Pedosphere最新文献

{"title":"Cadmium detoxification by Stenotrophomonas sp. via cell wall exfoliation and regeneration mediated by mtgA","authors":"Jianming XU ,&nbsp;Tong WANG ,&nbsp;Jiawen ZHANG ,&nbsp;Haoran GUAN ,&nbsp;Zhenmei LÜ ,&nbsp;Xin YAN ,&nbsp;Randy A. DAHLGREN ,&nbsp;Jizheng HE ,&nbsp;Xingmei LIU","doi":"10.1016/j.pedsph.2025.06.015","DOIUrl":"10.1016/j.pedsph.2025.06.015","url":null,"abstract":"<div><div>Understanding bacterial strategies for coping with heavy metal stress is essential for elucidating their resilience in contaminated environments. However, whether cell wall exfoliation contributes to bacterial tolerance under heavy metal stress, such as cadmium (Cd) exposure, remains unclear and requires further investigation. In this study, we reveal a novel self-protective mechanism in <em>Stenotrophomonas</em> sp. H225 isolated from a Cd-contaminated farmland soil, which underwent controlled cell wall exfoliation and regeneration in response to Cd stress up to 200 mg L^-1. Transmission electron microscopy and energy-dispersive X-ray spectroscopy analyses revealed that the exfoliated cell wall fragments served as extracellular Cd sinks, thereby reducing intracellular Cd accumulation. Fourier-transform infrared spectroscopy and enzyme-linked immunosorbent assay indicated progressive peptidoglycan (PG) degradation, with exfoliated PG concentration in solution increasing from 148 ng mL^-1 at 0 mg L^-1 Cd to 240 ng mL^-1 at 200 mg L^-1 Cd. This degradation was counteracted by the compensatory upregulation of PG biosynthesis genes, with the enrichment ratio reaching up to 0.83, facilitating cell wall reconstruction. Transcriptomic analysis and gene knockout experiments identified <em>mtgA</em> (encoding a monofunctional transglycosylase) as a key determinant in cell wall repair and Cd resistance. To our knowledge, this is the first mechanistic evidence that bacteria can mitigate heavy metal toxicity through dynamic cell wall remodeling involving exfoliation and regeneration. This finding enhances our understanding of microbial survival strategies under environmental stress and highlights potential targets for engineering metal-tolerant strains for bioremediation applications.</div></div>","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 5","pages":"Pages 783-795"},"PeriodicalIF":7.3,"publicationDate":"2025-06-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145050671","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Impact of soil viruses on C emissions can be enhanced by viral shuttle processes in soil","authors":"Di TONG ,&nbsp;Caixian TANG ,&nbsp;Jianming XU","doi":"10.1016/j.pedsph.2025.03.008","DOIUrl":"10.1016/j.pedsph.2025.03.008","url":null,"abstract":"<div><div>Soil viruses can greatly influence both microbial catabolism and anabolism. Understanding such influences is crucial for unraveling the fate of soil organic carbon (C). However, previous studies on soil viruses have primarily focused on their role in soil C loss, overlooking their role in C sequestration. In this study, soil viruses and microbes were introduced into sterilized samples of crop and forest soils from typical red and brown soil regions of China to examine the effects of soil viruses on C dynamics, from the perspective of C release and retention. The results showed that the viral effects on soil C emissions varied between soil types. However, they significantly enhanced the accumulation of recalcitrant dissolved and metal-bound organic C, which in turn reinforced the viral effects on C emissions. Furthermore, the accumulation of dissolved and metal-bound organic C was always associated with the microbial utilization of dissolved organic nitrogen (N), highlighting the coupled C and N cycling during the viral shuttle process. Our research demonstrates for the first time the virus-mediated coupling of C and N cycling in soils and the dual role of viruses in soil C release and stabilization, providing a new understanding of virus-driven soil C cycling.</div></div>","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 4","pages":"Pages 617-626"},"PeriodicalIF":5.2,"publicationDate":"2025-03-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144331200","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Coapplication of polyurethane microplastics and fertilizer accelerates CO2 emission in an infertile soil","authors":"Dong LIANG ,&nbsp;Qiaolin ZHOU ,&nbsp;Haiying LU ,&nbsp;Jianwei ZHANG ,&nbsp;Cheng JI ,&nbsp;Jidong WANG","doi":"10.1016/j.pedsph.2024.03.006","DOIUrl":"10.1016/j.pedsph.2024.03.006","url":null,"abstract":"","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 1","pages":"Pages 289-294"},"PeriodicalIF":5.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140282547","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Potential inhibition of humic acid against soil-borne pathogenic fungi: A review","authors":"Shiping WEI ,&nbsp;Zhenqiang XIE ,&nbsp;Yanling ZHAO ,&nbsp;Quanzhi WANG ,&nbsp;Yuanhua WANG ,&nbsp;Jiayin ZHAO ,&nbsp;Kaijun YIN ,&nbsp;Zhihao ZHU ,&nbsp;Yang LIU ,&nbsp;Meng WU ,&nbsp;Zhongpei LI","doi":"10.1016/j.pedsph.2024.11.007","DOIUrl":"10.1016/j.pedsph.2024.11.007","url":null,"abstract":"<div><div>Green prevention and control management of soil-borne fungal diseases is a hot topic in agriculture, ecology, and the environment. It is an important way to effectively prevent and control soil-borne fungal diseases, solve soil degradation caused by continuous cropping obstacles, and fulfill the sustainable development of agriculture through revealing the mechanisms of functional substances to develop highly effective soil amendments. Humic acid shows an inhibitory effect on soil-borne pathogenic fungi, such as <em>Fusarium oxysporum</em>, <em>Choanephora cucurbitarum</em>, and <em>Rhizoctonia solani</em>, with the inhibition rate exceeding 80%. The molecular and elemental composition and contents of –COOH, phenolic C, methoxy group C, carboxyl C, aromatic C–O, anomeric C, and other functional groups of humic acid have been inferred to be responsible for its inhibitory effects on pathogenic fungi in previous research. The inhibitory mechanisms mainly include cell physiological morphology, biochemical process reactions, and molecular signal transduction. This review systematically summarizes the chemical structure, fungistatic effects, variable characteristics, and inhibitory mechanisms of humic acid, aiming to provide a theoretical basis for the development of green and efficient prevention and control technologies for soil-borne fungal diseases.</div></div>","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 1","pages":"Pages 33-41"},"PeriodicalIF":5.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143105390","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Exploring antimicrobial-resistant bacteria in sediments: A call for in-depth genomic analysis","authors":"João Pedro Rueda FURLAN ,&nbsp;Eliana Guedes STEHLING ,&nbsp;William CALERO-CÁCERES","doi":"10.1016/j.pedsph.2023.11.002","DOIUrl":"10.1016/j.pedsph.2023.11.002","url":null,"abstract":"","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 1","pages":"Pages 280-283"},"PeriodicalIF":5.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"135410524","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Microplastics as carriers of antibiotic resistance genes in agricultural soils: A call for research","authors":"Vanesa SANTÁS-MIGUEL ,&nbsp;Lucía RODRÍGUEZ-LÓPEZ ,&nbsp;Manuel ARIAS-ESTÉVEZ ,&nbsp;Andrés RODRÍGUEZ-SEIJO","doi":"10.1016/j.pedsph.2024.08.001","DOIUrl":"10.1016/j.pedsph.2024.08.001","url":null,"abstract":"<div><div>Plastic contamination has become a major environmental concern and impacts human health, and yet this is still a topic that remains largely understudied. Effects of macro- and microplastics on soil physical, chemical, and biological properties, including soil biota, are considered adverse for soils. Due to their small size and porous surface, microplastics can also be a new environmental concern because of their ability to act as carriers of contaminants or diseases. This issue has become particularly relevant in agricultural soils because antibiotics can be present in manure or other kinds of amendments applied to farmlands or adsorbed on agricultural plastics that can be incorporated into soil. Furthermore, plastic debris can serve as a pollutant and carrier of pathogens or antibiotic resistance genes because plastics can favor modifications of bacterial cell membranes, thereby posing increased risks for the environment and humans. Although a vast amount of research has been done on the role of microplastics as tetracycline or oxytetracycline carriers, no studies have considered highly mobile antibiotics such as clarithromycin and combined exposure with microplastics in soil. In addition, more research should focus on the potential impacts of global change on degradation of plastics, especially biodegradable plastics, and plastic impact on the release of contaminants.</div></div>","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 1","pages":"Pages 12-16"},"PeriodicalIF":5.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143105408","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Phosphorus acquisition by plants: Challenges and promising strategies for sustainable agriculture in the 21st century","authors":"Tamara GÓMEZ-GALLEGO ,&nbsp;Iván SÁNCHEZ-CASTRO ,&nbsp;Lázaro MOLINA ,&nbsp;Carmen TRASAR-CEPEDA ,&nbsp;Carlos GARCÍA-IZQUIERDO ,&nbsp;Juan L. RAMOS ,&nbsp;Ana SEGURA","doi":"10.1016/j.pedsph.2024.05.002","DOIUrl":"10.1016/j.pedsph.2024.05.002","url":null,"abstract":"<div><div>Whilst phosphorus (P) in soil is considered to be abundant, the portion available for plant uptake constitutes less than 1% of the overall P present. To enhance crop productivity, the utilization of mineral P fertilizers has become pervasive in agriculture. Nonetheless, the escalating prices of chemical fertilizers, coupled with new European regulations prohibiting the use of P fertilizers containing cadmium, have highlighted the urgency to identify environmentally friendly products and practices for P fertilization in agricultural soils. This comprehensive review delves into the current landscape of P fertilization from agricultural, political, and economic standpoints. We recognize the potential of microbes in mobilizing P, but emphasize the necessity for more robust research to establish their effectiveness in promoting plant P uptake under real-world conditions. Additionally, we explore the role of agricultural conservation practices, such as optimal tillage, diversified cropping systems, and increased organic carbon input, in conserving P. Furthermore, this review contemplates forthcoming innovations in research. These innovations encompass the development of enhanced formulations for biofertilizers and the undertaking of more comprehensive studies within the realm of conservation agriculture. All these endeavors collectively hold the potential to augment P accessibility to plants in a sustainable manner, thereby advancing agricultural sustainability and productivity.</div></div>","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 1","pages":"Pages 193-215"},"PeriodicalIF":5.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141044519","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Soil aggregate stability assessment based on ultrasonic agitation: Limitations and recommendations after sixty years (1964–2023)","authors":"Fakher ABBAS ,&nbsp;Jianjun DU ,&nbsp;Haibin CHEN ,&nbsp;Muhammad AZEEM ,&nbsp;Ruqin FAN","doi":"10.1016/j.pedsph.2024.08.008","DOIUrl":"10.1016/j.pedsph.2024.08.008","url":null,"abstract":"<div><div>Soil aggregate stability is a fundamental measure for evaluating soil structure. While numerous tests exist for assessing soil aggregate stability, ultrasonic agitation (UA) is widely recognized for its effectiveness. Nonetheless, a significant limitation of UA is the lack of standardized methodologies and stability assessment criteria, resulting in inconsistency and incomparability across studies. Several critical factors influence the assessment of soil aggregate stability, including sample preparation (<em>e.g</em>., drying, sieving, and settling duration), initial and final aggregate size classes, the definition of final energy form and its calculation, variations in instrumentation and laboratory procedures, and the absence of standardized criteria. Unlike some stability methods, UA produces a broad range of results, with dispersion energy varying significantly (0.5–13 440 J g^-1) across different soil and aggregate types due to divergent procedural settings. These settings encompass factors such as initial power and amplitude, temperature fluctuation, soil/water ratio, probe specification (diameter and insertion depth), and the choice of liquid used during the process. Furthermore, UA faces challenges related to limited reproducibility, raising doubts about its status as a standard stability assessment method. To address these issues, standardization through predefined procedures and stability criteria has the potential to transform UA into a precise and widely accepted method for both qualitative and quantitative assessments of soil stability. In this comprehensive review, we outline the challenges in standardizing UA, elucidate the factors contributing to dispersion energy variation, and offer practical recommendations to establish standardized protocols for UA in soil aggregate stability assessments.</div></div>","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 1","pages":"Pages 67-83"},"PeriodicalIF":5.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143105115","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Enhanced removal of heavy metals by wetland plant-microbiome symbiont: Prospect of potential strategies and mechanisms for environmental heavy metal regulation","authors":"Ling LIU ,&nbsp;Xiaoyi FAN ,&nbsp;Yuan HAN ,&nbsp;Hongjie WANG","doi":"10.1016/j.pedsph.2024.10.007","DOIUrl":"10.1016/j.pedsph.2024.10.007","url":null,"abstract":"<div><div>Wetland plants and their related environmental interfaces are colonized by a wide range of microbial communities, and the symbiotic system of plants and microorganisms can interact and cooperate with each other, playing an important role in environmental remediation of metal pollution, which has garnered significant attention. The dominant communities of wetland plants still have high treatment performance and survival rate under pollution conditions. Many studies show that hyperaccumulating metallophytes have the capacity to accumulate heavy metal up to several times higher than the plants in sterile soil, due to the interaction of microbes within the rhizosphere. Thus, biotechnological efforts are being explored to modify plants for heavy metal phytoremediation and to improve the adaptation of wetland plants, endophytes, and rhizospheric microorganisms to adverse environment. New phytoremediation techniques and enhanced symbiosis technique for endophytic bacteria inoculation with high efficiency are being pursued and utilized in heavy metal phytoremediation in wetland systems. Therefore, in this review, we systematically summarized the interface characteristics of wetland systems and the interaction of symbionts, with emphasis on the enhanced removal potential and regulation mechanisms of heavy metals by plant-microbe symbiosis in wetland systems, along with the applications of plant-microbiomes for heavy metal remediation in wetlands. Moreover, we explored the remediation mechanisms of combined endogenic-ecophytic microorganisms for wetland systems. In recent research, the exogeneous bacteria drastically remodeled the rhizospheric microbiome and further improved the activity of rhizospheric functional enzymes, with the metal removal at the rhizospheric region reaching up to 95%. In order to increase the effectiveness of plant-microbiome engineering in addressing wetland environmental pollution, the significance of incorporating synergistic techniques and taking a variety of environmental factors was discussed.</div></div>","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 1","pages":"Pages 116-136"},"PeriodicalIF":5.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143105117","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Agricultural and environmental significance of soil organic matter and plant biomass: Insight from ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometry","authors":"Zhongqi HE","doi":"10.1016/j.pedsph.2024.09.004","DOIUrl":"10.1016/j.pedsph.2024.09.004","url":null,"abstract":"<div><div>Ultrahigh-resolution Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) is an advanced instrument capable of separating and determining molecular mass-to-charge ratios with sub-ppm level accuracy. A typical FT-ICR MS spectrogram can identify hundreds to thousands of formulas in a complex sample. This perspective briefly examines the application of FT-ICR MS to soil organic matter and plant biomass studies, highlighting their significant contributions to sustainable agriculture and environment. Increased analyses by FT-ICR MS of soil, agricultural biomass, and bioactive samples would provide greater insights into the distribution and changing patterns of molecular diversity within soil organic matter, as they relate to soil health issues and environmental stresses such as climate change and soil contamination. As one step toward these goals, it will open new opportunities for valorization of agricultural biomass products/byproducts, thus accelerating the development of a more circular agricultural economy.</div></div>","PeriodicalId":49709,"journal":{"name":"Pedosphere","volume":"35 1","pages":"Pages 3-7"},"PeriodicalIF":5.2,"publicationDate":"2025-02-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143105402","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}