Nature Microbiology

Papers
(The H4-Index of Nature Microbiology is 74. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-11-01 to 2024-11-01.)
ArticleCitations
The furin cleavage site in the SARS-CoV-2 spike protein is required for transmission in ferrets585
Community-led, integrated, reproducible multi-omics with anvi’o455
SARS-CoV-2 Omicron is an immune escape variant with an altered cell entry pathway433
SARS-CoV-2 variant prediction and antiviral drug design are enabled by RBD in vitro evolution320
Therapeutically administered ribonucleoside analogue MK-4482/EIDD-2801 blocks SARS-CoV-2 transmission in ferrets319
Akkermansia muciniphila secretes a glucagon-like peptide-1-inducing protein that improves glucose homeostasis and ameliorates metabolic disease in mice301
Metagenomic compendium of 189,680 DNA viruses from the human gut microbiome301
The SARS-CoV-2 RNA–protein interactome in infected human cells249
Antibody responses to SARS-CoV-2 vaccines in 45,965 adults from the general population of the United Kingdom247
COVID-19-associated fungal infections238
Genetic and structural basis for SARS-CoV-2 variant neutralization by a two-antibody cocktail233
A standardized archaeal taxonomy for the Genome Taxonomy Database233
Bifidobacterium species associated with breastfeeding produce aromatic lactic acids in the infant gut230
ISG15-dependent activation of the sensor MDA5 is antagonized by the SARS-CoV-2 papain-like protease to evade host innate immunity222
SARS-CoV-2 Variants of Interest and Concern naming scheme conducive for global discourse221
Quantitative image analysis of microbial communities with BiofilmQ198
Bacteriophage-resistant Acinetobacter baumannii are resensitized to antimicrobials192
Characterization of antimicrobial-resistant Gram-negative bacteria that cause neonatal sepsis in seven low- and middle-income countries191
Metabolic cooperation and spatiotemporal niche partitioning in a kefir microbial community173
Effectiveness of COVID-19 vaccines against symptomatic SARS-CoV-2 infection and severe outcomes with variants of concern in Ontario166
Responses to acute infection with SARS-CoV-2 in the lungs of rhesus macaques, baboons and marmosets161
Multi-omics analyses of the ulcerative colitis gut microbiome link Bacteroides vulgatus proteases with disease severity161
Bifidobacterium bifidum strains synergize with immune checkpoint inhibitors to reduce tumour burden in mice160
Cellular host factors for SARS-CoV-2 infection157
Compendium of specialized metabolite biosynthetic diversity encoded in bacterial genomes147
Reduction of microbial diversity in grassland soil is driven by long-term climate warming147
A functional selection reveals previously undetected anti-phage defence systems in the E. coli pangenome146
Species- and site-specific genome editing in complex bacterial communities144
Genomic and functional analyses of fungal and bacterial consortia that enable lignocellulose breakdown in goat gut microbiomes139
Towards a deeper understanding of the vaginal microbiota138
Genome-resolved metagenomics reveals site-specific diversity of episymbiotic CPR bacteria and DPANN archaea in groundwater ecosystems125
Multi-kingdom microbiota analyses identify bacterial–fungal interactions and biomarkers of colorectal cancer across cohorts122
Probiotics impact the antibiotic resistance gene reservoir along the human GI tract in a person-specific and antibiotic-dependent manner120
Pervasive transmission of a carbapenem resistance plasmid in the gut microbiota of hospitalized patients120
Spike-specific circulating T follicular helper cell and cross-neutralizing antibody responses in COVID-19-convalescent individuals118
Trace gas oxidizers are widespread and active members of soil microbial communities117
Metagenomics-enabled microbial surveillance117
Fungal taxonomy and sequence-based nomenclature116
Divergent SARS-CoV-2 variant emerges in white-tailed deer with deer-to-human transmission116
Daily longitudinal sampling of SARS-CoV-2 infection reveals substantial heterogeneity in infectiousness116
Systematic evaluation of horizontal gene transfer between eukaryotes and viruses113
Microbial signatures in the lower airways of mechanically ventilated COVID-19 patients associated with poor clinical outcome110
Population genomics confirms acquisition of drug-resistant Aspergillus fumigatus infection by humans from the environment109
A bottom-up view of antimicrobial resistance transmission in developing countries109
Evolution of the human pathogenic lifestyle in fungi108
Gut microbiome alterations in high-fat-diet-fed mice are associated with antibiotic tolerance107
The DarTG toxin-antitoxin system provides phage defence by ADP-ribosylating viral DNA105
Microbial metabolites in the marine carbon cycle105
CRISPRi chemical genetics and comparative genomics identify genes mediating drug potency in Mycobacterium tuberculosis105
Fetal meconium does not have a detectable microbiota before birth103
Host preference and invasiveness of commensal bacteria in the Lotus and Arabidopsis root microbiota100
Early detection and surveillance of SARS-CoV-2 genomic variants in wastewater using COJAC98
Harnessing the microbiome to prevent global biodiversity loss97
Multiple phage resistance systems inhibit infection via SIR2-dependent NAD+ depletion96
RNA viromes from terrestrial sites across China expand environmental viral diversity93
The plant NADPH oxidase RBOHD is required for microbiota homeostasis in leaves93
Prediction of effector protein structures from fungal phytopathogens enables evolutionary analyses92
Neutralizing antibody activity in convalescent sera from infection in humans with SARS-CoV-2 and variants of concern91
Plasmodium falciparum is evolving to escape malaria rapid diagnostic tests in Ethiopia90
Identification of shared and disease-specific host gene–microbiome associations across human diseases using multi-omic integration88
A catalogue of 1,167 genomes from the human gut archaeome87
Mycobiota-induced IgA antibodies regulate fungal commensalism in the gut and are dysregulated in Crohn’s disease87
The impact of genetic diversity on gene essentiality within the Escherichia coli species86
Longitudinal analysis of antibody dynamics in COVID-19 convalescents reveals neutralizing responses up to 16 months after infection86
Wildfire-dependent changes in soil microbiome diversity and function85
Protective role of the Arabidopsis leaf microbiota against a bacterial pathogen84
Neutralization mechanism of a human antibody with pan-coronavirus reactivity including SARS-CoV-283
Integrating cultivation and metagenomics for a multi-kingdom view of skin microbiome diversity and functions82
Human microbiome myths and misconceptions77
Stepwise evolution of Salmonella Typhimurium ST313 causing bloodstream infection in Africa77
Phage–host coevolution in natural populations77
Genomic epidemiology reveals multiple introductions of SARS-CoV-2 from mainland Europe into Scotland76
Molecular structure of the intact bacterial flagellar basal body75
Genome-wide subcellular protein map for the flagellate parasite Trypanosoma brucei74
Identification of gut microbial species linked with disease variability in a widely used mouse model of colitis74
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