Long-term Organic Fertilization Research Articles

Comparative Analysis of Nitrogen Use Efficiency in Boro Rice under Long-term Inorganic and Organic Fertilization Practices

An experiment was conducted during Boro rice in the permanent experimental field of the Department of Soil Science, Bangladesh Agricultural University (BAU), Mymensingh to investigae the long term outcome of manure and fertilizers on the yield and Nitrogen Use Efficiency (NUE) of BRRI dhan29 in floodplain (Subtropical) soil (Aeric Haplaquepts). The experiment was designed in a randomized complete block design with three replications. There were ten treatment combinations viz, control; Nitrogen (N); (Nitrogen Phosphorus) NP; Nitrogen Potassium (NK); Nitrogen Phosphorus Potassium (NPK); Nitrogen Zinc (NZn); Nitrogen Sulphur (NS); Nitrogen Sulphur Zinc (NSZn), Nitrogen Phosphorus Potassium Sulphur Zinc (NPKSZn) and NPK+FYM. The yield contributing characters and yield of BRRI dhan29 significantly increased due to different treatments. Grain and straw yields were highly influenced by the application of nutrients in various combinations. The longest panicle length (25.3 cm), the highest 1000 grain weight (22.7 g), the maximum grain yield (6.29 t ha-1), the highest nitrogen uptake in grain (70.4 kg ha-1) were found for the NPKSZn treatment. Grain yield increased by 24.8%, 85.8%, 40.7%, 68.9%, 29.2%, 33.2%, 107.1%, 28.9% and 78.9% due to N, NP, NK, NPK, NS, NSZn, NPKSZn, NZn and NPK+FYM treatments respectively and the corresponding straw yields attainment by 49.6%, 51.1%, 82.0%, 95.3%, 37.8%, 34.4%, 82.7%, 41.8% and 90.2%. The maximum value of apparent nitrogen use efficiency was obtained with NPKSZn (54.06%) treatment which evidently suggested its resultness for the long term fertilized soil.

Adaptation of rhizobacterial and endophytic communities in Citrus Grandis Exocarpium to long-term organic and chemical fertilization.

Organic fertilizers (OF) are crucial for enhancing soil quality and fostering plant growth, offering a more eco-friendly and enduring solution compared to chemical fertilizers (CF). However, few studies have systematically analyzed the effects of OF/CF on root microbiome of medicinal plants, especially in combination with active ingredients. In this study, we investigated the composition and function of bacteria and fungi in the rhizosphere or within the root of traditional Chinese medicinal plants, Citri Grandis Exocarpium (Huajuhong), which were treated with OF or CF over 1, 3, and 5 years (starting from 2018). Additionally, we conducted metabolome analysis to evaluate the effects of different fertilizers on the medicinal properties of Huajuhong. The results indicated that extended fertilization could enhance the microbial population and function in plant roots. Notably, OF demonstrated a stronger influence on bacteria, whereas CF enhanced the cohesion of fungal networks and the number of fungal functional enzymes, and even potentially reduced the proliferation of harmful rhizosphere pathogens. By adopting distancebased redundancy analysis, we identified the key physicochemical characteristics that significantly influence the distribution of endophytes, particularly in the case of OF. In contrast, CF was found to exert a more pronounced impact on the composition of the rhizosphere microbiome. Although the application of OF resulted in a broader spectrum of compounds in Huajuhong peel, CF proved to be more efficacious in elevating the concentrations of flavonoids and polysaccharides in the fruit. Consequently, the effects of long-term application of OF or CF on medicinal plants is different in many ways. This research provides a guide for OF/CF selection from the perspective of soil microecology and aids us to critically assess and understand the effects of both fertilizers on the soil environment, and promotes sustainable development of organic agriculture.

Long-term organic fertilization increases phosphorus content but reduces its release in soil aggregates

There is currently limited published information on the coupling correlation between phosphorus (P) redistribution and release in soil aggregates. To fulfill this gap, we conducted a 10-year field experiment of soil amended with organic fertilizer to investigate phosphorus transformation and immobilization during the organic fertilization process. Microbial communities, functional genes and enzymes were analyzed to elucidate the multi-mechanisms of the conversion among phosphorus fractions. Phosphorus content in soil aggregates was determined as follows: FeP (34 % ~ 45 %) > Ca-P (16 % ~ 27 %) > Oc-P (15 % ~ 17 %) > Or-P (13 % ~ 19 %) > Al-P (4 % ~ 5 %) ≈ Ex-P (2 % ~ 4 %). Compared to a control with only chemical fertilizer, a 13 % ~ 38 % increase in P availability of experimental treatments mixed with chemical and organic fertilizers was attributed to the mineralization of Or-P, but not to the dissolution of inorganic P. Following organic fertilization, the phnF gene was dominant factor to promote the mineralization of Or-P, because it encodes CP lyases that pyrolyzes the CP bounds in organophosphate esters. Overall, organic fertilization decreased P release risk in soil aggregates, especially for the micro-aggregates that showed a higher capacity to activate non-available P and immobilize endogenous P in farmland soil. These results provide a theoretical guidance for the source control of P pollution in agro-ecosystems.

Unraveling the characteristics of microplastics in agricultural soils upon long-term organic fertilizer application: A comprehensive study using diversity indices

Microplastics negatively impact soil health and productivity. Organic fertilizers constitute significant contributors of microplastics in agricultural soils. Nevertheless, comprehensive data on the diversity of microplastics in long-term fertilized soils remain unavailable. In this study, we assessed the presence of microplastics in soils subjected to application of three different organic fertilizers (pig manure, chicken manure, and sludge composts) over 12 years, and evaluated the potential ecological risks posed by microplastic accumulation. The average microplastic abundance in soil was 368.88 ± 207.97 (range: 90–910) items/kg. Microplastic abundance differed among fertilization treatments, with substantial increases of 16.67%, 71.67%, and 61.43% upon low to high application of the three treatments, respectively. Overall, the microplastics predominantly comprised fibers (70.94%) and fragments (25.25%), of which a substantial proportion constituted light-colored microplastics (transparent and white). The size of microplastics was mainly concentrated in the 1–2 mm range (39.96%), with rayon, polypropylene, polyester, and polyethylene being identified as the major types. The risk assessment indices of the three treatments were 229.38, 257.64, and 175.89, respectively, and were all classified as level 4 (high risk). The microplastic diversity integrated index and principal component analysis revealed that microplastics were uniformly distributed throughout the 0–20 cm soil depth consequent to tillage activity. Together, these findings provide a comprehensive assessment of microplastic pollution in long-term fertilized soils and serve as a scientific basis for reducing microplastic contamination in agricultural soils.

Implementasi Sistem Pertanian Organik di Desa Karangrejo, Kecamatan Gumukmas, Kabupaten Jember

The Mulyo Farmer Group of Karangrejo village are the fostered villages of the University of Jember and have long been food producers, especially rice and corn, with the potential to become one of the providers of organic products according to SNI 6729:2016. Therefore it is essential to evaluate the implementation of gab against the standard requirements of organic farming systems. Some of the activities carried out are Evaluation and increasing understanding of the application of organic farming systems by continuing the practice of making biochar from agricultural waste for long-term organic fertilizer base materials; Focus Group Discussion and ongoing assistance by the Soil Biodiversity and Fertility Research Group UNEJ. The results of the activities show that the community and village officials are thrilled and open to several activities to be carried out. The results of the initial evaluation using the checklist for fulfilling the requirements of SNI 6729:2016 are based on eight variables related to fresh plants and plant products, indicating that there is no program yet to meet the needs of the organic farming system of SNI 6729:2016 or it has not yet been fulfilled. Even though it has not been fulfilled, the potential for implementing it remains open if based on its main potential, namely organic fertilizer sources and water sources (lowlands with relatively shallow groundwater tables). The existence of many livestock and agricultural waste (which is not harvested) available throughout the year can be used as a source of organic fertilizer in maintaining soil fertility or health.

Soil Organic Matter and Amorphous Oxides Determine the Surface Electrochemical Properties of Purple Soil Under Long-Term Inorganic and Organic Fertilization

Soil Organic Matter and Amorphous Oxides Determine the Surface Electrochemical Properties of Purple Soil Under Long-Term Inorganic and Organic Fertilization

Comparative evaluation of 16S rRNA primer pairs in identifying nitrifying guilds in soils under long-term organic fertilization and water management.

Compared with 454 sequencing technology, short-read sequencing (e.g., Illumina) technology generates sequences of high accuracy, but limited length (<500 bp). Such a limitation can prove that studying a target gene using a large amplicon (>500 bp) is challenging. The ammonia monooxygenase subunit A (amoA) gene of ammonia-oxidizing archaea (AOA), which plays a crucial part in the nitrification process, is such a gene. By providing a full overview of the community of a functional microbial guild, 16S ribosomal ribonucleic acid (rRNA) gene sequencing could overcome this problem. However, it remains unclear how 16S rRNA primer selection influences the quantification of relative abundance and the identification of community composition of nitrifiers, especially AOA. In the present study, a comparison was made between the performance of primer pairs 338F-806R, 515F-806R, and 515F-907R to a shotgun metagenome approach. The structure of nitrifier communities subjected to different long-term organic matter amendment and water management protocols was assessed. Overall, we observed higher Chao1 richness diversity of soil total bacteria by using 515F-806R compared to 338F-806R and 515F-907R, while higher Pielou's evenness diversity was observed by using 515F-806R and 515F-907R compared to 338F-806R. The studied primer pairs revealed different performances on the relative abundance of Thaumarchaeota, AOB, and NOB. The Thaumarchaeota 16S rRNA sequence was rarely detected using 338F-806R, while the relative abundances of Thaumarchaeota detected using 515F-806R were higher than those detected by using 515F-907R. AOB showed higher proportions in the 338F-806R and 515F-907R data, than in 515F-806R data. Different primers pairs showed significant change in relative proportion of NOB. Nonetheless, we found consistent patterns of the phylotype distribution of nitrifiers in different treatments. Nitrosopumilales (NP) and Nitrososphaerales (NS) clades were the dominant members of the AOA community in soils subject to controlled irrigation, whereas Ca. Nitrosotaleales (NT) and NS clades dominated the AOA community in soils subject to flooding irrigation. Nitrospira lineage II was the dominant NOB phylotype in all samples. Overall, ideal 16S rRNA primer pairs were identified for the analysis of nitrifier communities. Moreover, NP and NT clades of AOA might have distinct environmental adaptation strategies under different irrigation treatments.

Responses of soil fungal and bacterial communities to long-term organic and inorganic nitrogenous fertilizers in an alpine agriculture

Although nitrogen fertilizer is an important measure to increase grain yield, response of soil microbial community to nitrogen fertilizer is still unclear in alpine regions. Based on a long-term (>10 years) nitrogen fertilizer experiment (control, CF: chemical fertilizer, SM: sheep manure; CS: chemical fertilizer + sheep manure) in an alpine agroecosystem of the Lhasa, Xizang, responses of soil bacteria and fungi communities to nitrogen fertilizer was investigated. The CF treatment reduced fungi operational taxonomic unit (OTU) by 13.08 %, phylogenetic diversity by 11.13 % at 10–20 cm, but increased fungi guild number at 0–10 cm by 17.71 %. The SM treatment reduced fungi OTU at 10–20 cm by 11.82 %. Compared to CF and SM treatments, CS treatment had stronger positive effects on bacterial α-diversity, considering that CS treatment but not CF and SM treatments increased bacterial mean nearest taxon distance, species Shannon and Simpson at 10–20 cm. The CF, SM and CS treatments altered fungal community composition at 0–10 and 10–20 cm, bacterial community composition at 10–20 cm, and bacterial species composition at 0–10 cm. The CF and CS treatments altered bacterial phylogenetic composition at 0–10 cm, and the SM and CS treatments altered bacterial functional composition at 0–10 cm. The decreased magnitude of the relative abundance of symbiotroph fungi caused by CS treatment (90.44 %) was stronger than that (65.14 % and 53.62 %) caused by CF and SM treatments at 10–20 cm. Therefore, the SM and CS treatments had stronger effects on soil bacterial functional composition, but the CF treatment had stronger effects on fungal α-diversity. Compared with single application of organic or inorganic nitrogen fertilizer, mixed application of organic and inorganic nitrogen fertilizer was more beneficial to the maintenance and improvement of soil bacterial diversity, but caused more reduction of soil symbiotic fungi and in turn greater potential risk. These scientific findings observed by this study can provide guidance for fertilizer management and soil fertility improvement.

Combining Organic and Inorganic Fertilization Enhances Soil Enzyme Activity, the Bacterial Community, and Molecular Ecological Network Complexity in Coal Mine Reclamation Areas

Combined organic and inorganic fertilization can improve soil fertility in coal mine reclamation areas. However, the contribution of the bacterial community (especially its occurrence patterns) to soil physicochemical properties and enzyme activity needs further evaluation. The objective of this research was to clarify the bacterial community diversity, composition, and intraspecific interactions in response to combined organic and inorganic fertilizer application in coal mine reclamation areas in the Loess Hilly Region, China. Maize rhizosphere soil samples were collected under four fertilization regimes (CK, no fertilization control; NPK, compound inorganic fertilizer; M, organic fertilizer; and NPKM, combined organic and inorganic fertilization) in a 10-year field experiment in Gujiao city, Shanxi Province. Bacterial communities were characterized using high-throughput sequencing of the 16S rRNA gene V3–V4 region. A cross-treatment Spearman correlation network was constructed to explore the bacterial co-occurrence patterns. Compared with CK, NPK, M, and NPKM decreased the pH by 0.59%, 2.27%, and 0.12%; increased the soil organic carbon by 11.25%, 11.69%, and 27.05%; and significantly decreased the bacterial Shannon diversity by 3.68%, 0.14%, and 3.54%, respectively. Compared with CK, NPKM significantly increased sucrase, urease, and alkaline phosphatase activities (p &lt; 0.05). Critically, oligotrophic Acidobacteria were significantly more abundant in CK than in the other treatments. Gemmatimonadetes were more abundant in NPK and M, and Actinobacteria, Bacteroidota, and Patescibacteria were more abundant in NPKM. In addition, network analysis revealed that the keystone taxa in the different fertilization treatments belonged to different network modules and were significantly correlated with soil nutrient content and enzyme activity. Simultaneously, the Actinobacteria enriched in NPKM formed specific clusters through strong symbiosis, and there were significant positive correlations among sucrase, urease, and alkaline phosphatase. In summary, long-term combined organic and inorganic fertilization improved maize rhizosphere soil fertility by regulating enzyme activity, bacterial community composition, and bacterial species interactions in coal mine reclamation areas in the Loess Hilly Region.

Soil Acidification Can Be Improved under Different Long-Term Fertilization Regimes in a Sweetpotato-Wheat Rotation System.

Soil acidification is a significant form of agricultural soil degradation, which is accelerated by irrational fertilizer application. Sweetpotato and wheat rotation has emerged as an important rotation system and an effective strategy to optimize nutrient cycling and enhance soil fertility in hilly areas, which is also a good option to improve soil acidification and raise soil quality. Studying the effects of different fertilization regimes on soil acidification provides crucial data for managing it effectively. An eight-year field experiment explored seven fertilizer treatments: without fertilization (CK), phosphorus (P) and potassium (K) fertilization (PK), nitrogen (N) and K fertilization (NK), NP fertilization (NP), NP with K chloride fertilization (NPK1), NP with K sulfate fertilization (NPK2), and NPK combined with organic fertilization (NPKM). This study focused on the soil acidity, buffering capacity, and related indicators. After eight years of continuous fertilization in the sweetpotato-wheat rotation, all the treatments accelerated the soil acidification. Notably, N fertilization reduced the soil pH by 1.30-1.84, whereas N-deficient soil showed minimal change. Organic fertilizer addition resulted in the slowest pH reduction among the N treatments. Both N-deficient (PK) and organic fertilizer addition (NPKM) significantly increased the soil cation exchange capacity (CEC) by 8.83% and 6.55%, respectively, compared to CK. Similar trends were observed for the soil-buffering capacity (pHBC). NPK2 increased the soil K+ content more effectively than NPK1. NPKM reduced the sodium and magnesium content compared to CK, with the highest magnesium content among the treatments at 1.60 cmol·kg-1. Regression tree analysis identified the N input and soil magnesium and calcium content as the primary factors influencing the pHBC changes. Structural equation modeling showed that the soil pH is mainly influenced by the soil ammonium N content and pHBC, with coefficients of -0.28 and 0.29, respectively. Changes in the soil pH in the sweetpotato-wheat rotation were primarily associated with the pHBC and N input, where the CEC content emerged as the main factor, modulated by magnesium and calcium. Long-term organic fertilization enhances the soil pHBC and CEC, slowing the magnesium reduction and mitigating soil acidification in agricultural settings.

Effects of Long-Term Organic Fertilizer Application on Tea Plantation Soil of Its Physical and Chemical Properties and Microbial Communities

Effects of Long-Term Organic Fertilizer Application on Tea Plantation Soil of Its Physical and Chemical Properties and Microbial Communities

Mitigating soil degradation in continuous cropping banana fields through long-term organic fertilization: Insights from soil acidification, ammonia oxidation, and microbial communities

Exploring the potential of organic fertilizers as a mitigating strategy against the negative consequences induced by prolonged use of inorganic fertilizers in high-intensity banana cultivation is critically essential. Ammonia-oxidizer are closely linked to soil acidification, and how they respond to the long term fertilized banana field soil still poorly understood. In this study, soil samples from long-term inorganic (CF), and inorganically plus organically fertilized banana fields (OF) (from 2010 to 2019) were used to investigate the soil acid buffer capacity (pHBC), the potential nitrification rate (PNR), and the community structure of bacteria, fungi, ammonia-oxidizing archaea (AOA), and bacteria (AOB). Compared to the natural soil (CK, unplanted, and unfertilized), the pH and pHBC in the long-term fertilized banana field (both CF and OF) were significantly reduced. However, the pHBC was 1.3 times higher in soil receiving OF treatment than that in CF treatment. Organic matter (OM) and total nitrogen (TN) were significantly increased in the OF treated soil, which were 1.88 and 1.6 times higher compared to the CF-treated ones. The PNR in banana soil was 3.71–4.85 times higher than in the natural soil. High-throughput sequencing results showed that Candidatus Nitrosospharea SCA1170-like AOA and Nitrosospira spp-like AOB were adapted to long-term fertilization in banana field soil. Potentially pathogenic bacteria, Xanthomonadaceae, were enriched in CF-treated soil compared to CK and OF soils. Opposingly, potentially beneficial Streptomyces and Arthrobacter were enriched in natural soil. Meanwhile, the OF-treated soil demonstrated a greater abundance of beneficial Bacillus and Alicyclobacillus. The study reveals that organic fertilizers ameliorate soil acidification, low organic matter content and microbial diversity compared to inorganic fertilizers for banana cultivation.

Biological Interactions Mediate Soil Functions by Altering Rare Microbial Communities.

Soil microbes, the main driving force of terrestrial biogeochemical cycles, facilitate soil organic matter turnover. However, the influence of the soil fauna on microbial communities remains poorly understood. We investigated soil microbiota dynamics by introducing competition and predation among fauna into two soil ecosystems with different fertilization histories. The interactions significantly affected rare microbial communities including bacteria and fungi. Predation enhanced the abundance of C/N cycle-related genes. Rare microbial communities are important drivers of soil functional gene enrichment. Key rare microbial taxa, including SM1A02, Gammaproteobacteria, and HSB_OF53-F07, were identified. Metabolomics analysis suggested that increased functional gene abundance may be due to specific microbial metabolic activity mediated by soil fauna interactions. Predation had a stronger effect on rare microbes, functional genes, and microbial metabolism compared to competition. Long-term organic fertilizer application increased the soil resistance to animal interactions. These findings provide a comprehensive understanding of microbial community dynamics under soil biological interactions, emphasizing the roles of competition and predation among soil fauna in terrestrial ecosystems.

Active microbial population dynamics and life strategies drive the enhanced carbon use efficiency in high-organic matter soils.

Microbial carbon use efficiency (CUE) is a critical parameter that controls carbon storage in soil, but many uncertainties remain concerning adaptations of microbial communities to long-term fertilization that impact CUE. Based on H218O quantitative stable isotope probing coupled with metagenomic sequencing, we disentangled the roles of active microbial population dynamics and life strategies for CUE in soils after a long-term (35 years) mineral or organic fertilization. We found that the soils rich in organic matter supported high microbial CUE, indicating a more efficient microbial biomass formation and a greater carbon sequestration potential. Organic fertilizers supported active microbial communities characterized by high diversity and a relative increase in net growth rate, as well as an anabolic-biased carbon cycling, which likely explains the observed enhanced CUE. Overall, these results highlight the role of population dynamics and life strategies in understanding and predicting microbial CUE and sequestration in soil.IMPORTANCEMicrobial CUE is a major determinant of global soil organic carbon storage. Understanding the microbial processes underlying CUE can help to maintain soil sustainable productivity and mitigate climate change. Our findings indicated that active microbial communities, adapted to long-term organic fertilization, exhibited a relative increase in net growth rate and a preference for anabolic carbon cycling when compared to those subjected to chemical fertilization. These shifts in population dynamics and life strategies led the active microbes to allocate more carbon to biomass production rather than cellular respiration. Consequently, the more fertile soils may harbor a greater microbially mediated carbon sequestration potential. This finding is of great importance for manipulating microorganisms to increase soil C sequestration.

Long-term organic fertilization combined with deep ploughing enhances carbon sequestration in a rainfed sorghum-maize rotation system

Organic fertilization and deep ploughing are expected to contribute to carbon (C) sequestration in arable soils. This hypothesis was evaluated over 11 years of chemical and organic fertilization under conventional tillage (20 cm) and deep ploughing (40 cm) in a rainfed sorghum-maize rotation system on the Loess Plateau. Soil was collected and analysed to determine the soil organic C (SOC) and total nitrogen (TN) contents in the soil profiles (0–60 cm) or in the macroaggregates, microaggregates and silt and clay fractions (0–20 cm only). The SOC and TN stocks at the 0–60 cm depth displayed a net decrease in the unfertilized control, a marginal increase with chemical fertilizer, a significant increase of 23–45 % and 19–42 %, respectively, with organic amendments and a significant increase of 54 % and 48 %, respectively, when combined with deep ploughing. A critical input amount of 2064 kg C ha−1 yr−1 or 162 kg N ha−1 yr−1 was found to be required to maintain the initial SOC or TN stock. The annual N input was positively correlated with the C sequestration efficiency (P < 0.001). This supports the microbial N mining theory. Organic fertilization increased soil aggregation and the specific activity of N-acetyl-glucosaminidase, which was positively correlated with the specific respiration rate in the whole soil profile (P < 0.001) and aggregates (P < 0.001). This appears to support the stoichiometric decomposition theory. However, deep ploughing decreased the specific activity of N-acetyl-glucosaminidase at the 40–60 cm depth compared with conventional tillage. Collectively, long-term organic fertilization combined with deep ploughing enhances SOC sequestration in three ways: directly through the input of exogenous C, indirectly by alleviating microbial N limitations and increasing the amount and stability of subsoil-associated C, and to a lesser extent by improving soil aggregation.

Long-term application of organic fertilizer prompting the dispersal of antibiotic resistance genes and their health risks in the soil plastisphere

Microplastic (MP) pollution is a rapidly growing global environmental concern that has led to the emergence of a new environmental compartment, the plastisphere, which is a hotspot for the accumulation of antibiotic resistance genes (ARGs) and human bacterial pathogens (HBPs). However, studies on the effects of long-term organic fertilizer application on the dispersal of ARGs and virulence factor genes (VFGs) in the plastisphere of farmland soil have been limited. Here, we performed a field culture experiment by burying nylon bags filled with MPs in paddy soil that had been treated with different fertilizers for over 30 years to explore the changes of ARGs and VFGs in soil plastisphere. Our results show that the soil plastisphere amplified the ARG and VFG pollution caused by organic fertilization by 1.5 and 1.4 times, respectively. And it also led to a 2.7-fold increase in the risk of horizontal gene transfer. Meanwhile, the plastisphere tended to promote deterministic process in the community assembly of HBPs, with an increase of 1.4 times. Network analysis found a significant correlation between ARGs, VFGs, and bacteria in plastisphere. Correlation analysis highlight the important role of mobile genetic elements (MGEs) and bacterial communities in shaping the abundance of ARGs and VFGs, respectively. Our findings provide new insights into the health risk associated with the soil plastisphere due ARGs and VFGs derived from organic fertilizers.

Seeds Act as Vectors for Antibiotic Resistance Gene Dissemination in a Soil-Plant Continuum.

Though the evidence for antibiotic resistance spread via plant microbiome is mounting, studies regarding antibiotic resistome in the plant seed, a reproductive organ and important food resource, are still in their infancy. This study investigated the effects of long-term organic fertilization on seed bacterial endophytes, resistome, and their intergenerational transfer in the microcosm. A total of 99 antibiotic resistance genes (ARGs) and 26 mobile genetic elements (MGEs) were detected by high-throughput quantitative PCR. The amount of organic fertilizer applied was positively correlated to the number and relative abundance of seed-associated ARGs and MGEs. Moreover, the transmission of ARGs from the rhizosphere to the seed was mainly mediated by the shared bacteria and MGEs. Notably, the rhizosphere of progeny seedlings derived from seeds harboring abundant ARGs was found to have a higher relative abundance of ARGs. Using structural equation models, we further revealed that seed resistome and MGEs were key factors affecting the ARGs in the progeny rhizosphere, implying the seed was a potential resistome reservoir for rhizosphere soil. This study highlights the overlooked role of seed endophytes in the dissemination of resistome in the soil-plant continuum, and more attention should be paid to plant seeds as vectors of ARGs within the "One-Health" framework.

Long-term fermented organic fertilizer application reduce urea nitrogen-15 loss from plastic shed agricultural soils

Continuous application of fermented organic fertilizer can improve soil quality, while the performance of nitrogen (N) in the improved soils is rarely investigated. To investigate the fate of applied N in the soils with organic management history, the 15NH2CO15NH2 (15N abundance of 19.6 %) was employed as the exogenous N source to conduct an experiment in the Chinese cabbage and tomato rotation system under plastic shed condition. The cultivated soils have received 15-year of effective microorganism (EM) fermented organic fertilizer (EM-OF), N, P, K inorganic fertilizer (NPK-IF) and no fertilizer (NoF). The 15N use by cabbage and tomato, the soil 15N forms, as well as the 15N distribution were observed. Results showed that the 15N use efficiency of cabbage in the EM-OF, NPK-IF and NoF soils were 55.1 %, 37.3 % and 26.6 % respectively, showing significant (p ≤ 0.05) differences. The succeeding crop tomato could take up the soil residual 15N, and the highest 15N reuse efficiency was 7.1 % that detected in the NoF soil. The total 15N loss (6.0 %) from the rotation system was the lowest in the EM-OF soil, compared to that in the NPK-IF and NoF soils. It was concluded that the long-term fermented organic fertilizer applied soils can reduce urea 15N loss from plastic shed agriculture, mainly through improving the in-season crop 15N use efficiency.

Long-term organic fertilization reshapes the communities of bacteria and fungi and enhances the activities of C- and P-cycling enzymes in calcareous alluvial soil

Soil microbial communities and extracellular enzymes are pivotal in governing the dynamics of soil carbon (C) and phosphorus (P) cycling. Nevertheless, comprehending the underlying regulatory factors and intricate interactions among these vital indicators remains an inadequately explored aspect, especially within the scenario of long-term fertilization. Long-term fertilization experiments were conducted on calcareous alluvial soil. The five fertilization regimes selected were as follows: without fertilization treatment (CK); inorganic NK fertilization treatment (NK); inorganic NPK fertilization treatment (NPK); organic fertilization treatment (M); and combined inorganic NPK with organic fertilization treatment (NPKM). The soil physicochemical properties, β-glucosidase (BG), and alkaline phosphomonoesterase (ALP) activities were determined, together with microbial (bacterial and fungal) community DNA sequences and subsequent bioinformatics analysis after 38 years of different fertilization. The results showed that the content of soil organic carbon (SOC) and available P and the activities of BG and ALP were the highest after M and NPKM treatments, which were 79–104 %, 26–36 times, 161–171 %, and 75–91 % higher than CK, respectively. Hierarchical clustering analysis showed that the bacterial and fungal community structures in M and NPKM treatments were similar, but the community structures in non-organic fertilization treatments (CK, NK, and NPK) were significantly different from those in organic fertilization treatments. The indicator species and correlation analysis combined revealed that most indicator species in organic fertilizer treatments were significantly positively correlated with soil BG and ALP, while most indicator species in non-organic fertilizer (CK and NK) treatments were significantly negatively correlated with soil BG and ALP. Organic fertilization treatments favored the growth of the bacterial genus Lysobacter and the fungal genera Acremonium and Mortierella and were significantly positively correlated with BG and ALP activities. Redundancy analysis revealed that SOC is the most important factor in shaping microbial community structure. Co-occurrence network analysis showed organic fertilization had higher network complexity, more keystone taxa, and more associations among microbial taxa compared with non-organic fertilization (CK + NK). Structural equation models revealed that microbial community structure is the direct driving factor of BG and ALP activities and their interactions, and SOC modulated the relationship between microbial community structure and BG and ALP activities. This study highlights how the application of organic fertilizer enhanced the C- and P-cycling enzyme activities, reshaped the soil microbial communities, and regulated these crucial indicators and their interactions by SOC.

Meta-Analysis of Organic Fertilization Effects on Soil Bacterial Diversity and Community Composition in Agroecosystems.

Application of organic fertilizers or their combination with chemical fertilizers is a feasible practice for improving soil fertility and reducing soil degradation in agroecosystems, and these regulations are mainly mediated though soil microbial communities. Despite bacteria ranking among the most abundant and diverse groups of soil microorganisms, the effects of long-term organic fertilization (OF) and chemical-organic fertilization (COF) on soil bacterial diversity and community composition remain unclear. In this study, we conducted a meta-analysis and demonstrated that OF had no significant effect on bacterial alpha diversity. Application of chemical fertilizer and crop residue significantly decreased bacterial Richness index. Both OF and COF significantly altered bacterial community structure, with these changes being predominately attributed to shifts in soil pH. For bacterial phyla, both OF and COF significantly increased the relative abundance of Proteobacteria and Bacteroidetes, suggesting that OF and COF may cause the enrichment of copiotrophic taxa. In addition, COF significantly increased the relative abundance of Gammaproteobacteria but decreased the relative abundance of Acidobacteria. Overall, our results suggest that organic and chemical-organic fertilization can effectively maintain bacterial diversity and enhance soil fertility in agroecosystems, and the alteration of soil bacterial community structure is closely intertwined with soil pH.