ISME Journal

(The H4-Index of ISME Journal is 64. 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 2019-10-01 to 2023-10-01.)
Balance between community assembly processes mediates species coexistence in agricultural soil microbiomes across eastern China412
Environmental stress destabilizes microbial networks311
Long-term nutrient inputs shift soil microbial functional profiles of phosphorus cycling in diverse agroecosystems219
Erosion reduces soil microbial diversity, network complexity and multifunctionality195
Breast milk-derived human milk oligosaccharides promote Bifidobacterium interactions within a single ecosystem185
Anaerobic methane oxidation coupled to manganese reduction by members of the Methanoperedenaceae183
Chlorine disinfection promotes the exchange of antibiotic resistance genes across bacterial genera by natural transformation167
Disruption of Firmicutes and Actinobacteria abundance in tomato rhizosphere causes the incidence of bacterial wilt disease160
Biodiversity of key-stone phylotypes determines crop production in a 4-decade fertilization experiment157
Gut microbiota structure differs between honeybees in winter and summer146
Novel phosphate-solubilizing bacteria enhance soil phosphorus cycling following ecological restoration of land degraded by mining146
Soil microbial diversity–biomass relationships are driven by soil carbon content across global biomes129
Predicting disease occurrence with high accuracy based on soil macroecological patterns of Fusarium wilt122
Variation in rhizosphere microbial communities and its association with the symbiotic efficiency of rhizobia in soybean122
Non-antibiotic pharmaceuticals enhance the transmission of exogenous antibiotic resistance genes through bacterial transformation120
Spatiotemporal dynamics of the archaeal community in coastal sediments: assembly process and co-occurrence relationship120
Niche differentiation is spatially and temporally regulated in the rhizosphere118
Drivers of the composition of active rhizosphere bacterial communities in temperate grasslands118
Phage-specific metabolic reprogramming of virocells116
Nonnutritive sweeteners can promote the dissemination of antibiotic resistance through conjugative gene transfer114
Key bacterial taxa and metabolic pathways affecting gut short-chain fatty acid profiles in early life104
Novel syntrophic bacteria in full-scale anaerobic digesters revealed by genome-centric metatranscriptomics101
Ecology and evolution of antimicrobial resistance in bacterial communities99
Soil plastispheres as hotspots of antibiotic resistance genes and potential pathogens98
Stainless steel corrosion via direct iron-to-microbe electron transfer by Geobacter species95
Food or just a free ride? A meta-analysis reveals the global diversity of the Plastisphere93
Enrichment and physiological characterization of a novel comammox Nitrospira indicates ammonium inhibition of complete nitrification92
Genome diversification in globally distributed novel marine Proteobacteria is linked to environmental adaptation92
Syntrophus conductive pili demonstrate that common hydrogen-donating syntrophs can have a direct electron transfer option89
The planktonic protist interactome: where do we stand after a century of research?89
Bacillus velezensis stimulates resident rhizosphere Pseudomonas stutzeri for plant health through metabolic interactions87
Comparative genomics reveals insights into cyanobacterial evolution and habitat adaptation86
Chlorine disinfection facilitates natural transformation through ROS-mediated oxidative stress86
Wolbachia supplement biotin and riboflavin to enhance reproduction in planthoppers85
Open challenges for microbial network construction and analysis85
Down to the bone: the role of overlooked endolithic microbiomes in reef coral health85
Microbial community and geochemical analyses of trans-trench sediments for understanding the roles of hadal environments85
Environmental heterogeneity determines the ecological processes that govern bacterial metacommunity assembly in a floodplain river system84
Comammox Nitrospira within the Yangtze River continuum: community, biogeography, and ecological drivers83
Characterization of a sponge microbiome using an integrative genome-centric approach80
Extremophilic nitrite-oxidizing Chloroflexi from Yellowstone hot springs80
High functional diversity among Nitrospira populations that dominate rotating biological contactor microbial communities in a municipal wastewater treatment plant79
Air pollution could drive global dissemination of antibiotic resistance genes79
The gut microbiota contributes to the development of Staphylococcus aureus-induced mastitis in mice79
Novel probiotic approach to counter Paenibacillus larvae infection in honey bees78
Viromes outperform total metagenomes in revealing the spatiotemporal patterns of agricultural soil viral communities77
Comparative genomics: Dominant coral-bacterium Endozoicomonas acroporae metabolizes dimethylsulfoniopropionate (DMSP)76
Deep sea sediments associated with cold seeps are a subsurface reservoir of viral diversity76
Achieving similar root microbiota composition in neighbouring plants through airborne signalling75
Conserved and reproducible bacterial communities associate with extraradical hyphae of arbuscular mycorrhizal fungi69
A network approach to elucidate and prioritize microbial dark matter in microbial communities69
Consistent host and organ occupancy of phyllosphere bacteria in a community of wild herbaceous plant species69
Reconfiguration of metabolic fluxes in Pseudomonas putida as a response to sub-lethal oxidative stress69
Linking perturbations to temporal changes in diversity, stability, and compositions of neonatal calf gut microbiota: prediction of diarrhea68
Metagenomic analysis reveals a dynamic microbiome with diversified adaptive functions to utilize high lignocellulosic forages in the cattle rumen68
The microbiome and resistome of chimpanzees, gorillas, and humans across host lifestyle and geography68
Genome wide association study reveals plant loci controlling heritability of the rhizosphere microbiome67
Serial horizontal transfer of vitamin-biosynthetic genes enables the establishment of new nutritional symbionts in aphids’ di-symbiotic systems67
Resource partitioning of phytoplankton metabolites that support bacterial heterotrophy67
Salt-induced recruitment of specific root-associated bacterial consortium capable of enhancing plant adaptability to salt stress67
Island biogeography of soil bacteria and fungi: similar patterns, but different mechanisms66
Increasing flavonoid concentrations in root exudates enhance associations between arbuscular mycorrhizal fungi and an invasive plant65
Marked changes in diversity and relative activity of picoeukaryotes with depth in the world ocean65
Prokaryotic taxonomy and nomenclature in the age of big sequence data64
A novel bacterial thiosulfate oxidation pathway provides a new clue about the formation of zero-valent sulfur in deep sea64