Current Opinion in Microbiology

Article	Citations
Editorial overview: Fungal diversity: Now for something completely different	128
Editorial Board	120
Citrobacter rodentium(ϕStx2dact), a murine infection model for enterohemorrhagic Escherichia coli	119
Convergence in domesticated fungi used for cheese and dry-cured meat maturation: beneficial traits, genomic mechanisms, and degeneration	113
PhoU: a multifaceted regulator in microbial signaling and homeostasis	99
Renal implications of coronavirus disease 2019: insights into viral tropism and clinical outcomes	87
Innovative approaches in the discovery of terpenoid natural products	79
The mycobiome: interactions with host and implications in diseases	77
In vivo studies on Citrobacter rodentium and host cell death pathways	75
Editorial overview: Antibiotics special issue	74
Genetic mechanisms governing sporulation initiation in Clostridioides difficile	74
Synthetic microbial communities for studying and engineering the tree microbiome: challenges and opportunities	73
Vertebrate and invertebrate animal infection models of Candida auris pathogenicity	73
The mass spectrometry of microbiome-mediated metabolism of food: challenges and opportunities	72
Commensal inter-bacterial interactions shaping the microbiota	70
Genetic and environmental factors shape the host response to Helicobacter hepaticus: insights into IBD pathogenesis	67
Seizing the moment: now is the time for integrated global surveillance of antimicrobial resistance in wastewater environments	66
Citrobacter rodentium infection at the gut–brain axis interface	65
Editorial overview: Unraveling microbiome complexity	65
Co-opting bacterial viruses for DNA exchange: structure and regulation of gene transfer agents	64
Function of autophagy genes in innate immune defense against mucosal pathogens	62
Molecular basis of synchronous replication of malaria parasites in the blood stage	61
Fungal effectors: past, present, and future	61
Editorial Board	60
Ca2+-calmodulin signalling at the host-pathogen interface	58

Fungus–insect interactions beyond bilateral regimes: the importance and strategy to outcompete host ectomicrobiomes by fungal parasites	57
Crosstalk between (p)ppGpp and other nucleotide second messengers	56
Control of bacterial second messenger signaling and motility by heme-based direct oxygen-sensing proteins	56
Insights into Alphaproteobacterial regulators of cell envelope remodeling	55
The impact of the host microbiota on Candida albicans infection	54
Increasing the PACE of characterising novel transporters by functional genomics	52
Manipulation of host cell plasma membranes by intracellular bacterial pathogens	51
Innovative and potential treatments for fungal central nervous system infections	51
Coevolution of a generalist pathogen with many hosts: the case of the amphibian chytrid Batrachochytrium dendrobatidis	51
Editorial overview: Human fungal pathogens: An increasing threat	50
Advances in regulation of homeostasis through chromatin modifications by airway commensals	50
Neuroinvasion and neurotropism of severe acute respiratory syndrome coronavirus 2 infection	49
Assembly of the exosporium layer in Clostridioides difficile spores	49
Defining the expanding mechanisms of phage-mediated activation of bacterial immunity	48
Soterobionts: disease-preventing microorganisms and proposed strategies to facilitate their discovery	47
Group 3 innate lymphoid cells mediate host defense against attaching and effacing pathogens	46
Bottlenecks and opportunities in antibiotic discovery against Mycobacterium tuberculosis	46
Editorial Board	46
Connecting microbial community assembly and function	46
Antifungal drug-resistance mechanisms in Candida biofilms	46
Editorial overview: Bacterial microcompartments to the fore as metabolism is put in its place	44
Conditionally unutilized proteins and their profound effects on growth and adaptation across microbial species	41
Activation of complement-like antiparasitic responses in Anopheles mosquitoes	41
Host control by SPβ phage regulatory switch as potential manipulation strategy	39
How do interactions between mobile genetic elements affect horizontal gene transfer?	39
Pain killers: the interplay between nonsteroidal anti-inflammatory drugs and Clostridioides difficile infection	39
The maternal gut microbiome during pregnancy and its role in maternal and infant health	39
Toward merging bottom–up and top–down model-based designing of synthetic microbial communities	38
The human vaginal microbiota: from clinical medicine to models to mechanisms	37
Protein stoichiometry, structural plasticity and regulation of bacterial microcompartments	37
The longitudinal and cross-sectional heterogeneity of the intestinal microbiota	37
Bacteriophage communities are a reservoir of unexplored microbial diversity in neonatal health and disease	36
Dissecting skin microbiota and microenvironment for the development of therapeutic strategies	35
Toothpicks, logic, and next-generation sequencing: systematic investigation of bacteriophage-host interactions	35
What’s for dinner? How Citrobacter rodentium’s metabolism helps it thrive in the competitive gut	35
Cell cycle regulation in Escherichia coli: from governing principles, checkpoints, and control variables to molecular mechanisms	35
Differences and similarities between innate immune evasion strategies of human coronaviruses	35
The power of the small: the underestimated role of small proteins in bacterial and archaeal physiology	35
Ready, STAT3, Go! Bacteria in the race for M2 macrophage polarisation	34
Environmental adaptation and diversification of bacterial two-component systems	33
Ecological and functional roles of bacteriophages in contrasting environments: marine, terrestrial and human gut	33
Editorial overview: Turtles all the way down: Bacterial cell regulation across scales	32
Editorial overview: There and back again: a phage’s tale	31
Regulation of para-cresol production in Clostridioides difficile	31
Editorial Board	31
A tale of two nitrous oxide reductases: a cautionary perspective	31
The intricate organizational strategy of nucleus-forming phages	30
Phage transmission strategies: are phages farming their host?	30
Second messenger signaling in Clostridioides difficile	30
Cell cycle-regulated ApiAP2s and parasite development: the Toxoplasma paradigm	30

Antibiotic tolerance: targeting bacterial survival	30
Reservoirs of antimicrobial resistance in the context of One Health	30
Editorial overview: Recent advances in fundamental and translational research on parasitic protists	29
The importance of persistence and dormancy in Trypanosoma cruzi infection and Chagas disease	28
PII-like signaling proteins: a new paradigm in orchestrating cellular homeostasis	28
New targets for antimalarial drug discovery	28
Biological and bioinformatic tools for the discovery of unknown phage–host combinations	27
Emergence and adaptation of the cellular machinery directing antigenic variation in the African trypanosome	27
Mycoviruses and their role in fungal pathogenesis	27
SOS-independent bacterial DNA damage responses: diverse mechanisms, unifying function	27
The metabolic pathways and transporters of the plastid organelle in Apicomplexa	27
Chemical communication in plant–microbe beneficial interactions: a toolbox for precise management of beneficial microbes	26
Investigating bacterial evolution in nature with metagenomics	26
Is Cryptococcus neoformans a pleomorphic fungus?	26
Editorial overview: Return of the phages — a new golden era of molecular discovery and synthetic biology	25
Editorial overview: emerging avenues in antimicrobial research	25
Beyond resistance: antifungal heteroresistance and antifungal tolerance in fungal pathogens	25
Archaeal key-residents within the human microbiome: characteristics, interactions and involvement in health and disease	25
Virulence-associated factors as targets for phage infection	25
Predicting the evolution of antibiotic resistance	25
Surface-displayed glycopolymers of Clostridioides difficile	24
Activation of the extracytoplasmic function σ factor σV by lysozyme in Clostridioides difficile	24
Temporospatial control of topoisomerases by essential cellular processes	24
Evolutionary ecology theory — microbial population structure	24
Clostridioides difficile peptidoglycan modifications	23
Editorial Board	23
Can a microbial community become an evolutionary individual?	23
Editorial overview: Microbial cell regulation across multiple scales	23
Gram-positive pathogens, inflammation, and the host lipid environment	23
Deciphering mechanisms and implications of bacterial translocation in human health and disease	23
Strains to go: interactions of the skin microbiome beyond its species	23
The promise of CRISPR-associated transposons for bacterial functional genomics	22
Evolutionary relationships among shell proteins of carboxysomes and metabolosomes	22
The ribosome as a small-molecule sensor	22
Horizontal gene transfer and beyond: the delivery of biological matter by bacterial membrane vesicles to host and bacterial cells	22
Prokaryote pangenomes are dynamic entities	22
Cooperative defenses during enteropathogenic infection	22
Immune-metabolic interactions between Leishmania and macrophage host	22
Host genetics regulate the plant microbiome	21
Host-directed therapies for malaria: possible applications and lessons from other indications	21
Plasmids of Clostridioides difficile	21
Editorial Board	21
Editorial overview: current state and future of the microbiome field: why context matters	20
Editorial overview: Niche-specific and species-specific host-fungal interactions — how do they impact human health?	20
The promise of copper ionophores as antimicrobials	20
Phage defense origin of animal immunity	20
Microbiome rescue: directing resilience of environmental microbial communities	20
Engineering genetic circuits: advancements in genetic design automation tools and standards for synthetic biology	20
Metabolic flexibility in Trypanosoma cruzi amastigotes: implications for persistence and drug sensitivity	19
Flagellotropic phages: common yet diverse host interaction strategies	19
The multifaceted roles of Myb domain–containing proteins in apicomplexan parasites	19
Innate immune response to Candida auris	19
Microbiomes for sustainable biomanufacturing	19
Encapsulins: catalysis inside a shell	19
Molecular mechanisms of cellular quiescence in apicomplexan parasites	19
Interplay of emerging and established technologies drives innovation in natural product antibiotic discovery	18
Dissecting S-itaconation at host–pathogen interactions with chemical proteomics tools	18
Drugging the microbiome: targeting small microbiome molecules	18
The spatial organization of microbial communities during range expansion	18
Immunometabolism shapes chronic Staphylococcus aureus infection: insights from biofilm infection models	18
Role of pollution on the selection of antibiotic resistance and bacterial pathogens in the environment	18
Brownian ratchet mechanisms for carboxysome positioning in bacteria	18
Listeriosis, a model infection to study host-pathogen interactions in vivo	18
Cell wall synthesizing complexes in Mycobacteriales	17
Antibiotics from rare actinomycetes, beyond the genus Streptomyces	17
Recent advances in applying cell-free systems for high-value and complex natural product biosynthesis	17
Targeting Helicobacter pylori for antibacterial drug discovery with novel therapeutics	17
Colonization resistance: metabolic warfare as a strategy against pathogenic Enterobacteriaceae	16
Present and future outlooks on environmental DNA-based methods for antibiotic discovery	16
Aeromonas: the multifaceted middleman in the One Health world	16
Accessing nutrients as the primary benefit arising from chemotaxis	16
Putting microbial interactions back into community contexts	16
How pathogens drive adipose tissue loss in the host	16
Hybrids unleashed: exploring the emergence and genomic insights of pathogenic yeast hybrids	15
Hierarchical and simultaneous utilization of carbon substrates: mechanistic insights, physiological roles, and ecological consequences	15
Pseudomonas aeruginosa: an antibiotic resilient pathogen with environmental origin	15
Yersinia interactions with regulated cell death pathways	15
Addressing antibiotic resistance: computational answers to a biological problem?	15
Yeast synthetic biology advances biofuel production	15
Climate change and plant pathogens	15

Posttranslational modifications in bacteria during phage infection	15
Within-host evolution of bacterial pathogens during persistent infection of humans	15
Cardiac damage and tropism of severe acute respiratory syndrome coronavirus 2	15
Archaea oxidizing alkanes through alkyl-coenzyme M reductases	14
Making sense of drug-efflux transporters in the physiological environment	14
Argonaute proteins confer immunity in all domains of life	14
Clostridioides difficile spore germination: initiation to DPA release	14
Functional ecology of bacteriophages in the environment	14
A brief guide to machine learning for antibiotic discovery	13
Editorial Board	13
Histone code: a common language and multiple dialects to meet the different developmental requirements of apicomplexan parasites	13
Capers with caspases: Toxoplasma gondii tales of inflammation and survival	13
Editorial Board	13
Inflammasome activation by Salmonella	13
Use of pharmacokinetic/pharmacodynamic approaches for dose optimization: a case study of plazomicin	13
The yin and yang of the universal transcription factor NusG	13
Synthesizing microbial biodiversity	13
Editorial Board	12
Symbioses between fungi and bacteria: from mechanisms to impacts on biodiversity	12
Dividing lines: compartmentalisation and division in Streptomyces	12
Recent insights into type-3 secretion system injectisome structure and mechanism of human enteric pathogens	12
Emergent CRISPR–Cas-based technologies for engineering non-model bacteria	12
It's complicated: relationships between integrative and conjugative elements and their bacterial hosts	12
From a parts list to assembly instructions and an operating manual: how small host models can re-write microbiome theory	12
Contributions of diverse models of the female reproductive tract to the study of Chlamydia trachomatis-host interactions	12
Antibacterial particles and predatory bacteria as alternatives to antibacterial chemicals in the era of antibiotic resistance	12
Interactions of Vibrio phages and their hosts in aquatic environments	12
Advances in constraint-based models: methods for improved predictive power based on resource allocation constraints	12
What’s metal got to do with it? Transition metals in Clostridioides difficile infection	12
From dusty shelves toward the spotlight: growing evidence for Ap4A as an alarmone in maintaining RNA stability and proteostasis	11
Microbiome engineering for sustainable agriculture: using synthetic biology to enhance nitrogen metabolism in plant-associated microbes	11
Editorial Board	11
The Lyme disease spirochete, Borrelia burgdorferi, as a model vector-borne pathogen: insights on regulation of gene and protein expression	11
Dirammox (direct ammonia oxidation) to nitrogen (N2): discovery, current status, and perspectives	11
Immune evasion runs in the family: two surface protein families of Plasmodium falciparum–infected erythrocytes	11
Interkingdom interactions between Pseudomonas aeruginosa and Candida albicans affect clinical outcomes and antimicrobial responses	11
Toxin–antitoxin systems as mediators of phage defence and the implications for abortive infection	11
Human milk oligosaccharides and the infant gut microbiome from an eco-evolutionary perspective	11
Microbial assimilation of lignin-derived aromatic compounds and conversion to value-added products	11
Antibiotic persistence and tolerance: not just one and the same	10
Human and mouse NAIP/NLRC4 inflammasome responses to bacterial infection	10
Innate immune responses and monocyte-derived phagocyte recruitment in protective immunity to pathogenic bacteria: insights from Legionella pneumophila	10
Engineering natural microbial communities: harnessing synthetic communities for bioremediation	10
Genome reconstructions of metabolism of Plasmodium RBC and liver stages	10
Glycan processing in gut microbiomes	10
Microbial communities and their enzymes facilitate degradation of recalcitrant polymers in anaerobic digestion	10
CTP switches in ParABS-mediated bacterial chromosome segregation and beyond	10
Artificial selection of microbial communities: what have we learnt and how can we improve?	10
Transcriptional and metabolic regulation of EHEC and Citrobacter rodentium pathogenesis	10
Editorial overview: AMR in the environment — too complex for surveillance?	10
Evolution and synthetic biology	10
Multi-layered genome defences in bacteria	10
Arginine sensing in intracellular parasitism of Leishmania	10
Mechanisms and impact of antimicrobial resistance in Clostridioides difficile	10
Pathogen adaptation to lung metabolites	10
Time to switch gears: how long noncoding RNAs function as epigenetic regulators in Apicomplexan parasites	10
Clostridioides difficile – phage relationship the RNA way	10
The mystery of persistent, asymptomatic Plasmodium falciparum infections	10
Sensing and responding to host-derived stress signals: lessons from fungal meningitis pathogen	10
Co-ordinated assembly of the multilayered cell envelope of Gram-negative bacteria	9
Long-chain fatty acids as nutrients for Gram-negative bacteria: stress, proliferation, and virulence	9
Lessons from arbuscular mycorrhizal fungal genomes	9
Pathogenic Aspergillus and Fusarium as important causes of blinding corneal infections — the role of neutrophils in fungal killing, tissue damage and cytokine production	9
Toll/interleukin-1 receptor domains in bacterial and plant immunity	9
Forgotten fungi: the importance of the skin mycobiome	9
Editorial Board	9
Nothing makes sense in drug resistance except in the light of evolution	9
Skin models for studying vector-borne kinetoplastid infections	9
From genome structure to function: insights into structural variation in microbiology	9
Human microbiome variance is underestimated	9
Selective drivers of simple multicellularity	9
Are microbes colimited by multiple resources?	9
The emerging complexity of Chlamydia trachomatis interactions with host cells as revealed by molecular genetic approaches	9
Nutritional control of bacterial DNA replication	9
Editorial overview: Two to tango: The intricate communications between host and bacteria	9
Bioremediation of the herbicide glyphosate in polluted soils by plant-associated microbes	9
The multifaceted lifestyle of enterococci: genetic diversity, ecology and risks for public health	9
Antibiotic resistance in the commensal human gut microbiota	9
Synergy and regulation of antiphage systems: toward the existence of a bacterial immune system?	8
The role of nucleoid-associated proteins in mediating responses to environmental changes	8
Hungry for control: metabolite signaling to chromatin in Plasmodium falciparum	8
Biophysical approaches to understand and re-purpose bacterial microcompartments	8
Alginate catabolic systems in marine bacteria	8
When bacteria are phage playgrounds: interactions between viruses, cells, and mobile genetic elements	8
Human intestinal organoids as models to study enteric bacteria and viruses	8
Editorial overview: Gene regulation mechanisms governing Clostridioides difficile physiology and virulence	8
A cell–cell atlas approach for understanding symbiotic interactions between microbes	8
The potential of using E. coli as an indicator for the surveillance of antimicrobial resistance (AMR) in the environment	8
The need for unrealistic experiments in global change biology	8
Candida albicans natural diversity: a resource to dissect fungal commensalism and pathogenesis	8
Compartmentalization during bacterial spore formation	8
Type III secretion system effector subnetworks elicit distinct host immune responses to infection	8
The microbial and host factors that govern Candida gastrointestinal colonization and dissemination	8
Antimicrobial resistance acquisition via natural transformation: context is everything	8
Regulation of Citrobacter rodentium colonization: virulence, immune response and microbiota interactions	8