FEMS Microbiology Ecology

(The median citation count of FEMS Microbiology Ecology is 9. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 500 papers]. The publications cover those that have been published in the past four years, i.e., from 2019-11-01 to 2023-11-01.)
Biofilms: hot spots of horizontal gene transfer (HGT) in aquatic environments, with a focus on a new HGT mechanism176
Influence of plant genotype and soil on the wheat rhizosphere microbiome: evidences for a core microbiome across eight African and European soils111
Multitrophic interactions in the rhizosphere microbiome of wheat: from bacteria and fungi to protists58
Antibiotic-induced gut metabolome and microbiome alterations increase the susceptibility to Candida albicans colonization in the gastrointestinal tract51
Distinct mechanisms shape soil bacterial and fungal co-occurrence networks in a mountain ecosystem51
Salinity reduces bacterial diversity, but increases network complexity in Tibetan Plateau lakes51
Soil characteristics and land-use drive bacterial community assembly patterns46
Microbial abundance, composition, and function in nectar are shaped by flower visitor identity39
Different community assembly mechanisms underlie similar biogeography of bacteria and microeukaryotes in Tibetan lakes35
Four decades of soil water stress history together with host genotype constrain the response of the wheat microbiome to soil moisture35
Temporal dynamics of bacterial communities during seed development and maturation34
Root microbiomes as indicators of seagrass health32
Maize (Zea mays L. Sp.) varieties significantly influence bacterial and fungal community in bulk soil, rhizosphere soil and phyllosphere32
Exploring the abundance, metabolic potential and gene expression of subseafloor Chloroflexi in million-year-old oxic and anoxic abyssal clay29
Supplemental selenium source on gut health: insights on fecal microbiome and fermentation products of growing puppies28
Microbial indicators are better predictors of wheat yield and quality than N fertilization28
Investigating bifidobacteria and human milk oligosaccharide composition of lactating mothers28
Seasonal effects of river flow on microbial community coalescence and diversity in a riverine network28
Temporal changes in microbial communities attached to forages with different lignocellulosic compositions in cattle rumen28
Insights into dryland biocrust microbiome: geography, soil depth and crust type affect biocrust microbial communities and networks in Mojave Desert, USA28
Insights into the community structure and lifestyle of the fungal root endophytes of tomato by combining amplicon sequencing and isolation approaches with phytohormone profiling27
Metagenome-assembled genome distribution and key functionality highlight importance of aerobic metabolism in Svalbard permafrost25
Water management and phenology influence the root-associated rice field microbiota25
The response of soil and phyllosphere microbial communities to repeated application of the fungicide iprodione: accelerated biodegradation or toxicity?25
Responses of abundant and rare bacterioplankton to temporal change in a subtropical urban reservoir25
Alkaline soil pH affects bulk soil, rhizosphere and root endosphere microbiomes of plants growing in a Sandhills ecosystem24
Total RNA sequencing reveals multilevel microbial community changes and functional responses to wood ash application in agricultural and forest soil24
The bacterioplankton community composition and a host genotype dependent occurrence of taxa shape the Daphnia magna gut bacterial community24
Seasonal variation of epiphytic bacteria in the phyllosphere of Gingko biloba, Pinus bungeana and Sabina chinensis24
Investigating temporal microbial dynamics in the rumen of beef calves raised on two farms during early life23
Effects of simulated drought on biological soil quality, microbial diversity and yields under long-term conventional and organic agriculture22
Editorial: The Environmental Dimension of Antibiotic Resistance22
Functional convergence in the decomposition of fungal necromass in soil and wood21
Temporal changes in water temperature and salinity drive the formation of a reversible plastic-specific microbial community21
Methanogenic response to long-term permafrost thaw is determined by paleoenvironment21
Abiotic factors influence patterns of bacterial diversity and community composition in the Dry Valleys of Antarctica20
Abundance, diversity and mobility potential of antibiotic resistance genes in pristine Tibetan Plateau soil as revealed by soil metagenomics20
Root exposure to apple replant disease soil triggers local defense response and rhizoplane microbiome dysbiosis20
Global warming shifts the composition of the abundant bacterial phyllosphere microbiota as indicated by a cultivation-dependent and -independent study of the grassland phyllosphere of a long-term warm20
Microbial selenium metabolism: a brief history, biogeochemistry and ecophysiology20
Breeding selection imposed a differential selective pressure on the wheat root-associated microbiome20
Diversity and genetic lineages of environmental staphylococci: a surface water overview20
Host tree organ is the primary driver of endophytic fungal community structure in a hemiboreal forest19
The marine intertidal zone shapes oyster and clam digestive bacterial microbiota19
Vegetation type determines spore deposition within a forest–agricultural mosaic landscape19
Elucidation of the rhizosphere microbiome linked to Spartina alterniflora phenotype in a salt marsh on Skidaway Island, Georgia, USA19
Distribution of phenotypic and genotypic antimicrobial resistance and virulence genes in Vibrio parahaemolyticus isolated from cultivated oysters and estuarine water19
The distribution and relative ecological roles of autotrophic and heterotrophic diazotrophs in the McMurdo Dry Valleys, Antarctica19
Online searching platform for the antibiotic resistome in bacterial tree of life and global habitats18
Community dynamics of duckweed-associated bacteria upon inoculation of plant growth-promoting bacteria18
No evidence for phylosymbiosis in western chipmunk species18
Diversity of cyanobacteria at the Alaska North Slope with description of two new genera: Gibliniella and Shackletoniella18
Response of a methane-driven interaction network to stressor intensification18
MicroNiche: an R package for assessing microbial niche breadth and overlap from amplicon sequencing data18
Exploring microbial determinants of apple replant disease (ARD): a microhabitat approach under split-root design17
Shotgun metagenomics reveals a heterogeneous prokaryotic community and a wide array of antibiotic resistance genes in mangrove sediment17
Redox stratification within cryoconite granules influences the nitrogen cycle on glaciers17
Body site-specific microbiota reflect sex and age-class among wild spotted hyenas17
Diversity of methicillin-resistant staphylococci among wild Lepus granatensis: first detection of mecA-MRSA in hares17
Weekly variations of viruses and heterotrophic nanoflagellates and their potential impact on bacterioplankton in shallow waters of the central Red Sea17
Bacterial community dynamics across developmental stages of fungal fruiting bodies17
Integration of culture-dependent and independent methods provides a more coherent picture of the pig gut microbiome17
Effect of stevia on the gut microbiota and glucose tolerance in a murine model of diet-induced obesity17
Cross-kingdom analysis of nymphal-stage Ixodes scapularis microbial communities in relation to Borrelia burgdorferi infection and load17
Age, gut location and diet impact the gut microbiome of a tropical herbivorous surgeonfish16
Novel rhizobia exhibit superior nodulation and biological nitrogen fixation even under high nitrate concentrations16
Local factors drive bacterial and microeukaryotic community composition in lake surface sediment collected across an altitudinal gradient16
The proficiency of the original host species determines community-level plasmid dynamics16
Mucoidy, a general mechanism for maintaining lytic phage in populations of bacteria15
Tannin supplementation modulates the composition and function of ruminal microbiome in lambs infected with gastrointestinal nematodes15
Growing season drives the compositional changes and assembly processes of epiphytic bacterial communities of two submerged macrophytes in Taihu Lake14
Patterns of local, intercontinental and interseasonal variation of soil bacterial and eukaryotic microbial communities14
Larval density affects phenotype and surrounding bacterial community without altering gut microbiota in Drosophila melanogaster14
16S rRNA gene-based primer pair showed high specificity and quantification accuracy in detecting freshwater Brocadiales anammox bacteria14
Biopolymers modulate microbial communities in municipal organic waste digestion14
Minerals play key roles in driving prokaryotic and fungal communities in the surface sediments of the Qinghai-Tibetan lakes14
Sea foams are ephemeral hotspots for distinctive bacterial communities contrasting sea-surface microlayer and underlying surface water14
Culturable diversity of bacterial endophytes associated with medicinal plants of the Western Ghats, India14
Strong effects of lab-to-field environmental transitions on the bacterial intestinal microbiota ofMus musculusare modulated byTrichuris murisinfection14
Illuminating the dynamic rare biosphere of the Greenland Ice Sheet's Dark Zone13
Substrate-dependent CO2 fixation in heterotrophic bacteria revealed by stable isotope labelling13
Surface ammonium loading rate shifts ammonia-oxidizing communities in surface water-fed rapid sand filters13
Structure and distribution of nitrite-dependent anaerobic methane oxidation bacteria vary with water tables in Zoige peatlands13
AHL-priming for enhanced resistance as a tool in sustainable agriculture13
Host identity is more important in structuring bacterial epiphytes than endophytes in a tropical mangrove forest13
Taxonomic and functional insights into rock varnish microbiome using shotgun metagenomics13
Environmental control of Vibrio spp. abundance and community structure in tropical waters12
Metal-induced bacterial interactions promote diversity in river-sediment microbiomes12
Diversity of carotenogenic microalgae in the White Sea polar region12
Relative contributions of egg-associated and substrate-associated microorganisms to black soldier fly larval performance and microbiota12
The roles of environmental variation and spatial distance in explaining diversity and biogeography of soil denitrifying communities in remote Tibetan wetlands12
Plant-associated fungal biofilms—knowns and unknowns12
The driving factors of nematode gut microbiota under long-term fertilization12
Acinetobacter baumannii in manure and anaerobic digestates of German biogas plants12
Deep modifications of the microbiome of rice roots infected by the parasitic nematode Meloidogyne graminicola in highly infested fields in Vietnam12
Impacts of switching tillage to no-tillage and vice versa on soil structure, enzyme activities and prokaryotic community profiles in Argentinean semi-arid soils12
Protecting the outside: biological tools to manipulate the skin microbiota12
PbS biomineralization using cysteine: Bacillus cereus and the sulfur rush12
Effects of geographic location and water quality on bacterial communities in full-scale biofilters across North America12
Intestinal Enterococcus abundance correlates inversely with excessive weight gain and increased plasma leptin in breastfed infants12
Bacteria but not fungi respond to soil acidification rapidly and consistently in both a spruce and beech forest12
Warming and disturbance alter soil microbiome diversity and function in a northern forest ecotone12
Stochastic processes dominate marine free-living Vibrio community assembly in a subtropical gulf12
Macroecological diversification and convergence in a clade of keystone symbionts12
Multi-species relationships in legume roots: From pairwise legume-symbiont interactions to the plant – microbiome – soil continuum12
Microhabitats are associated with diversity–productivity relationships in freshwater bacterial communities12
A novel PCR-clamping assay reducing plant host DNA amplification significantly improves prokaryotic endo-microbiome community characterization12
Biochar as electron donor for reduction of N2O by Paracoccus denitrificans11
Defining the eco-enzymological role of the fungal strain Coniochaeta sp. 2T2.1 in a tripartite lignocellulolytic microbial consortium11
Cascading effects in freshwater microbial food webs by predatory Cercozoa, Katablepharidacea and ciliates feeding on aplastidic bacterivorous cryptophytes11
Safeguarding the fragile rice–wheat ecosystem of the Indo-Gangetic Plains through bio-priming and bioaugmentation interventions11
Insights into the structure and role of seed-borne bacteriome during maize germination11
Cell Architecture of the Giant Sulfur Bacterium Achromatium oxaliferum: Extra-cytoplasmic Localization of Calcium Carbonate Bodies11
miCROPe 2019 – emerging research priorities towards microbe-assisted crop production11
Increased temperatures alter viable microbial biomass, ammonia oxidizing bacteria and extracellular enzymatic activities in Antarctic soils11
Bacteria responsible for antimonite oxidation in antimony-contaminated soil revealed by DNA-SIP coupled to metagenomics11
Experimental assembly reveals ecological drift as a major driver of root nodule bacterial diversity in a woody legume crop11
Columbia spotted frogs (Rana luteiventris) have characteristic skin microbiota that may be shaped by cutaneous skin peptides and the environment10
Synergistic interactions prevail in multispecies biofilms formed by the human gut microbiota on mucin10
Heterogeneity–disease relationship in the human microbiome-associated diseases10
Dysbiosis in marine aquaculture revealed through microbiome analysis: reverse ecology for environmental sustainability10
Soil microbial communities influencing organic phosphorus mineralization in a coastal dune chronosequence in New Zealand10
Restoring degraded microbiome function with self-assembled communities10
Dynamics and ecological distributions of the Archaea microbiome from inland saline lakes (Monegros Desert, Spain)10
Comparison of microbiota, antimicrobial resistance genes and mobile genetic elements in flies and the feces of sympatric animals10
Mitochondrial sequences of Rhipicephalus and Coxiella endosymbiont reveal evidence of lineages co-cladogenesis9
Methanotroph populations and CH4 oxidation potentials in high-Arctic peat are altered by herbivory induced vegetation change9
The association between initial adhesion and cyanobacterial biofilm development9
Characterizing the culturable surface microbiomes of diverse marine animals9
Urbanization and Carpobrotus edulis invasion alter the diversity and composition of soil bacterial communities in coastal areas9
Variation in the microbiome of the spider mite Tetranychus truncatus with sex, instar and endosymbiont infection9
A generalised model for generalised transduction: the importance of co-evolution and stochasticity in phage mediated antimicrobial resistance transfer9
Long-lasting effects of antibiotics on bacterial communities of adult flies9
Arbuscular mycorrhiza has little influence on N2O potential emissions compared to plant diversity in experimental plant communities9
Soil fungal community composition and functional similarity shift across distinct climatic conditions9
Resource availability drives bacterial succession during leaf-litter decomposition in a bromeliad ecosystem9
Role of amoebae for survival and recovery of ‘non-culturable’ Helicobacter pylori cells in aquatic environments9
Shifts in short-chain fatty acid profile, Fe(III) reduction and bacterial community with biochar amendment in rice paddy soil9
Importance of environmental factors over habitat connectivity in shaping bacterial communities in microbial mats and bacterioplankton in an Antarctic freshwater system9
Marine sediments harbor diverse archaea and bacteria with the potential for anaerobic hydrocarbon degradation via fumarate addition9
Co-occurrence of rhizobacteria with nitrogen fixation and/or 1-aminocyclopropane-1-carboxylate deamination abilities in the maize rhizosphere9
A converging subset of soil bacterial taxa is permissive to the IncP-1 plasmid pKJK5 across a range of soil copper contamination9