- Transcriptomics identifies blunted immunomodulatory effects of vitamin D in people with multiple sclerosis
22 Items in both categories MS and Genetics: - 9 related items in VitaminDWiki
- Several Health problems have a blunted response to Vitamin D supplementation
14 Items in both categories MS and Vitamin D Receptor: - Strange that studies have not tried activating the VDR in people with MS
- VitaminDWiki - Vitamin D Receptor activation can be increased in many ways
Transcriptomics identifies blunted immunomodulatory effects of vitamin D in people with multiple sclerosis
Scientific Reports Vol 14, Article number: 1436 (2024) https://doi.org/10.1038/s41598-024-51779-0
Wei Z. Yeh, Rodney Lea, Jim Stankovich, Sandeep Sampangi, Louise Laverick, Anneke Van der Walt, Vilija Jokubaitis, Melissa Gresle & Helmut ButzkuevenVitamin D deficiency is a risk factor for developing multiple sclerosis (MS). However, the immune effects of vitamin D in people with MS are not well understood. We analyzed transcriptomic datasets generated by RNA sequencing of immune cell subsets (CD4+, CD8+ T cells, B cells, monocytes) from 33 healthy controls and 33 untreated MS cases. We utilized a traditional bioinformatic pipeline and weighted gene co-expression network analysis (WGCNA) to determine genes and pathways correlated with endogenous vitamin D. In controls, CD4+ and CD8+ T cells had 1079 and 1188 genes, respectively, whose expressions were correlated with plasma 25-hydroxyvitamin D level (P < 0.05). Functional enrichment analysis identified association with TNF-alpha and MAPK signaling. In CD4+ T cells of controls, vitamin D level was associated with expression levels of several genes proximal to multiple sclerosis risk loci (P = 0.01). Genes differentially associated with endogenous vitamin D by case–control status were enriched in TNF-alpha signaling via NF-κB. WGCNA suggested a blunted response to vitamin D in cases relative to controls. Collectively, our findings provide further evidence for the immune effects of vitamin D, and demonstrate a differential immune response to vitamin D in cases relative to controls, highlighting a possible mechanism contributing to MS pathophysiology.
 Download the PDF from VitaminDWiki
82 References
- Yeh, W. Z. et al. Immunoregulatory effects and therapeutic potential of vitamin D in multiple sclerosis. Br. J. Pharmacol. 177, 4113-4133 (2020).
- Veldman, C. M., Cantorna, M. T. & DeLuca, H. F. Expression of 1,25-dihydroxyvitamin D3 receptor in the immune system. Arch. Biochem. Biophys. 374, 334-338 (2000).
- Booth, D. R. et al. Cistromic and genetic evidence that the vitamin D receptor mediates susceptibility to latitude-dependent autoimmune diseases. Genes Immun. 17, 213-219 (2016).
- Baeke, F. et al. Human T lymphocytes are direct targets of 1,25-dihydroxyvitamin D3 in the immune system. J. Steroid Biochem. Mol. Biol. 121, 221-227 (2010).
- Liu, P. T., Stenger, S., Tang, D. H. & Modlin, R. L. Cutting edge: Vitamin D-mediated human antimicrobial activity against Mycobacterium tuberculosis is dependent on the induction of cathelicidin. J. Immunol. 179, 2060-2063 (2007).
- Penna, G. & Adorini, L. 1a,25-Dihydroxyvitamin D3 inhibits differentiation, maturation, activation, and survival of dendritic cells leading to impaired alloreactive T cell activation. J. Immunol. 164, 2405-2411 (2000).
- Jeffery, L. E. et al. 1,25-dihydroxyvitamin D3 and interleukin-2 combine to inhibit T cell production of inflammatory cytokines and promote development of regulatory T cells expressing CTLA-4 and FoxP3. J. Immunol. 183, 5458-5467 (2009).
- Prietl, B. et al. High-dose cholecalciferol supplementation significantly increases peripheral CD4+ Tregs in healthy adults without negatively affecting the frequency of other immune cells. Eur. J. Nutr. 53, 751-759 (2014).
- Allen, A. C. et al. A pilot study of the immunological effects of high-dose vitamin D in healthy volunteers. Mult. Scler. 18, 1797-1800 (2012).
- Munger, K. L., Levin, L. I., Hollis, B. W., Howard, N. S. & Ascherio, A. Serum 25-hydroxyvitamin D levels and risk of multiple sclerosis. JAMA 296, 2832-2838 (2006).
- da Costa, D. S. M. M. et al. Vitamin D modulates different IL-17-secreting T cell subsets in multiple sclerosis patients. J. Neuroim- munol. 299, 8-18 (2016).
- Kickler, K., Ni Choileain, S., Williams, A., Richards, A. & Astier, A. L. Calcitriol modulates the CD46 pathway in T cells. PLoS One 7, e48486 (2012).
- Jagannath, V. A. et al. Vitamin D for the management of multiple sclerosis. Cochrane Database Syst. Rev. https://doi.org/10.1002/ 14651858.CD008422.pub3 (2018).
- Hupperts, R. et al. Randomized trial of daily high-dose vitamin D3 in patients with RRMS receiving subcutaneous interferon (3-1a. Neurology https://doi.org/10.1212/WNL.0000000000008445 (2019).
- Subramanian, A. et al. Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles. Proc. Natl. Acad. Sci. 102, 15545-15550 (2005).
- International Multiple Sclerosis Genetics Consortium. Multiple sclerosis genomic map implicates peripheral immune cells and microglia in susceptibility. Science 365, eaav7188 (2019).
- Zhang, B. & Horvath, S. A general framework for weighted gene co-expression network analysis. Stat. Appl. Genet. Mol. Biol. 4, 17 (2005).
- Langfelder, P. & Horvath, S. Eigengene networks for studying the relationships between co-expression modules. BMC Syst. Biol. 1, 54 (2007).
- Kriegler, M., Perez, C., DeFay, K., Albert, I. & Lu, S. D. A novel form of TNF/cachectin is a cell surface cytotoxic transmembrane protein: Ramifications for the complex physiology of TNF. Cell 53, 45-53 (1988).
- Calzascia, T. et al. TNF-a is critical for antitumor but not antiviral T cell immunity in mice. J. Clin. Investig. 117, 3833-3845 (2007).
- Park, K. M. & Bowers, W. J. Tumor necrosis factor-alpha mediated signaling in neuronal homeostasis and dysfunction. Cell Signal. 22, 977-983 (2010).
- Schioppa, T. et al. B regulatory cells and the tumor-promoting actions of TNF-a during squamous carcinogenesis. Proc. Natl. Acad. Sci. 108, 10662-10667 (2011).
- Sharief, M. K. & Hentges, R. Association between tumor necrosis factor-a and disease progression in patients with multiple sclerosis. N. Engl. J. Med. 325, 467-472 (1991).
- Rieckmann, P. et al. Tumor necrosis factor-a messenger RNA expression in patients with relapsing-remitting multiple sclerosis is associated with disease activity. Ann. Neurol. 37, 82-88 (1995).
- Huang, W.-X., Huang, P., Link, H. & Hillert, J. Cytokine analysis in multiple sclerosis by competitive RT-PCR: A decreased expression of IL-10 and an increased expression of TNF-a in chronic progression. Mult. Scler. 5, 342-348 (1999).
- van Oosten, B. W. et al. Increased MRI activity and immune activation in two multiple sclerosis patients treated with the monoclonal anti-tumor necrosis factor antibody cA2. Neurology 47, 1531-1534 (1996).
- Arnett, H. A. et al. TNFa promotes proliferation of oligodendrocyte progenitors and remyelination. Nat. Neurosci. 4, 1116-1122 (2001).
- Müller, K. et al. 1,25-dihydroxyvitamin D3 inhibits cytokine production by human blood monocytes at the post-transcriptional level. Cytokine 4, 506-512 (1992).
- Lysandropoulos, A. P. et al. Vitamin D has a direct immunomodulatory effect on CD8+ T cells of patients with early multiple sclerosis and healthy control subjects. J. Neuroimmunol. 233, 240-244 (2011).
- Peterson, C. A. & Heffernan, M. E. Serum tumor necrosis factor-alpha concentrations are negatively correlated with serum 25(OH) D concentrations in healthy women. J. Inflamm. 5, 10 (2008).
- Yang, W. S. et al. 1,25-Dihydroxyvitamin D3 causes ADAM10-dependent ectodomain shedding of tumor necrosis factor receptor 1 in vascular smooth muscle cells. Mol. Pharmacol. 87, 533-542 (2015).
- Song, G. G., Bae, S.-C. & Lee, Y. H. Association between vitamin D intake and the risk of rheumatoid arthritis: A meta-analysis. Clin. Rheumatol. 31, 1733-1739 (2012).
- Ananthakrishnan, A. N. et al. Higher predicted vitamin d status is associated with reduced risk of Crohn's disease. Gastroenterology 142, 482-489 (2012).
- Kamen, D. L. et al. Vitamin D deficiency in systemic lupus erythematosus. Autoimmun. Rev. 5, 114-117 (2006).
- Umar, M. et al. Vitamin D and the pathophysiology of inflammatory skin diseases. SPP 31, 74-86 (2018).
- Hahn, J. et al. Vitamin D and marine omega 3 fatty acid supplementation and incident autoimmune disease: VITAL randomized controlled trial. BMJ 376, e066452 (2022).
- Dimitrov, V. et al. Vitamin D-regulated gene expression profiles: Species-specificity and cell-specific effects on metabolism and immunity. Endocrinology 162, bqaa218 (2021).
- von Essen, M. R. et al. Vitamin D controls T cell antigen receptor signaling and activation of human T cells. Nat. Immunol. 11, 344-349 (2010).
- Richards, J. B. et al. Higher serum vitamin D concentrations are associated with longer leukocyte telomere length in women. Am. J. Clin. Nutr. 86, 1420-1425 (2007).
- Jirmanova, L., Giardino Torchia, M. L., Sarma, N. D., Mittelstadt, P. R. & Ashwell, J. D. Lack of the T cell-specific alternative p38 activation pathway reduces autoimmunity and inflammation. Blood 118, 3280-3289 (2011).
- Zhang, Y. et al. Vitamin D inhibits monocyte/macrophage proinflammatory cytokine production by targeting MAPK phosphatase-1. J. Immunol. 188, 2127-2135 (2012).
- Ding, C., Wilding, J. P H. & Bing, C. 1,25-Dihydroxyvitamin D3 protects against macrophage-induced activation of NFkB and MAPK signalling and chemokine release in human adipocytes. PLoS One 8, e61707 (2013).
- Xin, L. et al. 1,25-Dihydroxy vitamin D3 attenuates the oxidative stress-mediated inflammation induced by PM2.5 via the p38/ NF-kB/NLRP3 pathway. Inflammation 42, 702-713 (2019).
- Joshi, S. et al. 1,25-Dihydroxyvitamin D3 ameliorates Th17 autoimmunity via transcriptional modulation of interleukin-17A. Mol. Cell. Bid. 31, 3653-3669 (2011).
- Takeuchi, A. et al. Nuclear factor of activated T cells (NFAT) as a molecular target for 1a,25-dihydroxyvitamin D3-mediated effects. J. Immunol. 160, 209-218 (1998).
- Matilainen, J. M., Räsänen, A., Gynther, P. & Väisänen, S. The genes encoding cytokines IL-2, IL-10 and IL-12B are primary 1a,25(OH)2D3 target genes. J. Steroid Biochem. Mol. Biol. 121, 142-145 (2010).
- Alroy, I., Towers, T. L. & Freedman, L. P. Transcriptional repression of the interleukin-2 gene by vitamin D3: Direct inhibition of NFATp/AP-1 complex formation by a nuclear hormone receptor. Mol. Cell. Biol. 15, 5789-5799 (1995).
- Ikeda, U. et al. 1a,25-Dihydroxyvitamin D3 and all-trans retinoic acid synergistically inhibit the differentiation and expansion of Th17 cells. Immunol. Lett. 134, 7-16 (2010).
- Palmer, M. T. et al. Lineage-specific effects of 1,25-dihydroxyvitamin d3 on the development of effector CD4 T cells. J. Biol. Chem. 286, 997-1004 (2011).
- Müller, K., 0dum, N. & Bendtzen, K. 1,25-Dihydroxyvitamin D3 selectively reduces interleukin-2 levels and proliferation of human T cell lines in vitro. Immunol. Lett. 35, 177-182 (1993).
- Urry, Z. et al. The role of 1a,25-dihydroxyvitamin D3 and cytokines in the promotion of distinct Foxp3+ and IL-10+ CD4+ T cells. Eur. J. Immunol. 42, 2697-2708 (2012).
- Chauss, D. et al. Autocrine vitamin D signaling switches off pro-inflammatory programs of TH1 cells. Nat. Immunol. 23, 62-74 (2022).
- Bhargava, P. et al. Multiple sclerosis patients have a diminished serologic response to vitamin D supplementation compared to healthy controls. Mult. Scler. 22, 753-760 (2016).
- Bhargava, P., Fitzgerald, K. C., Calabresi, P. A. & Mowry, E. M. Metabolic alterations in multiple sclerosis and the impact of vitamin D supplementation. JCI Insight 2, e95302 (2017).
- Lu, M., Shi, H., Taylor, B. V. & Körner, H. Alterations of subset and cytokine profile of peripheral T helper cells in PBMCs from Multiple Sclerosis patients or from individuals with MS risk SNPs near genes CYP27B1 and CYP24A1. Cytokine 153, 155866 (2022).
- Mu, Z. et al. The impact of cell type and context-dependent regulatory variants on human immune traits. Genome Biol. 22, 122 (2021).
- Ewing, E. et al. Combining evidence from four immune cell types identifies DNA methylation patterns that implicate functionally distinct pathways during Multiple Sclerosis progression. EBioMedicine 43, 411-423 (2019).
- Kim, D. et al. Peripheral T-cells, B-cells, and monocytes from multiple sclerosis patients supplemented with high-dose vitamin d show distinct changes in gene expression profiles. Nutrients 14, 4737 (2022).
- Polman, C. H. et al. Diagnostic criteria for multiple sclerosis: 2010 Revisions to the McDonald criteria. Ann. Neurol. 69, 292-302 (2011).
- Andrews, S. FastQC: A Quality Control Tool for High Throughput Sequence Data (2010).
- Bray, N. L., Pimentel, H., Melsted, P. & Pachter, L. Near-optimal probabilistic RNA-seq quantification. Nat. Biotechnol. 34, 525-527 (2016).
- R Core Team. R: A Language and Environment for Statistical Computing (2019).
- Soneson, C., Love, M. I. & Robinson, M. D. Differential analyses for RNA-seq: Transcript-level estimates improve gene-level inferences. F1000Res 4, 1521 (2016).
- Robinson, M. D., McCarthy, D. J. & Smyth, G. K. edgeR: A Bioconductor package for differential expression analysis of digital gene expression data. Bioinformatics 26, 139-140 (2010).
- Risso, D., Ngai, J., Speed, T. P. & Dudoit, S. Normalization of RNA-seq data using factor analysis of control genes or samples. Nat. Biotechnol. 32, 896-902 (2014).
- Eisenberg, E. & Levanon, E. Y. Human housekeeping genes, revisited. Trends Genet. 29, 569-574 (2013).
- Ramagopalan, S. V. et al. A ChIP-seq defined genome-wide map of vitamin D receptor binding: Associations with disease and evolution. Genome Res. 20, 1352-1360 (2010).
- Neme, A., Seuter, S. & Carlberg, C. Selective regulation of biological processes by vitamin D based on the spatio-temporal cistrome of its receptor. Biochim. Biophys. Acta (BBA) Gene Regul. Mech. 1860, 952-961 (2017).
- Shirvani, A., Kalajian, T. A., Song, A. & Holick, M. F. Disassociation of vitamin Ds calcemic activity and non-calcemic genomic activity and individual responsiveness: A randomized controlled double-blind clinical trial. Sci. Rep. 9, 17685 (2019).
- Gandolfo, L. C. & Speed, T. P RLE plots: Visualizing unwanted variation in high dimensional data. PLoS One 13, e0191629 (2018).
- Cunningham, F. et al. Ensembl 2022. Nucleic Acids Res. 50, D988-D995 (2022).
- Durinck, S., Spellman, P. T., Birney, E. & Huber, W. Mapping identifiers for the integration of genomic datasets with the R/Bio- conductor package biomaRt. Nat. Protoc. 4, 1184-1191 (2009).
- Lun, A. T. L., Chen, Y. & Smyth, G. K. It's DE-licious: A recipe for differential expression analyses of RNA-seq experiments using quasi-likelihood methods in edgeR. In Statistical Genomics: Methods and Protocols (eds Mathe, E. & Davis, S.) 391-416 (Springer, 2016). https://doi.org/10.1007/978-1-4939-3578-9_19.
- Evelo, C. et al. Vitamin D metabolism (Homo sapiens)—WikiPathways. https://www.wikipathways.org/index.php/PathwayWP1531
- Langfelder, P. & Horvath, S. WGCNA: An R package for weighted correlation network analysis. BMC Bioinform. 9, 559 (2008).
- Benjamini, Y. & Hochberg, Y. Controlling the false discovery rate: A practical and powerful approach to multiple testing. J. R. Stat. Soc. Ser. B (Methodology) 57, 289-300 (1995).
- Liberzon, A. et al. Molecular signatures database (MSigDB) 3.0. Bioinformatics 27, 1739-1740 (2011).
- Kanehisa, M. & Goto, S. KEGG: Kyoto encyclopedia of genes and genomes. Nucleic Acids Res. 28, 27-30 (2000).
- Wu, T. et al. clusterProfiler 4.0: A universal enrichment tool for interpreting omics data. Innovation 2, 100141 (2021).
- Wickham, H. ggplot2 (Springer International Publishing, 2016). https://doi.org/10.1007/978-3-319-24277-4.
- Chen, J., Bardes, E. E., Aronow, B. J. & Jegga, A. G. ToppGene Suite for gene list enrichment analysis and candidate gene prioritization. Nucleic Acids Res. 37, W305-W311 (2009).
- Gu, Z., Eils, R. & Schlesner, M. Complex heatmaps reveal patterns and correlations in multidimensional genomic data. Bioinformatics 32, 2847-2849 (2016).
22 Items in both categories MS and Genetics: - People with Multiple Sclerosis have blunted responses to Vitamin D supplementation - Jan 2024
- Get Multiple Sclerosis while younger if have a poor CYP24A1 vitamin D gene – May 2023
- Vitamin D genes increase MS relapses in children by 2X – May 2019
- CYP2R1 gene problem increases Multiple Sclerosis risk by 1.4X – Dec 2018
- Multiple Sclerosis more likely if poor vitamin D genes - 22nd study – Aug 2017
- Mendelian proof that low vitamin D (due to 3 genes) increase risk of MS by 20 percent – Nov 2016
- Autoimmune risk gene ZMIZ1 is associated with both MS and Vitamin D – Jan 2017
- Multiple Sclerosis relapse in children is twice as likely having a Vitamin D Gene score of 6 – Oct 2016
- Multiple Sclerosis and obesity share some gene problems (as well as low vitamin D) – June 2016
- Genes make Multiple Sclerosis 2X more likely unless get more vitamin D - Aug 2015
- Multiple Sclerosis is connected to Vitamin D by gene to gene interactions – Aug 2014
- Multiple Sclerosis, gene expression, and vitamin D: Venn diagrams – Aug 2014
- Epigenetics of Multiple Sclerosis – March 2014
- Increased risk of multiple sclerosis risk in African Americans due to genes – June 2013
- 98 pcnt of genes that Vitamin D activates to reduce MS are also activated by Interferon -May 2013
- Transgeneration vitamin D deficiency related to MS was found in mice – Aug 2012
- Epigenetics, vitamin D, and Multiple Sclerosis
- Learning about MS and vitamin D in offspring from mice – Sept 2011
- Vitamin D targets 4 MS genes – May 2011
- Unable to find a gene linking vitamin D and MS – March 2011
- MS and vitamin D may be related by HLA gene – March 2010
- MS due to low level of vitamin D may be due to a specific gene – July 2010
9 related items in VitaminDWiki
- Epstein-Barr virus increases risk of Multiple Sclerosis by 32X - Jan 2022
- Many virus have learned to protect themselves by deactivating the Vitamin D Receptor
- Which results in less Vitamin D getting to the cells
- Epigenetics of Multiple Sclerosis – March 2014
- Resveratrol treats Multiple Sclerosis and other autoimmune diseases – many studies
- Gene variants can reduce Vitamin D response by 1.7X (14,000 IU daily, Multiple Sclerosis) – Dec 2021
- UK people with Multiple Sclerosis are 3X more likely to take Vitamin D - Oct 2020
- Multiple Sclerosis much more likely if poor Vitamin D Receptor – several studies
- 7 ng less response by Multiple Sclerosis patients to 5,000 IU of vitamin D – Aug 2015
- Gene variants can reduce Vitamin D response by 1.7X (14,000 IU daily, Multiple Sclerosis) – Dec 2021
Several Health problems have a blunted response to Vitamin D supplementation
14 Items in both categories MS and Vitamin D Receptor: - Multiple Sclerosis and Vitamin D Receptor Activators
- Multiple Sclerosis: is strongly related to poor Vitamin D receptors – umbrella review Oct 2024
- Poor Vitamin D Receptor increases the risk of Multiple Sclerosis in people of European descent – Feb 2024
- Multiple Sclerosis 2X-3X more likely if poor Vitamin D Receptor – Meta-analysis Feb 2020
- Risk of Multiple Sclerosis varies with the Vitamin D Receptor – meta-analysis Dec 2019
- Multiple Sclerosis and Vitamin D Receptor super enhancers – March 2019
- Vitamin D genes increase MS relapses in children by 2X – May 2019
- Immunological effects of vitamin D and their relations to autoimmunity – March 2019
- Inflammation and immune responses to Vitamin D (perhaps need to measure active vitamin D) – July 2017
- Multiple Sclerosis more likely if poor vitamin D genes - 22nd study – Aug 2017
- Multiple sclerosis (relapsing-remitting) increases activation of Vitamin D Receptor by 6.6 X – March 2017
- Multiple Sclerosis is more likely if poor Vitamin D Receptor (4X Mexico, 3X Iran)– Feb 2017
- Multiple Sclerosis much more likely if poor Vitamin D Receptor – several studies
- Multiple Sclerosis and the Vitamin D Receptor – meta-analysis July 2014
Strange that studies have not tried activating the VDR in people with MS
VitaminDWiki - Vitamin D Receptor activation can be increased in many ways
Resveratrol, Omega-3, Magnesium, Zinc, Quercetin, non-daily Vit D, Curcumin, Berberine, intense exercise, Butyrate Sulforaphane Ginger, Essential oils, etc Note: The founder of VitaminDWiki uses 10 of the 16 known VDR activators
People with Multiple Sclerosis have blunted responses to Vitamin D supplementation - Jan 20241416 visitors, last modified 17 Jan, 2024, This page is in the following categories (# of items in each category)