Journal of Microbiological Methods

Article	Citations
Respiratory bacterial co-infections in intensive care unit-hospitalized COVID-19 patients: Conventional culture vs BioFire FilmArray pneumonia Plus panel	36
Decolorization and phytotoxicity reduction of reactive blue 40 dye in real textile wastewater by active consortium: Anaerobic/aerobic algal-bacterial-probiotic bioreactor	34
Phospholipid fatty acid (PLFA) analysis as a tool to estimate absolute abundances from compositional 16S rRNA bacterial metabarcoding data	32
Bacterial and fungal disinfection via ozonation in air	30
Development of a smartphone-based lateral-flow imaging system using machine-learning classifiers for detection of Salmonella spp.	25
A fluorescent aptasensor for the detection of Aflatoxin B1 by graphene oxide mediated quenching and release of fluorescence	25
Evaluation of the matrix-assisted laser desorption ionization time of flight mass spectrometry (MALDI-TOF MS) system in the detection of mastitis pathogens from bovine milk samples	25
Twenty-first century molecular methods for analyzing antimicrobial resistance in surface waters to support One Health assessments	25
Comparison of the efficacy of metagenomic next-generation sequencing and Xpert MTB/RIF in the diagnosis of tuberculous meningitis	23
Development and application of a real-time PCR assay for the sensitive detection of diarrheic toxin producer Prorocentrum lima	23
High-throughput screening alternative to crystal violet biofilm assay combining fluorescence quantification and imaging	22
Simplified floral dip transformation method of Arabidopsis thaliana	22
Current methods for the diagnosis of leptospirosis: Issues and challenges	21
Current approaches for the detection of Coxiella burnetii infection in humans and animals	21
Colorimetric and label free detection of gelatinase positive bacteria and gelatinase activity based on aggregation and dissolution of gold nanoparticles	21
A low pH-based rapid and direct colorimetric sensing of bacteria using unmodified gold nanoparticles	21
Refinement of the Griess method for measuring nitrite in biological samples	20
Accurate and sensitive analysis of Staphylococcus aureus through CRISPR-Cas12a based recycling signal amplification cascades for early diagnosis of skin and soft tissue infections	20
Identifying septic pollution exposure routes during a waterborne norovirus outbreak - A new application for human-associated microbial source tracking qPCR	19
Genomics as a potential tool to unravel the rhizosphere microbiome interactions on plant health	19
Green synthesis, characterization of silver nanoparticals for biomedical application and environmental remediation	19
Counting bacteria in microfluidic devices: Smartphone compatible ‘dip-and-test’ viable cell quantitation using resazurin amplified detection in microliter capillary arrays	19
Cyanobacterial blooms in wastewater treatment facilities: Significance and emerging monitoring strategies	18
Easy detection of siderophore production in diluted growth media using an improved CAS reagent	18
Development of a semi-dynamic in vitro model and its testing using probiotic Bacillus coagulans GBI-30, 6086 in orange juice and yogurt	17

Optimization of L-asparaginase production from endophytic Fusarium proliferatum using OFAT and RSM and its cytotoxic evaluation	16
Nano-based drug delivery optimization for tuberculosis treatment: A review	16
Research on the optimization, key chemical constituents and antibacterial activity of the essential oil extraction process of Thuja koraiensis Nakai	16
Microliter spotting and micro-colony observation: A rapid and simple approach for counting bacterial colony forming units	15
Fast and automated detection of common carbapenemase genes using multiplex real-time PCR on the BD MAX™ system	15
Development of CRISPR-Cas9 knock-in tools for free fatty acid production using the fast-growing cyanobacterial strain Synechococcus elongatus UTEX 2973	15
Production of inactivated gram-positive and gram-negative species with preserved cellular morphology and integrity	15
Absolute quantification of priority bacteria in aquaculture using digital PCR	14
Rapid detection of KPC-producing Klebsiella pneumoniae in China based on MALDI-TOF MS	14
Proficient mycogenic synthesis of silver nanoparticles by soil derived fungus Aspergillus melleus SSS-10 with cytotoxic and antibacterial potency	14
Naked-eye detection of Staphylococcus aureus in powdered milk and infant formula using gold nanoparticles	14
Isolation of Harveyi clade Vibrio spp. collected in aquaculture farms: How can the identification issue be addressed?	14
A rapid screening method to evaluate acidifying activity by lactic acid bacteria	14
A custom amplicon sequencing approach to detect resistance associated mutations and sequence types in Mycoplasma genitalium	14
Classification of food spoilage bacterial species and their sodium chloride, sodium acetate and glycine tolerance using chemometrics analysis and Raman spectroscopy	13
Diagnosis of intestinal protozoan infections in patients in Cuba by microscopy and molecular methods: advantages and disadvantages	13
A review on application of next-generation sequencing methods for profiling of protozoan parasites in water: Current methodologies, challenges, and perspectives	13
Screening for acute disseminated histoplasmosis in HIV disease using urinary antigen detection enzyme immunoassay: A pilot study in Cameroon	12
Diagnostic accuracy of the BioFire FilmArray blood culture identification panel when used in critically ill patients with sepsis	12
Accurate classification of Listeria species by MALDI-TOF mass spectrometry incorporating denoising autoencoder and machine learning	12
The pMTL70000 modular, plasmid vector series for strain engineering in Cupriavidus necator H16	12
Visualization of probiotics via epifluorescence microscopy and fluorescence in situ hybridization (FISH)	12
Taxonomic annotation of 16S rRNA sequences of pig intestinal samples using MG-RAST and QIIME2 generated different microbiota compositions	12
Detection of microscopic filamentous fungal biofilms – Choosing the suitable methodology	12
One-step differential detection of Salmonella enterica serovar Typhi, serovar Paratyphi A and other Salmonella spp. by using a quadruplex real-time PCR assay	12
A rapid, antibiotic susceptibility test for multidrug-resistant, Gram-negative bacterial uropathogens using the biochemical assay, DETECT	11
Nanoparticle immuno-fluorescent probes as a method for detection of viable E. coli O157:H7	11
Measurement uncertainty evaluation and risk of false conformity assessment for microbial enumeration tests	11
A new PMA-qPCR method for rapid and accurate detection of viable bacteria and spores of marine-derived Bacillus velezensis B-9987	11
Utilization of multiple microbial tools to evaluate efficacy of restoration strategies to improve recreational water quality at a Lake Michigan Beach (Racine, WI)	11
Molecular detection of Phytophthora pluvialis, the causal agent of red needle cast in Pinus radiata	11
Comparative study of IS711 and bcsp31-based polymerase chain reaction (PCR) for the diagnosis of human brucellosis in whole blood and serum samples	11
Development and evaluation of a gold nanoparticle based Lateral Flow assay (LFA) strip test for detection of Brucella spp.	11
Development and evaluation of a sensitive recombinase aided amplification assay for rapid detection of Vibrio parahaemolyticus	10
MALDI-TOF MS database expansion for identification of Bacillus and related genera isolated from a pharmaceutical facility	10
Microbiome analysis from formalin-fixed paraffin-embedded tissues: Current challenges and future perspectives	10
Collection system investigation microbial source tracking (CSI-MST): Applying molecular markers to identify sewer infrastructure failures	10
Determination by isothermal microcalorimetry of the sensitivity of phytopathogenic fungi of tropical fruits against an ethanolic extract of jackfruit leaf (Artocarpus heterophyllus Lam.)	10
Development of a three-panel multiplex real-time PCR assay for simultaneous detection of nine canine respiratory pathogens	10
A simple method for high molecular-weight genomic DNA extraction suitable for long-read sequencing from spores of an obligate biotroph oomycete	10
Make microalgal cultures axenic again – a fast and simple workflow utilizing fluorescence-activated cell sorting	10
Method-induced variation in the bacterial cell surface hydrophobicity MATH test	10
Large-scale comparison of E. coli levels determined by culture and a qPCR method (EPA Draft Method C) in Michigan towards the implementation of rapid, multi-site beach testing	9
Machine learning-based typing of Salmonella enterica O-serogroups by the Fourier-Transform Infrared (FTIR) Spectroscopy-based IR Biotyper system	9
A rapid screening method for the detection of specialised metabolites from bacteria: Induction and suppression of metabolites from Burkholderia species	9
CtNorm: Real time PCR cycle of threshold (Ct) normalization algorithm	9
Comparative evaluation of the Bruker Biotyper and Vitek MS matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF MS) systems for non-albicans Candida and uncommon yea	9
A method to quantify viable carbapenem resistant gram-negative bacteria in treated and untreated wastewater	9
Antimicrobial susceptibility testing determined by Alfred 60/AST (Alifax®) in a multi-sites lab: performance's evaluation and optimization of workflow	8
Detection of Exiguobacterium spp. and E. acetylicum on fresh-cut leafy vegetables by a multiplex PCR assay	8

Accurate qPCR quantification in polymicrobial communities requires assessment of gDNA extraction efficiency	8
A simple and novel method for the production of polyethylene terephthalate containing agar plates for the growth and detection of bacteria able to hydrolyze this plastic	8
The role of bacterial exopolysaccharides (EPS) in the synthesis of antimicrobial silver nanomaterials: A state-of-the-art review	8
A LAMP-based system for rapid detection of eight common pathogens causing lower respiratory tract infections	8
Optimization of a method for diversity analysis of anammox bacteria using high-throughput sequencing of 16S rRNA gene amplicon	8
Contribution to optimization and standardization of antibacterial assays with silver nanoparticles: the culture medium and their aggregation	8
Assessment of VITEK® 2, MALDI-TOF MS and full gene 16S rRNA sequencing for aerobic endospore-forming bacteria isolated from a pharmaceutical facility	8
Evaluation of anti-LipL32 carbon nanotube immunofluorescence probe (carbo-lip) and comparison with MAT, IgM ELISA, IgM spot test and culture for early detection of leptospirosis at local hospital	8
Diversity and composition of gut microbiome of cervical cancer patients: Do results of 16S rRNA sequencing and whole genome sequencing approaches align?	8
Eco-friendly degradation of reactive red 195, reactive blue 214, and reactive yellow 145 by Klebsiella pneumoniae MW815592 isolated from textile waste	8
Combination of filtration and immunomagnetic separation based on real-time PCR to detect foodborne pathogens in fresh-cut apple	8
Optimisation of an agar overlay assay for the assessment of the antimicrobial activity of topically applied semi-solid antiseptic products including honey-based formulations	8
Is skipping the definition of primary and secondary models possible? Prediction of Escherichia coli O157 growth by machine learning	8
Novel standard biodegradation test for synthetic phosphonates	8
Simple and reliable in situ CRISPR-Cas9 nuclease visualization tool is ensuring efficient editing in Streptomyces species	8
Current methodologies and future direction of Campylobacter isolation and detection from food matrices, clinical samples, and the agricultural environment	7
A promoter assay system using gene targeting in agaricomycetes Pleurotus ostreatus and Coprinopsis cinerea	7
A two-step bioluminescence assay for optimizing antibacterial coating of hollow-fiber membranes with polydopamine in an integrative approach	7
A simple sequence-based filtering method for the removal of contaminants in low-biomass 16S rRNA amplicon sequencing approaches	7
Community structure and abundance of ACC deaminase containing bacteria in soils with 16S-PICRUSt2 inference or direct acdS gene sequencing	7
FastFung: A novel medium for the culture and isolation of fastidious fungal species from clinical samples	7
Evaluation of VITEK® 2 and MALDI-TOF/MS automated methodologies in the identification of atypical Listeria spp. isolated from food in different regions of Brazil	7
A novel bioreactor for the stable growth of Ureaplasma parvum and Ureaplasma urealyticum	7
Functional in vitro screening of probiotic strains for inoculation of piglets as a prophylactic measure towards Enterotoxigenic Escherichia coli infection	7
Comparative study of Legiolert with ISO 11731-1998 standard method-conclusions from a Public Health Laboratory	7
Exploring the value of MALDI-TOF MS for the detection of clonal outbreaks of Burkholderia contaminans	7
Testing selectivity of bacterial and fungal culture media compared to original silage samples using next generation sequencing	7
Systematic review and critical reflection on the isolation and identification methods for spoilage associated bacteria in fresh marine fish	7
Detection and identification of Giardia species using real-time PCR and sequencing	7
A review of molecular identification tools for the opisthorchioidea	7
High throughput screening to determine the antibacterial activity of Terminalia ferdinandiana (Kakadu plum): A proof of concept	7
A panel of bioluminescent whole-cell bacterial biosensors for the screening for new antibacterial substances from natural extracts	7
Rapid and dynamic detection of antimicrobial treatment response using spectral amplitude modulation in MZO nanostructure-modified quartz crystal microbalance	7
Role of temperature, nutrition, oxygen, osmolality, and bacterial strain in inducing a viable but non-culturable state in Campylobacter jejuni	7
Syringe filter-based DNA aptamer-enzyme-linked colorimetric assay of Salmonella on lettuce	6
Development of fluorescence-based nucleic acid blot hybridization method using Cy5.5 labeled DNA probes	6
Insight into the biotechnology potential of Alicyclobacillus tolerans from whole genome sequence analysis and genome-scale metabolic network modeling.	6
mCloverBlaster: A tool to make markerless deletions and fusions using lambda red and I-SceI in Gram-negative bacterial genomes	6
Predicting the occurrence of monooxygenases and their associated phylotypes in soil microcosms	6
Development of a portable SERS method for testing the antibiotic sensitivity of foodborne bacteria	6
Multiple assessment methodologies in determining the antibiofilm actions of sodium hypochlorite mixed with clodronate or etidronate in endodontic irrigation	6
Factors affecting soil treatment with the microbially induced carbonate precipitation technique and its optimization	6
Isolation of third generation cephalosporin resistant Enterobacteriaceae from retail meats and detection of extended spectrum beta-lactamase activity	6
A short history of methods used to measure bathing beach water quality	6
Chemical susceptibility testing of non-tuberculous mycobacterium strains and other aquatic bacteria: Results of a study for the development of a more sensitive and simple method for the detection of N	6
Development and comparative evaluation of droplet digital PCR and quantitative PCR for the detection and quantification of Chlamydia psittaci	6
Detection of an alkene monooxygenase in vinyl chloride-oxidizing bacteria with GeneFISH	6
Rapid and specific detection of Mycoplasma gallisepticum and Mycoplasma synoviae infection in poultry using single and duplex PCR assays	6
A new micro-agar dilution method to determine the minimum inhibitory concentration of essential oils against microorganisms	6
Effect of different sample treatment methods on Low Endotoxin Recovery Phenomenon	6
Efficiency of the novel quenching-probe PCR method to detect 23S rRNA mutations in children with Mycoplasma pneumoniae infection	6
Comparison of FT-IR with whole-genome sequencing for identification of maternal-to‑neonate transmission of antibiotic-resistant bacteria	6
Formalin-fixed paraffin-embedded tissues for microbiome analysis in rainbow trout (Oncorhynchus mykiss)	6
Comparative assessment of three RNA extraction methods for obtaining high-quality RNA from Candida viswanathii biomass	6
The influence of agar brands and micronutrients in the growth optimization of Granulicella sp. (Acidobacteriota)	6
Recent advances in experimental design and data analysis to characterize prokaryotic motility	6
MALDI-TOF MS platform combined with machine learning to establish a model for rapid identification of methicillin-resistant Staphylococcus aureus	6
Bioremediation of oily seawater by Bacteria immobilization on a novel carrier material containing nutrients	6
The implications of quorum sensing inhibition in bacterial antibiotic resistance- with a special focus on aquaculture	5
Electrotransformation of thermophilic bacterium Caldimonas manganoxidans	5
Rapid detection of fungi from blood samples of patients with candidemia using modified calcofluor white stain	5
Implementation of microbiota analysis in clinical trials for cystic fibrosis lung infection: Experience from the OligoG phase 2b clinical trials	5
Novel specific peaks for differentiating the Lactobacillus plantarum group using matrix-assisted laser desorption ionization time-of-flight mass spectrometry	5
Comparative performance of different antigens on the lateral flow assay (LFA) platform for the rapid serodiagnosis of paratuberculosis	5
Experimental validation under controlled conditions of real time PCR to quantify arbuscular mycorrhizal colonization in root	5
Crystal violet-based assay for the assessment of bacterial biofilm formation in medical tubing	5
Machine learning approach for predicting the antifungal effect of gilaburu (Viburnum opulus) fruit extracts on Fusarium spp. isolated from diseased potato tubers	5
Rapid sourdough yeast identification using panfungal PCR combined with high resolution melting analysis	5
New approach for the identification of potentially toxigenic Corynebacterium sp. using a multiplex PCR assay	5
Regimen and different surfaces interfere with photodynamic therapy on Candida albicans biofilms	5
Evaluating the intrinsic capacity of oral bacteria to produce hydrogen peroxide (H2O2) in liquid cultures: Interference by bacterial growth media	5
Methylation procedures affect PLFA results more than selected extraction parameters	5
Development and validation of a miniaturized bacteriophage host range screening assay against antibiotic resistant Pseudomonas aeruginosa	5
PCR procedures to amplify GC-rich DNA sequences of Mycobacterium bovis	5
A screening method for decoloration of xenobiotic dyes by fungi	5
Performance evaluation of whole genome metagenomics sequencing with the MinION nanopore sequencer: Microbial community analysis and antimicrobial resistance gene detection	5
C6 peptide enzyme immunoassay in Lyme borreliosis serology	5
Ethanol determination in fermented sugarcane substrates by a diffusive micro-distillation device.	5
Comparison of disk diffusion and broth microdilution methods for antimicrobial susceptibility testing of Campylobacter isolates of meat origin	5
Effect of the homogenization technique on the enumeration of psychrotrophic bacteria in food absorbent pads	5

Culturing clinical Methanobrevibacter smithii using GG medium in a minimal anaerobe atmosphere.	5
Rapid detection and enumeration of aerobic mesophiles in raw foods using dielectrophoresis	5
A comparison of E. coli concentration estimates quantified by the EPA and a Michigan laboratory network using EPA Draft Method C	5
Design of potentially universal SSU primers in myxomycetes using next-generation sequencing	5
Simultaneous quantitation of 3ADON and 15ADON chemotypes of DON-producing Fusarium species in Chinese wheat based on duplex droplet digital PCR assay	5
Comparative evaluation of indirect-ELISA and DOT blot assay for serodetection of Mycoplasma gallisepticum and Mycoplasma synoviae antibodies in poultry	5
Development of real-time PCR methods for the quantification of Methanoculleus, Methanosarcina and Methanobacterium in anaerobic digestion	5
Hybrid donor-acceptor polymer nanoparticles and combination antibiotic for mitigation of pathogenic bacteria and biofilms	5
Development and validation of a high-content screening assay for inhibitors of enteropathogenic E. coli adhesion	5
Comparison between broth microdilution and agar disk diffusion methods for antimicrobial susceptibility testing of bovine mastitis pathogens	5
Two new superior primer pairs for universal detection of Xylella spp. in conventional PCR and TaqMan quantitative real-time PCR	5
A method for correcting underestimation of enteric pathogen genome quantities in environmental samples	4
A practical method for gas changing time estimation using a simple gas-liquid mass transfer model	4
Molecular detection of Rickettsia felis in common fleas in Greece and comparative evaluation of genotypic methods	4
Differential toxicity of bioorthogonal non-canonical amino acids (BONCAT) in Escherichia coli	4
Incubation temperature and culture medium formulation impact the accuracy of pour-plate techniques for the enumeration of industrial Bacillus assemblages	4
Agrobacterium tumefaciens-mediated transformation of Coniella granati	4
Development of miniaturized agar based assays in 96-well microplates applicable to high-throughput screening of industrially valuable microorganisms	4
A new technique to evaluate Acidithiobacillus thiooxidans growth during a bioleaching process based on DNA quantification	4
Development of a duplex recombinase-aided amplification assay for direct detection of Mycoplasma pneumoniae and Chlamydia trachomatis in clinical samples	4
Towards digital diagnosis of malaria: How far have we reached?	4
Understanding the reaction balances behind the viability PCR protocols based on photoreactive dyes	4
Comparison of Brucella abortus population structure based on genotyping methods with different levels of resolution	4
Critical review of methods for isothermal amplification of nucleic acids for environmental analysis	4
Frozen bovine preputial mucus as a suitable sample for the direct molecular diagnosis of Campylobacter fetus subsp. venerealis	4
MacConkey broth purple provides an efficient MPN estimation method for Shigatoxigenic Escherichia coli	4
Brucella melitensis and Brucella abortus genotyping via real-time PCR targeting 21 variable genome loci	4
Application of ddPCR for detection of Enterococcus spp. in coastal water quality monitoring	4
The effect of phage-antibiotic combination strategy on multidrug-resistant Acinetobacter baumannii biofilms	4
Spectinomycin, gentamicin, and routine disc diffusion testing: An alternative for the treatment and monitoring of multidrug-resistant Neisseria gonorrhoeae?	4
An international inter-laboratory study on Nosema spp. spore detection and quantification through microscopic examination of crushed honey bee abdomens	4
Enhanced insecticidal activity of Bacillus thuringiensis using a late embryogenesis abundant peptide co-expression system	4
Viability of Saccharomyces cerevisiae during baking of bread dough by flow cytometry	4
Template length, concentration and guanidine and cytosine content influence on multiple displacement amplification efficiency	4
Engineering Citrobacter freundii using CRISPR/Cas9 system	4
Simulation of the mucosal environment in the re-construction of the synthetic gut microbial ecosystem	4
Establishment of a TaqMan-MGB probe multiplex real-time PCR system for one-step levofloxacin and clarithromycin resistant Helicobacter pylori detection	4
pMTL60000: A modular plasmid vector series for Parageobacillus thermoglucosidasius strain engineering	4
Evaluation of MBT STAR-Cepha and MBT STAR-Carba kits for the detection of extended-spectrum β-lactamases and carbapenemase producing microorganisms using matrix-assisted laser desorption/ionization ti	4
Assessment of cetyl-trimethyl-ammonium bromide (CTAB) based method for the extraction of soil-transmitted helminth DNAs from stools for molecular dagnostic of soil-transmitted helminthiasis	4
Rapid multiplex PCR assay for simultaneous detection of Neisseria gonorrhoeae and Chlamydia trachomatis in genitourinary samples: A 30-minute assay	4
Probe-based qPCR assay enables the rapid and specific detection of bacterial degrading genes for the pesticide metaldehyde in soil	4
Detection of Chlamydia trachomatis inside spermatozoa using flow cytometry: Effects of antibiotic treatment (before and after) on sperm count parameters	4
Transposition of insertion sequences by dielectric barrier discharge plasma and gamma irradiation in the radiation-resistant bacterium Deinococcus geothermalis	4
Designing and developing of high-resolution melting technique for separating different types of Toxoplasma gondii by analysis of B1 and ROP8 gene regions	4
Development of silver nano-based indirect ELISA and Dot-ELISA methods for serological diagnosis of a bacterial fish pathogen Aeromonas veronii	4
A new MALDI-TOF approach for the quick sequence type identification of Legionella pneumophila	4
Kinetic analysis of microcalorimetric data derived from microbial growth: Basic theoretical, practical and industrial considerations	4
Estimation of biosurfactant production parameters and yields without conducting additional experiments on a larger production scale	4
Development and validation of a triplex real-time qPCR for sensitive detection and quantification of major rat bite fever pathogen Streptobacillus moniliformis	4
Mycoplasma hyopneumoniae detection by PCR in naturally infected finishing pigs	4
Bacillus spore enumeration using flow cytometry: A proof of concept for probiotic application	4
A novel qPCR based-method for detection and quantification of three recurrent species of Penicillium isolated from bioaerosols in mold-damaged homes	4
Development of a database and standardized approach for rpoB sequence-based subtyping and identification of aerobic spore-forming Bacillales	4
Performance of four bacterial cell counting apps for smartphones	4