Journal Club, page 2

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Journal Club, page 2

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Saliva-Based Testing Meets WHO Targets for Tuberculosis Diagnostics

Saliva-based Molecular Testing for TB is a viable option

Mycobacterium tuberculosis Swabs Molecular Assay

15 Apr 2026 Lora Benoit Ph.D

Molecular testing of saliva using Xpert MTB/RIF Ultra demonstrated high diagnostic sensitivity and specificity for pulmonary tuberculosis, outperforming oral swabs and satisfying WHO performance targets for non-sputum diagnostic specimens.
Clinical & Veterinary

Journal Club - 2 April to 9 April 2026

Journal Club

Bacillus cereus Probiotics Toxins

14 Apr 2026 Lora Benoit Ph.D

Latest from our Journal Club: B. longum ssp. infantis EVC001 reduces NEC in preterm infants, improved cereulide detection in powdered formula, and new models on how temperature, pH, and water activity drive cereulide production by Bacillus cereus.
Food & Beverage Clinical & Veterinary Microbiome Assay Development

Probiotic EVC001 in Preterm Infants Reduces Incidence and Severity of NEC

Reduction of necrotizing enterocolitis in preterm infants given probiotic

Probiotics

09 Apr 2026 Lora Benoit Ph.D

B. longum ssp. infantis probiotic strain EVC001 reduces incidence of necrotizing enterocolitis in premature babies.
Clinical & Veterinary Microbiome

Improved Extraction of Cereulide in Infant Formula for LC-MS/MS-Based Detection

Improved recovery of cereulide from powdered infant formula and oil

Bacillus cereus Toxins

09 Apr 2026 Lora Benoit Ph.D

Reliable detection of cereulide in powdered infant formula requires optimized water/acetonitrile extraction with salting-out, highlighting that extraction chemistry - not just LC-MS/MS instrumentation - is critical for accurate quantification in complex, lipid-rich matrices.
Food & Beverage Assay Development

Predictive Modeling for Cereulide Production

Modeling of cereulide production

Bacillus cereus Toxins

09 Apr 2026 Lora Benoit Ph.D

A new study developed quantitative kinetic models describing how temperature, pH, and water activity interact to regulate cereulide toxin production by emetic strains of Bacillus cereus. The findings providing actionable parameters for predictive food safety control.
Food & Beverage

Journal Club - 21 March to 2 April 2026

Journal Club

Artifical Intelligence Carbapenemase-Resistant Enterobacterales (CRE)Microbiome

07 Apr 2026 Lora Benoit Ph.D

Latest from our Journal Club: updated CLSI guidance on CRE, WGS predicts Isoniazid resistance in Mycobacterium tuberculosis complex, analysis of 2022 U.S. infant formula crisis, foodborne pathogen transmission, microbiome effects after antibiotic use, and AI-enabled Gram stain results.
Food & Beverage Clinical & Veterinary

AI-Enabled Digital Holographic Microscopy for Automated Gram Stain Interpretation

AI-enabled interpretation of Gram stains

Artifical Intelligence Microscopy

02 Apr 2026 Lora Benoit Ph.D

A new study demonstrates that combining digital holographic microscopy (DHM) with artificial intelligence (AI) enables rapid, automated digitization and interpretation of blood culture Gram stains.
Clinical & Veterinary

Evidence for Long-Term Microbiome Effects After Antibiotic Use

Long term changes to gut microbiome due to antibiotic use

Antibiotic Stewardship

02 Apr 2026 Lora Benoit Ph.D

A large population-based study demonstrates that oral antibiotic use is associated with long-lasting changes in gut microbiome composition, with measurable effects persisting for up to 8 years after exposure, particularly following certain antibiotic classes.
Microbiome

A New Framework for Understanding Long-Term Foodborne Pathogen Transmission

New framework for understanding Long-Term Foodborne Pathogen Transmission

E. coli Listeria monocytogenes Microbial Source Tracking

02 Apr 2026 Lora Benoit Ph.D

The Reoccurring, Emerging, and Persisting (REP) strain framework is a new surveillance model that uses WGS and epidemiologic patterns to identify pathogens responsible for illnesses occurring over extended periods rather than discrete outbreaks.
Food & Beverage Clinical & Veterinary

US Infant Formula Shortage Dynamics and Recovery Post 2022 Supply Disruption

Analysis of the 2022 US Infant Formula Shortage

Cronobacter sakazakii Smarter Food Safety

02 Apr 2026 Lora Benoit Ph.D

New study analyzes the 2022 U.S. infant formula shortage and recovery using integrated measures of retail in-stock rates, sales data, and household survey responses.
Food & Beverage

WGS to Predict Isoniazid Resistance in Mycobacterium tuberculosis Complex

WGS for predicting isoniazid resistance in MTb Complex

Antibiotic Resistance Mycobacterium tuberculosis Whole Genome Sequencing

02 Apr 2026 Lora Benoit Ph.D

WGS (Whole Genome Sequencing) can accurately predict isoniazid (INH) resistance in Mycobacterium tuberculosis complex isolates, demonstrating high sensitivity and specificity and enabling a reduced phenotypic testing algorithm without compromising resistance detection.
Clinical & Veterinary

Updated CLSI Guidance on Carbapenem Resistant Enterobacterales (CRE)

CLSI recommends carbapenemase testing in addition to MIC for CRE

Carbapenemase-Resistant Enterobacterales (CRE)MIC (Minimum Inhibitory Concentration

02 Apr 2026 Lora Benoit Ph.D

FYI: The updated CLSI M100 (2025) guidance recommends the reintroduction of routine carbapenemase testing for carbapenem-resistant Enterobacterales in addition to MIC susceptibility interpretation.
Clinical & Veterinary

Journal Club - 11 March to 20 March 2026

Journal Club

Hospital Acquired Infection (HAI)Mycobacterium Next Generation Sequencing (NGS)

23 Mar 2026

Latest from our Journal Club: Community- and hospital-acquired septic shock, timing of Metagenomic NGS-guided antibiotic adjustment (mNGS), and nanopore-based targeted next-generation sequencing to detect M. tuberculosis.
Clinical & Veterinary

Key Differences Between Community- and Hospital-Acquired Septic Shock

Key differences between Community- and Hospital-Acquired Septic Shock

Hospital Acquired Infection (HAI)Sepsis

20 Mar 2026 Lora Benoit Ph.D

New study compares community- and hospital-acquired septic shock, demonstrating that acquisition setting shapes pathogen profiles, host immune responses, and treatment outcomes, with important implications for diagnosis, therapy, and prognosis.
Clinical & Veterinary

mNGS-Guided Antibiotic Adjustments Improve Survival in Severe Pneumonia

NGS-guided antimicrobial adjustments improve outcomes for patients with severe pneumonia

Next Generation Sequencing (NGS)Sepsis

19 Mar 2026 Lora Benoit Ph.D

This retrospective multicenter study evaluated how timing of Metagenomic NGS-guided antibiotic adjustment (mNGS) impacts patient mortality in ICU patients with severe community-acquired pneumonia.
Clinical & Veterinary

Rapid TB Detection, AMR Profiling from Non-Sputum Samples

Rapid TB Detection AMR Profiling using nanopore tNGS

Mycobacterium Mycobacterium tuberculosis Next Generation Sequencing (NGS)

19 Mar 2026 Lora Benoit Ph.D

This multicenter prospective study evaluated nanopore-based targeted next-generation sequencing to detecting M. tuberculosis and drug resistance directly from non-sputum specimens.
Clinical & Veterinary

Journal Club - 3 March to 10 March 2026

Journal Club

Antibiotic Sensitivity Blood Culture Phenotyping

10 Mar 2026

Latest from our Journal Club: comparing rapid phenotypic AST platforms, approaches to resolving genotype–phenotype discordance, and proposed breakpoint adjustments to improve reliability of disk-diffusion.
Clinical & Veterinary

Comparison of VITEK MS PRIME vs MALDI Biotyper Sirius

MALDI-TOF Systems for Microbial ID

Identification MALDI-TOF

09 Mar 2026 Lora Benoit Ph.D

New study compares the VITEK MS PRIME and the MALDI Biotyper Sirius for microbial ID accuracy and laboratory workflow efficiency across 927 isolates: both systems showed high identification accuracy, but VITEK MS PRIME achieved higher identification rates and shorter turnaround times.
Clinical & Veterinary

Faster AST Reporting Improves Bloodstream Infection (BSI) Outcomes and Reduces Costs

Faster AST reporting equals better outcomes

Antibiotic Sensitivity Antibiotic Stewardship Blood Culture

09 Mar 2026 Lora Benoit Ph.D

Evidence shows that faster AST reporting enables earlier optimization of antibiotic therapy, improved carbapenem stewardship, and reduced hospital length of stay and healthcare costs for patients with bloodstream infections.
Clinical & Veterinary

Culture vs. Culture-Free Identification of Mycobacteria

Culture-free ID of Mycobacteria in clinical samples

Mycobacterium Mycobacterium paratuberculosis

09 Mar 2026 Lora Benoit Ph.D

This prospective study compares conventional culture with a culture-free target capture sequencing method for identifying mycobacteria directly from clinical samples. The sequencing approach enabled species- and subspecies-level identification without requiring growth.
Clinical & Veterinary

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