Trends in Microbiology

Article	Citations
Microbial Regulation of Host Physiology by Short-chain Fatty Acids	504
Shaping the Future of Probiotics and Prebiotics	319
Oceanic Hitchhikers – Assessing Pathogen Risks from Marine Microplastic	283
Double-Membrane Vesicles as Platforms for Viral Replication	234
Carbapenem Resistance-Encoding and Virulence-Encoding Conjugative Plasmids in Klebsiella pneumoniae	153
Bacterial Coinfections in Coronavirus Disease 2019	137
Mitochondria-mediated oxidative stress during viral infection	134
The Role of Integrative and Conjugative Elements in Antibiotic Resistance Evolution	128
Cyanobacteria and biogeochemical cycles through Earth history	127
Bacillus cereus: Epidemiology, Virulence Factors, and Host–Pathogen Interactions	113
Making Sense of the Biodiversity and Virulence of Listeria monocytogenes	99
Microbial Symbiosis: A Network towards Biomethanation	97
Fusobacterium nucleatum, a key pathogenic factor and microbial biomarker for colorectal cancer	91
Missing Microbes in Bees: How Systematic Depletion of Key Symbionts Erodes Immunity	84
Functions of Bacterial tRNA Modifications: From Ubiquity to Diversity	83
Does Intraspecific Variation in rDNA Copy Number Affect Analysis of Microbial Communities?	82
Human Organs-on-Chips for Virology	82
Insights into endogenous Bifidobacterium species in the human gut microbiota during adulthood	80
Wall Teichoic Acid in Staphylococcus aureus Host Interaction	80
High-specificity local and global c-di-GMP signaling	80
Chlamydiae in the Environment	77
Avian gut microbiomes taking flight	74
Ecological and evolutionary solutions to the plasmid paradox	74
COVID-19 Antibody Tests: A Valuable Public Health Tool with Limited Relevance to Individuals	72
Dysregulation of Cell Signaling by SARS-CoV-2	69

Gut microbiome-mediated mechanisms for reducing cholesterol levels: implications for ameliorating cardiovascular disease	69
Two Decades of Studying Functional Amyloids in Microorganisms	69
How Microbes Evolved to Tolerate Oxygen	67
Conserved DNA Methyltransferases: A Window into Fundamental Mechanisms of Epigenetic Regulation in Bacteria	67
Type VII Toxin/Antitoxin Classification System for Antitoxins that Enzymatically Neutralize Toxins	65
The Molecular Language of the Cnidarian–Dinoflagellate Symbiosis	61
Enhancing Microbial Pollutant Degradation by Integrating Eco-Evolutionary Principles with Environmental Biotechnology	60
Microbial Inoculants: Silver Bullet or Microbial Jurassic Park?	60
Therapeutic Potential of Metformin in COVID-19: Reasoning for Its Protective Role	60
Complement Evasion by Lyme Disease Spirochetes	59
From seed to seed: the role of microbial inheritance in the assembly of the plant microbiome	59
New views on PII signaling: from nitrogen sensing to global metabolic control	59
Deep Learning for Imaging and Detection of Microorganisms	57
Neutrophil intrinsic and extrinsic regulation of NETosis in health and disease	56
Acinetobacter baumannii	56
Emerging Patterns of Microbial Functional Traits	55
Advances in the bacterial organelles for CO2 fixation	55
The Microbial Conveyor Belt: Connecting the Globe through Dispersion and Dormancy	54
Challenges of Studying the Human Virome – Relevant Emerging Technologies	54
The Oral Host–Microbial Interactome: An Ecological Chronometer of Health?	53
Diversity in the soil virosphere: to infinity and beyond?	53
Adeno-associated virus (AAV) cell entry: structural insights	53
Investigating the Concept and Origin of Viruses	53
Molecular Logic of Prokaryotic Surface Layer Structures	52
Microbiota regulation of viral infections through interferon signaling	50
Towards efficient immunotherapy for bacterial infection	50
Bacterial outer membrane vesicles and host cell death signaling	48
Probing the Mobilome: Discoveries in the Dynamic Microbiome	46
Population genetics, biofilm recalcitrance, and antibiotic resistance evolution	46
Gut microbiota–bile acid–skeletal muscle axis	46
Nucleotide biosynthesis: the base of bacterial pathogenesis	46
Control of synthetic microbial consortia in time, space, and composition	46
Viable but nonculturable (VBNC) state, an underestimated and controversial microbial survival strategy	45
Virus–Host Cell Interplay during Hepatitis E Virus Infection	45
Border Control: Regulating LPS Biogenesis	45
Carriage of Colibactin-producing Bacteria and Colorectal Cancer Risk	45
Targeting bacterial outer-membrane remodelling to impact antimicrobial drug resistance	45
Inorganic polyphosphate in host and microbe biology	45
The Next Million Names for Archaea and Bacteria	43
Interferon system deficiencies exacerbating severe pandemic virus infections	43
Synergy between microalgae and microbiome in polluted waters	43
Durability of Immunity to SARS-CoV-2 and Other Respiratory Viruses	42
Vertical transfer of antibiotics and antibiotic resistant strains across the mother/baby axis	42
Mechanisms That Shape Microbial Pangenomes	41
Phase separation in viral infections	41
Live and Wet Markets: Food Access versus the Risk of Disease Emergence	41
Evolution of Microbial Genomics: Conceptual Shifts over a Quarter Century	41
When ferroptosis meets pathogenic infections	40
Molecular genetics for probiotic engineering: dissecting lactic acid bacteria	40
Nutritional strategies for mucosal health: the interplay between microbes and mucin glycans	40

Efflux pumps in Mycobacterium tuberculosis and their inhibition to tackle antimicrobial resistance	39
Microbial Taxonomy Run Amok	38
Ecology and evolution of antibiotic persistence	38
A structural understanding of influenza virus genome replication	38
Respiratory mucus as a virus-host range determinant	38
The Enemy of My Enemy: New Insights Regarding Bacteriophage–Mammalian Cell Interactions	37
Evolution of Microbiota–Host Associations: The Microbe’s Perspective	37
Bacterial quorum sensing and phenotypic heterogeneity: how the collective shapes the individual	37
DSF-family quorum sensing signal-mediated intraspecies, interspecies, and inter-kingdom communication	37
Importance of Bacteroidetes in host–microbe interactions and ecosystem functioning	37
Forest and Trees: Exploring Bacterial Virulence with Genome-wide Association Studies and Machine Learning	37
Carbapenem and Colistin Resistance in Enterobacter: Determinants and Clones	37
A role for bacterial experimental evolution in coral bleaching mitigation?	36
Viral manipulation of host cell necroptosis and pyroptosis	36
Broadening Participation in Scientific Conferences during the Era of Social Distancing	36
Noncoding RNAs: Regulatory Molecules of Host–Microbiome Crosstalk	36
Molecular Evolution of Transition Metal Bioavailability at the Host–Pathogen Interface	35
Emergence and evolution of virulence in human pathogenic fungi	35
Immunopeptidomics for next-generation bacterial vaccine development	35
Fungal Pathogens: Shape-Shifting Invaders	34
The Interplay of Sex Steroids, the Immune Response, and the Intestinal Microbiota	34
Cells under pressure: how yeast cells respond to mechanical forces	34
Lignocellulolytic microbiomes for augmenting lignocellulose degradation in anaerobic digestion	33
Microbiome breeding: conceptual and practical issues	33
Development of Microbiome Biobanks – Challenges and Opportunities	33
Causal Inference in Microbiome Medicine: Principles and Applications	32
Crosstalk between sIgA-Coated Bacteria in Infant Gut and Early-Life Health	32
The type III secretion system effector network hypothesis	32
Catch Me if You Can: Superspreading of COVID-19	31
Role of Neutralizing Antibodies in CMV Infection: Implications for New Therapeutic Approaches	31
Diversity and function of arthropod endosymbiont toxins	31
Epigenetic Memories: The Hidden Drivers of Bacterial Persistence?	31
Control of host mitochondria by bacterial pathogens	30
Biofilms on stone monuments: biodeterioration or bioprotection?	30
Molecular Determinants of SARS-CoV-2 Variants	30
When PARPs Meet Antiviral Innate Immunity	30
Cyclin-dependent Kinases as Emerging Targets for Developing Novel Antiviral Therapeutics	30
The phosphate language of fungi	29
New technologies for developing phage-based tools to manipulate the human microbiome	29
Development of Phylodynamic Methods for Bacterial Pathogens	29
Glycan-mediated molecular interactions in bacterial pathogenesis	29
Ins and Outs of Reovirus: Vesicular Trafficking in Viral Entry and Egress	29
Bacterial extracellular vesicles: an emerging avenue to tackle diseases	29
Capsicum-infecting begomoviruses as global pathogens: host–virus interplay, pathogenesis, and management	28
Systemically circulating bacterial extracellular vesicles: origin, fate, and function	28
Metallo-β-lactamase-mediated antimicrobial resistance and progress in inhibitor discovery	28
Impact of Type I Interferons on Susceptibility to Bacterial Pathogens	28
Microbial Modulation of the Development and Physiology of the Enteric Nervous System	28
Emerging Role for MAIT Cells in Control of Antimicrobial Resistance	28
Magnaporthe oryzae	28
New Paradigms of Pilus Assembly Mechanisms in Gram-Positive Actinobacteria	27
The ambivalent role of Bacteroides in enteric infections	27
Engineering insects from the endosymbiont out	27
Antimicrobial Resistance and Bacteriophages: An Overlooked Intersection in Water Disinfection	27
Bacterial chemotaxis in human diseases	27
Porphyromonas gingivalis	27
Legionella pneumophila	27
Evolutionary constraints on the acquisition of antimicrobial peptide resistance in bacterial pathogens	27
Micromanaging the nitrogen cycle in agroecosystems	27
Hydrogen is a major lifeline for aerobic bacteria	26
The battle for oxygen during bacterial and fungal infections	26
Bacterial adaptation strategies to host-derived fatty acids	26
SARS-CoV-2 viral RNA levels are not 'viral load'	26
Epigenetics: A New Frontier in Probiotic Research	26
Lacticaseibacillus rhamnosus GR-1, a.k.a. Lactobacillus rhamnosus GR-1: Past and Future Perspectives	26
Between a Rock and a Soft Place: The Role of Viruses in Lithification of Modern Microbial Mats	26
Iron transport in cyanobacteria – from molecules to communities	25
Molecular Mechanisms of Intercellular Dissemination of Bacterial Pathogens	25
The Mystery of MIS-C Post-SARS-CoV-2 Infection	25
Electron flow: key to mitigating ruminant methanogenesis	25
Slaying SARS-CoV-2 One (Single-domain) Antibody at a Time	25
Capturing the microbial volatilome: an oft overlooked 'ome'	25
Immunogenicity of bacteriophages	25
Intermicrobial Hitchhiking: How Nonmotile Microbes Leverage Communal Motility	25
Molecular mechanisms and drivers of pathogen emergence	24
Recent progress in understanding the ecology and molecular genetics of soil mineral weathering bacteria	24
Microbial nanowires: type IV pili or cytochrome filaments?	23
Structural and Biosynthetic Diversity of Nonulosonic Acids (NulOs) That Decorate Surface Structures in Bacteria	23
Selective Autophagy Receptors in Antiviral Defense	23
The Emerging Role of Iron Acquisition in Biofilm-Associated Infections	23

Gut microbiome signatures and host colonization with multidrug-resistant bacteria	23
Bacterial Defense against the Type VI Secretion System	23
Spotlight on FtsZ-based cell division in Archaea	23
Gut-on-chip for ecological and causal human gut microbiome research	23
Higher-order microbiome interactions and how to find them	22
FtsK and SpoIIIE, coordinators of chromosome segregation and envelope remodeling in bacteria	22
Frenemies of the soil: Bacillus and Pseudomonas interspecies interactions	22
Vertical and horizontal quorum-sensing-based multicellular communications	22
Genome-powered classification of microbial eukaryotes: focus on coral algal symbionts	22
Antiphage small molecules produced by bacteria – beyond protein-mediated defenses	21
Psychological and cultural factors influencing antibiotic prescription	21
Paleovirology of the DNA viruses of eukaryotes	21
Emerging roles of the complement system in host–pathogen interactions	21
Microbial metabolites: the next frontier in human milk	21
QseB/QseC: a two-component system globally regulating bacterial behaviors	21
Anticipatory Stress Responses and Immune Evasion in Fungal Pathogens	20
Anti-CRISPR Proteins in Archaea	20
Abortive infection antiphage defense systems: separating mechanism and phenotype	20
RNA-based therapeutics to treat human fungal infections	20
Chlamydia overcomes multiple gastrointestinal barriers to achieve long-lasting colonization	20
Adaptations of intracellular bacteria to vacuolar or cytosolic niches	20
Microbial drought resistance may destabilize soil carbon	20
Complex regulatory networks of virulence factors in Vibrio vulnificus	20
Horizon scanning the application of probiotics for wildlife	19
Respiration-induced biofilm formation as a driver for bacterial niche colonization	19
Xanthomonas campestris Pathovars	19
Influenza immune escape under heterogeneous host immune histories	19
The emerging role of bacterial regulatory RNAs in disease	19
Transposon-Associated CRISPR-Cas System: A Powerful DNA Insertion Tool	18
Structural basis of bacterial flagellar motor rotation and switching	18
Unappreciated Roles for K+ Channels in Bacterial Physiology	18
Mycobacterium abscessus	18
Nuclear antiviral innate responses at the intersection of DNA sensing and DNA repair	18
Early-life chemical exposome and gut microbiome development: African research perspectives within a global environmental health context	17
Factors affecting antimicrobial resistance in Streptococcus pneumoniae following vaccination introduction	17
Genome-based Taxonomy for Bacteria: A Recent Advance	17
Plasmid-mediated colistin-resistance genes: mcr	17
SARS-CoV-2: Cross-scale Insights from Ecology and Evolution	17
Microbiome-mediated signal transduction within the plant holobiont	16
Recent advances in bacterial signaling by serine/threonine protein kinases	16
Polymorphic microbes: a new emerging hallmark of cancer	16
Unearthing terrestrial extreme microbiomes for searching terrestrial-like life in the Solar System	16
Protein biomethanation: insight into the microbial nexus	16
Future focuses of enzymatic plastic degradation	16
Severe respiratory viral infections: T-cell functions diverging from immunity to inflammation	16
Intentional and unintentional benefits of minority writing accountability groups	16
Knowns and unknowns of the soil fungal necrobiome	16
Microbial biostimulants – the need for clarification in EU regulation	16
Synthetic plant microbiota challenges in nonmodel species	15
Genome-Resolved Metagenomics Is Essential for Unlocking the Microbial Black Box of the Soil	15
Sigma Factor Modulation for Cyanobacterial Metabolic Engineering	15
How Pathogens Feel and Overcome Magnesium Limitation When in Host Tissues	15
Small-secreted proteins as virulence factors in nematode-trapping fungi	15
Heterogeneous Host–Pathogen Encounters Coordinate Antibiotic Resilience in Mycobacterium tuberculosis	15
SARS-CoV-2 and the spike protein in endotheliopathy	15
Endogenous retroviruses in development and health	14
Fungal infection of insects: molecular insights and prospects	14
How does plant sex alter microbiota assembly in dioecious plants?	14
The phages of staphylococci: critical catalysts in health and disease	14
On the evolution of SARS-CoV-2 and the emergence of variants of concern	14
Likelihood of amyloid formation in COVID-19-induced ARDS	14
The epidermal lipid barrier in microbiome–skin interaction	14
Exploiting root exudates to manage soil-borne disease complexes in a changing climate	14
Inherently and Conditionally Essential Protein Catabolism Genes of Porphyromonas gingivalis	14
Computational methods and challenges in analyzing intratumoral microbiome data	13
Ecology of the respiratory tract microbiome	13
Non-negligible roles of archaea in coastal carbon biogeochemical cycling	13
Microbes and Parkinson’s disease: from associations to mechanisms	13
Better together? Lessons on sociality from Trichodesmium	13
Diving into the complexity of the spirochetal endoflagellum	13
Monoclonal antibodies to lipoarabinomannan/arabinomannan – characteristics and implications for tuberculosis research and diagnostics	13
Thank you for biting: dispersal of beneficial microbiota through 'antagonistic' interactions	13
Unique relationships between phages and endospore-forming hosts	13
Does phage-mediated horizontal gene transfer represent an environmental risk?	13
Schizochytrium sp.	13
Cutibacterium acnes	13
Decoding the microbiome: advances in genetic manipulation for gut bacteria	12
Sex-biased Immune Responses Following SARS-CoV-2 Infection	12
Remodelling of the intestinal ecosystem during caloric restriction and fasting	12
Sex shapes gut–microbiota–brain communication and disease	12
Enigmatic evolution of microbial nitrogen fixation: insights from Earth’s past	12
Targeting herpesvirus entry complex and fusogen glycoproteins with prophylactic and therapeutic agents	12
Exploiting phage-derived carbohydrate depolymerases for combating infectious diseases	12
Nutrient stress is a target for new antibiotics	12
The interaction between autophagy, Helicobacter pylori, and gut microbiota in gastric carcinogenesis	12
Host-acting antibacterial compounds combat cytosolic bacteria	12
The pks island: a bacterial Swiss army knife? Colibactin: beyond DNA damage and cancer	12
The abortive infection functions of CRISPR-Cas and Argonaute	12
Candida–bacterial cross-kingdom interactions	12
A Radical Reimagining of Fungal Two-Component Regulatory Systems	11
Cross-correlation of virome–bacteriome–host–metabolome to study respiratory health	11
Microbial synthesis of glycosaminoglycans and their oligosaccharides	11
Microbial redox coenzyme engineering and applications in biosynthesis	11
Reductive biomining of pyrite by methanogens	11
Biofilms vs. cities and humans vs. aliens – a tale of reproducibility in biofilms	11