FEMS microbiology ecology最新文献_第3页

Microbial community structure in the firn associated with a ∼1000 km transect of the Eastern Antarctic Ice Sheet. 与南极东部冰盖约1000公里的样带有关的冰内微生物群落结构。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-08-20 DOI: 10.1093/femsec/fiag095

James E Lawrence, Isis Cohen Nicholson, Rebecca McCerery, Laure Newby, Rosalia Calvo-Ryan, Andrew Nelson, Joseph A Graly, Elisabeth Isaksson, Andrew Hodson, David A Pearce

{"title":"Microbial community structure in the firn associated with a ∼1000 km transect of the Eastern Antarctic Ice Sheet.","authors":"James E Lawrence, Isis Cohen Nicholson, Rebecca McCerery, Laure Newby, Rosalia Calvo-Ryan, Andrew Nelson, Joseph A Graly, Elisabeth Isaksson, Andrew Hodson, David A Pearce","doi":"10.1093/femsec/fiag095","DOIUrl":"10.1093/femsec/fiag095","url":null,"abstract":"The surface snow and shallow ice of the Antarctic have traditionally been considered biologically inactive environments with low biomass. However, recent studies have begun to describe the complexity of microbial populations present, their biogeographic distribution and local spatial variation. This study characterized the microbial communities of Eastern Antarctic high altitude plateau firn cores (up to 27 m in depth), collected along a 989 km inland transect culminating near the Southern Pole of Inaccessibility. These cores were collected in the 4th International Polar Year (IPY), during a Norwegian-U.S. scientific traverse of East Antarctica. Microbial community composition varied both between different cores and within individual cores, indicating spatial and vertical heterogeneity. Patterns of variation were not consistent across cores or depths, and regional differences were also apparent at the phylum level. Differences in measured ion concentrations, particularly phosphate, also correlated with microbial diversity. Overall, firn across the high-altitude inland plateau of the Eastern Antarctic hosts a spatially structured and depth-dependent microbiome likely influenced by depositional variability and local geochemical conditions. This study highlights the complexity of microbial distribution within firn profiles, and emphasizes the importance of understanding the local microbial diversity of surface snow and shallow ice when investigating subsurface cryosphere environments.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13525631/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148817654","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 the ecological drivers of bacteriophage diversity and functional viral potential in the skin of the axolotl Ambystoma altamirani. 探索美西螈皮肤中噬菌体多样性和功能性病毒潜能的生态驱动因素。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-08-20 DOI: 10.1093/femsec/fiag103

Alejandro M Cisneros-Martínez, Miguel Ángel Flores Varela, Francisco González-Serrano, Eria A Rebollar

{"title":"Exploring the ecological drivers of bacteriophage diversity and functional viral potential in the skin of the axolotl Ambystoma altamirani.","authors":"Alejandro M Cisneros-Martínez, Miguel Ángel Flores Varela, Francisco González-Serrano, Eria A Rebollar","doi":"10.1093/femsec/fiag103","DOIUrl":"10.1093/femsec/fiag103","url":null,"abstract":"Bacteriophages play important roles in shaping microbial community dynamics across diverse environments. In the amphibian skin, most microbiome studies have focused on bacteria and their interactions with the fungus Batrachochytrium dendrobatidis (Bd), leaving other microbial components, including viruses, largely unexplored. Here, we present the first characterization of the viral community in the amphibian skin microbiome, focusing on ecological drivers of bacteriophage diversity and functional potential in the axolotl Ambystoma altamirani. Using public shotgun metagenomes, we found that the viral fraction was dominated by bacteriophages of the class Caudoviricetes. Bacteriophage diversity was significantly associated with local physicochemical parameters at the time of sampling, and showed a strong positive correlation with bacterial diversity, whereas no significant associations were detected with the presence of Bd. In addition, seasonality influenced the composition and properties of bacteria-bacteriophage co-abundance networks. Functional annotation of assembled bacteriophage sequences revealed a diverse functional potential, including putative auxiliary metabolic genes, superinfection exclusion, toxin-antitoxin, and virulence factors. Overall, these findings highlight the ecological relevance of bacteriophages in amphibian skin microbiomes and underscore the need for further studies on their role in the amphibian host's health.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13570596/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148891531","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

Antarctic rocky outcrops as microbial diversity and biogeochemical hotspots. 南极岩石露头作为微生物多样性和生物地球化学热点。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-08-20 DOI: 10.1093/femsec/fiag101

Rebeca Arias-Real, Isabel Alcalde-Rey, Fernando Garrido, Manuel Delgado-Baquerizo, Marco Panettieri, Asunción de Los Ríos

{"title":"Antarctic rocky outcrops as microbial diversity and biogeochemical hotspots.","authors":"Rebeca Arias-Real, Isabel Alcalde-Rey, Fernando Garrido, Manuel Delgado-Baquerizo, Marco Panettieri, Asunción de Los Ríos","doi":"10.1093/femsec/fiag101","DOIUrl":"10.1093/femsec/fiag101","url":null,"abstract":"Climate-driven deglaciation is rapidly exposing rocky outcrops in polar-alpine landscapes, creating novel habitats for organisms. Yet, the contribution of these new habitats to microbial diversity and biogeochemical processes remains largely overlooked. Here, we assessed how Antarctic rocky outcrops shape soil microbial diversity, organic matter (OM) formation, and nutrient cycling by comparing thin soils developed on rocky outcrops with soils from surrounding areas on Livingston Island, Antarctica. In these soils, we characterized bacterial and fungal communities, OM composition and extracellular enzyme activities using high-throughput sequencing, pyrolysis-GC/MS, and enzyme assays. Outcrop soils exhibited higher nutrient content and moisture, creating resource-rich microhabitats that supported distinct microbial communities shaped by strong habitat filtering. Bacterial communities differed mainly in composition, whereas fungal communities in outcrop soils showed higher local diversity and included specialized functional groups such as decomposers, contributing to greater functional capacity. Outcrop soils were also enriched in fresh, labile OM compared with the more transformed OM in surrounding soils, indicating contrasting soil development pathways. Overall, Antarctic rocky outcrops act as microbial and biogeochemical hotspots, fostering distinct functional microbial assemblages and enhancing OM build-up and nutrient cycling. As deglaciation advances, these microhabitats may influence microbial diversity and resource availability at the landscape scale.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13564095/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148918462","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

Functional metatranscriptomics of the rhizosphere: towards an understanding of metabolic processes of the microbial carbon pump. 根际的功能转转录组学：对微生物碳泵代谢过程的理解。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-08-20 DOI: 10.1093/femsec/fiag097

Julian Ruggaber, Sonja Wende, Sizhong Yang, Marco Keiluweit, Steffen Kolb

{"title":"Functional metatranscriptomics of the rhizosphere: towards an understanding of metabolic processes of the microbial carbon pump.","authors":"Julian Ruggaber, Sonja Wende, Sizhong Yang, Marco Keiluweit, Steffen Kolb","doi":"10.1093/femsec/fiag097","DOIUrl":"10.1093/femsec/fiag097","url":null,"abstract":"The soil microbiome drives soil organic carbon (SOC) transformation, shaped and impacted by plant growth stage and soil management such as tillage. The soil microbial carbon pump conceptually links the degradation of plant- and microbe-derived compounds and the neosynthesis of microbial biomass, as a driver of SOC buildup. Using metatranscriptomic sequencing, we characterized actively expressed microbial functions associated with the microbial carbon pump in the Brassica napus rhizosphere across growth stages and under simulated erosion, using a tailored KEGG Orthology (KO) approach complemented by CAZy analysis of carbohydrate-active enzyme transcripts. A clear growth stage effect emerged with higher transcript abundances at flowering. Transcripts for substrate-binding proteins and permeases of ABC transporters (e.g. xylose, trehalose, phospholipids) increased at flowering, while plant polymer-degrading transcripts remained unaffected. Elevated transcripts for chitin synthase, glmS (peptidoglycan precursor), and EPS-related genes (ExoY, algF, cysE) at flowering suggested enhanced microbial activity. Simulated soil erosion impacted only two KO transcripts. CAZy results showed the same pattern with GH related to sugars and plant polymers increased at flowering. Despite functional shifts, taxonomic composition stayed stable for most affected transcripts. Our study uncovered metabolic pathways associated with SOC transformation and microbe-derived SOC neosynthesis, offering insights into microbial contributions to SOC formation and persistence.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13556623/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148873576","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

Effects of prescribed burning regimes on soil fungal communities, functional traits, and community assembly processes in surface and subsurface peat. 规定燃烧制度对地表和地下泥炭土壤真菌群落、功能性状和群落聚集过程的影响。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-08-20 DOI: 10.1093/femsec/fiag099

Shaun M Allingham, Samantha J Drake, Andrew Ramsey, Chris D Field, Felix C Nwaishi, David R Elliott

{"title":"Effects of prescribed burning regimes on soil fungal communities, functional traits, and community assembly processes in surface and subsurface peat.","authors":"Shaun M Allingham, Samantha J Drake, Andrew Ramsey, Chris D Field, Felix C Nwaishi, David R Elliott","doi":"10.1093/femsec/fiag099","DOIUrl":"10.1093/femsec/fiag099","url":null,"abstract":"Prescribed burning is used to manage peatlands, yet its effects on fungal communities across soil profiles remain poorly characterized. As key mediators of carbon cycling and nutrient turnover, fungi play critical roles in peatland function and resilience. We assessed fungal community dynamics under three long-term prescribed burning regimes (non-burn, long rotations every 20 years, and short rotations every 10 years) at a UK upland peatland. Observed fungal richness declined under short-rotation burning while Shannon and Simpson diversity were lower in burned plots but did not differ between long- and short-rotation treatments. Burn regime and soil depth influenced fungal composition, trophic modes, and functional guilds. Environmental drivers including pH, Ca, Mn, moss cover, and NH4+ varied with depth and were associated with shifts in community structure. Modified stochasticity ratio revealed that stochastic assembly dominated in burned plots, whereas unburned soils showed depth-dependent assembly, with deterministic processes prevailing in 0-20 cm and 40-60 cm layers. Broader niche widths in unburned plots indicated greater generalism. These findings demonstrate that prescribed burning alters community assembly and trophic modes across peat profiles. Disruption of deterministic processes and narrowing of ecological strategies under repeated prescribed burning may reduce microbial resilience, with implications for peatland sustainability.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-08-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13570591/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148904584","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 local and regional drivers of microbial biodiversity across freshwater ponds. 探索淡水池塘微生物多样性的本地和区域驱动因素。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-07-17 DOI: 10.1093/femsec/fiag068

Emily A Hardison, José F Goyco-Blas, Noah T Leith, Christopher J Gabriel, Trina M Wantman, Jakub Zegar, Matthew W H Chatfield, Michel E B Ohmer, Kevin D Kohl

{"title":"Exploring local and regional drivers of microbial biodiversity across freshwater ponds.","authors":"Emily A Hardison, José F Goyco-Blas, Noah T Leith, Christopher J Gabriel, Trina M Wantman, Jakub Zegar, Matthew W H Chatfield, Michel E B Ohmer, Kevin D Kohl","doi":"10.1093/femsec/fiag068","DOIUrl":"10.1093/femsec/fiag068","url":null,"abstract":"Ponds are biodiversity hotspots that harbor diverse macro-organisms and microbial communities, despite being isolated, highly variable environments with island-like features. These factors may give rise to unique biogeographic patterns and drivers of microbial community diversity. Here, we evaluated environmental and regional drivers of pond fungal and bacterial biodiversity to determine whether these communities follow commonly observed biogeographical trends. We collected water and muck from 40 ponds across 8 states in the Eastern USA and sequenced sections of the 16S rRNA gene and ITS1 region to survey the bacterial and fungal communities and test (1) whether these communities follow latitudinal diversity gradients and distance decay relationships, and (2) if variation in community composition or richness was related to specific environmental or land-use factors. We found that pond microbial communities exhibit distinct distribution patterns and relationships with environmental drivers depending on the microhabitat and microbial taxa. For example, muck fungal communities followed latitudinal diversity gradients, but bacterial communities did not. Abiotic conditions within ponds explained more variation than surrounding land use or the distance between sites, with temperature universally linked to microbial biodiversity. All sample types displayed weak distance-decay relationships, likely because of low spatial autocorrelation in environmental conditions and the lack of connectivity across ponds.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13377648/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148307624","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

Environmental variation structures northern peatland soil microbiome composition and function in a reindeer herding area exclosure experiment. 驯鹿牧区围封试验中环境变化对北部泥炭地土壤微生物组成和功能的影响

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-07-17 DOI: 10.1093/femsec/fiag072

Tommi Välikangas, Hannu Fritze, Juha-Matti Pitkänen, Krista Peltoniemi, Eeva Järvi-Laturi, Torben R Christensen, Maria Väisänen, Juho Lämsä, Riku Paavola, Jenni Hultman

{"title":"Environmental variation structures northern peatland soil microbiome composition and function in a reindeer herding area exclosure experiment.","authors":"Tommi Välikangas, Hannu Fritze, Juha-Matti Pitkänen, Krista Peltoniemi, Eeva Järvi-Laturi, Torben R Christensen, Maria Väisänen, Juho Lämsä, Riku Paavola, Jenni Hultman","doi":"10.1093/femsec/fiag072","DOIUrl":"10.1093/femsec/fiag072","url":null,"abstract":"Northern peatlands store large carbon stocks but are sensitive to disturbance. Hydrology, vegetation, herbivory and snow conditions may affect soil microorganisms involved in methane (CH4) cycling and nitrous oxide (N2O) production/reduction. We investigated how reindeer exclusion and snow depth (increased and reduced relative to ambient) manipulations (ongoing for three seasons) influenced archaeal and bacterial communities in a boreal rich fen. Metagenomic (MG) and metatranscriptomic (MT) sequencing were combined with pore-water chemistry and CH4 flux measurements to link the microbiome to ecosystem processes. Microbial communities differed between outside and inside the exclosure. However, these patterns primarily reflected underlying hydrological variation. Slightly wetter inside plots showed higher expression of denitrification genes (norB and nosZ) and lower (nirS+nirK)/nosZ ratios, indicating greater potential for complete denitrification to N2 instead of N2O. Methane dynamics were mainly associated with vegetation: plots associated with Carex rostrata exhibited lower pmoA/mcrA ratios and elevated CH4 fluxes. Snow manipulations had subtle effects: reduced snow depth decreased the expression of taxa dependent on microbial interactions, while effect to the investigated metabolic marker genes was small. Overall hydrology, leading to variations in redox conditions and nutrient availability, together with vegetation appeared as the primary drivers on microbial greenhouse gas (GHG) processes in this peatland.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13377647/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148404083","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

Highly stable active core microbiomes in Greenland cryoconite holes during the bare ice period. 裸冰期格陵兰冰芯孔高度稳定的活跃核心微生物组。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-07-17 DOI: 10.1093/femsec/fiag074

Helen K Feord, Athanasios Zervas, Katie Sipes, Ate H Jaarsma, Martyn Tranter, Liane G Benning, Alexandre M Anesio

{"title":"Highly stable active core microbiomes in Greenland cryoconite holes during the bare ice period.","authors":"Helen K Feord, Athanasios Zervas, Katie Sipes, Ate H Jaarsma, Martyn Tranter, Liane G Benning, Alexandre M Anesio","doi":"10.1093/femsec/fiag074","DOIUrl":"10.1093/femsec/fiag074","url":null,"abstract":"Cryoconite holes host diverse microbiomes on glaciers and ice sheets and are important habitats for supraglacial biogeochemical cycling. Despite reports of relative stability of cryoconite hole community composition on the Greenland Ice Sheet, it is not known how microbial function in cryoconite holes evolves under varying environmental conditions. Here, we address this knowledge gap by quantifying the active community members in five cryoconite holes on the Greenland Ice Sheet over a 3-week period during the 2022 melt season using TotalRNA. Active microbiomes were enriched in cyanobacterial sequences (25%-50%). Spatial variation between cryoconite holes had a greater impact than temporal variation on community composition quantified by rRNA SSUs, suggesting location-distinct and highly stable active microbiomes. In contrast, minor temporal variations in gene expression were identified in the mRNA data (∼1% of quantified transcripts), mostly due to cellular stress responses from washed-in glacier ice algae. Photosynthesis was the dominant active function across all surveyed cryoconite holes and time points, associated with both cyanobacterial taxa and washed-in chlorophyte snow algae. Overall, our data indicate that core cryoconite hole communities stably ensure their ecological roles, such as carbon fixation, regardless of variations in weather, highlighting their resilience and self-sufficiency.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13390577/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148404115","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

Bacterial community succession and functional gene dynamics of nitrogen and phosphorus cycling in recirculating aquaculture systems of shrimp. 对虾循环水养殖系统细菌群落演替及氮磷循环功能基因动态。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-07-17 DOI: 10.1093/femsec/fiag081

Arslan Emmanuel, Muhammad Naeem Ramzan, Zhongming Zheng

{"title":"Bacterial community succession and functional gene dynamics of nitrogen and phosphorus cycling in recirculating aquaculture systems of shrimp.","authors":"Arslan Emmanuel, Muhammad Naeem Ramzan, Zhongming Zheng","doi":"10.1093/femsec/fiag081","DOIUrl":"10.1093/femsec/fiag081","url":null,"abstract":"Recirculating aquaculture systems (RAS) rely heavily on microbial processes to remove harmful nitrogenous compounds such as ammonia and nitrite. Microbial assemblages within these systems also contribute substantially to broader biogeochemical cycling. Gaining a detailed understanding of the functional potential and abundance of microorganisms responsible for nitrogen (N) and phosphorus (P) transformations is therefore crucial for evaluating nutrient remediation efficiency. In this study, we integrated high-throughput 16S rRNA sequencing with a GeoChip functional gene array to investigate how microbial community dynamics correspond to nutrient fluctuations in full-scale RAS. A suite of multivariate statistical approaches, including ordination and network-based analyses, was applied to characterize shifts in both taxonomic structure and functional gene profiles across operational phases. Our results revealed clear temporal patterns in functional gene abundance. Denitrification-related genes (nosZ, napA, nirK/S) became more prominent toward the later stages of operation, while nitrification genes (amoA/B) were most abundant early in the cycle and declined thereafter. Genes involved in ammonification (ureC) and several P-cycling genes (phnK, phoD, phoX) also increased notably during the final phase. These trends underscore the close relationship between bacterial community succession, species turnover, and nutrient cycling capacity. Overall, the study enhances current understanding of functional microbial dynamics in RAS and provides insights that could guide the development of improved nutrient management and bioremediation strategies for aquaculture systems.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13421783/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148591028","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

Ectoparasitism and the gut microbiota: a cross-fostering experiment in a wild passerine. 体外寄生与肠道菌群：野生雀形鱼的交叉培养实验。

IF 4.1 3区生物学

FEMS microbiology ecology Pub Date : 2026-07-17 DOI: 10.1093/femsec/fiag079

Antonio José García-Núñez, Juan José Soler, Jordi Figuerola, Libya González-Dávalos, José Antonio Morillo, Cristina Ruiz-Castellano, B Irene Tieleman, Manuel Martínez-Bueno, Gustavo Tomás

{"title":"Ectoparasitism and the gut microbiota: a cross-fostering experiment in a wild passerine.","authors":"Antonio José García-Núñez, Juan José Soler, Jordi Figuerola, Libya González-Dávalos, José Antonio Morillo, Cristina Ruiz-Castellano, B Irene Tieleman, Manuel Martínez-Bueno, Gustavo Tomás","doi":"10.1093/femsec/fiag079","DOIUrl":"10.1093/femsec/fiag079","url":null,"abstract":"The gut microbiota plays a key role in host development, physiology, and immunity, and is likely shaped by hosts' genetic and environmental factors, including ectoparasitism and, thus, host health. Here, we experimentally manipulated ectoparasite (Carnus hemapterus) abundance in spotless starling (Sturnus unicolor) nests. We evaluated its hypothesized disruptive effects on nestling gut microbiota and explored also whether the effects depend on sibling relatedness using a partial cross-fostering design. Experimentally increased parasitism significantly affected alpha but not beta diversity of the bacterial community in 14-day-old cross-fostered nestlings, i.e. those non-genetically related to their social parents and siblings. The experimental parasite manipulation also affected the relative abundance of 123 bacterial strains, including fermenters, mucosa-adapted bacterial symbionts, and opportunistic pathogens. Finally, gut microbiota composition was also associated with nestling phenotype (body mass, wing and tarsus length, carotenoid concentration, and telomere dynamics). Sparse PLS network analyses linked body mass (positively: Erysipelatoclostridium, Parabacteroides, and Helicobacter; negatively: Salmonella) and parasitism intensity (negatively: Dubosiella, Rickettsiella, and Helicobacter) with relative abundance of specific bacterial strains. These results provide the first evidence in natural conditions that the effects of ectoparasites on gut microbiota depend on genetic relatedness between nestlings and parents, highlighting the complex interplay between parasitism, microbiota, and host traits.","PeriodicalId":12312,"journal":{"name":"FEMS microbiology ecology","volume":" ","pages":""},"PeriodicalIF":4.1,"publicationDate":"2026-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13403908/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148469927","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