Biology subjects

Wilson, H. M.

Publications and source records attributed to Wilson, H. M..

5 recordsLinked to original sources

bioRxiv2026

Influence of high fibre diets on the gut microbiota, prostate tumour growth and normal tissue toxicity following ionising radiation

PurposeHigh dietary fibre intake has been linked to lower cancer risk, yet its role in prostate cancer treatment responses and radiotherapy tolerance remains unclear. We evaluated the effects of dietary fibres (inulin, pectin, {beta}-glucan) on prostate tumour growth, gut microbiota and intestinal response to ionising radiation (IR) in murine models. MethodsMale FVB and C57BL/6J mice were injected with murine Myc-CaP (FVB), RM-1 or DVL3 (C57BL/6J) prostate tumour cells and fed a low-fibre (0.2% cellulose) or high-fibre diet (10% inulin, pectin or {beta}-glucan). Some mice had tumour irradiation (6 Gy). Tumour volume, caecal weight and faecal microbiota relative abundance (by 16S rRNA gene sequencing) were analysed. Caecal contents fermentation acids were quantified by gas chromatography. The effects of dietary fibre on intestinal acute normal tissue toxicity post-irradiation (10-14 Gy) were assessed by intestinal crypt assay. ResultsInulin delayed average tumour growth in all models. Inulin and {beta}-glucan prolonged post-IR tumour control versus 0.2% cellulose (all p <0.05), in some but not all mice. Inulin, pectin and {beta}-glucan increased faecal acetate concentrations post-IR and mice demonstrated responder (R) vs non-responder (NR) phenotypes to diet/IR, associated with Bifidobacterium (inulin-R), Lactobacillus and Parasutterella (pectin-R) and Muribaculacaeae and Muribaculum ({beta}-glucan-R). High fibre-fed mice had enhanced intestinal crypt regeneration following 12 Gy compared to 0.2% cellulose-fed mice. ConclusionsHigh fibre diets slowed prostate tumour growth both alone and following 6 Gy IR, while protecting small intestines from radiation-induced injury. Effects may have been mediated via increased microbiota-driven metabolite production and enhanced epithelial regeneration, but more mechanistic work is required to explore causality. The differences in individual responses to various fibres should be investigated further, as this may have relevance to adopting dietary fibre supplementation strategies in human radiotherapy patients, and may reflect the recognised importance of an individuals baseline microbiota on dietary effects.

cancer biology↗

bioRxiv2026

Cohesin residence time gates 3D genome response to histone hyperacetylation

Cohesin-mediated loop extrusion and chromatin state-dependent compartmentalization are major drivers of three-dimensional (3D) genome organization. Although epigenomic perturbations are widely assumed to reshape chromatin architecture, the mechanisms that determine how changes in chromatin state are translated into structural reorganization remain poorly understood. Here, we identify cohesin residence time as a key regulator of the genomes architectural response to histone hyperacetylation induced by histone deacetylase inhibition (HDACi). Acute depletion of RAD21 or CTCF weakens chromatin loops but preserves HDACi-induced changes in compartmentalization, contact-scaling behavior, and loop density. In contrast, perturbation of cohesin loading or release produces opposing effects: NIPBL depletion sensitizes and amplifies architectural responses to HDACi, whereas WAPL loss renders the genome largely refractory to HDACi-induced remodeling, suppressing changes in compartments and loop density while stabilizing CTCF-anchored loops. These distinct architectural outcomes occur despite comparable levels of HDACi-induced histone hyperacetylation across genotypes, indicating that differential epigenomic input is not responsible for the observed effects. Together, our findings demonstrate that dynamic cohesin turnover, rather than cohesin chromatin association alone, governs whether epigenomic perturbations are converted into higher-order genome reorganization. These results establish cohesin residence time as a molecular gate linking chromatin state to 3D genome architecture and reveal a previously unrecognized principle underlying chromatin architecture plasticity.

genomics↗

bioRxiv2025

Histone Acetylation Differentially Modulates CTCF-CTCF Loops and Intra-TAD Interactions

The cohesin complex structures the interphase genome by extruding loops and organizing topologically associating domains (TADs). While cohesin engages chromatin in context- dependent modes, the regulatory influence of chromatin state on these interactions remains unclear. Here, we show that histone hyperacetylation, induced by the histone deacetylase inhibitor trichostatin A (TSA), preferentially disrupts short-range interactions within TADs but spares CTCF-anchored loops, despite reduced cohesin occupancy at these sites. These findings point to two functionally distinct cohesin populations: a TSA- sensitive pool within TADs, likely representing extruding, non-topologically bound cohesin, and a TSA-resistant population at CTCF-CTCF anchors that maintains loops through topological entrapment. Using a semi-in vitro system with TEV-cleavable RAD21, we show that TSA-resistant cohesin at CTCF sites becomes TSA-sensitive after proteolytic cleavage that opens the cohesin ring, showing that it is the topological engagement with DNA that makes cohesin, and CTCF-CTCF loops, TSA-resistant. Notably, we also detect TSA-sensitive cohesin at CTCF sites, suggesting the presence of transient, non-encircling cohesin that either precedes conversion to the stable form or is halted by pre-existing encircling cohesin. Together, our results suggest that cohesin exists in distinct biochemical states: an extruding form found within TADs and at CTCF sites, that is sensitive to hyperacetylation, and a topologically bound form specifically at CTCF-CTCF loops that is insensitive. The former may allow dynamic changes in chromatin loops, while latter ensures robustness of CTCF-anchored loops in response to chromatin state changes.

genomics↗

bioRxiv2025

Candida albicans infection suppresses Lipopolysaccharide or Pseudomonas aeruginosa stimulated murine bone marrow derived macrophage (BMDM) responses

Candida albicans is a commensal fungus which populates most healthy individuals microbiota but can turn opportunistic in immunocompromised individuals and cause severe disease linked with high rates of mortality. With limited therapeutic options and increasing resistance to antifungals, novel treatment strategies for C. albicans infections is paramount. The exact immune response to C. albicans infections can be influenced by the surrounding microenvironment, for example, metabolic stresses or co-infection; although, knowledge on whether responses are enhanced or inhibited is lacking. Macrophages are a key immune cell in defence against C. albicans infection through phagocytic uptake and cytokine production that alerts other immune defence mechanisms. Here, we utilise a discovery screen approach using Data Independent Acquisition (DIA) based total proteomics to describe murine bone marrow derived macrophage (BMDM) response to C. albicans infection as well as in response to co-infection with gram-negative bacterial outer membrane component lipopolysaccharide (LPS) or live gram-negative bacteria Pseudomonas aeruginosa. We found C. albicans induced a surprisingly muted immune response in BMDMs as compared to LPS or P. aeruginosa. Moreover, upon co-infection with LPS or P. aeruginosa, C. albicans suppressed the BMDM proteome landscape and selectively suppressed BMDM secreted IL-6 and IL-12p40 cytokine responses to P. aeruginosa. Thus, C. albicans has significant suppressive capabilities in the host innate immune responses that could impact clinical outcomes during infection. Author SummaryHuman fungal pathogens are of increasing concern for global health due to infections in hospitalised patients, limited treatment options and increased resistance to antifungal treatments. The host inflammatory response to invasive infections like Candida albicans are important for trying to contain the pathogen. Pathogen evasion of this immune response poses a critical threat and can increase host morbidity and mortality. Macrophages are an important innate immune cell which recognises and responds to C. albicans infection in vivo. Here, we found that in vitro macrophage signalling, secreted cytokines and the total proteomic responses to C. albicans infection was much more subtle than the macrophage responses to live bacterial infection or the bacterial outer membrane component, lipopolysaccharide (LPS). Co-infection of C. albicans and bacteria suppressed selective macrophage protein expression including important inflammatory cytokines, IL-6 and IL-12p40. Thus, we describe an impressive suppressive response by C. albicans which poses a potential mechanism of enhanced immune evasion.

immunology↗

bioRxiv2019

Salmonella Typhi survives in human macrophages by neutralizing the RAB32/BLOC-3 host-defence pathway

Macrophages provide a first line of defence against microorganisms, and while some mechanisms to kill pathogens such as the oxidative burst are well described, others are still undefined or unknown. Here we report that the Rab32 GTPase and its guanine nucleotide exchange factor BLOC-3 are central components of a trafficking pathway that controls both bacterial and fungal intracellular pathogens. This broad host-defence mechanism is active in both human and murine macrophages and is independent of well known antimicrobial mechanisms such as the NADPH-dependent oxidative burst, production of nitric oxide and antimicrobial peptides. To survive in human macrophages, Salmonella Typhi actively counteracts the Rab32/BLOC-3 pathway through its Salmonella pathogenicity island-1-encoded type III secretion system. These findings demonstrate that the Rab32/BLOC-3 pathway is a novel and universal host-defence pathway and protects mammalian species from a wide range of intracellular pathogens.

microbiology↗