Jan‐Willem Veening

This study introduces HIDEN-SEQ, a transposon-insertion sequencing method for phages, to systematically map gene essentiality and uncover previously unknown viral anti-defense factors.

This study uses CRISPRi to identify pneumococcal genes critical for attachment and survival during single infection and influenza co-infection, revealing key metabolic and structural dependencies.

This study uses CRISPRi-seq to identify 249 Bacillus subtilis genes essential for root colonization of Arabidopsis thaliana, revealing roles in cell envelope remodeling and metabolic shifts.

This study shows that monounsaturated fatty acid biosynthesis is essential for streptococcal growth, stress tolerance, and virulence, with species-specific effects on pathogenesis.

This study identifies Mnh1 as a key cation/proton antiporter promoting S. aureus phagocytic uptake and intracellular survival in human monocytes, suggesting it as a therapeutic target.

The paper shows pneumococcal infection activates innate immune genes in only 1-4% of lung epithelial cells, contrasting with E. coli's 40% response, and identifies prostaglandin signaling as protective during invasive disease.

The paper determines the mechanism of teichoic acid transport by the flippase TacF in Streptococcus pneumoniae using cryo-EM and computational methods.

This study uses CRISPRi-seq to identify genes affecting antibiotic sensitivity across diverse pneumococcal strains, revealing conserved and lineage-specific vulnerabilities.

This study identifies alcohol dehydrogenases as critical for Streptococcus pneumoniae fitness during influenza-driven superinfection, revealing a metabolic dependency that can be targeted therapeutically.

The paper develops a modular genetic toolbox for gene regulation and multi-color imaging in streptococci by benchmarking fluorescent proteins and creating versatile cassettes for different species.

This paper identifies the pneumococcal S protein as essential for resisting host antimicrobials by coordinating cell wall modification and repair through interactions with PBP1a and PgdA.

This study uses multi-omics profiling to reveal atypical sugar utilization and identify a key membrane composition regulator in Streptococcus pneumoniae under infection-mimicking conditions.

This study uses in vivo CRISPRi-Seq in zebrafish to identify host-adaptive pathways essential for pneumococcal meningitis and discover new therapeutic targets.

The paper uses CRISPRi-Seq to identify conserved antibiotic vulnerabilities in S. aureus strains, revealing gene targets for antimicrobial therapies.

This study uses dual CRISPRi-Seq to identify genetic interactions in Streptococcus pneumoniae, revealing key genes in the cell cycle and new interactions in essential processes.

This paper introduces a CRISPRi-seq platform in Haemophilus influenzae to study gene fitness and essentiality, revealing medium-specific growth determinants and introducing a genome annotation resource.

The paper identifies LiaR activation as a strategy to resensitize fluoroquinolone-resistant Streptococcus pneumoniae using CRISPRi-seq and antibiotic combination therapy.

The paper uses CRISPRi-seq to identify FprB as a synergistic target for gallium therapy in Pseudomonas aeruginosa, enhancing gallium's efficacy against infections.

This paper develops mbPE, a prime editing system for Streptococcus pneumoniae that enables precise genome editing without donor DNA, achieving high selection efficiencies for point mutations, deletions, and insertions.

This study investigates the role of HU in chromosome organization and replication in Streptococcus pneumoniae, showing it promotes long-range interactions and supports replication and segregation.

This study identifies 282 milk-essential genes in Staphylococcus aureus using CRISPRi-seq, highlighting purine biosynthesis, folate cycle, and metal acquisition as critical for growth in milk.

This paper identifies novel class II bacteriocins in Streptococcus salivarius using bioinformatics and synthetic biology, revealing 50 candidates active against Gram-positive pathogens.

PneumoBrowse 2 provides an updated integrated platform for genome annotation and multi-omics data analysis of Streptococcus pneumoniae, enhancing research into its biology and potential treatments.

This paper develops a doxycycline-inducible CRISPRi system for GAS to enable efficient gene repression and presents a genome browser for GAS genetic features.

This study uses CRISPRi screens to identify genes affecting dalbavancin susceptibility in Staphylococcus aureus, revealing both known and novel factors.

This study identifies CozE proteins as regulators of lipoteichoic acid biosynthesis and membrane homeostasis in Staphylococcus aureus through genetic and biochemical analyses.

The paper uses RNA sequencing of cerebrospinal fluid from meningitis patients to identify S. pneumoniae virulence factors, finding two genes linked to increased mortality and reduced infection persistence.

Enso decodes bacterial cell cycle and cell type from static SMLM images using unsupervised deep learning without prior knowledge.

The paper identifies a conserved antigen, LafB, that provides serotype-independent protection against pneumococcal superinfection via Th17 cells, independent of antibodies.