Current Opinion in Microbiology

Article	Citations
PANoptosis in microbial infection	132
Hepatitis E virus: host tropism and zoonotic infection	94
The potential of using E. coli as an indicator for the surveillance of antimicrobial resistance (AMR) in the environment	81
Mycoviruses and their role in fungal pathogenesis	77
Seizing the moment: now is the time for integrated global surveillance of antimicrobial resistance in wastewater environments	72
The antiviral activities of TRIM proteins	68
Antifungal drug-resistance mechanisms in Candida biofilms	62
The assembly of β-barrel outer membrane proteins	60
How antibiotics work together: molecular mechanisms behind combination therapy	55
Bacterial CRISPR screens for gene function	50
Antibiotic resistance in the commensal human gut microbiota	50
The challenges of estimating the human global burden of disease of antimicrobial resistant bacteria	50
PAS domains in bacterial signal transduction	49
Fungal endophytes in plants and their relationship to plant disease	48
Antimicrobial resistance acquisition via natural transformation: context is everything	47
Eradicating biofilm infections: an update on current and prospective approaches	45
Pseudomonas aeruginosa: an antibiotic resilient pathogen with environmental origin	44
Salmonella effector driven invasion of the gut epithelium: breaking in and setting the house on fire	44
Ecological and functional roles of bacteriophages in contrasting environments: marine, terrestrial and human gut	43
Commensal inter-bacterial interactions shaping the microbiota	43
Invasive pulmonary aspergillosis associated with viral pneumonitis	42
Natural recreational waters and the risk that exposure to antibiotic resistant bacteria poses to human health	42
The antimalarial resistome – finding new drug targets and their modes of action	42
Antibiotic persistence and tolerance: not just one and the same	42
The ever-expanding world of bacterial cyclic oligonucleotide second messengers	41

Role of pollution on the selection of antibiotic resistance and bacterial pathogens in the environment	40
The evolutionary success of regulated cell death in bacterial immunity	40
New discoveries expand possibilities for carboxysome engineering	39
Plasmodium falciparum resistance to artemisinin-based combination therapies	39
More than propellers: how flagella shape bacterial motility behaviors	39
Climate change and plant pathogens	39
Microbial communities and their enzymes facilitate degradation of recalcitrant polymers in anaerobic digestion	38
The molecular and genetic basis of antifungal resistance in the emerging fungal pathogen Candida auris	38
Glycan processing in gut microbiomes	37
Diversity of bacterial chemosensory systems	37
The multifaceted lifestyle of enterococci: genetic diversity, ecology and risks for public health	36
Synthesis and recycling of the mycobacterial cell envelope	36
Mother–infant transmission of human microbiota	36
Rhizosphere bacterial interactions and impact on plant health	36
I want to break free – macrophage strategies to recognize and kill Candida albicans, and fungal counter-strategies to escape	35
Aeromonas: the multifaceted middleman in the One Health world	35
Reservoirs of antimicrobial resistance in the context of One Health	34
Microbial assimilation of lignin-derived aromatic compounds and conversion to value-added products	34
Yeast synthetic biology advances biofuel production	34
Epithelial inflammasomes in the defense against Salmonella gut infection	34
Dynamic of the human gut microbiome under infectious diarrhea	34
Selective drivers of simple multicellularity	33
Salmonella pathogenesis and host-adaptation in farmed animals	33
How do interactions between mobile genetic elements affect horizontal gene transfer?	33
Towards a deeper understanding of microbial communities: integrating experimental data with dynamic models	33
Ecological dynamics of plasmid transfer and persistence in microbial communities	31
An overview of the global antimicrobial resistance research and development hub and the current landscape	31
Bacterial efflux transporters’ polyspecificity – a gift and a curse?	31
Impact of bacterial persisters on their host	31
Lipoproteins in Gram-negative bacteria: new insights into their biogenesis, subcellular targeting and functional roles	31
Regulation and function of class A Penicillin-binding proteins	31
Protein stoichiometry, structural plasticity and regulation of bacterial microcompartments	30
Microbes to support plant health: understanding bioinoculant success in complex conditions	30
Putting microbial interactions back into community contexts	30
Roles of liquid–liquid phase separation in bacterial RNA metabolism	30
Bacterial microcompartments: tiny organelles with big potential	29
Host genetics regulate the plant microbiome	29
Advances and challenges in single-cell RNA-seq of microbial communities	29
Archaeal key-residents within the human microbiome: characteristics, interactions and involvement in health and disease	29
Evolutionary relationships among shell proteins of carboxysomes and metabolosomes	29
T cell immunity to commensal fungi	28
Homeostasis of the Gram-negative cell envelope	28
Genetic mechanisms governing sporulation initiation in Clostridioides difficile	28
Recent advances in applying cell-free systems for high-value and complex natural product biosynthesis	27
The intestinal mycobiome as a determinant of host immune and metabolic health	27
A perfect fit: Bacteriophage receptor-binding proteins for diagnostic and therapeutic applications	26
Engineered bacteria to report gut function: technologies and implementation	26
Bacterial microcompartments and their role in pathogenicity	26
The longitudinal and cross-sectional heterogeneity of the intestinal microbiota	25
Control engineering and synthetic biology: working in synergy for the analysis and control of microbial systems	25

Emergent CRISPR–Cas-based technologies for engineering non-model bacteria	25
The need for unrealistic experiments in global change biology	25
Metabolic regulation of sexual commitment in Plasmodium falciparum	24
Group 3 innate lymphoid cells mediate host defense against attaching and effacing pathogens	24
Microbiome rescue: directing resilience of environmental microbial communities	24
Synergy and regulation of antiphage systems: toward the existence of a bacterial immune system?	24
Regulation of Clostridioides difficile toxin production	24
Diversity, detection and exploitation: linking soil fungi and plant disease	23
Pathogenic Aspergillus and Fusarium as important causes of blinding corneal infections — the role of neutrophils in fungal killing, tissue damage and cytokine production	23
The maternal gut microbiome during pregnancy and its role in maternal and infant health	23
Structure-based design of novel polyhedral protein nanomaterials	23
Anchoring surface proteins to the bacterial cell wall by sortase enzymes: how it started and what we know now	23
Modifications of cell wall polymers in Gram-positive bacteria by multi-component transmembrane glycosylation systems	23
Immunometabolism in fungal infections: the need to eat to compete	23
Microbial eco-evolutionary dynamics in the plant rhizosphere	23
The metabolic pathways and transporters of the plastid organelle in Apicomplexa	23
Colonization resistance: metabolic warfare as a strategy against pathogenic Enterobacteriaceae	23
Toxin–antitoxin systems as mediators of phage defence and the implications for abortive infection	23
Current approaches to malaria vaccines	23
Chemical communication in plant–microbe beneficial interactions: a toolbox for precise management of beneficial microbes	23
Shigella infection and host cell death: a double-edged sword for the host and pathogen survival	22
The first line of defense: effector pathways of anti-fungal innate immunity	22
Argonaute proteins confer immunity in all domains of life	22
Functional roles of microbial cell-to-cell heterogeneity and emerging technologies for analysis and control	21
Targeting a highly conserved domain in bacterial histidine kinases to generate inhibitors with broad spectrum activity	21
When the metabolism meets the cell cycle in bacteria	21
Toward merging bottom–up and top–down model-based designing of synthetic microbial communities	21
Inflammasome activation by Salmonella	21
Bacterial signaling as an antimicrobial target	20
Streptomyces behavior and competition in the natural environment	20
Recent advances in the development of metal complexes as antibacterial agents with metal-specific modes of action	20
The spatial organization of microbial communities during range expansion	19
Probing the diversity and regulation of tRNA modifications	19
It’s all in your head: antifungal immunity in the brain	19
Recent structural insights into bacterial microcompartment shells	19
Deciphering mechanisms and implications of bacterial translocation in human health and disease	18
Listeriosis, a model infection to study host-pathogen interactions in vivo	18
Eradicating, retaining, balancing, swarming, shuttling and dumping: a myriad of tasks for neutrophils during fungal infection	18
Resource sharing between central metabolism and cell envelope synthesis	18
CRISPR screens in the era of microbiomes	18
cAMP signalling and its role in host cell invasion by malaria parasites	18
Prophages provide a rich source of antiphage defense systems	18
Regulation of Citrobacter rodentium colonization: virulence, immune response and microbiota interactions	18
A brief guide to machine learning for antibiotic discovery	18
Hierarchical and simultaneous utilization of carbon substrates: mechanistic insights, physiological roles, and ecological consequences	18
Immunotherapeutic approaches for fungal infections	18
Regulation of peptidoglycan hydrolases: localization, abundance, and activity	18
Cell–cell communication through septal junctions in filamentous cyanobacteria	17
One species, different diseases: the unique molecular mechanisms that underlie the pathogenesis of typhoidal Salmonella infections	17
Prokaryote pangenomes are dynamic entities	17
Engineering temporal dynamics in microbial communities	17
Mechanisms and impact of antimicrobial resistance in Clostridioides difficile	17
Emergence and adaptation of the cellular machinery directing antigenic variation in the African trypanosome	17
Bioremediation of the herbicide glyphosate in polluted soils by plant-associated microbes	17
Intraspecies heterogeneity in microbial interactions	17
Natural selection on crosstalk between gene regulatory networks facilitates bacterial adaptation to novel environments	16
The mystery of persistent, asymptomatic Plasmodium falciparum infections	16
Metarhizium: an opportunistic middleman for multitrophic lifestyles	16
Forgotten fungi: the importance of the skin mycobiome	16
Defining the expanding mechanisms of phage-mediated activation of bacterial immunity	16
Clostridioides difficile spore germination: initiation to DPA release	16
Oxygen response and tolerance mechanisms in Clostridioides difficile	16
Immune-metabolic interactions between Leishmania and macrophage host	16
Convergence in domesticated fungi used for cheese and dry-cured meat maturation: beneficial traits, genomic mechanisms, and degeneration	16
Bacterial lipid biophysics and membrane organization	15
Regulation of protein biosynthetic activity during growth arrest	15
Human and mouse NAIP/NLRC4 inflammasome responses to bacterial infection	15
Advances in constraint-based models: methods for improved predictive power based on resource allocation constraints	15
Intestinal organoid/enteroid-based models for Cryptosporidium	15
Transport of lipopolysaccharides and phospholipids to the outer membrane	15
Antibiotic resistance in bacterial communities	15
“What I cannot create, I do not understand": elucidating microbe–microbe interactions to facilitate plant microbiome engineering	15
Bacterial multicellular behavior in antiviral defense	15
From genome structure to function: insights into structural variation in microbiology	15
Antifungal drug screening: thinking outside the box to identify novel antifungal scaffolds	15
Strain wars and the evolution of opportunistic pathogens	15
Progress and opportunities in microbial community metabolomics	15
Quantitative analysis of horizontal gene transfer in complex systems	14
Natural products that target the cell envelope	14
Roles of Hsp90 in Candida albicans morphogenesis and virulence	14

Lessons from arbuscular mycorrhizal fungal genomes	14
Plugging into bacterial nanowires: a comparison of model electrogenic organisms	14
Engineering genetic circuits: advancements in genetic design automation tools and standards for synthetic biology	14
Microbial interactions in theory and practice: when are measurements compatible with models?	14
Recent progress in our understanding of peptidoglycan assembly in Firmicutes	14
Molecular mechanisms employed by enteric bacterial pathogens to antagonise host innate immunity	14
Continued mycovirus discovery expanding our understanding of virus lifestyles, symptom expression, and host defense	14
Batrachochytrium fungi: stealth invaders in amphibian skin	14
What’s for dinner? How Citrobacter rodentium’s metabolism helps it thrive in the competitive gut	13
Microbiome engineering for sustainable agriculture: using synthetic biology to enhance nitrogen metabolism in plant-associated microbes	13
Stochastic response of bacterial cells to antibiotics: its mechanisms and implications for population and evolutionary dynamics	13
Functional ecology of bacteriophages in the environment	13
Within-host evolution of bacterial pathogens during persistent infection of humans	13
Structured to conquer: transport across the Plasmodium parasitophorous vacuole	13
The RESTRICTION checkpoint: a window of opportunity governing developmental transitions in Toxoplasma gondii	13
Transcriptional regulation of methanogenic metabolism in archaea	13
Within-host evolution of the gut microbiome	13
Making sense of drug-efflux transporters in the physiological environment	13
Design of synthetic bacterial biosensors	13
CTP switches in ParABS-mediated bacterial chromosome segregation and beyond	13
Innate immune responses to Listeria in vivo	13
Ethanolamine bacterial microcompartments: from structure, function studies to bioengineering applications	13
Mapping bacterial effector arsenals: in vivo and in silico approaches to defining the protein features dictating effector secretion by bacteria	12
Local antifungal immunity in the kidney in disseminated candidiasis	12
Engineering synthetic spatial patterns in microbial populations and communities	12
The gut microbiome, immunity, and Plasmodium severity	12
Ecological drivers of division of labour in Streptomyces	12
When bacteria are phage playgrounds: interactions between viruses, cells, and mobile genetic elements	12
Accessing nutrients as the primary benefit arising from chemotaxis	12
Recent advances in genetic manipulation of Cryptosporidium	12
Reframing antimicrobial resistance as a continuous spectrum of manifestations	12
What's eating you? An update on Giardia, the microbiome and the immune response	11
Interkingdom interactions between Pseudomonas aeruginosa and Candida albicans affect clinical outcomes and antimicrobial responses	11
Integrated control of surface adaptation by the bacterial flagellum	11
Orientia and Rickettsia: different flowers from the same garden	11
Soterobionts: disease-preventing microorganisms and proposed strategies to facilitate their discovery	11
Bottlenecks and opportunities in antibiotic discovery against Mycobacterium tuberculosis	11
Global dispersal and diversity of rust fungi in the context of plant health	11
Human microbiome variance is underestimated	11
Cryptosporidium: host and parasite transcriptome in infection	11
Cutaneous and subcutaneous fungal infections: recent developments on host–fungus interactions	11
Entamoeba stage conversion: progress and new insights	11
Culturomics, a potential approach paving the way toward bacteriotherapy	11
Antibiotics from rare actinomycetes, beyond the genus Streptomyces	11
Microbiomes for sustainable biomanufacturing	10
Assembly of the exosporium layer in Clostridioides difficile spores	10
How did we get here? Insights into mechanisms of immunity-related GTPase targeting to intracellular pathogens	10
Yersinia interactions with regulated cell death pathways	10
Counteracting antibiotic resistance enzymes and efflux pumps	10
Plasmids of Clostridioides difficile	10
Soluble mediators in anti-fungal immunity	10
Novel computational and experimental approaches for investigating the thermodynamics of metabolic networks	10
Bacterial photosynthesis: state-of-the-art in light-driven carbon fixation in engineered bacteria	10
Clostridioides difficile peptidoglycan modifications	10
Utilization of microbial cocultures for converting mixed substrates to valuable bioproducts	10
Animal models for dissecting Vibrio cholerae intestinal pathogenesis and immunity	9
Metabolic stringent response in intracellular stages of Leishmania	9
The Lyme disease spirochete, Borrelia burgdorferi, as a model vector-borne pathogen: insights on regulation of gene and protein expression	9
Balancing de novo synthesis and salvage of lipids by Leishmania amastigotes	9
Citrobacter rodentium(ϕStx2dact), a murine infection model for enterohemorrhagic Escherichia coli	9
Mining for novel antibiotics	9
Toll/interleukin-1 receptor domains in bacterial and plant immunity	9
Human milk oligosaccharides and the infant gut microbiome from an eco-evolutionary perspective	9
The evolutionary ecology of rhizobia: multiple facets of competition before, during, and after symbiosis with legumes	9
The microbial and host factors that govern Candida gastrointestinal colonization and dissemination	9
Genetic and environmental factors shape the host response to Helicobacter hepaticus: insights into IBD pathogenesis	9
New approaches and techniques for bacterial cell wall analysis	9
Targeting the gut microbiota in inflammatory bowel diseases: where are we?	9
New insights into apicoplast metabolism in blood-stage malaria parasites	9
Targeted mutagenesis of multiple chromosomal regions in microbes	9
Central role of metabolism in Trypanosoma cruzi tropism and Chagas disease pathogenesis	9
SOS-independent bacterial DNA damage responses: diverse mechanisms, unifying function	8
Cell cycle-regulated ApiAP2s and parasite development: the Toxoplasma paradigm	8
Engineering microbial systems for the production and functionalization of biomaterials	8
Heterothermy and antifungal responses in bats	8
Do chance encounters between heterogeneous cells shape the outcome of tuberculosis infections?	8
Autoinducing peptide-based quorum signaling systems in Clostridioides difficile	8
Quantitative biology of survival under antibiotic treatments	8
Repurposing of Plasmodium falciparum var genes beyond the blood stage	8
Toothpicks, logic, and next-generation sequencing: systematic investigation of bacteriophage-host interactions	8
An emerging class of nucleic acid-sensing regulators in bacteria: WYL domain-containing proteins	8
The tale of two flaviviruses: subversion of host pathways by RNA shapes in dengue and hepatitis C viral RNA genomes	8
Impact of caloric restriction on the gut microbiota	8
Fungus–insect interactions beyond bilateral regimes: the importance and strategy to outcompete host ectomicrobiomes by fungal parasites	8
Contact and competition between mitochondria and microbes	8
Unlocking the potential of optogenetics in microbial applications	8
Dissecting skin microbiota and microenvironment for the development of therapeutic strategies	8
Biophysical approaches to understand and re-purpose bacterial microcompartments	8
Leveraging laboratory and clinical studies to design effective antibiotic combination therapy	8
Synthesizing microbial biodiversity	7
The emerging complexity of Chlamydia trachomatis interactions with host cells as revealed by molecular genetic approaches	7
Selective molecular transport across the protein shells of bacterial microcompartments	7
Recurring and emerging themes in prokaryotic innate immunity	7
Ca2+-calmodulin signalling at the host-pathogen interface	7
Sensing the threat posed by Aspergillus infection	7