full article
(This article belongs to the Section Plant Protection and Biotic Interactions)
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19 pages, 3778 KiB  
Article
Coal Gangue Ecological Matrix Coupled with Microalgae for Soil Improvement and Plant Growth in Reclaimed Mining Areas
by Shuyu Yu, Jinning Li, Dandan Du, Hao Li, Jiayong Hao, Zedong Teng and Xiang Ji
Biology 2025, 14(7), 741; https://doi.org/10.3390/biology14070741 - 21 Jun 2025
Viewed by 300
Abstract
Coal gangue, a primary byproduct of coal mining, causes significant environmental harm due to its improper utilization. This research proposes integrating microalgae with coal gangue-derived ecological products to improve soil conditions in ecologically vulnerable coal-mining regions. A field-scale experiment at the Jintong Coal [...] Read more.
Coal gangue, a primary byproduct of coal mining, causes significant environmental harm due to its improper utilization. This research proposes integrating microalgae with coal gangue-derived ecological products to improve soil conditions in ecologically vulnerable coal-mining regions. A field-scale experiment at the Jintong Coal Mine tested soils amended with varying proportions of a coal gangue ecological matrix (0%, 10%, 30%, and 50%), with and without microalgae inoculation. The results demonstrated that coal gangue addition caused undesirable soil pH decreases (11.30~42.20%) while increasing total dissolved solids (506.88~524.93%) and organic matter (8.51~46.81%). These effects were mitigated by the presence of microalgae. Microalgae play a role in regulating soil nutrient profiles, enhancing enzymatic activities, and modulating the microbial community structure. For example, they restored catalase activity under the stress imposed by coal gangue and stimulated urease activity at higher coal gangue proportions. Plant growth trials revealed that adding 30% coal gangue or combining coal gangue with microalgae significantly promoted the growth of Medicago sativa L. In summary, coupling the coal gangue ecological matrix with microalgae effectively enhances soil quality. Maintaining the coal gangue addition at 30% or less in conjunction with microalgae application represents an optimal approach for soil improvement in mining areas. Full article
(This article belongs to the Section Microbiology)
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20 pages, 2283 KiB  
Article
Functional and Genomic Evidence of L-Arginine-Dependent Bacterial Nitric Oxide Synthase Activity in Paenibacillus nitricinens sp. nov.
by Diego Saavedra-Tralma, Alexis Gaete, Carolina Merino-Guzmán, Maribel Parada-Ibáñez, Francisco Nájera-de Ferrari and Ignacio Jofré-Fernández
Biology 2025, 14(6), 733; https://doi.org/10.3390/biology14060733 - 19 Jun 2025
Viewed by 555
Abstract
Although nitric oxide (NO) production in bacteria has traditionally been associated with denitrification or stress responses in model or symbiotic organisms, functionally validated L-arginine-dependent nitric oxide synthase (bNOS) activity has not been documented in free-living, non-denitrifying soil bacteria. This paper reports Paenibacillus nitricinens [...] Read more.
Although nitric oxide (NO) production in bacteria has traditionally been associated with denitrification or stress responses in model or symbiotic organisms, functionally validated L-arginine-dependent nitric oxide synthase (bNOS) activity has not been documented in free-living, non-denitrifying soil bacteria. This paper reports Paenibacillus nitricinens sp. nov., a bacterium isolated from rainforest soil capable of synthesizing NO via a bNOS under aerobic conditions. A bnos-specific PCR confirmed gene presence, while whole-genome sequencing (6.7 Mb, 43.79% GC) revealed two nitrogen metabolism pathways, including a bnos-like gene. dDDH (<70%) and ANI (<95%) values with related Paenibacillus strains support the delineation of this isolate as a distinct species. Extracellular and intracellular NO measurements under aerobic conditions showed a dose-dependent response, with detectable production at 0.1 µM L-arginine and saturation at 100 µM. The addition of L-NAME reduced NO formation, confirming enzymatic mediation. The genomic identification of a bnos-like gene strongly supports the presence of a functional pathway. The absence of canonical nitric oxide reductase (Nor) genes or other typical denitrification-related enzymes reinforces that NO production arises from an alternative, intracellular enzymatic mechanism rather than classical denitrification. Consequently, P. nitricinens expands the known repertoire of microbial NO synthesis and suggests a previously overlooked source of NO flux in well-aerated soils. Full article
(This article belongs to the Section Microbiology)
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24 pages, 1710 KiB  
Review
Impacts of Cerium Dioxide Nanoparticles on the Soil–Plant System and Their Potential Agricultural Applications
by Nadeesha L. Ukwattage and Zhang Zhiyong
Nanomaterials 2025, 15(12), 950; https://doi.org/10.3390/nano15120950 - 19 Jun 2025
Viewed by 416
Abstract
Cerium dioxide nanoparticles (CeO2-NPs) are increasingly used in various industrial applications, leading to their inevitable release into the environment including the soil ecosystem. In soil, CeO2-NPs are taken up by plants, translocated, and accumulated in plant tissues. Within plant [...] Read more.
Cerium dioxide nanoparticles (CeO2-NPs) are increasingly used in various industrial applications, leading to their inevitable release into the environment including the soil ecosystem. In soil, CeO2-NPs are taken up by plants, translocated, and accumulated in plant tissues. Within plant tissues, CeO2-NPs have been shown to interfere with critical metabolic pathways, which may affect plant health and productivity. Moreover, their presence in soil can influence soil physico-chemical and biological properties, including microbial communities within the rhizosphere, where they can alter microbial physiology, diversity, and enzymatic activities. These interactions raise concerns about the potential disruption of plant–microbe symbiosis essential for plant nutrition and soil health. Despite these challenges, CeO2-NPs hold potential as tools for enhancing crop productivity and resilience to stress, such as drought or heavy metal contamination. However, understanding the balance between their beneficial and harmful effects is crucial for their safe application in agriculture. To date, the overall impact of CeO2-NPs on soil -plant system and the underlying mechanism remains unclear. Therefore, this review analyses the recent research findings to provide a comprehensive understanding of the fate of CeO2-NPs in soil–plant systems and the implications for soil health, plant growth, and agricultural productivity. As the current research is limited by inconsistent findings, often due to variations in experimental conditions, it is essential to study CeO2-NPs under more ecologically relevant settings. This review further emphasizes the need for future research to assess the long-term environmental impacts of CeO2-NPs in soil–plant systems and to develop guidelines for their responsible use in sustainable agriculture. Full article
(This article belongs to the Special Issue Interplay between Nanomaterials and Plants)
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21 pages, 2472 KiB  
Article
Integrating Soil Physicochemical Properties and Microbial Functional Prediction to Assess Land-Use Impacts in a Cold-Region Wetland Ecosystem
by Junnan Ding and Shaopeng Yu
Life 2025, 15(6), 972; https://doi.org/10.3390/life15060972 - 18 Jun 2025
Viewed by 502
Abstract
This study investigated the effects of land-use change and wetland restoration on soil microbial community diversity, structure, and function in a cold-region wetland ecosystem. Soil samples from six land-use types were analyzed for key physicochemical and biochemical properties, including soil water content, pH, [...] Read more.
This study investigated the effects of land-use change and wetland restoration on soil microbial community diversity, structure, and function in a cold-region wetland ecosystem. Soil samples from six land-use types were analyzed for key physicochemical and biochemical properties, including soil water content, pH, total nitrogen, soil organic carbon (SOC), and enzymatic activities. Significant differences in carbon and nitrogen availability were observed, with restored wetland soils showing higher SOC and moisture levels, while agricultural soils exhibited elevated nitrate concentrations. Bacterial community composition was estimated based on 16S ribosomal RNA gene sequencing, and microbial functional profiles were predicted using Functional Annotation of Prokaryotic Taxa (FAPROTAX) and BugBase. Bacterial communities were dominated by Proteobacteria, Actinobacteriota, and Acidobacteriota, with significant shifts among land-use types. Redundancy analysis revealed that SOC, SWC, total nitrogen (TN), and pH were key drivers of community differentiation. Functional prediction showed enrichment of fermentation and anaerobic metabolism in restored wetlands, while aerobic carbon metabolism dominated in agricultural and forest soils. These findings demonstrate that wetland restoration improves both taxonomic and functional diversity. While ecosystem multifunctionality and resilience were not directly quantified, the observed increases in microbial richness, functional group diversity, and enzymatic activity suggest enhanced ecological capacity and potential for system stability in cold-region wetlands. Full article
(This article belongs to the Section Microbiology)
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18 pages, 2736 KiB  
Article
Synergistic Effects of Different Endophytic Actinobacteria Combined with Organic Fertilizer on Soil Nutrients and Microbial Diversity in Camellia oleifera
by Yinghe Peng, Kunpeng Cui, Huimin Jian, Zhen Zhang, Longsheng Chen, Yanming Xu, Zhigang Li, Hongsheng Liu, Ting Xu and Rui Wang
Microorganisms 2025, 13(6), 1396; https://doi.org/10.3390/microorganisms13061396 - 15 Jun 2025
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Abstract
Camellia oleifera, a prominent species of edible oil tree in China, depends on improved soil fertility for its sustainable growth. Although the application of bacterial manure has been demonstrated to enhance soil nutrient conditions, the specific contributions of endophytes within fertilizers and [...] Read more.
Camellia oleifera, a prominent species of edible oil tree in China, depends on improved soil fertility for its sustainable growth. Although the application of bacterial manure has been demonstrated to enhance soil nutrient conditions, the specific contributions of endophytes within fertilizers and their interactions with soil microbial ecosystems remain inadequately explored. This study investigates the impact of organic fertilizers combined with three endophytes (CoT10, CoH27, and CoH17) on the physicochemical properties, enzymatic activities, and microbial diversity of soils in C. oleifera plantations. Findings indicate that the integration of endophytes with organic fertilizers significantly improved soil nutrient levels (including total nitrogen, total phosphorus, and hydrolysable nitrogen), enzymatic activities (such as phosphatase, amylase, and nitrate reductase), and microbial diversity compared to the application of organic fertilizer alone. Notably, the endophyte CoT10, when applied alone with organic fertilizer, resulted in increased levels of total nitrogen, total phosphorus, and hydrolysable nitrogen in the soil, as well as a marked enhancement in the activities of soil phosphatase, amylase, and nitrate reductase. Furthermore, the combination of CoT10 with other endophytes in organic fertilizer improved the functionality of the other microorganisms and the efficiency of organic fertilizer utilization. This study underscores the synergistic effects of endophytes and organic fertilizers, providing scientific insights and practical strategies for the sustainable cultivation of C. oleifera. Full article
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