Soil Biology & Biochemistry最新文献

英文中文

Biodiversity co-variation patterns in a range of soil organism taxa across highly contrasting ecosystems 在高度对比的生态系统中一系列土壤生物类群的生物多样性共变模式

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-14 DOI: 10.1016/j.soilbio.2026.110093

Axelle Tortosa , Grégoire T. Freschet , Jean Trap , Alain Brauman , Yvan Capowiez , Sylvain Coq , Jim Félix-Faure , Nathalie Fromin , Laure Gandois , Maritxu Guiresse , Raoul Huys , Antoine Lecerf , Jean-Marc Limousin , Alexandru Milcu , Johanne Nahmani , Agnès Robin , José Miguel Sánchez-Pérez , Sabine Sauvage , Tiphaine Tallec , Claire Wittling , Stephan Hattenschwiler

Soil biodiversity as a critical component of terrestrial ecosystems and their functioning varies across spatial scales and environmental conditions. However, it remains unclear whether and how biodiversity patterns co-vary among different soil taxa across ecosystems.

In this study, we compared diversity patterns of plants, earthworms, nematodes, bacteria, and fungi, as five major groups of soil organisms, across six strongly contrasting ecosystems ranging from mountain peatland to crop fields, including within-ecosystem variation in soil moisture. We hypothesized co-variation in taxonomic richness (alpha diversity) and composition (beta diversity) of multiple groups of soil organisms across ecosystems, moisture conditions and spatial scales.

In partial contrast to our initial hypothesis, co-variation in the taxonomic richness among these groups was limited, though significant positive associations were found among bacteria, fungi, and earthworms across all sites. Plant diversity showed distinct associations with soil organism diversity, particularly with earthworms and bacteria, highlighting above–belowground biodiversity linkages. Beta diversity showed substantial co-variation among all soil organism groups, reflecting a spatial coupling of their communities that was influenced by differences in soil moisture conditions. These patterns were more pronounced in near-natural and no-till agroecosystems compared to conventional agricultural systems. Our results highlight that ecosystem type shapes broad-scale taxonomic richness, while local soil moisture critically influences soil biodiversity and spatial community composition, emphasizing the multi-scale drivers of soil biodiversity.

土壤生物多样性是陆地生态系统的重要组成部分，其功能因空间尺度和环境条件而异。然而，生物多样性模式是否以及如何在不同生态系统的不同土壤分类群之间共同变化仍不清楚。在这项研究中，我们比较了植物、蚯蚓、线虫、细菌和真菌这五大类土壤生物，在从山地泥炭地到农田的六个强烈对比的生态系统中的多样性模式，包括生态系统内土壤湿度的变化。我们假设在不同的生态系统、湿度条件和空间尺度上，不同土壤生物类群的分类丰富度（α多样性）和组成（β多样性）是共同变异的。与我们最初的假设部分相反，这些类群之间的分类丰富度的共同变异是有限的，尽管在所有地点的细菌、真菌和蚯蚓之间发现了显著的正相关。植物多样性与土壤生物多样性表现出明显的相关性，特别是与蚯蚓和细菌的相关性，突出地表上的生物多样性联系。β多样性在所有土壤生物类群中均表现出显著的共变，反映了受土壤水分条件差异影响的空间耦合。与传统农业系统相比，这些模式在近自然和免耕农业生态系统中更为明显。研究结果表明，生态系统类型决定了大尺度的分类丰富度，而当地土壤湿度对土壤生物多样性和空间群落组成具有重要影响，强调了土壤生物多样性的多尺度驱动因素。

{"title":"Biodiversity co-variation patterns in a range of soil organism taxa across highly contrasting ecosystems","authors":"Axelle Tortosa , Grégoire T. Freschet , Jean Trap , Alain Brauman , Yvan Capowiez , Sylvain Coq , Jim Félix-Faure , Nathalie Fromin , Laure Gandois , Maritxu Guiresse , Raoul Huys , Antoine Lecerf , Jean-Marc Limousin , Alexandru Milcu , Johanne Nahmani , Agnès Robin , José Miguel Sánchez-Pérez , Sabine Sauvage , Tiphaine Tallec , Claire Wittling , Stephan Hattenschwiler","doi":"10.1016/j.soilbio.2026.110093","DOIUrl":"10.1016/j.soilbio.2026.110093","url":null,"abstract":"<div><div>Soil biodiversity as a critical component of terrestrial ecosystems and their functioning varies across spatial scales and environmental conditions. However, it remains unclear whether and how biodiversity patterns co-vary among different soil taxa across ecosystems.</div><div>In this study, we compared diversity patterns of plants, earthworms, nematodes, bacteria, and fungi, as five major groups of soil organisms, across six strongly contrasting ecosystems ranging from mountain peatland to crop fields, including within-ecosystem variation in soil moisture. We hypothesized co-variation in taxonomic richness (alpha diversity) and composition (beta diversity) of multiple groups of soil organisms across ecosystems, moisture conditions and spatial scales.</div><div>In partial contrast to our initial hypothesis, co-variation in the taxonomic richness among these groups was limited, though significant positive associations were found among bacteria, fungi, and earthworms across all sites. Plant diversity showed distinct associations with soil organism diversity, particularly with earthworms and bacteria, highlighting above–belowground biodiversity linkages. Beta diversity showed substantial co-variation among all soil organism groups, reflecting a spatial coupling of their communities that was influenced by differences in soil moisture conditions. These patterns were more pronounced in near-natural and no-till agroecosystems compared to conventional agricultural systems. Our results highlight that ecosystem type shapes broad-scale taxonomic richness, while local soil moisture critically influences soil biodiversity and spatial community composition, emphasizing the multi-scale drivers of soil biodiversity.</div></div>","PeriodicalId":21888,"journal":{"name":"Soil Biology & Biochemistry","volume":"215 ","pages":"Article 110093"},"PeriodicalIF":10.3,"publicationDate":"2026-01-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145972563","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Rhizosphere carbon flux of eight temperate tree species growing on a common site 在同一地点生长的八种温带树种的根际碳通量

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-13 DOI: 10.1016/j.soilbio.2026.110083

Timothy J. Fahey, Joseph B. Yavitt

Tree roots are the principal source of stabilized organic matter in forest soils, supplying carbon in the form of detritus (root turnover) and rhizodeposition from living roots (rhizosphere carbon flux; RCF). The magnitude of these processes is highly uncertain owing to the difficulty of measurement in situ in mature forests. We estimated RCF in twelve monospecific forest plantations growing on a common soil in central New York using a root ingrowth ¹³C dilution technique. The plantations included eight tree species, four each with ectomycorrhizal or arbuscular mycorrhizal associations. We hypothesized that RCF would be greater for arbuscular mycorrhizal than ectomycorrhizal tree species and that this contrast in mycorrhizal type would account for most species’ differences. Our estimates of RCF averaged 109 g C m⁻² y⁻¹ in the upper 0–20 cm soil interval, and the estimates differed significantly among tree species with mostly greater values for arbuscular mycorrhizal than ectomycorrhizal tree species. Although a large amount of new carbon was added by RCF, the carbon content of rhizosphere soil was unchanged, suggesting that RCF primed the mineralization of soil organic matter (SOM) in the ingrowth root cores. Our measurements indicate that RCF comprises an average of about 20 % of aboveground net primary production in these forest plantations and suggest that similar amounts of carbon are added to soil by root turnover and RCF.

树根是森林土壤中稳定有机质的主要来源，以碎屑（根周转）和活根的根沉积（根际碳通量；RCF）的形式提供碳。由于难以在成熟森林中就地测量，这些过程的大小极不确定。我们使用根向生长13C稀释技术估算了生长在纽约中部共同土壤上的12个单种森林人工林的RCF。这些人工林包括8种树种，每种树种4种具有外生菌根或丛枝菌根关联。我们假设丛枝菌根树种的RCF大于外生菌根树种，并且这种菌根类型的差异可以解释大多数物种的差异。我们估计的RCF在0 ~ 20 cm土壤间隔上平均为109 g C m−2 y−1，树种之间的估计值存在显著差异，丛枝菌根树种的估计值大多高于外生菌根树种。虽然RCF增加了大量的新碳，但根际土壤的碳含量没有变化，表明RCF启动了长生根芯土壤有机质（SOM）的矿化。我们的测量表明，RCF平均约占这些人工林地上净初级产量的20%，并表明根系周转和RCF向土壤中添加了相似数量的碳。

{"title":"Rhizosphere carbon flux of eight temperate tree species growing on a common site","authors":"Timothy J. Fahey, Joseph B. Yavitt","doi":"10.1016/j.soilbio.2026.110083","DOIUrl":"10.1016/j.soilbio.2026.110083","url":null,"abstract":"<div><div>Tree roots are the principal source of stabilized organic matter in forest soils, supplying carbon in the form of detritus (root turnover) and rhizodeposition from living roots (rhizosphere carbon flux; RCF). The magnitude of these processes is highly uncertain owing to the difficulty of measurement <em>in situ</em> in mature forests. We estimated RCF in twelve monospecific forest plantations growing on a common soil in central New York using a root ingrowth <sup>13</sup>C dilution technique. The plantations included eight tree species, four each with ectomycorrhizal or arbuscular mycorrhizal associations. We hypothesized that RCF would be greater for arbuscular mycorrhizal than ectomycorrhizal tree species and that this contrast in mycorrhizal type would account for most species’ differences. Our estimates of RCF averaged 109 g C m<sup>−2</sup> y<sup>−1</sup> in the upper 0–20 cm soil interval, and the estimates differed significantly among tree species with mostly greater values for arbuscular mycorrhizal than ectomycorrhizal tree species. Although a large amount of new carbon was added by RCF, the carbon content of rhizosphere soil was unchanged, suggesting that RCF primed the mineralization of soil organic matter (SOM) in the ingrowth root cores. Our measurements indicate that RCF comprises an average of about 20 % of aboveground net primary production in these forest plantations and suggest that similar amounts of carbon are added to soil by root turnover and RCF.</div></div>","PeriodicalId":21888,"journal":{"name":"Soil Biology & Biochemistry","volume":"215 ","pages":"Article 110083"},"PeriodicalIF":10.3,"publicationDate":"2026-01-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145962528","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Rare and abundant soil microbes coordinate C, N, P, and quorum sensing pathways to destabilize SOC in shrub-encroached marshes 稀有和丰富的土壤微生物协调碳、氮、磷和群体感应途径，使灌木侵占沼泽的有机碳不稳定

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-12 DOI: 10.1016/j.soilbio.2026.110086

Ziliang Yin , Xin Sun , Tijiu Cai , Xiaoxin Sun

Shrub encroachment disrupts the dynamic balance between soil organic carbon (SOC) input and output in marsh ecosystems, and directly influences SOC accumulation. Traditional paradigms primarily attribute SOC dynamics to plant traits and soil physicochemical properties, whereas emerging evidence indicates underestimated roles of microbial communities in this process. This study used laboratory incubation, ¹³C NMR spectroscopy, and metagenomic sequencing to explore the key factors regulating marsh SOC stock and stability across four shrub encroachment stages in the largest temperate marsh in Northeast China. The results demonstrate that, although shrub encroachment significantly increased potential sources (e.g., marsh plant biomass and carbon stock) of SOC, low carbon quality prevented a substantial increase in SOC stocks and stability. Notably, soil microbial communities were pivotal drivers in regulating SOC dynamics in plant-soil-microbe interactions. Six carbon fixation pathways dominated by abundant and transitional taxa explained only 0.07 % of SOC stock variation, whereas the synergistic interactions between microorganisms and plants or soil had the most significant effect on SOC stocks. In contrast, the variation in SOC stability was primarily attributed to changes in carbohydrate-active enzyme (CAZyme) gene profiles dominated by rare taxa (61.26 %), surpassing the explanatory power of plant traits and soil physicochemical properties. Additionally, rare taxa substantially influenced synergistic interactions among nitrogen cycling, phosphorus cycling, carbon fixation, and CAZyme genes via the quorum sensing (QS) pathway. This study provides novel insights into the effects of plant-soil-microbial interactions on marsh SOC transformation during shrub encroachment, highlighting the potential of rare taxa to release available nutrients and accelerating carbon, nitrogen, and phosphorus cycling.

灌丛入侵破坏了沼泽生态系统土壤有机碳（SOC）输入与输出的动态平衡，直接影响了土壤有机碳的积累。传统的研究范式主要将土壤有机碳动态归因于植物性状和土壤理化性质，而新的研究证据表明，微生物群落在这一过程中的作用被低估了。本研究采用实验室培养、13C核磁共振、宏基因组测序等方法，对东北最大的温带沼泽进行了4个灌木入侵阶段的土壤有机碳储量和稳定性调控。结果表明，尽管灌木入侵显著增加了土壤有机碳的潜在来源（如沼泽植物生物量和碳储量），但低碳质量阻碍了土壤有机碳储量和稳定性的大幅增加。土壤微生物群落是调节植物-土壤-微生物相互作用中有机碳动态的关键驱动因素。以丰富和过渡性类群为主的6种碳固定途径仅解释了0.07%的碳储量变化，而微生物与植物或土壤的协同作用对碳储量的影响最为显著。土壤有机碳稳定性的变化主要归因于碳水化合物活性酶（CAZyme）基因谱的变化，该基因谱以稀有类群为主（61.26%），超过了植物性状和土壤理化性质的解释力。此外，稀有类群通过群体感应（quorum sensing， QS）途径显著影响了氮循环、磷循环、碳固定和CAZyme基因之间的协同相互作用。本研究为灌木侵蚀过程中植物-土壤-微生物相互作用对沼泽有机碳转化的影响提供了新的见解，强调了稀有类群释放有效养分和加速碳、氮、磷循环的潜力。

{"title":"Rare and abundant soil microbes coordinate C, N, P, and quorum sensing pathways to destabilize SOC in shrub-encroached marshes","authors":"Ziliang Yin , Xin Sun , Tijiu Cai , Xiaoxin Sun","doi":"10.1016/j.soilbio.2026.110086","DOIUrl":"10.1016/j.soilbio.2026.110086","url":null,"abstract":"<div><div>Shrub encroachment disrupts the dynamic balance between soil organic carbon (SOC) input and output in marsh ecosystems, and directly influences SOC accumulation. Traditional paradigms primarily attribute SOC dynamics to plant traits and soil physicochemical properties, whereas emerging evidence indicates underestimated roles of microbial communities in this process. This study used laboratory incubation, <sup>13</sup>C NMR spectroscopy, and metagenomic sequencing to explore the key factors regulating marsh SOC stock and stability across four shrub encroachment stages in the largest temperate marsh in Northeast China. The results demonstrate that, although shrub encroachment significantly increased potential sources (e.g., marsh plant biomass and carbon stock) of SOC, low carbon quality prevented a substantial increase in SOC stocks and stability. Notably, soil microbial communities were pivotal drivers in regulating SOC dynamics in plant-soil-microbe interactions. Six carbon fixation pathways dominated by abundant and transitional taxa explained only 0.07 % of SOC stock variation, whereas the synergistic interactions between microorganisms and plants or soil had the most significant effect on SOC stocks. In contrast, the variation in SOC stability was primarily attributed to changes in carbohydrate-active enzyme (CAZyme) gene profiles dominated by rare taxa (61.26 %), surpassing the explanatory power of plant traits and soil physicochemical properties. Additionally, rare taxa substantially influenced synergistic interactions among nitrogen cycling, phosphorus cycling, carbon fixation, and CAZyme genes via the quorum sensing (QS) pathway. This study provides novel insights into the effects of plant-soil-microbial interactions on marsh SOC transformation during shrub encroachment, highlighting the potential of rare taxa to release available nutrients and accelerating carbon, nitrogen, and phosphorus cycling.</div></div>","PeriodicalId":21888,"journal":{"name":"Soil Biology & Biochemistry","volume":"215 ","pages":"Article 110086"},"PeriodicalIF":10.3,"publicationDate":"2026-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145957375","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Microplastics reduce soil bacterial alpha diversity and network stability 微塑料降低了土壤细菌α多样性和网络稳定性

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-12 DOI: 10.1016/j.soilbio.2026.110085

Shunyin Huang, Chen Huang, Yan Xiao

Global soil microplastics (MPs) pollution has become increasingly severe and is exerting persistent impacts on soil bacterial communities. Thus, a thorough investigation is imperative to elucidate the integrated impacts of MPs on soil microbial diversity, community composition, network patterns, and potential metabolic functions. In this study, we conducted a data synthesis of 182 publications and demonstrated that MPs exert pronounced adverse impacts on soil bacterial communities. Firstly, MPs significantly reduced soil bacterial alpha diversity (−1.1 % ∼ −3.2 %), with stronger inhibitory effects observed for conventional MPs, small size particles, and high dose MPs exposure. Further, biodegradable MPs significantly decreased the heterogeneity of soil bacterial communities, whereas conventional MPs increased it. Furthermore, the presence of MPs induced substantial changes in both the composition and structure of bacterial communities. Briefly, MPs significantly decreased the relative abundance of phylum Firmicutes, Campilobacterota, and WPS2 while increased the relative abundance of class Alphaproteobacteria and Blastocatellia. Meanwhile, MPs diminished the complexity and stability of bacterial co-occurrence networks, suggesting the soil microbial community exhibits higher vulnerability to environmental disturbances. The bacterial network exhibited a keystone transition favoring organic-degrading taxa. Finally, functional profiling showed significant upregulation of genes associated with human pathogenesis, organic degradation, and nitrogen fixation, while downregulation of nitrification. Collectively, our results highlight the pervasive negative impacts of MPs on soil bacterial communities, providing critical insights for assessing the ecological consequences of soil MPs pollution.

全球土壤微塑料污染日益严重，并对土壤细菌群落产生持续影响。因此，深入研究MPs对土壤微生物多样性、群落组成、网络模式和潜在代谢功能的综合影响是必要的。在这项研究中，我们对182份出版物进行了数据综合，证明了MPs对土壤细菌群落产生了明显的不利影响。首先，MPs显著降低了土壤细菌α多样性（-1.1% ~ -3.2%），对常规MPs、小颗粒和高剂量MPs暴露有更强的抑制作用。此外，可生物降解MPs显著降低了土壤细菌群落的异质性，而常规MPs则增加了土壤细菌群落的异质性。此外，MPs的存在引起了细菌群落组成和结构的实质性变化。简单地说，MPs显著降低了厚壁菌门、Campilobacterota和WPS2门的相对丰度，而增加了Alphaproteobacteria和Blastocatellia门的相对丰度。同时，MPs降低了细菌共生网络的复杂性和稳定性，表明土壤微生物群落对环境干扰具有更高的脆弱性。细菌网络表现出有利于有机降解类群的关键转变。最后，功能分析显示，与人类发病机制、有机降解和固氮相关的基因显著上调，而与硝化作用相关的基因下调。总的来说，我们的研究结果强调了MPs对土壤细菌群落的普遍负面影响，为评估土壤MPs污染的生态后果提供了重要的见解。

{"title":"Microplastics reduce soil bacterial alpha diversity and network stability","authors":"Shunyin Huang, Chen Huang, Yan Xiao","doi":"10.1016/j.soilbio.2026.110085","DOIUrl":"10.1016/j.soilbio.2026.110085","url":null,"abstract":"<div><div>Global soil microplastics (MPs) pollution has become increasingly severe and is exerting persistent impacts on soil bacterial communities. Thus, a thorough investigation is imperative to elucidate the integrated impacts of MPs on soil microbial diversity, community composition, network patterns, and potential metabolic functions. In this study, we conducted a data synthesis of 182 publications and demonstrated that MPs exert pronounced adverse impacts on soil bacterial communities. Firstly, MPs significantly reduced soil bacterial alpha diversity (−1.1 % ∼ −3.2 %), with stronger inhibitory effects observed for conventional MPs, small size particles, and high dose MPs exposure. Further, biodegradable MPs significantly decreased the heterogeneity of soil bacterial communities, whereas conventional MPs increased it. Furthermore, the presence of MPs induced substantial changes in both the composition and structure of bacterial communities. Briefly, MPs significantly decreased the relative abundance of phylum <em>Firmicutes</em>, <em>Campilobacterota</em>, and <em>WPS2</em> while increased the relative abundance of class <em>Alphaproteobacteria</em> and <em>Blastocatellia</em>. Meanwhile, MPs diminished the complexity and stability of bacterial co-occurrence networks, suggesting the soil microbial community exhibits higher vulnerability to environmental disturbances. The bacterial network exhibited a keystone transition favoring organic-degrading taxa. Finally, functional profiling showed significant upregulation of genes associated with human pathogenesis, organic degradation, and nitrogen fixation, while downregulation of nitrification. Collectively, our results highlight the pervasive negative impacts of MPs on soil bacterial communities, providing critical insights for assessing the ecological consequences of soil MPs pollution.</div></div>","PeriodicalId":21888,"journal":{"name":"Soil Biology & Biochemistry","volume":"215 ","pages":"Article 110085"},"PeriodicalIF":10.3,"publicationDate":"2026-01-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145957376","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Advances in synergistic biotic-abiotic dehalogenation in soil: FemSn-mediated electron transfer and microbial metabolic network regulation 土壤生物-非生物协同脱卤研究进展：femsn介导的电子转移和微生物代谢网络调控

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-10 DOI: 10.1016/j.soilbio.2026.110084

Boyu Jia , Siyu Zhang , Ningning Wu , Liqi Cai , Zhongdan Li , Shanquan Wang

The integration of biotic- and abiotic-dehalogenation strategies offers a transformative approach to remediating organohalide-contaminated soils, harnessing the synergistic benefits of biological selectivity and abiotic efficiency. However, challenges in modulating electron flux partitioning at biotic-abiotic interfaces and in reconstructing adaptive microbial metabolic networks continue to impede practical implementation.

This review comprehensively synthesizes recent advances in synergistic biotic-abiotic strategies for removing organohalide pollutants from contaminated sites, with a particular emphasis on iron-sulfur mineral species (Fe_mS_n)-mediated electron transfer mechanisms and the regulation of microbial metabolic networks. In this framework, electrons are transferred via surface Fe–S active sites on mineral phases, enabling electron tunneling at interfaces to microbial extracellular carriers and soluble redox mediators that coordinate flux in soil dechlorination system. This review begins with respiratory electron transport chains in organohalide-respiring bacteria (OHRB), while highlighting evolutionary trade-offs in electron carrier utilization and energy conservation. It then explores microbial interactions, showing how crystallographic defect engineering enhances enzymatic activation via electron tunneling and mitigates nanomaterial toxicity. Extending to ecosystem dynamics, it maps electron flux routing across microbial consortia, showing in which manner nanowire topologies and redox mediators orchestrate dehalogenation pathways amid metabolic competition. Finally, it bridges scales through machine learning-driven multi-omics integration, translating atomic-scale Fe–S coordination patterns into predictive models for optimizing electron flux. Overall, this review provides critical insights for designing next-generation dehalogenation remediation strategies that maximize biotic-abiotic synergies by precisely controlling electron flux.

生物和非生物脱卤策略的整合为修复有机卤化物污染的土壤提供了一种变革性的方法，利用生物选择性和非生物效率的协同效益。然而，在生物-非生物界面调制电子通量分配和重建自适应微生物代谢网络方面的挑战继续阻碍着实际实施。本文综述了生物-非生物协同去除污染场所有机卤化物污染物的最新进展，特别强调了铁硫矿物（FemSn）介导的电子转移机制和微生物代谢网络的调节。在这个框架中，电子通过矿物相表面Fe-S活性位点转移，使电子在与微生物胞外载体和可溶性氧化还原介质的界面上隧穿，从而协调土壤脱氯系统中的通量。本文综述了有机盐呼吸细菌（OHRB）的呼吸电子传递链，同时强调了电子载体利用和能量节约的进化权衡。然后探讨了微生物的相互作用，展示了晶体缺陷工程如何通过电子隧道增强酶的激活并减轻纳米材料的毒性。延伸到生态系统动力学，它绘制了微生物群落的电子通量路径，显示了纳米线拓扑结构和氧化还原介质在代谢竞争中协调脱卤途径的方式。最后，它通过机器学习驱动的多组学集成架起了桥梁，将原子尺度的Fe-S配位模式转化为优化电子通量的预测模型。总的来说，这篇综述为设计下一代脱卤修复策略提供了重要的见解，这些策略可以通过精确控制电子通量来最大化生物-非生物协同作用。

{"title":"Advances in synergistic biotic-abiotic dehalogenation in soil: FemSn-mediated electron transfer and microbial metabolic network regulation","authors":"Boyu Jia , Siyu Zhang , Ningning Wu , Liqi Cai , Zhongdan Li , Shanquan Wang","doi":"10.1016/j.soilbio.2026.110084","DOIUrl":"10.1016/j.soilbio.2026.110084","url":null,"abstract":"<div><div>The integration of biotic- and abiotic-dehalogenation strategies offers a transformative approach to remediating organohalide-contaminated soils, harnessing the synergistic benefits of biological selectivity and abiotic efficiency. However, challenges in modulating electron flux partitioning at biotic-abiotic interfaces and in reconstructing adaptive microbial metabolic networks continue to impede practical implementation.</div><div>This review comprehensively synthesizes recent advances in synergistic biotic-abiotic strategies for removing organohalide pollutants from contaminated sites, with a particular emphasis on iron-sulfur mineral species (Fe<sub>m</sub>S<sub>n</sub>)-mediated electron transfer mechanisms and the regulation of microbial metabolic networks. In this framework, electrons are transferred <em>via</em> surface Fe–S active sites on mineral phases, enabling electron tunneling at interfaces to microbial extracellular carriers and soluble redox mediators that coordinate flux in soil dechlorination system. This review begins with respiratory electron transport chains in organohalide-respiring bacteria (OHRB), while highlighting evolutionary trade-offs in electron carrier utilization and energy conservation. It then explores microbial interactions, showing how crystallographic defect engineering enhances enzymatic activation <em>via</em> electron tunneling and mitigates nanomaterial toxicity. Extending to ecosystem dynamics, it maps electron flux routing across microbial consortia, showing in which manner nanowire topologies and redox mediators orchestrate dehalogenation pathways amid metabolic competition. Finally, it bridges scales through machine learning-driven multi-omics integration, translating atomic-scale Fe–S coordination patterns into predictive models for optimizing electron flux. Overall, this review provides critical insights for designing next-generation dehalogenation remediation strategies that maximize biotic-abiotic synergies by precisely controlling electron flux.</div></div>","PeriodicalId":21888,"journal":{"name":"Soil Biology & Biochemistry","volume":"215 ","pages":"Article 110084"},"PeriodicalIF":10.3,"publicationDate":"2026-01-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145947708","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Air-drying of soil preserves microbial and faunal eDNA abundance and diversity regardless of land-use type or management intensity 无论土地利用类型或管理强度如何，土壤风干都能保持微生物和动物eDNA的丰度和多样性

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-05 DOI: 10.1016/j.soilbio.2026.110082

Xingguo Han , Jessica Cuartero , Verena Koppe , Seraina Nohl , Astrid Sneyders , Karen Vancampenhout , Beat Frey , Aline Frossard

Soil biodiversity monitoring requires standardized and practical sample storage methods, particularly for large-scale surveys. Yet, the influence of the soil storage conditions on eDNA-based assessments of microbial and faunal communities remains a key concern. Here, we assessed whether air-drying of soils at room temperature alters microbial (prokaryotes, fungi, micro-eukaryotes) and faunal (nematodes, annelids, micro-arthropods) abundance and diversity compared to freezing at −20 °C across different land-use types and management intensities through quantitative polymerase chain reaction (qPCR) and multi-marker DNA metabarcoding. We sampled topsoil (0–10 cm) from 42 sites of the Swiss Central Plateau spanning forests, grasslands, arable lands, orchards, wetlands, and urban areas. Forests, grasslands and arable lands were sampled in sites varying in management intensities. Across land-use types and management intensities, air-drying of soil followed by four to eight weeks of storage at room temperature or at −20 °C and freezing soil directly yielded comparable gene abundances, alpha-diversity, and community structure for all microbial and faunal groups. Moreover, microbial and faunal community structure were consistently shaped by land-use types and soil physicochemical variables regardless of the soil storage method used. These findings demonstrate that air-drying is a cost-effective and reliable method for short-term storing soil samples in large-scale biodiversity monitoring without compromising data quality.

土壤生物多样性监测需要标准化和实用的样本存储方法，特别是大规模调查。然而，土壤储存条件对基于edna的微生物和动物群落评估的影响仍然是一个关键问题。在这里，我们通过定量聚合酶链反应（qPCR）和多标记DNA元条形码，评估了与- 20°C冻结相比，室温下土壤空气干燥是否会改变不同土地利用类型和管理强度下土壤微生物（原核生物、真菌、微真核生物）和动物（线虫、环节动物、微型节肢动物）的丰度和多样性。我们从瑞士中央高原的森林、草原、耕地、果园、湿地和城市地区的42个地点取样了表层土壤（0-10厘米）。在管理强度不同的地点取样森林、草地和耕地。在不同的土地利用类型和管理强度下，对土壤进行风干处理，然后在室温或- 20°C下储存4至8周，再进行土壤冻结，直接产生了所有微生物和动物类群相似的基因丰度、α多样性和群落结构。此外，无论采用何种土壤储存方式，微生物和动物群落结构都受到土地利用类型和土壤理化变量的影响。这些发现表明，在不影响数据质量的情况下，空气干燥是大规模生物多样性监测中短期储存土壤样品的一种经济可靠的方法。

{"title":"Air-drying of soil preserves microbial and faunal eDNA abundance and diversity regardless of land-use type or management intensity","authors":"Xingguo Han , Jessica Cuartero , Verena Koppe , Seraina Nohl , Astrid Sneyders , Karen Vancampenhout , Beat Frey , Aline Frossard","doi":"10.1016/j.soilbio.2026.110082","DOIUrl":"10.1016/j.soilbio.2026.110082","url":null,"abstract":"<div><div>Soil biodiversity monitoring requires standardized and practical sample storage methods, particularly for large-scale surveys. Yet, the influence of the soil storage conditions on eDNA-based assessments of microbial and faunal communities remains a key concern. Here, we assessed whether air-drying of soils at room temperature alters microbial (prokaryotes, fungi, micro-eukaryotes) and faunal (nematodes, annelids, micro-arthropods) abundance and diversity compared to freezing at −20 °C across different land-use types and management intensities through quantitative polymerase chain reaction (qPCR) and multi-marker DNA metabarcoding. We sampled topsoil (0–10 cm) from 42 sites of the Swiss Central Plateau spanning forests, grasslands, arable lands, orchards, wetlands, and urban areas. Forests, grasslands and arable lands were sampled in sites varying in management intensities. Across land-use types and management intensities, air-drying of soil followed by four to eight weeks of storage at room temperature or at −20 °C and freezing soil directly yielded comparable gene abundances, alpha-diversity, and community structure for all microbial and faunal groups. Moreover, microbial and faunal community structure were consistently shaped by land-use types and soil physicochemical variables regardless of the soil storage method used. These findings demonstrate that air-drying is a cost-effective and reliable method for short-term storing soil samples in large-scale biodiversity monitoring without compromising data quality.</div></div>","PeriodicalId":21888,"journal":{"name":"Soil Biology & Biochemistry","volume":"215 ","pages":"Article 110082"},"PeriodicalIF":10.3,"publicationDate":"2026-01-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145902311","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-01

引用次数: 0

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-01

引用次数: 0

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-01

引用次数: 0

IF 10.3 1区农林科学 Q1 SOIL SCIENCE

Soil Biology & Biochemistry

Pub Date : 2026-01-01

引用次数: 0

首页上一页

下一页尾页

类型

全部化学•材料生命科学医学物理工程技术环境•农林材料科学地球科学法学管理学化学环境科学与生态学计算机科学教育学经济学农林科学人文科学生物学数学物理与天体物理心理学综合性期刊其他工业工程理学历史学农学文学信息工程

数据库

全部 ACS Publications Elsevier ieeexplore Springer The Royal Society of Chemistry Wiley

期刊

Soil Biology & Biochemistry

全部 Acc. Chem. Res. ACS Applied Bio Materials ACS Appl. Electron. Mater. ACS Appl. Energy Mater. ACS Appl. Mater. Interfaces ACS Appl. Nano Mater. ACS Appl. Polym. Mater. ACS BIOMATER-SCI ENG ACS Catal. ACS Cent. Sci. ACS Chem. Biol. ACS Chemical Health & Safety ACS Chem. Neurosci. ACS Comb. Sci. ACS Earth Space Chem. ACS Energy Lett. ACS Infect. Dis. ACS Macro Lett. ACS Mater. Lett. ACS Med. Chem. Lett. ACS Nano ACS Omega ACS Photonics ACS Sens. ACS Sustainable Chem. Eng. ACS Synth. Biol. Anal. Chem. BIOCHEMISTRY-US Bioconjugate Chem. BIOMACROMOLECULES Chem. Res. Toxicol. Chem. Rev. Chem. Mater. CRYST GROWTH DES ENERG FUEL Environ. Sci. Technol. Environ. Sci. Technol. Lett. Eur. J. Inorg. Chem. IND ENG CHEM RES Inorg. Chem. J. Agric. Food. Chem. J. Chem. Eng. Data J. Chem. Educ. J. Chem. Inf. Model. J. Chem. Theory Comput. J. Med. Chem. J. Nat. Prod. J PROTEOME RES J. Am. Chem. Soc. LANGMUIR MACROMOLECULES Mol. Pharmaceutics Nano Lett. Org. Lett. ORG PROCESS RES DEV ORGANOMETALLICS J. Org. Chem. J. Phys. Chem. J. Phys. Chem. A J. Phys. Chem. B J. Phys. Chem. C J. Phys. Chem. Lett. Analyst Anal. Methods Biomater. Sci. Catal. Sci. Technol. Chem. Commun. Chem. Soc. Rev. CHEM EDUC RES PRACT CRYSTENGCOMM Dalton Trans. Energy Environ. Sci. ENVIRON SCI-NANO ENVIRON SCI-PROC IMP ENVIRON SCI-WAT RES Faraday Discuss. Food Funct. Green Chem. Inorg. Chem. Front. Integr. Biol. J. Anal. At. Spectrom. J. Mater. Chem. A J. Mater. Chem. B J. Mater. Chem. C Lab Chip Mater. Chem. Front. Mater. Horiz. MEDCHEMCOMM Metallomics Mol. Biosyst. Mol. Syst. Des. Eng. Nanoscale Nanoscale Horiz. Nat. Prod. Rep. New J. Chem. Org. Biomol. Chem. Org. Chem. Front. PHOTOCH PHOTOBIO SCI PCCP Polym. Chem.

﹀