Biology subjects

Hardy, R.

Publications and source records attributed to Hardy, R..

10 recordsLinked to original sources

bioRxiv2026

LysoDCs in Peyer's patches program compartmentalized microbiota-specific Th17 responses

Segmented filamentous bacteria (SFB) are a canonical model of microbiota-driven Th17 immunity, but how distinct gut-associated lymphoid tissues shape the quality and effector potential of commensal-specific T-cell responses remains unclear. Here we show that Peyers patches (PPs) and mesenteric lymph nodes (MLNs) generate transcriptionally, clonally, and functionally distinct SFB-reactive CD4 T-cell programs. In PPs, CCR2-dependent monocyte-derived LysoDCs capture luminal SFB and locally prime antigen-specific CD4 T cells. PP priming drives robust T cell activation, Th17 differentiation with type 1 regulatory (Tr1)-like features, preferential clonal expansion within Th17-Tfh17 lineages, and tissue-retention programs. In contrast, CCR2-independent MLN priming induces a less differentiated, recirculating profile dominated by non-expanded clonotypes. Notably, these distinct programs carry functional consequences. Upon transfer into Citrobacter rodentium-infected lymphopenic mice, PP-primed T cells preserve barrier integrity and limit pathology, whereas MLN-primed cells from the same donors fail to provide equivalent protection. Together, these findings establish PP LysoDCs as specialized orchestrators of compartmentalized microbiota-specific immunity and identify the anatomical site of commensal priming as a key determinant of T-cell functional diversification and mucosal immune outcome. HIGHLIGHTSSFB colonization drives compartmentalized effector and regulatory CD4 T-cell programs in PPs versus MLNs. Embigin LysoDCs in PPs directly sample SFB antigens and prime SFB-reactive CD4 T cells locally. PP priming induces Tr1-like Th17 differentiation, preferential Th17-Tfh17 clonal expansion, and tissue residency. PP-primed CD4 T cells ameliorate colitis-associated pathology during enteric infection, whereas MLN-primed cells do not. O_FIG O_LINKSMALLFIG WIDTH=200 HEIGHT=121 SRC="FIGDIR/small/734008v1_ufig1.gif" ALT="Figure 1000"> View larger version (44K): org.highwire.dtl.DTLVardef@8d59dborg.highwire.dtl.DTLVardef@6643borg.highwire.dtl.DTLVardef@19e63a7org.highwire.dtl.DTLVardef@1a0a64b_HPS_FORMAT_FIGEXP M_FIG C_FIG

immunology↗

bioRxiv2025

High-salt diet modulates endocrine regulation between cortisol and FGF23

Excessive dietary salt intake is a global health concern, affecting cardiovascular, renal, and bone health. While the renin-angiotensin-aldosterone system (RAAS) is a known regulator of dietary salt-induced hormonal responses, the impact of adrenal cortisol remains unclear. Here, we performed a retrospective analysis in individuals (n=292) consuming a random diet. Dietary salt intake positively correlated with urinary cortisol and inversely correlated with plasma fibroblast growth factor 23 (FGF23), a bone-derived hormone regulating phosphate and vitamin D homeostasis. Controlled salt diets in healthy individuals confirmed a dose-dependent increase in urinary cortisol and suppression of plasma FGF23. In mice, oral corticosterone, a cortisol analogue, reduced circulating FGF23 levels. RNA-seq analysis of corticosterone-treated MC3T3 osteoblasts identified suppression of FGF23 via glucocorticoid receptor activation, anti-inflammatory pathways, and reduced osteoblast activity. Our findings reveal a novel endocrine cascade where high salt intake elevates cortisol and suppresses FGF23, with potential implications for bone, kidney, and cardiovascular health. SIGNIFICANCE STATEMENTExcessive dietary salt intake is a global health concern with poorly understood hormonal consequences beyond the renin-angiotensin-aldosterone system. Here, we identify a novel endocrine cascade in which high salt intake elevates cortisol signaling and suppresses fibroblast growth factor 23 (FGF23), a bone-derived hormone central to phosphate and vitamin D homeostasis. These findings are supported by a human cohort on random diets, a controlled dietary salt intervention, and corticosterone experiments in mice and osteoblasts. Mechanistically, cortisol suppresses FGF23 via glucocorticoid receptor activation, anti-inflammatory signaling, and repression of osteoblast activity. These findings have potential implications for bone, kidney, and cardiovascular health, and suggest that dietary salt intake may influence the clinical interpretation of cortisol and FGF23 measurements.

physiology↗

bioRxiv2025

G protein-coupled receptor 35 (GPR35) stimulation reduces osteoclast activity in primary human bone cells

G protein-coupled receptor 35 (GPR35) is an orphan receptor that is widely expressed in tissues including human osteoblasts and osteoclasts. Expression of the GPR35 gene and protein are downregulated in osteoporosis patients and in mouse models of the disease. Gpr35-knockout mice have reduced bone mass, while GPR35 agonism rescues bone loss in rodent osteoporosis models indicating that GPR35 has an important role in bone. Our previous studies demonstrated GPR35 is expressed in human osteoclasts, and we sought to determine the receptors function in these cells. We differentiated human peripheral blood mononuclear cells to mature osteoclasts and assessed effects of the GPR35 synthetic agonists, TCG1001 and Zaprinast on osteoclast activity and differentiation. Both agonists stimulated significant reductions in osteoclast bone resorption and TRAP activity, and downregulated expression of MMP9, a gene that regulates osteoclast bone resorption. These effects were prevented by pre-incubation of cells with a GPR35-specific antagonist. To understand GPR35 signaling pathways, we measured the phosphorylation of secondary messengers known to have important roles in osteoclast activity using AlphaLISA assays. Upon GPR35 stimulation, we observed reduced phosphorylation of cSrc, which stimulates actin ring formation necessary for bone resorption, and decreased phosphorylation of Akt, CREB and NF{kappa}B that drive transcription of genes required for bone resorption. Additionally, we used chemical inhibitors and siRNA knockdown to show that GPR35 couples to Gi/o and G12/13 to stimulate these signaling pathways. Finally, we compared the ability of GPR35 agonists to suppress osteoclast activity to that of current osteoporosis drugs, denosumab and alendronic acid, and showed TRAP activity was similar suppressed under all conditions. Our findings demonstrate that GPR35 has an important inhibitory role in human osteoclast activity and have defined the signaling pathways that drive these processes. GPR35 represents a promising novel target to reduce osteoclast activity that could be exploited for osteoporosis treatments. Lay summaryExpression of G protein-coupled receptor 35 (GPR35) is reduced in osteoporosis and Gpr35-knockout mice have reduced bone mass. Here we showed stimulation of GPR35 activates Gi/o and G12/13 signaling pathways to reduce bone resorption in human osteoclast. The anti-resorptive activity of GPR35 agonists was comparable to current osteoporosis drugs, denosumab and alendronic acid. Our findings demonstrate that GPR35 has an important inhibitory role in human osteoclast activity and have defined the signaling pathways that drive these processes. GPR35 represents a promising novel target to reduce osteoclast activity that could be exploited for osteoporosis treatments.

pharmacology and toxicology↗

bioRxiv2024

Fast Targeted Metabolomics for Analyzing Metabolic Diversity of Bacterial Indole Derivatives in ME/CFS Gut Microbiome

Disruptions in microbial metabolite interactions due to gut microbiome dysbiosis and metabolomic shifts may contribute to Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) and other immune-related conditions. The aryl hydrocarbon receptor (AhR), activated upon binding various tryptophan metabolites, modulates host immune responses. This study investigates whether the metabolic diversity--the concentration distribution--of bacterial indole pathway metabolites can differentiate bacterial strains and classify ME/CFS samples. A fast targeted liquid chromatography-parallel reaction monitoring method at a rate of 4 minutes per sample was developed for large-scale analysis. This method revealed significant metabolic differences in indole derivatives among B. uniformis strains cultured from human isolates. Principal component analysis identified two major components (PC1, 68.9%; PC2, 18.7%), accounting for 87.6% of the variance and distinguishing two distinct B. uniformis clusters. The metabolic difference between clusters was particularly evident in the relative contributions of indole-3-acrylate and indole-3-aldehyde. We further measured concentration distributions of indole derivatives in ME/CFS by analyzing fecal samples from 10 patients and 10 healthy controls using the fast targeted metabolomics method. An AdaBoost-LOOCV model achieved moderate classification success with a mean LOOCV accuracy of 0.65 (Control: precision of 0.67, recall of 0.60, F1-score of 0.63; ME/CFS: precision of 0.64, recall of 0.7000, F1-score of 0.67). These results suggest that the metabolic diversity of indole derivatives from tryptophan degradation, facilitated by the fast targeted metabolomics and machine learning, is a potential biomarker for differentiating bacterial strains and classifying ME/CFS samples. Mass spectrometry datasets are accessible at the National Metabolomics Data Repository (ST002308, DOI: 10.21228/M8G13Q; ST003344, DOI: 10.21228/M8RJ9N; ST003346, DOI: 10.21228/M8RJ9N).

biochemistry↗

bioRxiv2023

Genetic impacts on DNA methylation help elucidate regulatory genomic processes

Pinpointing genetic impacts on DNA methylation can improve our understanding of pathways that underlie gene regulation and disease risk. We report heritability and methylation quantitative trait locus (meQTL) analysis at 724,499 CpGs profiled with the Illumina Infinium MethylationEPIC array in 2,358 blood samples from three UK cohorts, with replication. Methylation levels at 34.2% of CpGs were affected by SNPs, and 98% of effects were cis-acting or within 1 Mbp of the tested CpG. Our results are consistent with meQTL analyses based on the former Illumina Infinium HumanMethylation450 array. Both meQTL SNPs and CpGs with meQTLs were overrepresented in enhancers, which have improved coverage on this platform compared to previous approaches. Co-localisation analyses across genetic effects on DNA methylation and 56 human traits identified 1,520 co-localisations across 1,325 unique CpGs and 34 phenotypes, including in disease-relevant genes, such ICOSLG (inflammatory bowel disease), and USP1 and DOCK7 (total cholesterol levels). Enrichment analysis of meQTLs and integration with expression QTLs gave insights into mechanisms underlying cis-meQTLs, for example through disruption of transcription factor binding sites for CTCF and SMC3, and trans-meQTLs, for example through regulating the expression of ACD and SENP7 which can modulate DNA methylation at distal sites. Our findings improve the characterisation of the mechanisms underlying DNA methylation variability and are informative for prioritisation of GWAS variants for functional follow-ups. A results database and viewer are available online.

genomics↗

bioRxiv2022

Modeling protected species distributions and habitats to inform siting and management of pioneering ocean industries: A case study for Gulf of Mexico aquaculture

Marine Spatial Planning (MSP) provides a process that uses spatial data and models to evaluate environmental, social, economic, cultural, and management trade-offs when siting ocean industries. Aquaculture is the fastest-growing food sector in the world. The U.S. has substantial opportunity for offshore aquaculture development given the size of its exclusive economic zone, habitat diversity, and variety of candidate species for cultivation. However, many protected species rely upon habitats that overlap with promising aquaculture areas. Siting surveys, farm construction, operations, and decommissioning can alter the habitat and behavior of animals in the vicinity of these activities. Vessel activity, underwater noise, and physical interactions between protected species and farms can potentially increase the risk of injury or cause direct mortality. In 2020, the U.S. Gulf of Mexico was identified as one of the first regions to be evaluated for offshore aquaculture opportunities as directed by a Presidential Executive Order. We developed a generalized scoring model for protected species data layers that captures vulnerability using species conservation status and demographic information. We applied this approach to data layers for eight species listed under the Endangered Species Act, including five species of sea turtles, Rices Whale, Smalltooth Sawfish, and Giant Manta Ray. We evaluated several methods for scoring (e.g., arithmetic mean, geometric mean, product, lowest scoring layer) and created a combined protected species data layer that was used within a multi-criteria decision-making modeling framework for MSP. The product approach for scoring provided the most logical ordering of and the greatest contrast in site suitability scores. This approach provides a transparent and repeatable method to identify aquaculture site alternatives with the least conflict with protected species. These modeling methods are transferable to other regions, to other sensitive or protected species, and for spatial planning for other ocean-uses.

scientific communication and education↗

bioRxiv2021

Species and strain cultivation of skin, oral, and gut microbiota

Genomics-driven discovery of microbial species have provided extraordinary insights into the biodiversity of human microbiota. High resolution genomics to investigate species- and strain-level diversity and mechanistic studies, however, rely on the availability of individual microbes from a complex microbial consortia. Here, we describe and validate a streamlined workflow for cultivating microbes from the skin, oral, and gut microbiota, informed by metagenomic sequencing, mass spectrometry, and strain profiling.

microbiology↗

bioRxiv2019

Age at period cessation and trajectories of cardiovascular risk factors across mid and later life: a prospective cohort study

What is already known about this topicAge at period cessation is associated with cardiovascular disease. Whether age at period cessation adversely affects change in conventional cardiovascular intermediates from mid to later life is not well understood.\n\nWhat this study addsWomen and clinicians concerned about the impact of type and timing of period cessation on conventional cardiovascular intermediates from midlife should be reassured that the impacts over the long term are small.\n\nAbstractO_ST_ABSObjectiveC_ST_ABSTo examine the association between age at period cessation (by type of period cessation) and trajectories of anthropometry, blood pressure, lipids and HBA1c from midlife.\n\nDesignProspective cohort study of women recruited to the Medical Research Council National Survey of Health and Development (NSHD).\n\nSettingPopulation based prospective cohort study.\n\nParticipantsWomen participating in NSHD with a known date of period cessation and at least one measure of each intermediate cardiovascular risk factor.\n\nExposuresAge at period cessation and type of period cessation (hysterectomy compared with natural menopause).\n\nOutcomesRepeated measures of systolic blood pressure, diastolic blood pressure, body mass index (BMI) and waist circumference (WC) from 36 to 69 years and repeated measures of triglyceride, low density lipoprotein cholesterol (LDL-c), high density lipoprotein cholesterol (HDL-c) and glycated haemoglobin (HBA1c) from 53 to 69 years.\n\nResultsWe found no evidence that age at period cessation was associated with trajectories of log triglyceride, LDL-c and HDL-c from 53 to 69 years and trajectories of blood pressure from 36 to 69 years, regardless of whether period cessation occurred naturally or due to hysterectomy. While we found some evidence of associations of age at period cessation with log BMI, log WC and log HBA1C, patterns were not consistent and differences were small at age 69 years, with confidence intervals that spanned the null. For instance, the difference in log WC at age 69 per year increase in age at natural menopause was 0.003 (95% confidence interval, -0.0002, 0.01) while the difference per year increase in age at hysterectomy was -0.002 (95% CI, -0.005, 0.001).\n\nConclusionHow and when women experience period cessation is unlikely to adversely affect conventional cardiovascular risk factors across mid and later life. Women and clinicians concerned about the impact of type and timing of period cessation on conventional cardiovascular intermediates from midlife should be reassured that the impacts over the long term are small.

epidemiology↗

bioRxiv2018

Number of children and body composition in later life among men and women: Results from a British birth cohort study

BackgroundAlthough research has found associations between increasing number of children and higher body mass index (BMI), there has been limited research investigating the association with body composition despite abdominal fat being associated with cardiovascular and metabolic risk independently of general adiposity. Most existing research has focussed on women, but investigating the relationship in men can help distinguish biological effects of pregnancy from social pathways related to parenthood.\n\nMethodsUsing the MRC National Survey of Health and Development (NSHD) multiple regression models were applied to test associations between number of children and body composition at age 60-64 (N=2229) and body mass index (BMI) and waist circumference (WC) at ages 60-64 and 69 (N=2149).\n\nResultsIn adjusted models, associations were observed between increasing numbers of children and increasing fat-adjusted lean mass index in women (p=0.06). Among men, those with children had 0.59kg (95% CI: 0.15 to 1.02) greater lean mass index than those without and fat:lean mass ratio was greater in those with 4+ children because of their slightly higher mean fat mass. Weak evidence of a higher android:gynoid mass ratio in women with children (0.03, 95% CI: 0.00,0.06, p=0.1) was observed with no associations with fat mass index or android or gynoid fat mass. Increasing BMI was observed with increasing parity in women at 60-64 and more strongly at 69 years where associations among men were also observed more clearly.\n\nConclusionThere was little evidence of a consistent association between number of children and body composition in early old age. The strongest associations are observed for lean, rather than fat mass, and in men rather than women, suggesting little evidence of biological effects of pregnancy in women. The results indicate social pathways associated with parenthood are the likely underlying mechanisms, with suggestion there may be selection into parenthood among men.

epidemiology↗

bioRxiv2018

Developmental factors associated with decline in grip strength from midlife to old age: a British birth cohort study

Maintenance of muscle strength is important for healthy ageing, protecting against chronic disease and enabling independent living. We tested whether developmental factors were associated with grip strength trajectories between 53 and 69 years, and operated independently or on the same pathway/s as adult factors, in 3058 participants from a British birth cohort. Grip strength (kg) at ages 53, 60-64 and 69, was analysed using multilevel models, testing for age and sex interactions, to estimate associations with developmental factors (birthweight, growth parameters, motor and cognitive development) and childhood socioeconomic position (SEP) and investigate potential adult mediators. Heavier birthweight, beginning to walk on time, later puberty and greater weight 0-26 years in men, and earlier age at first standing in women, were associated with stronger grip but not with its decline; these associations were independent of adult factors. The slower decline in grip strength (by 0.068kg/year, 95% confidence interval (CI) 0.024,0.11 per 1SD, p=.003) in men with higher childhood cognition was attenuated by adult verbal memory which became increasingly positively associated with grip strength at older ages. Thus grip strength may increasingly reflect neural ageing processes. Targeting developmental factors to promote muscle development should increase the chance of independence in old age.

epidemiology↗