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Keywords = P-solubilization

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16 pages, 2729 KiB  
Article
Effect of Enterobacter bugandensis R-18 on Maize Growth Promotion Under Salt Stress
by Xingguo Tian, Qianru Liu, Jingjing Song, Xiu Zhang, Guoping Yang, Min Li, Huan Qu, Ahejiang Tastanbek and Yarong Tan
Microorganisms 2025, 13(8), 1796; https://doi.org/10.3390/microorganisms13081796 - 31 Jul 2025
Abstract
Soil salinization poses a significant constraint to agricultural productivity. However, certain plant growth-promoting bacteria (PGPB) can mitigate salinity stress and enhance crop performance. In this study, a bacterial isolate, R-18, isolated from saline-alkali soil in Ningxia, China, was identified as Enterobacter bugandensis based [...] Read more.
Soil salinization poses a significant constraint to agricultural productivity. However, certain plant growth-promoting bacteria (PGPB) can mitigate salinity stress and enhance crop performance. In this study, a bacterial isolate, R-18, isolated from saline-alkali soil in Ningxia, China, was identified as Enterobacter bugandensis based on 16S rRNA gene sequencing. The isolate was characterized for its morphological, biochemical, and plant growth-promoting traits and was evaluated for its potential to alleviate NaCl-induced stress in maize (Zea mays L.) under hydroponic conditions. Isolate R-18 exhibited halotolerance, surviving at NaCl concentrations ranging from 2.0% to 10.0%, and alkaliphilic adaptation, growing at pH 8.0–11.0. Biochemical assays confirmed it as a Gram-negative bacterium, displaying positive reactions in the Voges–Proskauer (V–P) tests, catalase activity, citrate utilization, fluorescent pigment production, starch hydrolysis, gelatin liquefaction, and ammonia production, while testing negative for the methyl red and cellulose hydrolysis. Notably, isolate R-18 demonstrated multiple plant growth-promoting attributes, including nitrogen fixation, phosphate and potassium solubilization, ACC deaminase activity, and indole-3-acetic acid (IAA) biosynthesis. Under 100 mM NaCl stress, inoculation with isolate R-18 significantly enhanced maize growth, increasing plant height, stem dry weight, root fresh weight, and root dry weight by 20.64%, 47.06%, 34.52%, and 31.25%, respectively. Furthermore, isolate R-18 improved ion homeostasis by elevating the K+/Na+ ratio in maize tissues. Physiological analyses revealed increased chlorophyll and proline content, alongside reduced malondialdehyde (MDA) levels, indicating mitigated oxidative damage. Antioxidant enzyme activity was modulated, with decreased superoxide dismutase (SOD) and peroxidase (POD) activities but increased catalase (CAT) activity. These findings demonstrated that Enterobacter bugandensis R-18 effectively alleviated NaCl-induced growth inhibition in maize by enhancing osmotic adjustment, reducing oxidative stress, and improving ion balance. Full article
(This article belongs to the Section Plant Microbe Interactions)
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25 pages, 3789 KiB  
Article
Rhizobium’s Reductase for Chromium Detoxification, Heavy Metal Resistance, and Artificial Neural Network-Based Predictive Modeling
by Mohammad Oves, Majed Ahmed Al-Shaeri, Huda A. Qari and Mohd Shahnawaz Khan
Catalysts 2025, 15(8), 726; https://doi.org/10.3390/catal15080726 (registering DOI) - 30 Jul 2025
Viewed by 102
Abstract
This study analyzed the heavy metal tolerance and chromium reduction and the potential of plant growth to promote Rhizobium sp. OS-1. By genetic makeup, the Rhizobium strain is nitrogen-fixing and phosphate-solubilizing in metal-contaminated agricultural soil. Among the Rhizobium group, bacterial strain OS-1 showed [...] Read more.
This study analyzed the heavy metal tolerance and chromium reduction and the potential of plant growth to promote Rhizobium sp. OS-1. By genetic makeup, the Rhizobium strain is nitrogen-fixing and phosphate-solubilizing in metal-contaminated agricultural soil. Among the Rhizobium group, bacterial strain OS-1 showed a significant tolerance to heavy metals, particularly chromium (900 µg/mL), zinc (700 µg/mL), and copper. In the initial investigation, the bacteria strains were morphologically short-rod, Gram-negative, appeared as light pink colonies on media plates, and were biochemically positive for catalase reaction and the ability to ferment glucose, sucrose, and mannitol. Further, bacterial genomic DNA was isolated and amplified with the 16SrRNA gene and sequencing; the obtained 16S rRNA sequence achieved accession no. HE663761.1 from the NCBI GenBank, and it was confirmed that the strain belongs to the Rhizobium genus by phylogenetic analysis. The strain’s performance was best for high hexavalent chromium [Cr(VI)] reduction at 7–8 pH and a temperature of 30 °C, resulting in a total decrease in 96 h. Additionally, the adsorption isotherm Freundlich and Langmuir models fit best for this study, revealing a large biosorption capacity, with Cr(VI) having the highest affinity. Further bacterial chromium reduction was confirmed by an enzymatic test of nitro reductase and chromate reductase activity in bacterial extract. Further, from the metal biosorption study, an Artificial Neural Network (ANN) model was built to assess the metal reduction capability, considering the variables of pH, temperature, incubation duration, and initial metal concentration. The model attained an excellent expected accuracy (R2 > 0.90). With these features, this bacterial strain is excellent for bioremediation and use for industrial purposes and agricultural sustainability in metal-contaminated agricultural fields. Full article
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14 pages, 888 KiB  
Article
Environmental Impact of Biodegradable Packaging Based on Chia Mucilage in Real Water Bodies
by Renata Machado Pereira da Silva, Stefanny Pereira Atanes and Sibele Santos Fernandes
Processes 2025, 13(8), 2381; https://doi.org/10.3390/pr13082381 - 27 Jul 2025
Viewed by 257
Abstract
The intense demand for alternatives to conventional plastics has increasingly motivated the development of biodegradable packaging. However, the ecological impact of these materials when discarded in natural settings has not yet been evaluated. Therefore, this study investigated the effects of films based on [...] Read more.
The intense demand for alternatives to conventional plastics has increasingly motivated the development of biodegradable packaging. However, the ecological impact of these materials when discarded in natural settings has not yet been evaluated. Therefore, this study investigated the effects of films based on chia mucilage in different aquatic environments. The solubilization time varied according to water type, ranging from 40 min in ultrapure, deionized, and distilled water to 230 min in saline water. After solubilization, all water samples exhibited increased turbidity (from 1.04 to 15.73 NTU in deionized water) and apparent color (from 0 to 44 PCU in deionized water) as well as pH variations depending on ionic strength. Deionized water also showed the highest viscosity increase (>350 Pa·s at 1 s−1). UV–Vis spectra revealed a moderate rise in absorbance between 236 and 260 nm, indicating organic compound release. Regarding phytotoxicity, the solubilized films had no toxic effect and promoted a biostimulating effect on root elongation, with Relative Germination Index values exceeding 140% in most samples. These results reinforce the potential of chia-based films for controlled disposal, particularly in low-salinity environments, while highlighting the importance of evaluating post-solubilization interactions with aquatic systems. Full article
(This article belongs to the Special Issue Advances in Waste Management and Treatment of Biodegradable Waste)
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20 pages, 4025 KiB  
Article
Genomic Analysis of Cadmium-Resistant and Plant Growth-Promoting Burkholderia alba Isolated from Plant Rhizosphere
by Luyao Feng, Xin Liu, Nan Wang, Zhuli Shi, Yu Wang, Jianpeng Jia, Zhufeng Shi, Te Pu and Peiwen Yang
Agronomy 2025, 15(8), 1780; https://doi.org/10.3390/agronomy15081780 - 24 Jul 2025
Viewed by 283
Abstract
Reducing the application of chemical fertilizers and remediating heavy metal pollution in soil are important directions in current agricultural research. Utilizing the plant-growth-promoting and remediation capabilities of bacteria can provide more environmentally friendly assistance to agricultural production. In this study, the Burkholderia alba [...] Read more.
Reducing the application of chemical fertilizers and remediating heavy metal pollution in soil are important directions in current agricultural research. Utilizing the plant-growth-promoting and remediation capabilities of bacteria can provide more environmentally friendly assistance to agricultural production. In this study, the Burkholderia alba YIM B08401 strain was isolated and identified from rhizospheric soil, subjected to whole-genome sequencing and analysis, and its Cd2+ adsorption efficiency and characteristics were confirmed using multiple experimental methods, including atomic absorption spectrometry (AAS), Fourier transform infrared spectroscopy (FTIR), and scanning electron microscopy with energy-dispersive X-ray spectroscopy (SEM-EDS). The results showed that the genome of strain YIM B08401 has a total length of 7,322,157 bp, a GC content of 66.39%, and predicts 6504 protein-coding sequences. It contains abundant functional genes related to nutrient conversion (phosphate solubilization, sulfur metabolism, zinc solubilization, siderophore production), plant hormone regulation (indole-3-acetic acid secretion, ACC deaminase production), phenolic acid degradation, root colonization, heavy metal tolerance, pathogen antagonism, and the production of antagonistic secondary metabolites. Additionally, strain YIM B08401 can specifically bind to Cd2+ through various functional groups on the cell surface, such as C-O-C, P=O, and O-H, enabling biosorption. In conclusion, strain YIM B08401 is an excellent strain with plant-growth-promoting, disease-resistant, and bioremediation capabilities, warranting further development as a biofertilizer for agricultural applications to promote green and sustainable agricultural development. Full article
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23 pages, 7168 KiB  
Article
Enhancing Soil Phosphorus Availability in Intercropping Systems: Roles of Plant Growth Regulators
by Chunhua Gao, Weilin Kong, Fengtao Zhao, Feiyan Ju, Ping Liu, Zongxin Li, Kaichang Liu and Haijun Zhao
Agronomy 2025, 15(7), 1748; https://doi.org/10.3390/agronomy15071748 - 20 Jul 2025
Viewed by 287
Abstract
Plant growth regulators (PGRs) enhance crop stress resistance but their roles in microbial-mediated phosphorus cycling within intercropping systems are unclear. Thus, We conducted a two-year field study using corn (Zea mays L. cv. Denghai 605) and soybean (Glycine max L. cv. [...] Read more.
Plant growth regulators (PGRs) enhance crop stress resistance but their roles in microbial-mediated phosphorus cycling within intercropping systems are unclear. Thus, We conducted a two-year field study using corn (Zea mays L. cv. Denghai 605) and soybean (Glycine max L. cv. Hedou 22) in fluvisols and luvisols soil according to World Reference Base for Soil Resources (WRB) standard. Under a 4-row corn and 6-row soybean strip intercropping system, three treatments were applied: a water control (CK), and two plant growth regulators—T1 (EC: ethephon [300 mg/L] + cycocel [2 g/L]) and T2 (ED: ethephon [300 mg/L] + 2-Diethyl aminoethyl hexanoate [10 mg/L]). Foliar applications were administered at the V7 stage (seventh leaf) of intercropped corn plants to assess how foliar-applied PGRs (T1/T2) modulated the soil phosphorus availability, microbial communities, and functional genes in maize intercropping systems. PGRs increased the soil organic phosphorus and available phosphorus contents, and alkaline phosphatase activity, but not total phosphorus. PGRs declined the α-diversity in fluvisols soil but increased the α-diversity in luvisols soil. The major taxa changed from Actinobacteria (CK) to Proteobacteria (T1) and Saccharibacteria (T2) in fluvisols soil, and from Actinobacteria/Gemmatimonadetes (CK) to Saccharibacteria (T1) and Acidobacteria (T2) in luvisols soil. Functional gene dynamics indicated soil-specific regulation, where fluvisols soil harbored more phoD (organic phosphorus mineralization) and relA (polyphosphate degradation) genes, whereas phnP gene dominated in luvisols soil. T1 stimulated organic phosphorus mineralization and inorganic phosphorus solubilization in fluvisols soil, upregulating regulation genes, and T2 enhanced polyphosphate synthesis and transport gene expression in luvisols soil. Proteobacteria, Nitrospirae, and Chloroflexi were positively correlated with organic phosphorus mineralization and polyphosphate cycling genes, whereas Bacteroidetes and Verrucomicrobia correlated with available potassium (AP), total phosphorus (TP), and alkaline phosphatase (ALP) activity. Thus, PGRs activated soil phosphorus by restructuring soil type-dependent microbial functional networks, connecting PGRs-induced shifts with microbial phosphorus cycling mechanisms. These findings facilitate the targeted use of PGRs to optimize microbial-driven phosphorus efficiency in strategies for sustainable phosphorus management in diverse agricultural soils. Full article
(This article belongs to the Section Innovative Cropping Systems)
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17 pages, 7155 KiB  
Article
Microbial Community Structure and Metabolic Potential Shape Soil-Mediated Resistance Against Fruit Flesh Spongy Tissue Disorder of Peach
by Weifeng Chen, Dan Tang, Jia Huang, Yu Yang and Liangbo Zhang
Agronomy 2025, 15(7), 1697; https://doi.org/10.3390/agronomy15071697 - 14 Jul 2025
Viewed by 328
Abstract
Peach fruit flesh spongy tissue disorder causes dry, porous, and brown areas in the flesh, severely compromising fruit quality and market value. While soil properties and calcium nutrition have been linked to the disorder, the role of rhizosphere microbial communities in disorder resistance [...] Read more.
Peach fruit flesh spongy tissue disorder causes dry, porous, and brown areas in the flesh, severely compromising fruit quality and market value. While soil properties and calcium nutrition have been linked to the disorder, the role of rhizosphere microbial communities in disorder resistance remains unclear. This study investigated both the physicochemical properties and the root-associated microbiomes of disordered (CK) and healthy (TT) peach orchards to explore microbial mechanisms underlying disorder suppression. TT soils exhibited higher pH, greater organic matter, increased exchangeable calcium, and more balanced trace elements compared to CK. Microbial analysis revealed significantly higher diversity and enrichment of beneficial taxa in TT associated with plant growth and disorder resistance. Functional gene prediction showed TT was enriched in siderophore production, auxin biosynthesis, phosphate solubilization, and acetoin–butanediol synthesis pathways. Co-occurrence network analysis demonstrated that TT harbored a more complex and cooperative microbial community structure, with 274 nodes and 6013 links. Metagenomic binning recovered high-quality MAGs encoding diverse resistance and growth-promoting traits, emphasizing the ecological roles of Gemmatimonadaceae, Reyranella, Nitrospira, Bacillus megaterium, and Bryobacteraceae. These findings highlight the combined importance of soil chemistry and microbiome structure in disorder suppression and provide a foundation for microbiome-informed soil management to enhance fruit quality and promote sustainable orchard practices. Full article
(This article belongs to the Section Agricultural Biosystem and Biological Engineering)
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30 pages, 4836 KiB  
Article
Evaluation of Stress-Tolerant Serratia and Enterobacter as PGPR for Nutrient Solubilization and Dose-Dependent Bioformulation to Enhance Tomato Seedlings
by Indu Bhardwaj, Vijay Kumar, Somvir Singh, Arti Jamwal Sharma, Shikha Kumari, Nidhi Bhardwaj, Kanika Dulta, Lukas Peter, Richa Verma, Nitesh Kumar, Yogesh K. Ahlawat, Anurag Malik, Mohammad K. Okla, Rosa Porcel, José M. Mulet and Karthikeyan Jayabalan
Plants 2025, 14(14), 2154; https://doi.org/10.3390/plants14142154 - 13 Jul 2025
Viewed by 442
Abstract
Plant growth-promoting rhizobacteria (PGPR) are eco-friendly and sustainable options for agrochemicals, particularly for enhancing crop productivity under stress conditions. The present research aims to isolate and characterize native PGPR from tomato rhizospheric soil and to evaluate their effectiveness as a dose-dependent response to [...] Read more.
Plant growth-promoting rhizobacteria (PGPR) are eco-friendly and sustainable options for agrochemicals, particularly for enhancing crop productivity under stress conditions. The present research aims to isolate and characterize native PGPR from tomato rhizospheric soil and to evaluate their effectiveness as a dose-dependent response to enhance the growth of tomato seedlings. Out of 112 isolates, 10 bacterial strains were selected based on key PGPR traits, including indole-3-acetic acid (IAA), ammonia production, hydrogen cyanide (HCN), exopolysaccharide (EPS) synthesis, hydrolytic enzyme activity, potassium solubilization, antifungal activity against Fusarium oxysporum, and tolerance to pH and heat stress. Molecular identification via 16S rRNA gene sequencing confirmed that these isolates belong to the genera Serratia and Enterobacter. S. marcescens So-1 and Enterobacter sp. So-12 produced the highest levels of IAA (2.6–24.1 µg/mL). In vitro tomato seed germination tests using bacterial suspensions at three concentrations (106, 107, and 108 CFU/mL) showed dose-dependent improvements, with T1 increasing germination up to 108.3% compared to the control. In polyhouse trials using cocopeat formulations, seedling growth improved noticeably. T2 increased the root length (28.3 ± 2.98 cm) by over 1560%, and the shoot length (35.7 ± 0.57 cm) increased by 55% against the control, whose root length is 1.7 ± 0.47. The chlorophyll amount of the treated leaves further showed significant results over the control. Collectively, these findings suggest that using native PGPR in a dose-dependent way can help tomato seedlings grow better and promote more sustainable crop production. Full article
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16 pages, 2024 KiB  
Article
Recovering Immunogenic Orthohantavirus puumalaense N Protein from Pellets of Recombinant Escherichia coli
by Natalya Andreeva, Ekaterina Martynova, Polina Elboeva, Milana Mansurova, Ilnur Salafutdinov, Aleksandr Aimaletdinov, Rafil Khairullin, Diksha Sharma, Manoj Baranwal, Sara Chandy, Dilbar Dalimova, Alisher Abdullaev, Mirakbar Yakubov, Albert Rizvanov, Svetlana Khaiboullina, Yuriy Davidyuk and Emmanuel Kabwe
Vaccines 2025, 13(7), 744; https://doi.org/10.3390/vaccines13070744 - 10 Jul 2025
Viewed by 484
Abstract
(1) Background: Hemorrhagic fever with renal syndrome (HFRS) remains a prevalent zoonosis in Eurasia. Orthohantavirus puumalaense (PUUV), carried by bank voles (Myodes glareolus), is the principal zoonotic pathogen of HFRS in this region. Despite ongoing efforts to develop effective drugs and [...] Read more.
(1) Background: Hemorrhagic fever with renal syndrome (HFRS) remains a prevalent zoonosis in Eurasia. Orthohantavirus puumalaense (PUUV), carried by bank voles (Myodes glareolus), is the principal zoonotic pathogen of HFRS in this region. Despite ongoing efforts to develop effective drugs and vaccines against PUUV, this challenge remains. (2) Aim: In this study, we aimed to express a large quantity of the PUUV recombinant N (rN) protein using E. coli. We also sought to develop a protocol for extracting the rN protein from pellets, solubilizing, and refolding it to restore its native form. This protocol is crucial for producing a large quantity of rN protein to develop vaccines and diagnostic tools for HFRS. (3) Methods; PUUV S segment open reading frame (ORF) coding for N protein was synthesized and cloned into the plasmid vector pET-28 (A+). The ORF was transformed, expressed and induced in BL21(DE3) pLysS E. coli strain. Subsequently, rN protein was purified using immobilized metal affinity and ion chromatography. Immune reactivity of rN protein was tested by employing in house and commercial VektoHanta-IgG kit ELISA methods (both in vitro and in vivo). (4) Results: The best conditions for scaling up the expression of the PUUV rN protein were an incubation temperature of 20 °C during a 20 h incubation period, followed by induction with 0.5 mM IPTG. The most significant protein yield was achieved when the pellets were incubated in denaturing buffer with 8M urea. The highest yield of refolded proteins was attained using non-denaturing buffer (50 mM Tris-HCl) supplemented with arginine. A final 50 μL of PUUV rN protein solution with a concentration of 7 mg/mL was recovered from 1 L of culture. The rN protein elicited an antibody response in vivo and reacted with serum taken from patients with HFRS by ELISA in vitro. (5) Conclusion: Therefore, the orthohantavirus N protein’s ability to elicit immune response in vivo suggests that it can be used to develop vaccines against PUUV after conducting in vitro and in vivo studies to ascertain neutralising antibodies. Full article
(This article belongs to the Special Issue Protein- and Subunit-Based Vaccines)
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18 pages, 1746 KiB  
Article
Genomic Insights and Plant Growth-Promoting Characterization of Priestia megaterium Strain 53B2, Isolated from Maize-Associated Soil in the Yaqui Valley, Mexico
by Alina Escalante-Beltrán, Pamela Helué Morales-Sandoval, Claudia Berenice González-Astorga, Amelia C. Montoya-Martínez, Edgar A. Cubedo-Ruiz, Gustavo Santoyo, Fannie Isela Parra-Cota and Sergio de los Santos-Villalobos
Plants 2025, 14(13), 2081; https://doi.org/10.3390/plants14132081 - 7 Jul 2025
Viewed by 608
Abstract
Strain 53B2 was isolated from a commercial maize (Zea mays L.) field located in the Yaqui Valley, Mexico. Its draft genome comprises 5,844,085 bp, with a G + C content of 37.5%, an N50 of 602,122 bp, an L50 of 4, and [...] Read more.
Strain 53B2 was isolated from a commercial maize (Zea mays L.) field located in the Yaqui Valley, Mexico. Its draft genome comprises 5,844,085 bp, with a G + C content of 37.5%, an N50 of 602,122 bp, an L50 of 4, and a total of 129 contigs. Genome-based taxonomic affiliation showed this strain belonged to Priestia megaterium. Genome annotation revealed 6394 coding DNA sequences (CDSs), organized into 332 subsystems. Among these, several CDSs were associated with traits relevant to plant growth promotion, including categories such as iron acquisition and metabolism (40 CDSs) and secondary metabolism (6 CDSs), among others. In vitro metabolic assays supported genomic predictions, confirming the strain’s ability to produce IAA, solubilize phosphate, and tolerate abiotic stress. Additionally, greenhouse trials demonstrated that inoculation with Priestia megaterium 53B2 significantly enhanced plant growth parameters (p ≤ 0.05) versus uninoculated control: stem height increased by 22.8%, root length by 35.7%, stem and root fresh weights by 39.6% and 66.1%, and stem and root dry weights by 33.7% and 44.7%, respectively. This first report on the beneficial potential of Priestia megaterium 53B2 highlights its potential as a sustainable bioinoculant for maize cultivation. Full article
(This article belongs to the Section Plant Protection and Biotic Interactions)
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12 pages, 2664 KiB  
Article
Heavy Metal Immobilization by Phosphate-Solubilizing Fungus and Phosphogypsum Under the Co-Existence of Pb(II) and Cd(II)
by Xu Li, Zhenyu Chao, Haoxuan Li, Jiakai Ji, Xin Sun, Yingxi Chen, Zhengda Li, Zhen Li, Chuanhao Li, Jun Yao and Lan Xiang
Agronomy 2025, 15(7), 1632; https://doi.org/10.3390/agronomy15071632 - 4 Jul 2025
Viewed by 308
Abstract
Globally, phosphogypsum (PG) is the primary by-product of the phosphorus industry. Aspergillus niger (A. niger), one of the most powerful types of phosphate-solubilizing fungi (PSF), can secrete organic acids to dissolve the phosphates in PG. This study investigated heavy metal (HM) [...] Read more.
Globally, phosphogypsum (PG) is the primary by-product of the phosphorus industry. Aspergillus niger (A. niger), one of the most powerful types of phosphate-solubilizing fungi (PSF), can secrete organic acids to dissolve the phosphates in PG. This study investigated heavy metal (HM) remediation by PG and A. niger under the co-existence of Pb and Cd. It demonstrated that 1 mmol/L Pb2+ stimulated the bioactivity of A. niger during incubation, based on the CO2 emission rate. PG successfully functioned as P source for the fungus, and promoted the growth of the fungal cells. Meanwhile, it also provided sulfates to immobilize Pb in the solution. The subsequently generated anglesite was confirmed using SEM imaging. The immobilization rate of Pb reached over 95%. Under co-existence, Pb2+ and 0.01 mmol/L Cd2+ maximized the stimulating effect of A. niger. However, the biotoxicity of Pb2+ and elevated Cd2+ (0.1 mmol/L) counterbalanced the stimulating effect. Finally, 1 mmol/L Cd2+ dramatically reduced the fungal activity. In addition, organic matters from the debris of A. niger could still bind Pb2+ and Cd2+ according to the significantly lowered water-soluble Pb and Cd concentrations. In all treatments with the addition of Cd2+, the relatively high biotoxicity of Cd2+ induced A. niger to absorb more Pb2+ to minimize the sorption of Cd2+ based on the XRD results. The functional group analysis of ATR-IR also confirmed the phenomenon. This pathway maintained the stability of Pb2+ immobilization using the fungus and PG. This study, hence, shed light on the application of A. niger and solid waste PG to remediate the pollution of Pb and Cd. Full article
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20 pages, 2743 KiB  
Article
Systematic Investigation of Phosphate Decomposition and Soil Fertility Modulation by the Filamentous Fungus Talaromyces nanjingensis
by Xiao-Rui Sun, Pu-Sheng Li, Huan Qiao, Wei-Liang Kong, Ya-Hui Wang and Xiao-Qin Wu
Microorganisms 2025, 13(7), 1574; https://doi.org/10.3390/microorganisms13071574 - 3 Jul 2025
Viewed by 406
Abstract
Phosphate-solubilizing microbes (PSMs) in soil play a crucial role in converting insoluble phosphates into plant-available soluble phosphorus. This paper systematically presents a comprehensive array of qualitative and quantitative techniques to assess the phosphate-decomposing capabilities of microbes. Additionally, it introduces two optimized media, namely [...] Read more.
Phosphate-solubilizing microbes (PSMs) in soil play a crucial role in converting insoluble phosphates into plant-available soluble phosphorus. This paper systematically presents a comprehensive array of qualitative and quantitative techniques to assess the phosphate-decomposing capabilities of microbes. Additionally, it introduces two optimized media, namely improved Monkina medium No. 1 and No. 2, which are particularly suitable for detecting the solubilization abilities of microbes toward insoluble organic phosphates. Talaromyces nanjingensis, a novel fungal species recently isolated from the rhizosphere soil of Pinus massoniana, demonstrates remarkable phosphate-solubilizing abilities. Across multiple temperature gradients (15 °C, 20 °C, 25 °C, 30 °C, and 37 °C), it effectively decomposes both insoluble inorganic and organic phosphates. This is achieved through the secretion of organic acids, including gluconic acid (6.10 g L−1), oxalic acid (0.93 g L−1), and malonic acid (0.17 g L−1), as well as phosphate-solubilizing enzymes. Moreover, under low-, medium-, and high-temperature conditions, T. nanjingensis can decompose insoluble phosphates in three types of soil with varying pH levels, thereby enhancing the overall soil fertility. Genomic analysis of T. nanjingensis has identified approximately 308 genes associated with phosphate decomposition and environmental adaptability, validating its superior capabilities and multi-faceted strategies for phosphate mobilization. These findings underscore the wide applicability of T. nanjingensis in maintaining soil phosphorus homeostasis and optimizing the phosphorus use efficiency, highlighting its promising potential for agricultural and environmental applications. Full article
(This article belongs to the Special Issue Soil Microbial Carbon/Nitrogen/Phosphorus Cycling: 2nd Edition)
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21 pages, 3424 KiB  
Article
SDS Depletion from Intact Membrane Proteins by KCl Precipitation Ahead of Mass Spectrometry Analysis
by Tania Iranpour, Mapenzi Mirimba, Chloe Shenouda, Adam Lynch and Alan A. Doucette
Proteomes 2025, 13(3), 30; https://doi.org/10.3390/proteomes13030030 - 2 Jul 2025
Viewed by 497
Abstract
Background: Membrane proteins are preferentially solubilized with sodium dodecyl sulfate (SDS), which necessitates a purification protocol to deplete the surfactant prior to mass spectrometry analysis. However, maintaining solubility of intact membrane proteins is challenged in an SDS-free environment. SDS precipitation with potassium salts [...] Read more.
Background: Membrane proteins are preferentially solubilized with sodium dodecyl sulfate (SDS), which necessitates a purification protocol to deplete the surfactant prior to mass spectrometry analysis. However, maintaining solubility of intact membrane proteins is challenged in an SDS-free environment. SDS precipitation with potassium salts (KCl) offers a potentially viable workflow to deplete SDS and permit proteoform analysis. The purpose of this study is to devise a robust detergent-based protocol applicable for processing and analysis of intact membrane-associated proteoforms. Methods: The precipitation conditions impacting SDS removal from spinach chloroplasts and liver membrane proteome preparations were evaluated, capitalizing on optimization of pH (highly basic), addition of MS-compatible solubilizing additives (urea) and adjustment of the KCl to SDS ratio to maximize recovery and purity. Results: Characterization of the SDS-solubilized, KCl-precipitated spinach membrane preparation revealed multiple charge envelope MS spectra displaying high signal to noise, free of SDS adducts. Precipitation at pH 12 or with urea improved protein recovery and purity. Bottom-up analysis identified 1826 distinct liver protein groups from four independent SDS precipitation conditions. While precipitation at pH 8 without urea revealed a greater number of protein identifications by mass spectrometry, precipitation under highly basic conditions (pH 12) with urea provided higher membrane protein recovery and achieved the greatest number (732 of 1056) and largest percentage (69.3%) of membrane proteins identified in the SDS removal workflow. Conclusion: This workflow provides new opportunities for MS-based proteoform analysis by capitalizing on the benefits of SDS for protein extraction while maintaining high solubility and purity of intact proteins though KCl precipitation of the surfactant. Full article
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29 pages, 4367 KiB  
Article
Endophytic Microbiome Is a Unique Repository of Bio-Foes Against Toxigenic Fungi Harming Peanut Productivity
by Nagwa I. M. Helal, Mona H. Badawi, Abeer M. El-Hadidy, Mohamed K. M. Agha, Ahmed Abou-Shady and Mohamed Fayez
Microbiol. Res. 2025, 16(7), 141; https://doi.org/10.3390/microbiolres16070141 - 1 Jul 2025
Viewed by 336
Abstract
The major objective was to investigate the protective capabilities of endophytic bacterial strains isolated from a number of medicinal plant species towards Aspergillus spp. secured from the internal tissues of fungi-infected peanuts. Among 32 fungal isolates surveyed for mycotoxin production in various culture [...] Read more.
The major objective was to investigate the protective capabilities of endophytic bacterial strains isolated from a number of medicinal plant species towards Aspergillus spp. secured from the internal tissues of fungi-infected peanuts. Among 32 fungal isolates surveyed for mycotoxin production in various culture media (PDA, RBCA, YES, CA), 10 isolates qualitatively producing AFB1, besides 10 OTA-producers, were assayed by HPLC for quantitative toxin production. Aspergillus spp. isolate Be 13 produced an extraordinary quantity of 1859.18 μg mL−1 AFB1, against the lowest toxin level of 280.40 μg mL−1 produced by the fungus isolate IS 4. The estimated amounts of OTA were considerably lower and fell in the range 0.88–6.00 μg mL−1; isolate Sa 1 was superior, while isolate Be 7 seemed inferior. Based on ITS gene sequencing, the highly toxigenic Aspergillus spp. isolates Be 13 and Sa 1 matched the description of A. novoparasiticus and A. ochraceus, respectively, ochraceus, respectively, which are present in GenBank with identity exceeding 99%. According to 16S rRNA gene sequencing, these antagonists labeled Ar6, Ma27 and So34 showed the typical characteristics of Pseudomonas aeruginosa, Bacillus subtilis and Bacillus velezensis, respectively, with similarity percentages of 99–100. The plant growth-promoting activity measurements of the identified endophytes indicated the production of 16.96–80.00 μg/100 mL culture medium of IAA. Phosphate-solubilizing capacity varied among endophytes from 2.50 to 21.38 μg/100 mL. The polysaccharide production pool of bacterial strains ranged between 2.74 and 6.57 mg mL−1. P. aeruginosa Ar6 and B. velezensis successfully produced HCN, but B. subtilis failed. The in vitro mycotoxin biodegradation potential of tested bacterial endophytes indicated the superiority of B. velezensis in degrading both mycotoxins (AFB1-OTA) with average percentage of 88.7; B. subtilis ranked thereafter (85.6%). The 30-day old peanut (cv. Giza 6) seedlings grown in gnotobiotic system severely injured due to infection with AFB1/OTA-producing fungi, an effect expressed in significant reductions in shoot and root growth traits. Simultaneous treatment with the endophytic antagonists greatly diminished the harmful impact of the pathogens; B. velezensis was the pioneer, not P. aeruginosa Ar6. In conclusion, these findings proved that several endophytic bacterial species have the potential as alternative tools to chemical fungicides for protecting agricultural commodities against mycotoxin-producing fungi. Full article
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19 pages, 946 KiB  
Review
mCRP-Associated Vascular Pathophysiology in Progression and Outcome of Intracerebral Hemorrhage
by Gabriela Șalari and Mark Slevin
Int. J. Mol. Sci. 2025, 26(13), 6195; https://doi.org/10.3390/ijms26136195 - 27 Jun 2025
Viewed by 519
Abstract
Monomeric C-reactive protein (mCRP), derived from the dissociation of the native pentameric CRP (pCRP), has been implicated in the pathophysiology of various neurological conditions, particularly intracerebral hemorrhage (ICH) and neurodegenerative diseases. mCRP accumulates in the brain after hemorrhagic stroke, contributing to the formation [...] Read more.
Monomeric C-reactive protein (mCRP), derived from the dissociation of the native pentameric CRP (pCRP), has been implicated in the pathophysiology of various neurological conditions, particularly intracerebral hemorrhage (ICH) and neurodegenerative diseases. mCRP accumulates in the brain after hemorrhagic stroke, contributing to the formation of the metabolic penumbra and promoting inflammation. Recent studies have linked mCRP to the activation of microglia, endothelial cells, and complement pathways, which collectively intensify neuroinflammation and disrupt tissue repair mechanisms. Additionally, mCRP is associated with cognitive decline, particularly in ICH survivors, by promoting microvascular damage, neurodegeneration, and vascular instability. The presence of mCRP in distant regions of the brain, including the hypothalamus, suggests its potential role in spreading inflammation and exacerbating long-term neurological damage. This review synthesizes findings on the pathogenic role of mCRP in stroke and neurodegeneration, proposing that mCRP could serve as both a biomarker and a therapeutic target for improving outcomes in stroke patients. Emerging immunopharmacological strategies are being actively pursued to mitigate the pathogenic activity of mCRP, a potent pro-inflammatory effector implicated in a variety of immune-mediated and neuroinflammatory conditions. These approaches encompass the inhibition of native pentameric CRP dissociation into its monomeric isoform, the disruption of mCRP’s high-affinity interactions with lipid rafts and cell surface receptors involved in innate immune activation, and the enhancement of its clearance through mechanisms such as solubilization, opsonin-mediated tagging, and phagocytic engagement. Targeting these immunoregulatory pathways offers a compelling therapeutic framework for attenuating mCRP-driven inflammatory cascades in both systemic and CNS-specific pathologies. Full article
(This article belongs to the Special Issue Forward in Vasculitis: Genetics and Beyond)
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13 pages, 1908 KiB  
Article
Effect of Crop Type Shift on Soil Phosphorus Morphology and Microbial Functional Diversity in a Typical Yellow River Irrigation Area
by Zijian Xie, Rongbo Zhao, Bo Bo, Chunhua Li, Yang Wang, Yu Chu and Chun Ye
Microorganisms 2025, 13(7), 1458; https://doi.org/10.3390/microorganisms13071458 - 23 Jun 2025
Viewed by 324
Abstract
The Hetao irrigation area is one of the largest irrigation areas in the Yellow River Basin and a typical salinized agricultural area. Crop type shifts in this area can alter soil phosphorus (P) morphology and microbial functional diversity, thereby influencing soil P losses. [...] Read more.
The Hetao irrigation area is one of the largest irrigation areas in the Yellow River Basin and a typical salinized agricultural area. Crop type shifts in this area can alter soil phosphorus (P) morphology and microbial functional diversity, thereby influencing soil P losses. However, few studies have elucidated the underlying mechanisms. In this study, soil samples were collected from four different crop planting areas: sunflower field (SF), corn field (CF), wheat land (WL), and vegetable and fruit land (VFL). Subsequently, the physicochemical properties, P fractions, and phosphate-solubilizing microorganisms (PSMs) were analyzed. The results indicated that when other lands shifted to SF, the soil pH increased significantly. Simultaneously, SOM, TN, and TP decreased significantly during the crop type conversion. Analysis of P fraction revealed that moderately active P, including NaOH-Pi, NaOH-Po, and HCl-Pi, were the dominant fractions in the tested soils. Among them, HCl-Pi was the major component of moderately active P. The soil P leaching change point in the tested are was 6.25 mg Olsen-P kg−1. The probabilities of P leaching in WL, VFL, CF, and SF were 91.7%, 83.8%, 83.8%, and 66.7%, respectively. Additionally, the sum of the relative abundances of the three PSMs in SF, VFL, WL, and CF were 8.81%, 11.88%, 8.03%, and 10.29%, respectively. The shift in crop type to SF exacerbated the soil degradation process. Both TP and residual P in the soil decreased. However, the NaHCO3 slightly increased, which may have been due to the increased abundance of Thiobacillus and Escherichia. Full article
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