FEMS microbiology ecology最新文献_第2页

Reorganization of bacterial community network structure in the eastern redback salamander (Plethodon cinereus) and its soil reservoir across a gradient of land use. 东部红背蝾螈（Plethodon cinereus）及其土壤库细菌群落网络结构的跨土地利用梯度重组

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-05-20 DOI: 10.1093/femsec/fiaf057

Nina Naghshineh, Steve Kutos, J D Lewis, Elle M Barnes

{"title":"Reorganization of bacterial community network structure in the eastern redback salamander (Plethodon cinereus) and its soil reservoir across a gradient of land use.","authors":"Nina Naghshineh, Steve Kutos, J D Lewis, Elle M Barnes","doi":"10.1093/femsec/fiaf057","DOIUrl":"10.1093/femsec/fiaf057","url":null,"abstract":"The eastern redback salamander Plethodon cinereus is prevalent in the urbanized northeastern USA and exhibits low susceptibility to the fungal pathogen Batrachochytrium dendrobatidis (Bd). Disease resistance is partially attributed to Bd-inhibitory microbes in the P. cinereus cutaneous microbiome, but less is known regarding the associations that structure these bacterial communities. This is an essential area of study as shifts in microbial associations may influence community stability and function, driving differences in disease tolerance. Here, we analyzed the networks of the soil and salamander skin core bacterial communities along a 65-km urbanization gradient originating in New York City. We leveraged network analysis tools that help account for the biases inherent in 16S rRNA amplicon datasets, finding that soil networks were the most complex and stable, but complexity and stability increased with urbanization intensity in salamander networks. The network of Bd-positive salamanders was also more complex and stable than that of Bd-negative salamanders. While stress and complexity are thought to be destabilizing, our results suggest that prolonged exposure to environmental degradation may promote larger, stable co-occurring populations of microbes on hosts. This network analysis work generated hypotheses with experimental applicability, ultimately having the potential to enhance conservation management efforts.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12166547/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144208103","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Detectable land use impact on methanotrophs and methanogens in kettle hole sediments but not on net methane production potentials. 土地利用对壶孔沉积物中甲烷氧化菌和产甲烷菌的影响可检测到，但对净甲烷生产潜力没有影响。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-05-20 DOI: 10.1093/femsec/fiaf050

Danica Kynast, Florian Reverey, Lars Ganzert, Hans-Peter Grossart, Gunnar Lischeid, Steffen Kolb

{"title":"Detectable land use impact on methanotrophs and methanogens in kettle hole sediments but not on net methane production potentials.","authors":"Danica Kynast, Florian Reverey, Lars Ganzert, Hans-Peter Grossart, Gunnar Lischeid, Steffen Kolb","doi":"10.1093/femsec/fiaf050","DOIUrl":"10.1093/femsec/fiaf050","url":null,"abstract":"Kettle holes (KHs) are dynamic freshwater systems and potential sources of the greenhouse gas methane. Due to their small size (<1 hectare), KHs are subject to inorganic and organic matter input from their terrestrial surroundings, governed by land use. Matter inputs include inorganic solutes that are alternative electron acceptors and impact on methanotrophs and methanogens. Thus, they might affect methane net production. We sampled 10 kettle hole sediments embedded in landscapes with either agricultural or forest land use and determined their (i) potential net methane production rates, (ii) the composition of their microbial communities, and (iii) physicochemical soil parameters. Potential net methane production did not significantly differ by land use type but between single KHs. However, land use type had a strong impact on methanotroph and methanogen and on total bacterial and archaeal microbiota structure. Relative abundances of methanotrophs and methanogens were significantly higher in agricultural KHs, and their relative abundances were among the most influential variables projecting net methane production potentials along with nutrient status and water content. Land use type was thus identified as a major factor that impacts the structure and biodiversity of general and methane-cycling microbiota, but it did not affect net methane production potentials.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12089754/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144005653","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Dominant foliar endophytes influence soybean yield and transcriptome. 显性叶内生菌影响大豆产量和转录组。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-05-20 DOI: 10.1093/femsec/fiaf053

Ivan Sosa Marquez, Karla Griesbaum, Lindsay V Clark, Elizabeth A Ainsworth, Natalie Christian, Katy D Heath

{"title":"Dominant foliar endophytes influence soybean yield and transcriptome.","authors":"Ivan Sosa Marquez, Karla Griesbaum, Lindsay V Clark, Elizabeth A Ainsworth, Natalie Christian, Katy D Heath","doi":"10.1093/femsec/fiaf053","DOIUrl":"10.1093/femsec/fiaf053","url":null,"abstract":"Microorganisms associated with plants can affect nutrient and water acquisition, plant defenses, and ecological interactions, with effects on plant growth that range from beneficial to antagonistic. In Glycine max (soybean), many studies have examined the soil microbiome and the legume-rhizobium relationship, but little is known about foliar endophytes, their effects on plant biomass and fitness, and how plants respond to their presence. To address these questions, we inoculated Glycine max with field-collected isolates of previously isolated, dominant strains of Methylobacterium and Colletotrichum in either sterile or non-sterile soil. We then used RNAseq to compare the transcriptomic responses of plants to single- and co-inoculation of endophytes. We found that all endophyte treatments increased soybean growth compared to control, but only in sterile soil. These results suggest context-dependency, with endophytes serving as facultative mutualists under stress or nutrient deprivation. Similarly, transcriptomic analyses revealed that soybean defense and stress responses depended on the interaction of endophytes; Methylobacterium elicited the strongest response but was modulated by the presence of Colletotrichum. Our findings highlight the environmentally dependent effects of co-existing endophytes within soybean leaves.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12089775/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144000767","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Impact of pesticides on soil health: identification of key soil microbial indicators for ecotoxicological assessment strategies through meta-analysis. 农药对土壤健康的影响：通过荟萃分析确定生态毒理学评价策略的关键土壤微生物指标。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-05-20 DOI: 10.1093/femsec/fiaf052

Mark Swaine, Alessandro Bergna, Ben Oyserman, Sotirios Vasileiadis, Panagiotis A Karas, Claudio Screpanti, Dimitrios G Karpouzas

{"title":"Impact of pesticides on soil health: identification of key soil microbial indicators for ecotoxicological assessment strategies through meta-analysis.","authors":"Mark Swaine, Alessandro Bergna, Ben Oyserman, Sotirios Vasileiadis, Panagiotis A Karas, Claudio Screpanti, Dimitrios G Karpouzas","doi":"10.1093/femsec/fiaf052","DOIUrl":"10.1093/femsec/fiaf052","url":null,"abstract":"Pesticides remain a cornerstone of modern agriculture. Despite their key role, it is well documented that pesticides can have considerable off-target effects on a range of organisms. The effects of pesticides on soil health, and more importantly on soil microbiota, are currently not well addressed at the regulatory level, despite cumulative evidence for the pivotal role of the soil microbiota on ecosystem functioning. Here, we use a meta-analysis to assess the effects of pesticides on soil health parameters identifying key biological indicators for environmental risk assessment analysis. We demonstrate that ammonia oxidizing archaeal and bacterial amoA gene abundance were the most consistent indicators for pesticide exposure, with inhibition driven by herbicides and fungicides. Our meta-analysis, combined with their key functional role and the existence of well-standardized, high-resolution methods for monitoring their abundance, highlighted the potential of ammonia-oxidizing microorganisms (AOMs) as indicators of the toxicity of pesticides on soil microbiota. AOM could serve as drivers of chemical innovation in a \"benign and sustainable by design\" approach where new pesticide compounds will have to meet sustainability targets and ensure soil health preservation.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-05-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12105574/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143960735","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Microbiota changes in lactation in the short-beaked echidna (Tachyglossus aculeatus). 短喙针鼹（Tachyglossus aculeatus）哺乳期微生物群的变化。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-04-14 DOI: 10.1093/femsec/fiaf036

Isabella Wilson, Tahlia Perry, Raphael Eisenhofer, Peggy Rismiller, Michelle Shaw, Frank Grutzner

{"title":"Microbiota changes in lactation in the short-beaked echidna (Tachyglossus aculeatus).","authors":"Isabella Wilson, Tahlia Perry, Raphael Eisenhofer, Peggy Rismiller, Michelle Shaw, Frank Grutzner","doi":"10.1093/femsec/fiaf036","DOIUrl":"10.1093/femsec/fiaf036","url":null,"abstract":"Monotreme and marsupial development is characterized by a short gestation, with young exposed to the environment at an early developmental stage and supported by a long lactation in the pouch, pseudo-pouch, or burrow. The lack of a functional adaptive immune system in these altricial young raises questions about how they survive in a microbe-rich environment. Previous studies on marsupial pouches have revealed changes to pouch microbe composition during lactation, but no information is available in monotremes. We investigated changes in the echidna pseudo-pouch microbiota (n = 22) during different stages of the reproductive cycle and whether this differs between wild and zoo-managed animals. Metataxonomic profiling using 16S rRNA gene sequencing revealed that pseudo-pouch microbial communities undergo dramatic changes during lactation, with significant differences in taxonomic composition compared with samples taken outside of breeding season or during courtship and mating. This suggests that the echidna pseudo-pouch environment changes during lactation to accommodate young that lack a functional adaptive immune system. Furthermore, captivity was not found to have a significant effect on pseudo-pouch microbiota. This study pioneers pouch microbiota research in monotremes, provides new biological information on echidna reproduction, and may also provide information about the effects of captive management to inform breeding programmes in the future.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-04-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12001884/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143803030","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Hydrogeological and geological partitioning of iron and sulfur cycling bacterial consortia in subsurface coal-based mine waters. 煤基地下水中铁硫循环菌群的水文地质与地质分配。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-04-14 DOI: 10.1093/femsec/fiaf039

André Soares, Sara Maria Edwards Rassner, Arwyn Edwards, Gareth Farr, Nia Blackwell, Henrik Sass, Guglielmo Persiani, David Schofield, Andrew C Mitchell

{"title":"Hydrogeological and geological partitioning of iron and sulfur cycling bacterial consortia in subsurface coal-based mine waters.","authors":"André Soares, Sara Maria Edwards Rassner, Arwyn Edwards, Gareth Farr, Nia Blackwell, Henrik Sass, Guglielmo Persiani, David Schofield, Andrew C Mitchell","doi":"10.1093/femsec/fiaf039","DOIUrl":"https://doi.org/10.1093/femsec/fiaf039","url":null,"abstract":"Pyrite oxidation drives iron and sulfur availability across Earth's subsurface and is partly microbially mediated. Subsurface microbial communities accelerate this process at circumneutral pH directly by weathering pyritic surfaces and indirectly by causing changes to the surrounding microenvironment, thereby further accelerating pyrite weathering. However, our understanding of community structure dynamics and associated biogeochemistry in Fe- and S-rich lithologies, e.g. pyritic coal, is limited. Here, we present the first comprehensive regional and seasonal genus-level survey of bacterial groundwater communities in a pyritic coal-based aquifer in the South Wales Coalfield (SWC), using 16S rRNA gene amplicon sequencing. Seasonal changes in community structure were limited, suggesting limited influence of surface processes on subsurface communities. Instead, hydrogeologically distinct mine water blocks (MWB) and coal rank largely explained bacterial community structure variation across sites. Fe(II)-oxidizing Betaproteobacteriales genera Gallionella and Sideroxydans dominated the bacterial communities across nine sites and seven MWBs, while three sites within a single MWB, were dominated by S-oxidizing Epsilonbacteraeota genera Sulfuricurvum and Sulfurovum. The cooccurrence of pairs of Fe(II)- and S-oxidizing bacterial genera suggests functional redundancy, which coupled with genus-specific morphologies and life strategies, indicates the importance of distinct environmental and ecological niches within the SWC groundwater at seasonal and regional scales.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":"101 5","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-04-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12001885/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143991890","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Extracellular vesicles as viral countermeasures: dampening of oscillations and reduction of extinction risk. 细胞外囊泡作为病毒对策：抑制振荡和减少灭绝风险。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-04-14 DOI: 10.1093/femsec/fiaf030

Ferdi L Hellweger

{"title":"Extracellular vesicles as viral countermeasures: dampening of oscillations and reduction of extinction risk.","authors":"Ferdi L Hellweger","doi":"10.1093/femsec/fiaf030","DOIUrl":"https://doi.org/10.1093/femsec/fiaf030","url":null,"abstract":"Microbes produce extracellular vesicles (EVs, tiny membrane enclosures) that can transport some \"cargo\" (signaling molecules, proteins/enzymes, toxins, and nucleic acids) away from themselves or to other cells. EVs have also been shown to adsorb virus (phage) particles and inhibit infection, so another potential function is to serve as decoys for virus infection. However, the fitness benefit has not been explored quantitatively. Here, three existing mathematical models are extended to include EVs and parameterized based on literature. Simulations include a number of environments (lab culture and ambient), conditions (equilibrium and oscillating, i.e. predator-prey cycles), and bacteria (including enteric Escherichia coli and marine Prochlorococcus). Hosts invest, on average, ∼10% of resources into EV production. The models predict that producing EVs typically results in relatively minor increases in average host concentration (average ∼4.3% of log concentration). However, under oscillating conditions, EVs can substantially dampen and, in most cases, completely eliminate fluctuations, thereby increasing the minimum concentration and reducing extinction risk. These results provide insights into the fitness benefit of EVs as viral countermeasures, and they constitute a starting point for including EVs in ecosystem models.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":"101 5","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-04-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11995696/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143999253","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Weberviruses are gut-associated phages that infect Klebsiella spp. 韦伯病毒是感染克雷伯氏菌的肠道相关噬菌体。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-04-14 DOI: 10.1093/femsec/fiaf043

Samuel J T Dawson, Preetha Shibu, Sara Garnett, Fiona Newberry, Thomas C Brook, Tobi Tijani, Magdalena Kujawska, Lindsay J Hall, Anne L McCartney, David Negus, Lesley Hoyles

{"title":"Weberviruses are gut-associated phages that infect Klebsiella spp.","authors":"Samuel J T Dawson, Preetha Shibu, Sara Garnett, Fiona Newberry, Thomas C Brook, Tobi Tijani, Magdalena Kujawska, Lindsay J Hall, Anne L McCartney, David Negus, Lesley Hoyles","doi":"10.1093/femsec/fiaf043","DOIUrl":"https://doi.org/10.1093/femsec/fiaf043","url":null,"abstract":"Weberviruses are bacteriophages (phages) that can infect and lyse clinically relevant, multidrug-resistant (MDR) strains of Klebsiella. They are an attractive therapeutic option to tackle Klebsiella infections due to their high burst sizes, long shelf life, and associated depolymerases. In this study, we isolated and characterized seven new lytic phages and compared their genomes with those of their closest relatives. Gene-sharing network, ViPTree proteome, and terL gene-sequence-based analyses incorporating all publicly available webervirus genomes [n = 258 from isolates, n = 65 from metagenome-assembled genome (MAG) datasets] confirmed the seven phages as members of the genus Webervirus and identified a novel genus (Defiantjazzvirus) within the family Drexlerviridae. Using our curated database of 265 isolated phage genomes and 65 MAGs (n = 330 total), we found that weberviruses are distributed globally and primarily associated with samples originating from the gut: sewage (154/330, 47%), wastewater (83/330, 25%), and human faeces (66/330, 20%). We identified three distinct clusters of potential depolymerases encoded within the 330 genomes. Due to their global distribution, frequency of isolation and lytic activity against the MDR clinical Klebsiella strains used in this study, we conclude that weberviruses and their depolymerases show promise for development as therapeutic agents against Klebsiella spp.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":"101 5","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-04-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12023860/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143989209","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Acquisition of an obligate environmental symbiont may be limited in the arboreal environment. 在乔木环境中，特定环境共生体的获取可能受到限制。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-04-14 DOI: 10.1093/femsec/fiaf045

Liam T Sullivan, Suzanne E Kelly, Alison Ravenscraft, Martha S Hunter

{"title":"Acquisition of an obligate environmental symbiont may be limited in the arboreal environment.","authors":"Liam T Sullivan, Suzanne E Kelly, Alison Ravenscraft, Martha S Hunter","doi":"10.1093/femsec/fiaf045","DOIUrl":"https://doi.org/10.1093/femsec/fiaf045","url":null,"abstract":"Many eukaryotic organisms have environmentally acquired microbial symbionts. In animals, microbes commonly occupy the gut and may supply critical nutrients. The leaf-footed bug, Leptoglossus zonatus (Coreidae), is a true bug that is dependent upon ingestion of the free-living, soilborne bacterium Caballeronia early in development for growth and reproduction. In 2019 and 2020, we tested the ability of second instar L. zonatus to acquire Caballeronia in the canopy of pomegranate trees where L. zonatus are often found. We compared the acquisition rate of Caballeronia in nymphs left to forage for the symbiont to bugs fed Caballeronia in advance. Additionally, we aimed to determine whether the microhabitat of potential symbiont sources influenced acquisition success. We hypothesized that the acquisition rate would be heterogeneous among treatments. In 2019, ∼30% of experimental bugs acquired Caballeronia, compared to 75% of those fed the symbiont. In 2020, only about 4% of experimental bugs acquired any symbiont. The symbiont composition of caged bugs differed, and strain diversity was reduced relative to wild bugs. We concluded that Caballeronia is present in the canopy environment, but nymphs may fail to acquire it in the fragments of habitat represented by caged branches, suggesting a cost to host dependency on environmentally acquired symbionts.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":"101 5","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-04-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12063585/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143994346","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Exploring and evaluating microbiome resilience in the gut. 探索和评估肠道微生物群的恢复能力。

IF 3.5 3区生物学

FEMS microbiology ecology Pub Date : 2025-04-14 DOI: 10.1093/femsec/fiaf046

Huimin Zhou, Li Tang, Kristin A Fenton, Xiaobo Song

{"title":"Exploring and evaluating microbiome resilience in the gut.","authors":"Huimin Zhou, Li Tang, Kristin A Fenton, Xiaobo Song","doi":"10.1093/femsec/fiaf046","DOIUrl":"https://doi.org/10.1093/femsec/fiaf046","url":null,"abstract":"The gut ecosystem is closely related to human gastrointestinal health and overall wellness. Microbiome resilience refers to the capability of a microbial community to resist or recover from perturbations to its original state of balance. So far, there is no consensus on the criteria for assessing microbiome resilience. This article provides new insights into the metrics and techniques for resilience assessment. We discussed several potential parameters, such as microbiome structure, keystone species, biomarkers, persistence degree, recovery rate, and various research techniques in microbiology, metagenomics, biochemistry, and dynamic modeling. The article further explores the factors that influence the gut microbiome resilience. The microbiome structure (i.e. abundance and diversity), keystone species, and microbe-microbe interplays determine microbiome resilience. Microorganisms employ a variety of mechanisms to achieve the microbiome resilience, including flexible metabolism, quorum sensing, functional redundancy, microbial cooperation, and competition. Host-microbe interactions play a crucial role in maintaining microbiome stability and functionality. Unlike other articles, we focus on the regulation of host immune system on microbiome resilience. The immune system facilitates bacterial preservation and colonization, community construction, probiotic protection, and pathogen elimination through the mechanisms of immunological tolerance, immune-driven microbial compartmentalization, and immune inclusion and exclusion. Microbial immunomodulation indirectly modulates microbiome resilience.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":"101 5","pages":""},"PeriodicalIF":3.5,"publicationDate":"2025-04-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12065411/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143975744","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0