FEMS microbiology ecology最新文献

Micromelt sampling of the glacier algal nutrient environment. 冰川藻类营养环境的微熔体取样。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-10-06 DOI: 10.1093/femsec/fiaf098

Madeleine Lewis, Emily L M Broadwell, Jasmin L Millar, Elizabeth R Thomas, Patricia Sanchez-Baracaldo, Christopher J Williamson

{"title":"Micromelt sampling of the glacier algal nutrient environment.","authors":"Madeleine Lewis, Emily L M Broadwell, Jasmin L Millar, Elizabeth R Thomas, Patricia Sanchez-Baracaldo, Christopher J Williamson","doi":"10.1093/femsec/fiaf098","DOIUrl":"https://doi.org/10.1093/femsec/fiaf098","url":null,"abstract":"Zygnematophycean \"glacier algae\" form extensive blooms on ablating glacier surfaces despite the ultra-oligotrophic conditions apparent. Previous work has postulated that this oligotrophic bloom paradox is due to i) lower nutrient requirements of glacier algae, ii) efficient uptake and storage of the nutrients available, and/or iii) ineffective characterisation of the actual nutrient environment that glacier algae experience. We investigate the latter here by directly sampling the thin (∼2 mm) melt water film in which glacier algal cells reside across three glaciers in Svalbard during the 2023 melt season, comparing to outcomes from more typical bulk ice sampling techniques. Micromelt samples generally contained increased concentrations of ammonium (NH4+), nitrate (NO3-), nitrite (NO2-) and phosphate (PO43-), though trends were not uniform, and concentrations remained well within oligotrophic levels. Several major ion species were significantly increased in micromelt fractions as compared to bulk samples, indicating aeolian deposition and marine aerosol influences on the glacier algal environment. In turn, enhanced micromelt dissolved organic carbon concentrations (DOC) indicated likely DOC delivery by glacier algae to the microbial food web from the onset of bloom formation. Taken together, datasets reveal new fine-scale heterogeneity in the glacier algal meltwater environment.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145231788","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Modulation of the rhizosphere microbiome structure and optimization of beneficial functions in winter wheat induced by Bacillus subtilis: a metagenomic and phenotypic study. 枯草芽孢杆菌诱导冬小麦根际微生物群结构调控及有益功能优化：一项宏基因组和表型研究。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-30 DOI: 10.1093/femsec/fiaf097

Mykola Patyka, Renjun Wang, Anastasiia Honchar, Tetiana Patyka, Serhii Khablak

{"title":"Modulation of the rhizosphere microbiome structure and optimization of beneficial functions in winter wheat induced by Bacillus subtilis: a metagenomic and phenotypic study.","authors":"Mykola Patyka, Renjun Wang, Anastasiia Honchar, Tetiana Patyka, Serhii Khablak","doi":"10.1093/femsec/fiaf097","DOIUrl":"https://doi.org/10.1093/femsec/fiaf097","url":null,"abstract":"The rhizosphere microbiome critically determines plant health and productivity. This study investigated the impact of Bacillus subtilis H38 on the taxonomic and functional profiles of the winter wheat (Triticum aestivum L.) rhizosphere microbiome under typical chernozem conditions using 16S rRNA gene sequencing and shotgun metagenomics, complemented by plant phenotypic evaluation and targeted metabolite analysis. Inoculation with B. subtilis H38 significantly restructured the rhizosphere bacterial community, increasing alpha-diversity (Shannon index from 5.8 to 6.7) and showing distinct clustering in beta-diversity analysis. The relative abundance of putative plant-beneficial genera, including Bacillus, Pseudomonas, Azotobacter, and Streptomyces, was significantly elevated. Shotgun metagenomic analysis revealed enrichment of functional genes associated with nitrogen fixation, phosphorus mobilization, phytohormone biosynthesis, siderophore production, and synthesis of antimicrobial compounds. Targeted metabolomic analysis confirmed elevated levels of indole-3-acetic acid (IAA) and key siderophores. Concurrently, treated wheat plants exhibited an 18.0% increase in above-ground biomass and a 25.0% increase in root length under field conditions. These findings underscore the potential of B. subtilis to beneficially reshape the rhizosphere microbiome and its metagenome, leading to enhanced plant growth, and highlight its utility as a potent biofertilizer for improving wheat productivity. This research reinforces the potential of harnessing beneficial plant-microbe interactions to enhance agricultural productivity while minimizing dependence on synthetic agrochemicals.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-09-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145198919","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The diverse world within: Age-dependent photobiont diversity in the lichen Protoparmeliopsis muralis. 内部的多样性世界：地衣原斑生物的年龄依赖性光生物多样性。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-26 DOI: 10.1093/femsec/fiaf096

Veronika Kantnerová, Pavel Škaloud

{"title":"The diverse world within: Age-dependent photobiont diversity in the lichen Protoparmeliopsis muralis.","authors":"Veronika Kantnerová, Pavel Škaloud","doi":"10.1093/femsec/fiaf096","DOIUrl":"https://doi.org/10.1093/femsec/fiaf096","url":null,"abstract":"Understanding the initial formation and development of lichens is crucial for elucidating the mechanisms behind the formation of complex lichen thalli and their maintenance in long-term symbioses. These symbiotic relationships provide significant ecological advantages for both partners, expanding their ecological niches and allowing them, in many cases, to overcome extreme environmental conditions. The correct development of thalli likely relies on the selection of suitable photobionts from the environment. In this study, we focused on the impact of lichen age on the overall diversity of photobiont partners and examined how mycobiont preference toward their symbionts changes at different developmental stages. Using the lichen Protoparmeliopsis muralis as a model organism, we observed a strong correlation between the diversity of photobionts and lichen age, confirmed by both molecular data and morphological observations. Our findings indicate greater photobiont diversity in older thalli, suggesting that lichens retain the majority of algae they collect throughout their lifespan, potentially as an adaptation to changing environmental conditions. Additionally, we found that some lichen samples contained only low levels of Trebouxia algae, indicating that P. muralis does not consistently rely on this typical partner and that local environmental conditions may significantly influence its symbiotic composition.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-09-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145148349","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Microbes without borders: uniting societies for climate action. 无国界微生物：团结社会共同应对气候变化。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-22 DOI: 10.1093/femsec/fiaf084

J T Lennon, L S Bittleston, Q Chen, V S Cooper, J Fernández, J A Gilbert, M M Häggblom, L V Harper, J K Jansson, N Jiao, E M Kuurstra, R S Peixoto, R Rappuoli, M A Schembri, A Ventosa, D L Vullo, C Zhang, N K Nguyen

引用次数: 0

Distinct bacterial communities affiliated with two types of shredder-produced particles in streams. 不同的细菌群落与溪流中两种碎纸机产生的颗粒有关。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-22 DOI: 10.1093/femsec/fiaf091

Pratiksha Acharya, Mourine J Yegon, Christian Griebler, Simon Vitecek, Katrin Attermeyer

{"title":"Distinct bacterial communities affiliated with two types of shredder-produced particles in streams.","authors":"Pratiksha Acharya, Mourine J Yegon, Christian Griebler, Simon Vitecek, Katrin Attermeyer","doi":"10.1093/femsec/fiaf091","DOIUrl":"10.1093/femsec/fiaf091","url":null,"abstract":"Leaf litter decomposition is a vital ecosystem process in which macroinvertebrate-shredders produce substantial amounts of fine particulate organic matter (FPOM) via sloppy feeding and defecation, creating a substratum and substrate for microbial assemblages. However, microbial communities colonizing the shredder-produced FPOM are understudied compared to those in streams and on original leaves. Here, we investigated the bacterial community composition on shredder-produced FPOM in a laboratory experiment. We fed alder, beech, and maple leaves conditioned under oxic or anoxic conditions to Sericostoma (Insecta: Trichoptera) larvae. We collected shredded leaf particles and faecal pellets as shredder-produced FPOM at different times and examined their microbial communities using 16S rRNA amplicon sequencing. We hypothesized that shredder-produced FPOM types harbor diverse, distinct, and specialized microbial taxa in response to leaf species and conditioning. We found significantly higher alpha diversity on shredded leaves compared to faecal pellets. Microbial communities on faecal pellets differed from initial leaf communities and with anoxic and oxic conditioning. Bacterial communities developing on leaves were dominated by common leaf decomposers including Flavobacterium and Pseudomonas whereas faecal pellets harbored gut bacterial taxa including Acinetobacter and Carnobacterium. These results underline the importance of conditioning and shredder activity in shaping FPOM-attached bacterial communities, increasing bacterial diversity in stream ecosystems.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-09-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12451447/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145091651","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

Correction to: High diversity of nitrifying bacteria and archaea in biofilms from a subsea tunnel. 更正：海底隧道生物膜中硝化细菌和古细菌的高度多样性。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-22 DOI: 10.1093/femsec/fiaf092

引用次数: 0

Impact of pH and salinity fluctuations on oxidation of Fe(II) by nitrate-reducing microorganisms enriched from the reduced tidal sediment of an extreme acidic river (Río Tinto, Spain). pH和盐度波动对来自极酸性河流的还原潮汐沉积物的硝酸盐还原微生物氧化铁（II）的影响（Río Tinto，西班牙）。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-22 DOI: 10.1093/femsec/fiaf083

Martina Bottaro, Sergey Abramov, Ricardo Amils, Daniel Straub, Sebastian Kühnel, Marie Mollenkopf, Sara Kleindienst, Martin Obst, Andreas Kappler

{"title":"Impact of pH and salinity fluctuations on oxidation of Fe(II) by nitrate-reducing microorganisms enriched from the reduced tidal sediment of an extreme acidic river (Río Tinto, Spain).","authors":"Martina Bottaro, Sergey Abramov, Ricardo Amils, Daniel Straub, Sebastian Kühnel, Marie Mollenkopf, Sara Kleindienst, Martin Obst, Andreas Kappler","doi":"10.1093/femsec/fiaf083","DOIUrl":"10.1093/femsec/fiaf083","url":null,"abstract":"Nitrate reduction coupled to Fe(II) oxidation (NRFeOx) contributes to Fe cycling in the estuarian sediments of the Río Tinto river (Huelva, Spain). However, it is not yet known (i) whether and which NRFeOx microorganisms can be enriched from the reduced sediment layer and (ii) how in situ pH and salinity fluctuations affect NRFeOx. Therefore, we (i) used two different approaches, such as microcosm experiments (sediment amended with either NO3-/Fe2+aq or acetate/NO3-/Fe2+aq) and enrichment cultures (medium amended with acetate/NO3-/Fe2+aq) to enrich NRFeOx microorganisms to (ii) test their salinity and pH tolerance under simulated high tide and low tide conditions. We found that different microorganisms such as Thiobacillus (up to 9.7 ± 5.8% DNA-based 16S rRNA gene abundance) and Denitromonas (83.6% DNA-based 16S rRNA gene abundance) were contributing to NRFeOx in the microcosm experiments and enrichment culture approach, respectively. The strong buffering capacity of the native sediment and the presence of additional organic carbon as acetate can favor NRFeOx microorganisms during acidic water influx (low tide) events. The ∼100% conversion of NO3- to NO₂- under high tide conditions was observed both in the enrichment cultures and microcosm experiment when acetate was added suggesting the chemodenitrification may be the primary Fe(II) oxidation pathway under salty conditions.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-09-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12475565/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144948472","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

Microbial respiration - a biomineral perspective. 微生物呼吸-生物矿物学的观点。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-22 DOI: 10.1093/femsec/fiaf093

Lucian C Staicu, Julie Cosmidis, Muammar Mansor, Catarina M Paquete, Andreas Kappler

{"title":"Microbial respiration - a biomineral perspective.","authors":"Lucian C Staicu, Julie Cosmidis, Muammar Mansor, Catarina M Paquete, Andreas Kappler","doi":"10.1093/femsec/fiaf093","DOIUrl":"10.1093/femsec/fiaf093","url":null,"abstract":"Microbial biomineralization is a key process in natural and anthropogenic environments. Certain bacteria and archaea produce cellular energy via anaerobic respiration using metals and metalloids as terminal electron acceptors, producing intra- and extracellular biominerals. This article explores the biomineralization of arsenic (As), iron (Fe), sulfur (S) and selenium (Se), in relation with microbial respiratory processes. Ferric iron (FeIII) and the oxyanions of As, S and Se are used as terminal electron acceptors by specialized bacteria and archaea, providing significant amounts of energy under anoxic and nutrient-limiting conditions. These transformations result in the formation of various types of arsenic sulfides, iron (oxyhydr)oxides and sulfides, elemental S/S0 and elemental Se/Se0 biominerals, which will be the focus of this review. Certain biominerals (e.g. S0) function as storage compounds; others, like Se0, may increase the density and the buoyancy of bacteria harboring them or are by-products of this process. Arsenic sulfides and iron (oxyhydr)oxides and sulfides appear to be by-product biominerals or have a yet unknown function. The use of these biominerals as biosignatures is an open topic and an ongoing debate. Further exploration of the reviewed biominerals is needed from both fundamental and applied viewpoints, aspects which will be covered in this review.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-09-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12481199/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145136750","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

Electron conductive compounds alter fermentative pathways and cooperation in Clostridium carboxidivorans and Clostridium acetobutylicum in co-culture. 电子导电性化合物改变了羧酸梭菌和乙酰丁酸梭菌共培养的发酵途径和合作关系。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-22 DOI: 10.1093/femsec/fiaf090

Laura Feliu-Paradeda, Sebastià Puig, Lluís Bañeras

{"title":"Electron conductive compounds alter fermentative pathways and cooperation in Clostridium carboxidivorans and Clostridium acetobutylicum in co-culture.","authors":"Laura Feliu-Paradeda, Sebastià Puig, Lluís Bañeras","doi":"10.1093/femsec/fiaf090","DOIUrl":"10.1093/femsec/fiaf090","url":null,"abstract":"The addition of conductive materials promotes interactions between bacteria as they facilitate the exchange of reducing equivalents among cells. In this work, the impact of electron conductive compounds (magnetite, activated carbon, or iron salts) was investigated on a Clostridium acetobutylicum/Clostridium carboxidivorans co-culture. Co-culturing both species with soluble iron salts or magnetite significantly improved carbon recovery in liquid end-products (75%-85% of added carbon) compared to control and activated carbon supplementation (50%-55% of added carbon). The addition of magnetite enhanced the production of longer-chain acids and alcohols (C4 and C6) when compared to all other treatments and reached the highest production after 44 h of fermentation. This effect was not observed in C. carboxidivorans nor in C. acetobutylicum pure cultures, advocating for a cooperation between the two species. Among comparisons to the behaviour observed in pure cultures, we suggest magnetite was first used as a sink of reduced equivalents produced by C. carboxidivorans and later as a source of energy for C. acetobutylicum for the production of elongated short-chain fatty acids and alcohols. We propose that adding magnetite (iron) could be an effective strategy to enhance alcohol production in synthetic clostridia consortia.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-09-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12451442/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145091643","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

Microplastic impacts archaeal abundance, microbial communities, and their network connectivity in a Sub-Saharan soil environment. 微塑性影响撒哈拉以南土壤环境中古细菌丰度、微生物群落及其网络连通性。

IF 3.2 3区生物学

FEMS microbiology ecology Pub Date : 2025-09-22 DOI: 10.1093/femsec/fiaf085

Stephan Rohrbach, Gerasimos Gkoutselis, Linda Hink, Alfons R Weig, Gerhard Rambold, Marcus A Horn

{"title":"Microplastic impacts archaeal abundance, microbial communities, and their network connectivity in a Sub-Saharan soil environment.","authors":"Stephan Rohrbach, Gerasimos Gkoutselis, Linda Hink, Alfons R Weig, Gerhard Rambold, Marcus A Horn","doi":"10.1093/femsec/fiaf085","DOIUrl":"10.1093/femsec/fiaf085","url":null,"abstract":"Unmanaged plastic waste in Sub-Saharan Africa pollutes large areas and degrades into microplastics (MPs). Surfaces of MP are colonized by bacteria and fungi, resulting in the plastisphere. Plastispheres from high population hotspots on the African continent enrich pathogenic fungi, posing a potential threat to human health. Prokaryotes in such plastispheres are unknown to date. Thus, we analysed the prokaryotic microbiome of native plastisphere and soil by 16S rRNA gene amplicon sequencing, with a focus on community assembly mechanisms and putative pathogenic bacteria. A strong plastic-dependent depletion of archaeal ammonia oxidizing Nitrososphaeraceae was observed. Prokaryotic but not archaeal beta diversity significantly differed between plastisphere and soil microbiomes. The prokaryotic pathogenic potential in the plastisphere was marginally increased relative to soil, suggesting that MP is a driver for fungal rather than bacterial pathogens. Null model comparisons revealed a moderately stronger effect of deterministic selection events in the plastisphere than in soil. We observed a severe disruption of cooccurrence network connectivity in plastisphere communities in contrast to bulk soil communities. This study closes the knowledge gap on plastic debris in Sub-Saharan terrestrial environments, and the observed effects on archaea and cooccurrence networks suggest negative impacts on nitrification and stability of microbial communities.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-09-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12481198/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144948390","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