Current Opinion in Microbiology

Article	Citations
PANoptosis in microbial infection	112
Neonatal gut microbiome and immunity	86
The gut, the bad and the harmless: Candida albicans as a commensal and opportunistic pathogen in the intestine	86
Hepatitis E virus: host tropism and zoonotic infection	77
Mycoviruses and their role in fungal pathogenesis	66
Linking bacterial growth, survival, and multicellularity – small signaling molecules as triggers and drivers	60
The intersection of capsule gene expression, hypermucoviscosity and hypervirulence in Klebsiella pneumoniae	58
The antiviral activities of TRIM proteins	57
Seizing the moment: now is the time for integrated global surveillance of antimicrobial resistance in wastewater environments	55
The potential of using E. coli as an indicator for the surveillance of antimicrobial resistance (AMR) in the environment	54
The assembly of β-barrel outer membrane proteins	50
When is a transcription factor a NAP?	48
Immunoglobulin A and the microbiome	45
The challenges of estimating the human global burden of disease of antimicrobial resistant bacteria	44
Antifungal drug-resistance mechanisms in Candida biofilms	44
How antibiotics work together: molecular mechanisms behind combination therapy	44
PAS domains in bacterial signal transduction	42
Bacterial CRISPR screens for gene function	37
Pseudomonas aeruginosa: an antibiotic resilient pathogen with environmental origin	37
Invasive pulmonary aspergillosis associated with viral pneumonitis	37
Role of pollution on the selection of antibiotic resistance and bacterial pathogens in the environment	36
Mycobacterium tuberculosis pathogenicity viewed through the lens of molecular Koch’s postulates	36
Salmonella effector driven invasion of the gut epithelium: breaking in and setting the house on fire	35
Antimicrobial resistance acquisition via natural transformation: context is everything	35
The ever-expanding world of bacterial cyclic oligonucleotide second messengers	35

Fungal endophytes in plants and their relationship to plant disease	35
Eradicating biofilm infections: an update on current and prospective approaches	34
Natural recreational waters and the risk that exposure to antibiotic resistant bacteria poses to human health	34
Synthesis and recycling of the mycobacterial cell envelope	33
The antimalarial resistome – finding new drug targets and their modes of action	33
Mechanisms of persistence, innate immune activation and immunomodulation by the gastric pathogen Helicobacter pylori	33
Commensal inter-bacterial interactions shaping the microbiota	32
Antibiotic resistance in the commensal human gut microbiota	32
Diversity of bacterial chemosensory systems	32
New discoveries expand possibilities for carboxysome engineering	31
Epithelial inflammasomes in the defense against Salmonella gut infection	31
The multifaceted lifestyle of enterococci: genetic diversity, ecology and risks for public health	31
Antibiotic persistence and tolerance: not just one and the same	30
More than propellers: how flagella shape bacterial motility behaviors	30
Microbial communities and their enzymes facilitate degradation of recalcitrant polymers in anaerobic digestion	30
Ecological and functional roles of bacteriophages in contrasting environments: marine, terrestrial and human gut	29
Regulation and function of class A Penicillin-binding proteins	29
Microbial assimilation of lignin-derived aromatic compounds and conversion to value-added products	29
I want to break free – macrophage strategies to recognize and kill Candida albicans, and fungal counter-strategies to escape	29
The pyrin inflammasome in host–microbe interactions	29
Impact of bacterial persisters on their host	28
Selective drivers of simple multicellularity	28
Beyond the CRISPR-Cas safeguard: PICI-encoded innate immune systems protect bacteria from bacteriophage predation	28
Salmonella pathogenesis and host-adaptation in farmed animals	28
Glycan processing in gut microbiomes	27
Evolutionary relationships among shell proteins of carboxysomes and metabolosomes	26
Plasmodium falciparum resistance to artemisinin-based combination therapies	26
An overview of the global antimicrobial resistance research and development hub and the current landscape	26
The acid response network of Staphylococcus aureus	26
Lipoproteins in Gram-negative bacteria: new insights into their biogenesis, subcellular targeting and functional roles	26
Multi-metal nutrient restriction and crosstalk in metallostasis systems in microbial pathogens	26
Towards a deeper understanding of microbial communities: integrating experimental data with dynamic models	26
Aeromonas: the multifaceted middleman in the One Health world	25
Bacterial efflux transporters’ polyspecificity – a gift and a curse?	25
Bacterial microcompartments and their role in pathogenicity	25
Protein stoichiometry, structural plasticity and regulation of bacterial microcompartments	25
Roles of liquid–liquid phase separation in bacterial RNA metabolism	25
Advances and challenges in single-cell RNA-seq of microbial communities	25
The evolutionary success of regulated cell death in bacterial immunity	25
Putting microbial interactions back into community contexts	24
The bidirectional nature of microbiome-epithelial cell interactions	24
Bacterial microcompartments: tiny organelles with big potential	24
Dynamic of the human gut microbiome under infectious diarrhea	24
The molecular and genetic basis of antifungal resistance in the emerging fungal pathogen Candida auris	24
Epigenome-metabolome-microbiome axis in health and IBD	24
T cell immunity to commensal fungi	24
Homeostasis of the Gram-negative cell envelope	24
Ecological dynamics of plasmid transfer and persistence in microbial communities	23
Immunometabolism in fungal infections: the need to eat to compete	23
Metabolic regulation of sexual commitment in Plasmodium falciparum	23

Minority report: the intestinal mycobiota in systemic infections	23
Yeast synthetic biology advances biofuel production	23
Structure-based design of novel polyhedral protein nanomaterials	23
Genetic mechanisms governing sporulation initiation in Clostridioides difficile	23
Mother–infant transmission of human microbiota	23
How do interactions between mobile genetic elements affect horizontal gene transfer?	23
Control engineering and synthetic biology: working in synergy for the analysis and control of microbial systems	23
Dynamics of expression, secretion and translocation of type III effectors during enteropathogenic Escherichia coli infection	22
Engineered bacteria to report gut function: technologies and implementation	22
Recent advances in applying cell-free systems for high-value and complex natural product biosynthesis	22
Archaeal key-residents within the human microbiome: characteristics, interactions and involvement in health and disease	22
The longitudinal and cross-sectional heterogeneity of the intestinal microbiota	21
The intestinal mycobiome as a determinant of host immune and metabolic health	21
Climate change and plant pathogens	21
Shigella infection and host cell death: a double-edged sword for the host and pathogen survival	20
Kin recognition and outer membrane exchange (OME) in myxobacteria	20
Microbes to support plant health: understanding bioinoculant success in complex conditions	20
Metabolic control of virulence factor production in Staphylococcus aureus	20
Group 3 innate lymphoid cells mediate host defense against attaching and effacing pathogens	19
When the metabolism meets the cell cycle in bacteria	19
Modifications of cell wall polymers in Gram-positive bacteria by multi-component transmembrane glycosylation systems	19
Functional roles of microbial cell-to-cell heterogeneity and emerging technologies for analysis and control	18
The first line of defense: effector pathways of anti-fungal innate immunity	18
It’s all in your head: antifungal immunity in the brain	18
The vacuole guard hypothesis: how intravacuolar pathogens fight to maintain the integrity of their beloved home	18
Inflammasome activation by Salmonella	18
Anchoring surface proteins to the bacterial cell wall by sortase enzymes: how it started and what we know now	18
Diversity, detection and exploitation: linking soil fungi and plant disease	18
Cell morphology as a virulence determinant: lessons from Helicobacter pylori	18
Recent structural insights into bacterial microcompartment shells	18
The evolution of MarR family transcription factors as counter-silencers in regulatory networks	18
The impact of two-component sensorial network in staphylococcal speciation	18
Regulation of Clostridioides difficile toxin production	18
Colonization resistance: metabolic warfare as a strategy against pathogenic Enterobacteriaceae	17
Who’s in control? Regulation of metabolism and pathogenesis in space and time	17
Probing the diversity and regulation of tRNA modifications	17
Pathogenic Aspergillus and Fusarium as important causes of blinding corneal infections — the role of neutrophils in fungal killing, tissue damage and cytokine production	17
Eradicating, retaining, balancing, swarming, shuttling and dumping: a myriad of tasks for neutrophils during fungal infection	17
Targeting a highly conserved domain in bacterial histidine kinases to generate inhibitors with broad spectrum activity	17
The need for unrealistic experiments in global change biology	17
Bacterial signaling as an antimicrobial target	16
Deciphering mechanisms and implications of bacterial translocation in human health and disease	16
Single-gene lysis in the metagenomic era	16
Synergy and regulation of antiphage systems: toward the existence of a bacterial immune system?	16
Reservoirs of antimicrobial resistance in the context of One Health	16
Intraspecies heterogeneity in microbial interactions	16
A perfect fit: Bacteriophage receptor-binding proteins for diagnostic and therapeutic applications	16
Toward merging bottom–up and top–down model-based designing of synthetic microbial communities	15
Immunotherapeutic approaches for fungal infections	15
CRISPR screens in the era of microbiomes	15
The metabolic pathways and transporters of the plastid organelle in Apicomplexa	15
The spatial organization of microbial communities during range expansion	15
Legionella quorum sensing meets cyclic-di-GMP signaling	15
Regulation of Citrobacter rodentium colonization: virulence, immune response and microbiota interactions	15
A brief guide to machine learning for antibiotic discovery	15
cAMP signalling and its role in host cell invasion by malaria parasites	15
Fecal transplants as a microbiome-based therapeutic	15
Resource sharing between central metabolism and cell envelope synthesis	15
Recent progress in our understanding of peptidoglycan assembly in Firmicutes	14
Listeriosis, a model infection to study host-pathogen interactions in vivo	14
Immune-metabolic interactions between Leishmania and macrophage host	14
Transport of lipopolysaccharides and phospholipids to the outer membrane	14
Cell–cell communication through septal junctions in filamentous cyanobacteria	14
Toxin–antitoxin systems as mediators of phage defence and the implications for abortive infection	14
Host genetics regulate the plant microbiome	14
Convergence in domesticated fungi used for cheese and dry-cured meat maturation: beneficial traits, genomic mechanisms, and degeneration	14
Natural selection on crosstalk between gene regulatory networks facilitates bacterial adaptation to novel environments	14
Mechanisms and impact of antimicrobial resistance in Clostridioides difficile	14
Microbial eco-evolutionary dynamics in the plant rhizosphere	14
Hierarchical and simultaneous utilization of carbon substrates: mechanistic insights, physiological roles, and ecological consequences	13
Prokaryote pangenomes are dynamic entities	13
Argonaute proteins confer immunity in all domains of life	13
Engineering temporal dynamics in microbial communities	13
Quantitative analysis of horizontal gene transfer in complex systems	13
Intestinal organoid/enteroid-based models for Cryptosporidium	13
Chemical communication in plant–microbe beneficial interactions: a toolbox for precise management of beneficial microbes	13
Streptomyces behavior and competition in the natural environment	13
Molecular mechanisms employed by enteric bacterial pathogens to antagonise host innate immunity	13
Innate immune responses to Listeria in vivo	13
Rhizosphere bacterial interactions and impact on plant health	13

Molecular mechanisms of enterococcal-bacteriophage interactions and implications for human health	12
Stochastic response of bacterial cells to antibiotics: its mechanisms and implications for population and evolutionary dynamics	12
Clostridioides difficile spore germination: initiation to DPA release	12
Antifungal drug screening: thinking outside the box to identify novel antifungal scaffolds	12
Plugging into bacterial nanowires: a comparison of model electrogenic organisms	12
Microbiome rescue: directing resilience of environmental microbial communities	12
Nucleotide second messengers in bacterial decision making	12
Bacterial invasion and killing by predatory Bdellovibrio primed by predator prey cell recognition and self protection	12
Structured to conquer: transport across the Plasmodium parasitophorous vacuole	12
Emergent CRISPR–Cas-based technologies for engineering non-model bacteria	12
Current approaches to malaria vaccines	12
Regulation of protein biosynthetic activity during growth arrest	12
Mapping bacterial effector arsenals: in vivo and in silico approaches to defining the protein features dictating effector secretion by bacteria	11
Virulence from the rhizosphere: ecology and evolution of Burkholderia pseudomallei-complex species	11
Cryptosporidium: host and parasite transcriptome in infection	11
Engineering synthetic spatial patterns in microbial populations and communities	11
Regulatory networks important for survival of Acinetobacter baumannii within the host	11
Within-host evolution of bacterial pathogens during persistent infection of humans	11
Anti-fungal T cell responses in the lung and modulation by the gut-lung axis	11
The RESTRICTION checkpoint: a window of opportunity governing developmental transitions in Toxoplasma gondii	11
Perspectives in lung microbiome research	11
Microbiome in cancer progression and therapy	11
Local antifungal immunity in the kidney in disseminated candidiasis	11
Recent advances in genetic manipulation of Cryptosporidium	11
Progress and opportunities in microbial community metabolomics	11
Emergence and adaptation of the cellular machinery directing antigenic variation in the African trypanosome	11
Cutaneous and subcutaneous fungal infections: recent developments on host–fungus interactions	10
To catch a thief: regulated RIPK1 post-translational modifications as a fail-safe system to detect and overcome pathogen subversion of immune signaling	10
Animal models for dissecting Vibrio cholerae intestinal pathogenesis and immunity	10
Oxygen response and tolerance mechanisms in Clostridioides difficile	10
Natural products that target the cell envelope	10
Metarhizium: an opportunistic middleman for multitrophic lifestyles	10
Within-host evolution of the gut microbiome	10
Patterns of partnership: surveillance and mimicry in host-microbiota mutualisms	10
One species, different diseases: the unique molecular mechanisms that underlie the pathogenesis of typhoidal Salmonella infections	10
Ecological drivers of division of labour in Streptomyces	10
Bottlenecks and opportunities in antibiotic discovery against Mycobacterium tuberculosis	10
Entamoeba stage conversion: progress and new insights	10
The gut microbiome, immunity, and Plasmodium severity	10
What’s for dinner? How Citrobacter rodentium’s metabolism helps it thrive in the competitive gut	10
Antibiotic resistance in bacterial communities	9
Bioremediation of the herbicide glyphosate in polluted soils by plant-associated microbes	9
Quantitative modeling of the interplay between synthetic gene circuits and host physiology: experiments, results, and prospects	9
The maternal gut microbiome during pregnancy and its role in maternal and infant health	9
Regulation of peptidoglycan hydrolases: localization, abundance, and activity	9
Making sense of drug-efflux transporters in the physiological environment	9
Forgotten fungi: the importance of the skin mycobiome	9
Metabolic stringent response in intracellular stages of Leishmania	9
What's eating you? An update on Giardia, the microbiome and the immune response	9
Targeted mutagenesis of multiple chromosomal regions in microbes	9
Bacterial multicellular behavior in antiviral defense	9
From genome structure to function: insights into structural variation in microbiology	9
New approaches and techniques for bacterial cell wall analysis	9
Strain wars and the evolution of opportunistic pathogens	9
“What I cannot create, I do not understand": elucidating microbe–microbe interactions to facilitate plant microbiome engineering	9
Microbiome engineering for sustainable agriculture: using synthetic biology to enhance nitrogen metabolism in plant-associated microbes	9
Prophages provide a rich source of antiphage defense systems	9
Genetic and environmental factors shape the host response to Helicobacter hepaticus: insights into IBD pathogenesis	9
Culturomics, a potential approach paving the way toward bacteriotherapy	9
Integrated control of surface adaptation by the bacterial flagellum	8
Reframing antimicrobial resistance as a continuous spectrum of manifestations	8
Mining for novel antibiotics	8
The tale of two flaviviruses: subversion of host pathways by RNA shapes in dengue and hepatitis C viral RNA genomes	8
Transcriptional regulation of methanogenic metabolism in archaea	8
Continued mycovirus discovery expanding our understanding of virus lifestyles, symptom expression, and host defense	8
Soterobionts: disease-preventing microorganisms and proposed strategies to facilitate their discovery	8
Infection-based chemical screens uncover host–pathogen interactions	8
The microbial and host factors that govern Candida gastrointestinal colonization and dissemination	8
Balancing de novo synthesis and salvage of lipids by Leishmania amastigotes	8
Functional ecology of bacteriophages in the environment	8
Orientia and Rickettsia: different flowers from the same garden	8
Engineering genetic circuits: advancements in genetic design automation tools and standards for synthetic biology	8
The evolutionary ecology of rhizobia: multiple facets of competition before, during, and after symbiosis with legumes	8
Bacterial genetics and molecular pathogenesis in the age of high throughput DNA sequencing	8
When bacteria are phage playgrounds: interactions between viruses, cells, and mobile genetic elements	8
Bacterial lipid biophysics and membrane organization	8
Batrachochytrium fungi: stealth invaders in amphibian skin	8
Soluble mediators in anti-fungal immunity	8
Blood type and the microbiome- untangling a complex relationship with lessons from pathogens	8
Assembly of the exosporium layer in Clostridioides difficile spores	8
Biophysical approaches to understand and re-purpose bacterial microcompartments	8
Plasmids of Clostridioides difficile	8
Clostridioides difficile peptidoglycan modifications	8
Advances in constraint-based models: methods for improved predictive power based on resource allocation constraints	8
Single-cell reporters for pathogen responses to antimicrobial host attacks	7
Central role of metabolism in Trypanosoma cruzi tropism and Chagas disease pathogenesis	7
Quantitative biology of survival under antibiotic treatments	7
The immune response to airway mycosis	7
Defining the expanding mechanisms of phage-mediated activation of bacterial immunity	7
Ethanolamine bacterial microcompartments: from structure, function studies to bioengineering applications	7
Utilization of microbial cocultures for converting mixed substrates to valuable bioproducts	7
Bacterial photosynthesis: state-of-the-art in light-driven carbon fixation in engineered bacteria	7
Leveraging laboratory and clinical studies to design effective antibiotic combination therapy	7
How did we get here? Insights into mechanisms of immunity-related GTPase targeting to intracellular pathogens	7
Sensing the threat posed by Aspergillus infection	7