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13 pages, 1075 KiB  
Article
Response of Typical Artificial Forest Soil Microbial Community to Revegetation in the Loess Plateau, China
by Xiaohua Liu, Tianxing Wei, Dehui Fan, Huaxing Bi and Qingke Zhu
Agronomy 2025, 15(8), 1821; https://doi.org/10.3390/agronomy15081821 - 28 Jul 2025
Viewed by 212
Abstract
This study aims to analyze the differences in soil bacterial community structure under different vegetation restoration types, and to explore the role of microorganisms in the process of vegetation restoration on the soil ecosystem of the Grain for Green area in the Loess [...] Read more.
This study aims to analyze the differences in soil bacterial community structure under different vegetation restoration types, and to explore the role of microorganisms in the process of vegetation restoration on the soil ecosystem of the Grain for Green area in the Loess Plateau. High-throughput sequencing technology was used to analyze the alpha diversity of soil bacteria, community structure characteristics, and the correlation between soil environmental factors and bacterial communities in different artificial Hippophae rhamnoides forests. Soil microbial C and N show a decreasing trend with an increase in the 0–100 cm soil layers. The results indicated that the bacterial communities comprised 24 phyla, 55 classes, 110 orders, 206 families, 348 genera, 680 species, and 1989 OTUs. Additionally, the richness indices and diversity indices of the bacterial community in arbor shrub mixed forest are higher than those in shrub pure forest, and the indices of shrub forest on sunny slope are higher than those on shady slope. Across all samples, the dominant groups were Actinobacteria (37.27% on average), followed by Proteobacteria (23.91%), Acidobacteria (12.75%), and Chloroflexi (12.27%). Soil nutrient supply, such as TOC, TN, AN, AP, and AK, had crucial roles in shaping the composition and diversity of the bacterial communities. The findings reveal that vegetation restoration significantly affected soil bacterial community richness and diversity. Furthermore, based on the results, our data provide a starting point for establishing soil bacterial databases in the Loess Plateau, as well as for the plants associated with the vegetation restoration. Full article
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24 pages, 5977 KiB  
Article
An Investigation into the Evolutionary Characteristics and Expression Patterns of the Basic Leucine Zipper Gene Family in the Endangered Species Phoebe bournei Under Abiotic Stress Through Bioinformatics
by Yizhuo Feng, Almas Bakari, Hengfeng Guan, Jingyan Wang, Linping Zhang, Menglan Xu, Michael Nyoni, Shijiang Cao and Zhenzhen Zhang
Plants 2025, 14(15), 2292; https://doi.org/10.3390/plants14152292 - 25 Jul 2025
Viewed by 314
Abstract
The bZIP gene family play a crucial role in plant growth, development, and stress responses, functioning as transcription factors. While this gene family has been studied in several plant species, its roles in the endangered woody plant Phoebe bournei remain largely unclear. This [...] Read more.
The bZIP gene family play a crucial role in plant growth, development, and stress responses, functioning as transcription factors. While this gene family has been studied in several plant species, its roles in the endangered woody plant Phoebe bournei remain largely unclear. This study comprehensively analyzed the PbbZIP gene family in P. bournei, identifying 71 PbbZIP genes distributed across all 12 chromosomes. The amino acid count in these genes ranged from 74 to 839, with molecular weights varying from 8813.28 Da to 88,864.94 Da. Phylogenetic analysis categorized the PbbZIP genes into 12 subfamilies (A-K, S). Interspecific collinearity analysis revealed homologous PbbZIP genes between P. bournei and Arabidopsis thaliana. A promoter cis-acting element analysis indicated that PbbZIP genes contain various elements responsive to plant hormones, stress signals, and light. Additionally, expression analysis of public RNA-seq data showed that PbbZIP genes are distributed across multiple tissues, exhibiting distinct expression patterns specific to root bark, root xylem, stem bark, stem xylem, and leaves. We also performed qRT-PCR analysis on five representative PbbZIP genes (PbbZIP14, PbbZIP26, PbbZIP32, PbbZIP67, and PbbZIP69). The results demonstrated significant differences in the expression of PbbZIP genes under various abiotic stress conditions, including salt stress, heat, and drought. Notably, PbbZIP67 and PbbZIP69 exhibited robust responses under salt or heat stress conditions. This study confirmed the roles of the PbbZIP gene family in responding to various abiotic stresses, thereby providing insights into its functions in plant growth, development, and stress adaptation. The findings lay a foundation for future research on breeding and enhancing stress resistance in P. bournei. Full article
(This article belongs to the Special Issue Advances in Forest Tree Genetics and Breeding)
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15 pages, 1823 KiB  
Article
Soil Texture’s Hidden Influence: Decoding Plant Diversity Patterns in Arid Ecosystems
by Shuaiyu Wang, Younian Wang, Zhiwei Li and Chengzhi Li
Soil Syst. 2025, 9(3), 84; https://doi.org/10.3390/soilsystems9030084 - 25 Jul 2025
Viewed by 340
Abstract
Desert plant communities play a vital role in sustaining the stability of arid ecosystems; however, they demonstrate limited resilience to environmental changes. A critical aspect of understanding community assembly mechanisms is determining whether soil texture heterogeneity affects vegetation diversity in arid deserts, especially [...] Read more.
Desert plant communities play a vital role in sustaining the stability of arid ecosystems; however, they demonstrate limited resilience to environmental changes. A critical aspect of understanding community assembly mechanisms is determining whether soil texture heterogeneity affects vegetation diversity in arid deserts, especially under conditions of extreme water scarcity and restricted nutrient availability. This study systematically examined the relationships between plant diversity and soil physicochemical properties across four soil texture types—sand, sandy loam, loamy sand, and silty loam—by selecting four representative desert systems in the Hami region of Xinjiang, China. The objective was to elucidate the mechanisms through which soil texture may impact desert plant species diversity. The findings revealed that silty loam exhibited distinct characteristics in comparison to the other three sandy soil types. Despite its higher nutrient content, silty loam demonstrated the lowest vegetation diversity. The Shannon–Wiener index (H′), Simpson dominance index (C), Margalef richness index (D), and Pielou evenness index (Jsw) for silty loam were all lower compared to those for sand, sandy loam, and loamy sand. However, silty loam exhibited higher values in electrical conductivity (EC), urease activity (SUR), and nutrient content, including soil organic matter (SOM), ammonium nitrogen (NH4+-N), and available potassium (AK), than the other three soil textures. This study underscores the significant regulatory influence of soil texture on plant diversity in arid environments, offering new insights and practical foundations for the conservation and management of desert ecosystems. Full article
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18 pages, 2026 KiB  
Article
Cooperative Interplay Between PGPR and Trichoderma longibrachiatum Reprograms the Rhizosphere Microecology for Improved Saline Alkaline Stress Resilience in Rice Seedlings
by Junjie Song, Xueting Guan, Lili Chen, Zhouqing Han, Haojun Cui and Shurong Ma
Microorganisms 2025, 13(7), 1562; https://doi.org/10.3390/microorganisms13071562 - 2 Jul 2025
Viewed by 427
Abstract
Soil salinization has become a major obstacle to global agricultural sustainability. While microbial inoculants show promise for remediation, the functional coordination between Trichoderma and PGPR in saline alkali rhizospheres requires systematic investigation. Pot studies demonstrated that while individual inoculations of Trichoderma longibrachiatum (M) [...] Read more.
Soil salinization has become a major obstacle to global agricultural sustainability. While microbial inoculants show promise for remediation, the functional coordination between Trichoderma and PGPR in saline alkali rhizospheres requires systematic investigation. Pot studies demonstrated that while individual inoculations of Trichoderma longibrachiatum (M) or Bacillus aryabhattai (A2) moderately improved rice growth and soil properties, their co-inoculation (A2 + M) synergistically enhanced stress tolerance and nutrient availability—increasing available nitrogen (AN +28.02%), phosphorus (AP +11.55%), and potassium (AK +8.26%) more than either strain alone, while more effectively mitigating salinity (EC −5.54%) and alkalinity (pH −0.13 units). High-throughput sequencing further revealed that the A2 + M treatment reshaped the rhizosphere microbiome, uniquely enriching beneficial taxa (e.g., Actinomycetota [+9.68%], Ascomycota [+50.58%], Chytridiomycota [+152.43%]), and plant-growth-promoting genera (e.g., Sphingomonas, Trichoderma), while drastically reducing saline-alkali-adapted Basidiomycota (−87.96%). Further analysis identified soil organic matter (SOM), AN, and AP as key drivers for the enrichment of Chytridiomycota and Actinomycetota, whereas pH and EC showed positive correlations with Mortierellomycota, Aphelidiomycota, unclassified_k__Fungi, and Basidiomycota. Collectively, the co-inoculation of Trichoderma and PGPR strains enhanced soil microbiome structure and mitigated saline alkali stress in rice seedlings. These findings demonstrate the potential of microbial consortia as an effective bio-strategy for saline alkali soil amelioration. Full article
(This article belongs to the Section Plant Microbe Interactions)
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22 pages, 3230 KiB  
Article
Study on Soil Nutrients and Microbial Community Diversity in Ancient Tea Plantations of China
by Jiaxin Li, Wei Huang, Xinyuan Lin, Waqar Khan, Hongbo Zhao, Binmei Sun, Shaoqun Liu and Peng Zheng
Agronomy 2025, 15(7), 1608; https://doi.org/10.3390/agronomy15071608 - 30 Jun 2025
Viewed by 235
Abstract
Ancient tea plantations possess extremely important economic and cultivation value. In China, ancient tea plantations with trees over 100 years old have been preserved. However, the status of soil microorganisms, soil fertility, and soil heavy metal pollution in these ancient tea plantations remains [...] Read more.
Ancient tea plantations possess extremely important economic and cultivation value. In China, ancient tea plantations with trees over 100 years old have been preserved. However, the status of soil microorganisms, soil fertility, and soil heavy metal pollution in these ancient tea plantations remains unclear. This study took four Dancong ancient tea plantations in Fenghuang, Chaozhou City, and Guangdong Province as the research objects. Soil samples were collected from the surface layer (0–20 cm) and subsurface layer (20–40 cm) of the ancient tea trees. The rhizosphere soil microbial diversity and soil nutrients were determined. On this basis, the soil fertility was evaluated by referring to the soil environmental quality standards so as to conduct a comprehensive evaluation of the soil in the Dancong ancient tea plantations. This study found that Proteobacteria, Acidobacteriota, Chloroflexi, and Actinobacteria were the dominant bacteria in the rhizosphere soil of the Dancong ancient tree tea plantation. Ascomycota and Mortierellomycota are the dominant fungal phyla. Subgroup_2, AD3, Acidothermus, and Acidibacter were the dominant bacterial genera. Saitozyma, Mortierella, and Fusarium are the dominant fungal genera. The redundancy analysis (RDA) revealed that at the bacterial phylum level, Verrucomicrobia showed positive correlations with alkali-hydrolyzable nitrogen (AN), available potassium (AK), and total nitrogen (TN); Proteobacteria exhibited a positive correlation with available phosphorus (AP); and Gemmatimonadetes was positively correlated with total potassium (TK). At the fungal phylum level, Ascomycota demonstrated a positive correlation with TK. TN, AN, and TK were identified as key physicochemical indicators influencing soil bacterial diversity, while TN, AN, AP, and AK were the key physicochemical indicators affecting soil fungal diversity. This study revealed that the soil of Dancong ancient tea plantations has reached Level I fertility in terms of TN, TP, SOM, and AP. TK and AN show Level I or near-Level I fertility, but AK only meets Level III fertility for tea planting, serving as the main limiting factor for soil fertility quality. Considering the relatively abundant TK content in the tea plantations, potassium-solubilizing bacteria should be prioritized over blind potassium fertilizer application. Meanwhile, it is particularly noteworthy that AN and SOM are at extremely high levels. Sustained excess of AN and SOM may lead to over-proliferation of dominant microorganisms, inhibition of other functional microbial communities, and disruption of ecological balance. Therefore, optimizing nutrient input methods during fertilization is recommended. Full article
(This article belongs to the Section Soil and Plant Nutrition)
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13 pages, 2434 KiB  
Article
Effects of Trichoderma harzianum on the Morphological and Physiological Characteristics of Three Turfgrass Species Grown on Eco-Concrete
by Xiaohu Chen, Xiaoyan Zeng, Yongjun Fei and Die Hu
Horticulturae 2025, 11(7), 746; https://doi.org/10.3390/horticulturae11070746 - 27 Jun 2025
Viewed by 298
Abstract
This study investigated the effects of Trichoderma harzianum inoculation on the growth, physiological responses, and soil nutrient uptake of three turfgrass species cultivated on eco-concrete—Axonopus compressus (Sw.) Beauv., Cynodon dactylon (L.) Pers., and Zoysia sinica Hance. A 2 × 2 factorial design [...] Read more.
This study investigated the effects of Trichoderma harzianum inoculation on the growth, physiological responses, and soil nutrient uptake of three turfgrass species cultivated on eco-concrete—Axonopus compressus (Sw.) Beauv., Cynodon dactylon (L.) Pers., and Zoysia sinica Hance. A 2 × 2 factorial design was used to evaluate plant growth, physiological responses, and soil metrics under cement stress, incorporating T. harzianum inoculation (inoculated vs. control) and substrate composition (eco-concrete vs. pastoral soil). Our results indicate that inoculation with Trichoderma harzianum significantly enhanced the growth potential of the three turfgrass species compared to uninoculated controls. Furthermore, under cement stress conditions in vegetated concrete, inoculation with T. harzianum significantly alleviated the inhibition of growth and development. More specifically, in the vegetated concrete habitat, inoculated plants exhibited significantly increased root length and surface area. This enhancement promoted the uptake of available nitrogen (AN), available phosphorus (AP), and available potassium (AK) from the soil. Concurrently, inoculated plants showed higher leaf epidermal cell density, stomatal width, soluble sugar content, and antioxidant enzyme activity (SOD, POD, CAT, and APX). Additionally, significant reductions were observed in root activity, relative conductivity, and malondialdehyde (MDA) and proline contents. In conclusion, T. harzianum inoculation promotes the growth of the three turfgrass species under cement stress, likely by enhancing root development, increasing osmoregulatory substance accumulation, and elevating antioxidant enzyme activities. Full article
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16 pages, 2067 KiB  
Article
Effects of Extreme Flooding on Soil Characteristics, Soil Enzyme Activity, and Microbial Structure in Shengjin Lake
by Xinyi Duan, Wenjing Xu, Yujing Ren, Nan Zhang, Xiaotao Zhou and Xiaoxin Ye
Water 2025, 17(12), 1789; https://doi.org/10.3390/w17121789 - 14 Jun 2025
Viewed by 406
Abstract
Under the global climate change context, the probability of extreme flood events has substantially increased. Nevertheless, our understanding of the post-flood dynamics in wetland ecosystems, particularly regarding soil biogeochemistry and microbiota, remains limited. Therefore, soil properties, enzyme (soil acid phosphatase, soil alkaline phosphatase, [...] Read more.
Under the global climate change context, the probability of extreme flood events has substantially increased. Nevertheless, our understanding of the post-flood dynamics in wetland ecosystems, particularly regarding soil biogeochemistry and microbiota, remains limited. Therefore, soil properties, enzyme (soil acid phosphatase, soil alkaline phosphatase, soil urease and soil protease) activities, and bacterial communities were examined in four dominant vegetation communities of Shengjin Lake’s riparian zone prior to and following an extreme flooding event. Our findings reveal a notable reduction in soil fertility, including nitrate nitrogen (NO3-N), ammonium nitrogen (NH4⁺-N), available potassium (AK), and total phosphorus (TP), following the flood across different vegetation types. Marked enhancement of four key soil enzymatic activities was observed after flooding. Although the flooding event did not alter the dominant phyla-level bacterial taxa in the various vegetation communities, it significantly reduced the structural divergence among soil bacterial assemblages. Following the flooding event, total nitrogen (TN) emerged as a direct regulatory factor mediating the influence of vegetation communities on bacterial community composition, replacing the previous role of soil urease activity. These results highlight the profound impact of extreme flooding on plant–microbe interactions and provide critical insights into the ecological consequences of such events in wetland ecosystems. Full article
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21 pages, 3404 KiB  
Article
Bacillus subtilis B579 Controls Cucumber Fusarium Wilt by Improving Rhizosphere Microbial Community
by Zongqiang Fan, Jinghan Feng, Lixue Zheng, Yanru Chen, Minglei Wang, Xiangqian Peng, Shuo Wang and Fang Chen
Microorganisms 2025, 13(6), 1382; https://doi.org/10.3390/microorganisms13061382 - 13 Jun 2025
Viewed by 558
Abstract
With continuous improvements in people’s environmental awareness, biological control agents have garnered considerable attention owing to their advantageous impacts on improving soil fertility and alleviating plant diseases. Bacillus subtilis (B. subtilis) B579, isolated from the rhizosphere soil of cucumber, has effectively [...] Read more.
With continuous improvements in people’s environmental awareness, biological control agents have garnered considerable attention owing to their advantageous impacts on improving soil fertility and alleviating plant diseases. Bacillus subtilis (B. subtilis) B579, isolated from the rhizosphere soil of cucumber, has effectively suppressed the growth of pathogenic Fusarium oxysporum. Our study investigates the effects of B. subtilis B579 on the properties of the rhizosphere soil (its physicochemical properties and enzymatic activities) and microbial community of cucumber under Fusarium oxysporum infection. An amplicon sequencing analysis of the microorganisms in the rhizosphere soil was conducted, and the soil’s properties were measured. The findings demonstrated that B. subtilis B579 exhibited 73.68% efficacy in controlling cucumber Fusarium wilt disease. B579 pretreatment substantially increased the bacterial and fungi diversity and improved the soil’s physicochemical properties (pH level and OC, TN, TP, AK, and AP contents) and enzyme activities, especially those of urease and alkaline phosphatase, which exhibited significant increases of 77.22% and 64.77%, respectively, in comparison to those under the pathogen treatment. Furthermore, the utilization of B579 reduced the abundance of Fusarium while simultaneously increasing the abundance of beneficial groups, including the Bacillus, Paenibacillus, Sphingomonas, Pseudomonas, Microbacterium, Mortierella, and Trichoderma genera. The RDA showed that the abundance of Bacillus, Paenibacillus, Sphingomonas, and Mortierella in the rhizosphere showed positive correlations with most of the soil properties, whereas Fusarium abundance was negatively correlated with most of the soil’s properties. This study provides novel insights into the disease suppression mechanisms of Bacillus subtilis B579, laying the theoretical foundation for its development as a biocontrol agent. Full article
(This article belongs to the Section Microbiomes)
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10 pages, 1874 KiB  
Article
Crystal Structural Analysis of Oryza sativa SGT1-TPR Domain
by Yongqi Chang, Lifeng Ji, Yiling Qin, Yaqi Yi, Chen Qian, Jie Jiang, Tian Liu, Junfeng Liu and Xin Zhang
Crystals 2025, 15(6), 543; https://doi.org/10.3390/cryst15060543 - 6 Jun 2025
Viewed by 744
Abstract
SGT1 (the suppressor of the G2 allele of Skp1) functions as an adaptor protein that positively regulates plant defense and developmental processes. It comprises three functional domains: the tetratricopeptide repeat (TPR) domain, Chord SGT1 motif (CS), and SGT1-specific motif (SGS). In this study, [...] Read more.
SGT1 (the suppressor of the G2 allele of Skp1) functions as an adaptor protein that positively regulates plant defense and developmental processes. It comprises three functional domains: the tetratricopeptide repeat (TPR) domain, Chord SGT1 motif (CS), and SGT1-specific motif (SGS). In this study, we resolved the crystal structure of the Oryza sativa OsSGT1-TPR domain at 1.53 Å resolution. Structural analysis showed that the TPR domain adopts a homo-dimeric architecture stabilized by salt bridges (mediated by K52/R79/R109) and hydrophobic interactions (involving F17). Functional validation through gel filtration chromatography revealed that the disruption of the dimerization interface via F17A/K52A/R79A mutations caused complete dissociation into monomers, establishing the essential role of TPR-mediated oligomerization in maintaining the structural stability of full-length OsSGT1. Yeast two-hybrid assays showed that the dimerization disruption of SGT1 mutants retained the interaction with OsHSP81-2 (an HSP90 ortholog) and OsRAR1, indicating that SGT1 oligomerization serves primarily as a structural stabilizer rather than a prerequisite for partner interaction. Evolutionary analysis through the sequence alignment of plant SGT1 proteins revealed the conservation of the dimerization interface residues. This study provides structural insights into the conserved molecular features of SGT1 proteins and highlights the functional significance of their oligomerization state. Full article
(This article belongs to the Section Biomolecular Crystals)
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17 pages, 3411 KiB  
Article
Effects of Potassium Fulvic Acid on Soil Physical and Chemical Properties and Soil Microenvironment of Blueberry (Vaccinium corymbosum L.) Under Salt Stress
by Xuanrong Wu, Dekang Hou, Jing Ma, Yanan Li, Lin Wu, Haiguang Liu, Yi Zuo, Xinxin Guo, Jinying Li and Ying Wang
Plants 2025, 14(11), 1654; https://doi.org/10.3390/plants14111654 - 29 May 2025
Viewed by 511
Abstract
These days, one of the main issues preventing agricultural development is salinized soils. Potassium fulvic acid (PFA) not only regulates plant growth, but also improves the soil nutrient content and physical structure, which makes it a soil conditioner worth promoting. Nevertheless, the research [...] Read more.
These days, one of the main issues preventing agricultural development is salinized soils. Potassium fulvic acid (PFA) not only regulates plant growth, but also improves the soil nutrient content and physical structure, which makes it a soil conditioner worth promoting. Nevertheless, the research conducted thus far on the subject of PFA with regard to plant growth and inter-root microbial communities remains somewhat limited in scope. In this study, a pot experiment was conducted to simulate both the normal environment and salt stress environment. The objective of this experiment was to verify the effect of PFA on the growth of blueberry (Vaccinium corymbosum L.) as well as its effect on the soil physical and chemical indices and the soil microbial community structure. The findings demonstrated that the implementation of potassium fulvic acids exhibited a minimal impact on the growth of blueberry plants under standard environmental conditions. However, it was observed to exert a substantial effect on enhancing various physiological parameters, including plant height, root activity, and chlorophyll synthesis, particularly in response to salt stress. PFA led to a substantial augmentation in the soil organic matter content, alongside a notable rise in the alkali-hydrolyzable nitrogen (AN) and available potassium (AK) content. Concurrently, PFA caused a notable escalation in the activities of soil urease, sucrase, acid phosphatase, and catalase (p < 0.05) in the salt-stressed environment. PFA increased the abundance of Acidobacteria, Myxococcota, Ascomycota, and Fungi_phy_Incertae_sedis under salt stress, which was mainly related to the decrease in electrical conductivity (EC) values and increase in soil acid phosphatase (S-ACP) activity. It is evident that the implementation of PFA is advantageous in enhancing the saline environment, mitigating the impact of salt damage on blueberries and establishing a foundation for the expansion of cultivated areas and the sustainable cultivation of blueberries. Full article
(This article belongs to the Special Issue Plant Challenges in Response to Salt and Water Stress)
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16 pages, 8200 KiB  
Article
Enhancing Soil Phosphorus and Potassium Availability in Tea Plantation: The Role of Biochar, PGPR, and Phosphorus- and Potassium-Bearing Minerals
by Wen Wei, Kunyu Li, Changjun Li, Siyu Wang, Lulu Li, Jinchuan Xie, Ting Li, Zijun Zhou, Shirong Zhang, Yulin Pu, Yongxia Jia, Xiaojing Liu, Xiaoxun Xu and Guiyin Wang
Agronomy 2025, 15(6), 1287; https://doi.org/10.3390/agronomy15061287 - 23 May 2025
Cited by 1 | Viewed by 660
Abstract
The co-application of biochar, plant growth-promoting rhizobacteria (PGPR), and phosphorus- and potassium-bearing minerals has emerged as a promising strategy for improving soil nutrient availability. However, the synergistic effects and impact factors that facilitate this optimization are yet to be fully elucidated. To address [...] Read more.
The co-application of biochar, plant growth-promoting rhizobacteria (PGPR), and phosphorus- and potassium-bearing minerals has emerged as a promising strategy for improving soil nutrient availability. However, the synergistic effects and impact factors that facilitate this optimization are yet to be fully elucidated. To address this knowledge gap, we conducted a pot experiment to evaluate the effects of these amendments on tea yield and phosphorus (P)/potassium (K) availability, while employing Random Forest (RF) and Partial Least Squares Structural Equation Modeling (PLS-SEM) to reveal the underlying mechanisms driving these improvements. The results demonstrated that the tripartite combination significantly enhanced tea yield, leaf P/K concentrations, and soil available P (AP)/available K (AK) levels compared to individual applications or pairwise combinations. Analytical modeling identified Chloroflexi bacteria containing pqqc functional genes as key drivers of AP enhancement. The AP was further modulated by β-glucosidase activity, NaHCO3-P, and AK levels. Critical determinants of AK dynamics included phosphorus-solubilizing bacterial populations, catalase activity, and fundamental soil chemical properties. In summary, our research conclusively shows that the co-application of phosphorus- and potassium-bearing minerals, PGPR, and biochar represents an effective approach to enhancing P and K accessibility in soil, thereby offering a viable alternative to conventional P and K fertilizers in tea cultivation. Full article
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20 pages, 9099 KiB  
Article
Comprehensive Genome-Wide Investigation and Transcriptional Regulation of the bZIP Gene Family in Litchi Fruit Development
by Jiaxuan Liu, Saimire Silaiyiman, Jiaxin Wu, Lejun Ouyang, Zheng Cao and Chao Shen
Plants 2025, 14(10), 1453; https://doi.org/10.3390/plants14101453 - 13 May 2025
Viewed by 573
Abstract
Litchi chinensis, a crucial tropical and subtropical fruit tree in southern China, is widely appreciated for its distinctive flavor, high nutritional value, and significant economic impact. The bZIP (basic leucine zipper) gene family plays an essential role in regulating key biological functions [...] Read more.
Litchi chinensis, a crucial tropical and subtropical fruit tree in southern China, is widely appreciated for its distinctive flavor, high nutritional value, and significant economic impact. The bZIP (basic leucine zipper) gene family plays an essential role in regulating key biological functions during plant growth and development. In this study, we performed a comprehensive bioinformatics analysis of the bZIP gene family in litchi to systematically elucidate its molecular characteristics and functional properties. A total of 55 bZIP gene family members were identified, with the encoded proteins containing between 129 and 845 amino acid residues and theoretical isoelectric points (pI) ranging from 4.85 to 10.23. Protein–protein interaction network analysis revealed that 46 proteins exhibited interaction relationships. Phylogenetic analysis classified these genes into 13 distinct subgroups (A–K, M, and S). Chromosomal localization analysis indicated that bZIP gene family members were successfully mapped to 15 chromosomes. Intraspecific collinearity analysis identified 39 segmental duplication events, while interspecific and single-gene collinearity analyses suggested evolutionary conservation, with only a few genes exhibiting duplication or loss events. Cis-acting element analysis revealed a total of 213 elements associated with growth and development, which may play an important role in fruit development regulation. The results of differential gene expression, related to fruit development across different litchi cultivars, tissues, and flowering stages, combined with qRT-PCR validation, suggest that LITCHI017015.m1 and LITCHI004463.m1 may be involved in the early regulation of fruit development, while LITCHI018843.m1 may play a regulatory role during the later stages of fruit development. These findings provide a strong theoretical foundation for understanding the roles of bZIP genes in litchi fruit growth and development, and lay the groundwork for further functional studies. This study has potential application value in litchi fruit development and genetic improvement. Full article
(This article belongs to the Special Issue Recent Advances in Horticultural Plant Genomics)
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33 pages, 2794 KiB  
Article
Soil Bulk Density, Aggregates, Carbon Stabilization, Nutrients and Vegetation Traits as Affected by Manure Gradients Regimes Under Alpine Meadows of Qinghai–Tibetan Plateau Ecosystem
by Mahran Sadiq, Nasir Rahim, Majid Mahmood Tahir, Aqila Shaheen, Fu Ran, Guoxiang Chen and Xiaoming Bai
Plants 2025, 14(10), 1442; https://doi.org/10.3390/plants14101442 - 12 May 2025
Viewed by 483
Abstract
Climate change and overgrazing significantly constrain the sustainability of meadow land and vegetation in the livestock industry on the Tibetan–Plateau ecosystem. In context of climate change mitigation, grassland soil C sequestration and forage sustainability, it is important to understand how manure regimes influence [...] Read more.
Climate change and overgrazing significantly constrain the sustainability of meadow land and vegetation in the livestock industry on the Tibetan–Plateau ecosystem. In context of climate change mitigation, grassland soil C sequestration and forage sustainability, it is important to understand how manure regimes influence SOC stability, grassland soil, forage structure and nutritional quality. However, the responses of SOC fractions, soil and forage structure and quality to the influence of manure gradient practices remain unclear, particularly at Tianzhu belt, and require further investigation. A field study was undertaken to evaluate the soil bulk density, aggregate fractions and dynamics in SOC concentration, permanganate oxidizable SOC fractions, SOC stabilization and soil nutrients at the soil aggregate level under manure gradient practices. Moreover, the forage biodiversity, aboveground biomass and nutritional quality of alpine meadow plant communities were also explored. Four treatments, i.e., control (CK), sole sheep manure (SM), cow dung alone (CD) and a mixture of sheep manure and cow dung (SMCD) under five input rates, i.e., 0.54, 1.08, 1.62, 2.16 and 2.70 kg m−2, were employed under randomized complete block design with four replications. Our analysis confirmed the maximum soil bulk density (BD) (0.80 ± 0.05 g cm−3) and micro-aggregate fraction (45.27 ± 0.77%) under CK, whilst the maximum macro-aggregate fraction (40.12 ± 0.54%) was documented under 2.70 kg m−2 of SMCD. The SOC, very-labile C fraction (Cfrac1), labile C fraction (Cfrac2) and non-labile/recalcitrant C fraction (Cfrac4) increased with manure input levels, being the highest in 2.16 kg m−2 and 2.70 kg m−2 applications of sole SM and the integration of 50% SM and 50% CD (SMCD), whereas the less-labile fraction (Cfrac3) was highest under CK across aggregate fractions. However, manures under varying gradients improved SOC pools and stabilization for both macro- and micro-aggregates. A negative response of the carbon management index (CMI) in macro-aggregates was observed, whilst CMI in the micro-aggregate fraction depicted a positive response to manure addition with input rates, being the maximum under sole SM addition averaged across gradients. Higher SOC pools and CMI under the SM, CD and SMCD might be owing to the higher level of soil organic matter inputs under higher doses of manures. Moreover, the highest accumulation of soil nutrients,, for instance, TN, AN, TP, AP, TK, AK, DTPA extractable Zn, Cu, Fe and Mn, was recorded in SM, CD and SMCD under varying gradients over CK at both aggregate fractions. More nutrient accumulation was found in macro-aggregates over micro-aggregates, which might be credited to the physical protection of macro-aggregates. Overall, manure addition under varying input rates improved the plant community structure and enhanced meadow yield, plant community diversity and nutritional quality more than CK. Therefore, alpine meadows should be managed sustainably via the adoption of sole SM practice under a 2.16 kg m−2 input rate for the ecological utilization of the meadow ecosystem. The results of this study deliver an innovative perspective in understanding the response of alpine meadows’ SOC pools, SOC stabilization and nutrients at the aggregate level, as well as vegetation structure, productivity and forage nutritional quality to manure input rate practices. Moreover, this research offers valuable information for ensuring climate change mitigation and the clean production of alpine meadows in the Qinghai–Tibetan Plateau area of China. Full article
(This article belongs to the Section Plant Ecology)
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18 pages, 2012 KiB  
Article
Impact of Volcanic Slag on Cucumber Yield, Quality, and Rhizosphere Soil Environment
by Qi Chen, Xiaohong Li, Wanwu Zhang, Dongxu Xue, Qiyuan Sun, Hangtao Xing, Wei Wang and Chunyan Wu
Plants 2025, 14(9), 1328; https://doi.org/10.3390/plants14091328 - 28 Apr 2025
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Abstract
This study aimed to examine the effect of adding volcanic slag to soil on the growth, yield, and quality of cucumbers. It also analyzed the changes in the physicochemical properties of the rhizosphere soil, as well as the diversity and structural changes of [...] Read more.
This study aimed to examine the effect of adding volcanic slag to soil on the growth, yield, and quality of cucumbers. It also analyzed the changes in the physicochemical properties of the rhizosphere soil, as well as the diversity and structural changes of the bacterial community present in the soil of the cucumber plants. This study used conventional fertilization and cultivation techniques and set up five treatments: HS500, HS1000, HS1500, and HS2000 (representing 500, 1000, 1500, and 2000 kg/ha of volcanic slag added per 667 sq.m in the cultivation trough, respectively), and control (CK; representing 0 kg of added volcanic slag). The Illumina MiSeq System was used to analyze the soil microbial community. The findings revealed that the HS1000 treatment had the most significant promoting effect on increasing cucumber yield, whereas the HS2000 treatment exhibited no significant change compared with the CK treatment. The HS500, HS1000, and HS1500 treatments increased the yield by 12.89%, 24.28%, and 19.56%, respectively, compared with the CK treatment. The HS1000 treatment increased the soluble sugar, vitamin C, and soluble solid contents by 12.39%, 17.57%, and 24.33%, respectively, compared with the CK treatment. The organic matter, total nitrogen, alkali-hydrolyzable nitrogen, nitrate nitrogen, ammonium nitrogen (NH4+-N), available potassium (AK), and available phosphorus (AP) contents in the rhizosphere soil of cucumber plants were the highest under the HS1000 treatment. The alpha diversity analysis revealed that the Chao1, Shannon, and ACE indexes reached the highest under the HS1000 treatment, which were significantly higher than the CK treatment. In contrast, the Simpson index and coverage had no significant changes between treatments. The dominant phyla in each treatment were Proteobacteria, Actinobacteria, and Acidobacteria, among others. The redundancy analysis of soil physicochemical properties and 15 bacterial genera of interest revealed that the available phosphorus, available potassium, and NH4+-N contents were the primary factors influencing the bacterial community in cucumber rhizosphere soil. Full article
(This article belongs to the Section Plant Response to Abiotic Stress and Climate Change)
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22 pages, 4814 KiB  
Article
Microbial Community Response and Assembly Process of Yellow Sand Matrix in a Desert Marginal Zone Under Morchella Cultivation
by Cuicui Su, Shengyin Zhang, Yanfang Zhou, Hao Tan, Shuncun Zhang, Tao Wang, Zhaoyun Ding and Jie Liao
Microorganisms 2025, 13(4), 921; https://doi.org/10.3390/microorganisms13040921 - 16 Apr 2025
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Abstract
In this study, we investigated the adaptation of yellow-sand-substrate Morchella cultivation in the desert fringe and its effect on soil physicochemical properties and microbial communities. The qPCR and high-throughput sequencing with null modeling analyzed microbial diversity, networks, and assembly of Morchella cultivation under [...] Read more.
In this study, we investigated the adaptation of yellow-sand-substrate Morchella cultivation in the desert fringe and its effect on soil physicochemical properties and microbial communities. The qPCR and high-throughput sequencing with null modeling analyzed microbial diversity, networks, and assembly of Morchella cultivation under nutrient supplementation, linking physicochemical changes to microbial dynamics. The results showed that the yellow sand substrate can be planted with Morchella in the desert fringe area, as the Morchella cultivation with nutrient bags resulted in a yield of 691 g/m2 of Morchella fruit units. Cultivation of Morchella could significantly increase the physicochemical properties of the yellow sand substrate, such as soil organic matter (SOM), total nitrogen (TN), ammonium nitrogen (NH4+−N), and the microbial amount of carbon and nitrogen (MBC/MBN). The fungal community was dominated by Ascomycota, and Basidiomycota, Firmicutes, Bacteroidota, and Actinobacteriota. RDA analysis showed that Ascomycota and Proteobacteria were positively correlated with NH4+−N, MBN, SOM, MBC, acting potassium (AK), TN, and C/N. Morchella cultivation promoted a positive correlation-dominant microbial network pattern in the yellow sand substrate. The nutrient bag treatment reduced bacterial network complexity while enhancing fungal network complexity, connectivity and stability, accompanied by significant increases in Proteobacteria, Bacteroidota, Cladosporium, and Thermomyces relative abundances during cultivation until original substrate degradation. Deterministic processes dominated bacterial and fungal communities, and morel cultivation drove bacterial and fungal community assembly toward heterogeneous selection processes. The results of the study revealed the economic value of Morchella cultivation in the desert fringe and the application potential of improving the physicochemical properties of yellow sandy soil, which is of great importance for practical cultivation and application of morel mushrooms in the desert. Full article
(This article belongs to the Section Environmental Microbiology)
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