OOIR: Observatory of International Research

Papers

(The TQCC of npj Biofilms and Microbiomes is 18. 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 2020-05-01 to 2024-05-01.)

Article	Citations
Analysis of microbial compositions: a review of normalization and differential abundance analysis	130
Altered oral and gut microbiota and its association with SARS-CoV-2 viral load in COVID-19 patients during hospitalization	115
Three faces of biofilms: a microbial lifestyle, a nascent multicellular organism, and an incubator for diversity	101
Metagenomic analysis revealed the potential role of gut microbiome in gout	98
Economic significance of biofilms: a multidisciplinary and cross-sectoral challenge	94
Interactions of plasma-activated water with biofilms: inactivation, dispersal effects and mechanisms of action	92
Microbial predictors of healing and short-term effect of debridement on the microbiome of chronic wounds	87
Berberine attenuates choline-induced atherosclerosis by inhibiting trimethylamine and trimethylamine-N-oxide production via manipulating the gut microbiome	84
Seasonal dynamics of diet–gut microbiota interaction in adaptation of yaks to life at high altitude	75
Diversity, function and assembly of mangrove root-associated microbial communities at a continuous fine-scale	67
The sources and transmission routes of microbial populations throughout a meat processing facility	66
Host development overwhelms environmental dispersal in governing the ecological succession of zebrafish gut microbiota	66
Microbial co-occurrence network topological properties link with reactor parameters and reveal importance of low-abundance genera	62
Who put the film in biofilm? The migration of a term from wastewater engineering to medicine and beyond	60
Systematic analysis of gut microbiota in pregnant women and its correlations with individual heterogeneity	57
Shotgun sequencing of the vaginal microbiome reveals both a species and functional potential signature of preterm birth	51
Strong oral plaque microbiome signatures for dental implant diseases identified by strain-resolution metagenomics	51
Integrated metagenomics identifies a crucial role for trimethylamine-producing Lachnoclostridium in promoting atherosclerosis	50
Vaginal microbiota and human papillomavirus infection among young Swedish women	47
Parameters influencing the development of highly conductive and efficient biofilm during microbial electrosynthesis: the importance of applied potential and inorganic carbon source	47
Exposure of Salmonella biofilms to antibiotic concentrations rapidly selects resistance with collateral tradeoffs	46
Bacterial vaginosis and health-associated bacteria modulate the immunometabolic landscape in 3D model of human cervix	45
Burns and biofilms: priority pathogens and in vivo models	45
Emergent bacterial community properties induce enhanced drought tolerance in Arabidopsis	45
Biofilms harbour Clostridioides difficile, serving as a reservoir for recurrent infection	43

Compartmentalization of bacterial and fungal microbiomes in the gut of adult honeybees	42
Biofilm viability checker: An open-source tool for automated biofilm viability analysis from confocal microscopy images	41
Improved functionality of Ligilactobacillus salivarius Li01 in alleviating colonic inflammation by layer-by-layer microencapsulation	41
Chinese gut microbiota and its associations with staple food type, ethnicity, and urbanization	39
Identification of small molecules that interfere with c-di-GMP signaling and induce dispersal of Pseudomonas aeruginosa biofilms	39
The biofilm matrix scaffold of Pseudomonas aeruginosa contains G-quadruplex extracellular DNA structures	39
Interactions between gut microbiota and metabolites modulate cytokine network imbalances in women with unexplained miscarriage	38
Gut microbiota determines the social behavior of mice and induces metabolic and inflammatory changes in their adipose tissue	36
Synergistic action of phage phiIPLA-RODI and lytic protein CHAPSH3b: a combination strategy to target Staphylococcus aureus biofilms	36
Bio-priming with a hypovirulent phytopathogenic fungus enhances the connection and strength of microbial interaction network in rapeseed	36
Host-microbiome interactions: Gut-Liver axis and its connection with other organs	35
Soil microbiome manipulation triggers direct and possible indirect suppression against Ralstonia solanacearum and Fusarium oxysporum	34
Intestinal release of biofilm-like microcolonies encased in calcium-pectinate beads increases probiotic properties of Lacticaseibacillus paracasei	34
Western and non-western gut microbiomes reveal new roles of Prevotella in carbohydrate metabolism and mouth–gut axis	34
Real-time monitoring of ruminal microbiota reveals their roles in dairy goats during subacute ruminal acidosis	34
Lung microbiota associations with clinical features of COPD in the SPIROMICS cohort	33
Human organoid biofilm model for assessing antibiofilm activity of novel agents	32
Atherosclerosis amelioration by allicin in raw garlic through gut microbiota and trimethylamine-N-oxide modulation	32
Disrupting quorum sensing alters social interactions in Chromobacterium violaceum	32
An integrated model system to gain mechanistic insights into biofilm-associated antimicrobial resistance in Pseudomonas aeruginosa MPAO1	31
The evolutionary trajectories of P. aeruginosa in biofilm and planktonic growth modes exposed to ciprofloxacin: beyond selection of antibiotic resistance	30
A bacteriocin-based antimicrobial formulation to effectively disrupt the cell viability of methicillin-resistant Staphylococcus aureus (MRSA) biofilms	30
Responses of soil microbiome to steel corrosion	30
The zoonotic pathogen Leptospira interrogans mitigates environmental stress through cyclic-di-GMP-controlled biofilm production	28
Identification of essential genes for Escherichia coli aryl polyene biosynthesis and function in biofilm formation	28
A multiomics approach to identify host-microbe alterations associated with infection severity in diabetic foot infections: a pilot study	28
Recovery of complete genomes and non-chromosomal replicons from activated sludge enrichment microbial communities with long read metagenome sequencing	28
Streptococcus mutans adhesion force sensing in multi-species oral biofilms	28
Biological role of EPS from Pseudomonas syringae pv. syringae UMAF0158 extracellular matrix, focusing on a Psl-like polysaccharide	27
A new BiofilmChip device for testing biofilm formation and antibiotic susceptibility	27
Gut dysbiosis and mortality in hemodialysis patients	27
Experimental parameters defining ultra-low biomass bioaerosol analysis	27
Veillonellaceae family members uniquely alter the cervical metabolic microenvironment in a human three-dimensional epithelial model	26
Reduced stress-associated FKBP5 DNA methylation together with gut microbiota dysbiosis is linked with the progression of obese PCOS patients	26
Gut microbiota and metabolites of α-synuclein transgenic monkey models with early stage of Parkinson’s disease	24
Impact of temperature-dependent phage expression on Pseudomonas aeruginosa biofilm formation	24
Diversity and infectivity of the RNA virome among different cryptic species of an agriculturally important insect vector: whitefly Bemisia tabaci	24
Inter-species Metabolic Interactions in an In-vitro Minimal Human Gut Microbiome of Core Bacteria	23
Engineered lactobacilli display anti-biofilm and growth suppressing activities against Pseudomonas aeruginosa	23
Biogeographical patterns and mechanisms of microbial community assembly that underlie successional biocrusts across northern China	23
Salivary dysbiosis in Sjögren’s syndrome and a commensal-mediated immunomodulatory effect of salivary gland epithelial cells	23
Transcriptomic evidence for versatile metabolic activities of mercury cycling microorganisms in brackish microbial mats	23
The role of Psl in the failure to eradicate Pseudomonas aeruginosa biofilms in children with cystic fibrosis	22
Uncharted waters: the unintended impacts of residual chlorine on water quality and biofilms	22
Microbial electroactive biofilms dominated by Geoalkalibacter spp. from a highly saline–alkaline environment	22
The role of shear dynamics in biofilm formation	22
Magnetotactic bacteria and magnetofossils: ecology, evolution and environmental implications	22
The right bug in the right place: opportunities for bacterial vaginosis treatment	21
Attachment and antibiotic response of early-stage biofilms studied using resonant hyperspectral imaging	21
Biofilm-isolated Listeria monocytogenes exhibits reduced systemic dissemination at the early (12–24 h) stage of infection in a mouse model	21

Rational consideration of Akkermansia muciniphila targeting intestinal health: advantages and challenges	21
Human supplementation with Pediococcus acidilactici GR-1 decreases heavy metals levels through modifying the gut microbiota and metabolome	21
Genetic requirements and transcriptomics of Helicobacter pylori biofilm formation on abiotic and biotic surfaces	21
The human respiratory tract microbial community structures in healthy and cystic fibrosis infants	20
Network mapping of root–microbe interactions in Arabidopsis thaliana	20
Detection of gut microbiota and pathogen produced N-acyl homoserine in host circulation and tissues	20
Biofilm antimicrobial susceptibility through an experimental evolutionary lens	20
Functional and phylogenetic analyses of camel rumen microbiota associated with different lignocellulosic substrates	19
Porcine gut microbiota in mediating host metabolic adaptation to cold stress	19
Combining proteogenomics and metaproteomics for deep taxonomic and functional characterization of microbiomes from a non-sequenced host	19
Gut microbiome development in early childhood is affected by day care attendance	19
Translational challenges and opportunities in biofilm science: a BRIEF for the future	18
Periodontitis associates with species-specific gene expression of the oral microbiota	18
The hallmarks of dietary intervention-resilient gut microbiome	18
Fluorescent nanosensors reveal dynamic pH gradients during biofilm formation	18
Competition of two highly specialized and efficient acetoclastic electroactive bacteria for acetate in biofilm anode of microbial electrolysis cell	18
Citizen-science reveals changes in the oral microbiome in Spain through age and lifestyle factors	18
Gut microbiota-mediated secondary bile acid alleviates Staphylococcus aureus-induced mastitis through the TGR5-cAMP-PKA-NF-κB/NLRP3 pathways in mice	18
Bacteroidales species in the human gut are a reservoir of antibiotic resistance genes regulated by invertible promoters	18
Alternating magnetic fields and antibiotics eradicate biofilm on metal in a synergistic fashion	18
IolR, a negative regulator of the myo-inositol metabolic pathway, inhibits cell autoaggregation and biofilm formation by downregulating RpmA in Aeromonas hydrophila	18