Genome-wide study of DNA methylation shows alterations in metabolic, inflammatory, and cholesterol pathways in ALS

Hop, P.J.; Zwamborn, R.A.J.; Hannon, E.; Shireby, G.L.; Nabais, M.F.; Walker, E.M.; Van Rheenen, W.; Van Vugt, J.J.F.A.; Dekker, A.M.; Westeneng, H.-.; Tazelaar, G.H.P.; Van Eijk, K.R.; Moisse, M.; Baird, D.; Al Khleifat, A.; Iacoangeli, A.; Ticozzi, N.; Ratti, A.; Cooper-Knock, J.; Morrison, K.E.; Shaw, P.J.; Basak, A.N.; Chio, A.; Calvo, A.; Moglia, C.; Canosa, A.; Brunetti, M.; Grassano, M.; Gotkine, M.; Lerner, Y.; Zabari, M.; Vourc'H, P.; Corcia, P.; Couratier, P.; Mora Pardina, J.S.; Salas, T.; Dion, P.; Ross, J.P.; Henderson, R.D.; Mathers, S.; Mccombe, P.A.; Needham, M.; Nicholson, G.; Rowe, D.B.; Pamphlett, R.; Mather, K.A.; Sachdev, P.S.; Furlong, S.; Garton, F.C.; Henders, A.K.; Lin, T.; Ngo, S.T.; Steyn, F.J.; Wallace, L.; Williams, K.L.; Neto, M.M.; Cauchi, R.J.; Blair, I.P.; Kiernan, M.C.; Drory, V.; Povedano, M.; De Carvalho, M.; Pinto, S.; Weber, M.; Rouleau, G.A.; Silani, V.; Landers, J.E.; Shaw, C.E.; Andersen, P.M.; Mcrae, A.F.; Van Es, M.A.; Pasterkamp, R.J.; Wray, N.R.; Mclaughlin, R.L.; Hardiman, O.; Kenna, K.P.; Tsai, E.; Runz, H.; Al-Chalabi, A.; Van Den Berg, L.H.; Van Damme, P.; Mill, J.; Veldink, J.H.; Heijmans, B.T.; T Hoen, P.A.C.; Van Meurs, J.; Jansen, R.; Franke, L.; Boomsma, D.I.; Pool, R.; Van Dongen, J.; Hottenga, J.J.; Van Greevenbroek, M.M.J.; Stehouwer, C.D.A.; Van Der Kallen, C.J.H.; Schalkwijk, C.G.; Wijmenga, C.; Zhernakova, S.; Tigchelaar, E.F.; Slagboom, P.E.; Beekman, M.; Deelen, J.; Van Heemst, D.; Van Duijn, C.M.; Hofman, B.A.; Isaacs, A.; Uitterlinden, A.G.; Jhamai, P.M.; Verbiest, M.; Suchiman, E.H.D.; Verkerk, M.; Van Der Breggen, R.; Van Rooij, J.; Lakenberg, N.; Mei, H.; Van Iterson, M.; Van Galen, M.; Bot, J.; Van 'T Hof, P.; Nooren, I.; Moed, M.; Vermaat, M.; Luijk, R.; Bonder, M.J.; Van Dijk, F.; Arindrarto, W.; Kielbasa, S.M.; Swertz, M.A.; Van Zwet, E.W.; Bensimon, G.; Smith, G.D.

doi:10.1126/scitranslmed.abj0264

Amyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disease with an estimated heritability between 40 and 50%. DNA methylation patterns can serve as proxies of (past) exposures and disease progression, as well as providing a potential mechanism that mediates genetic or environmental risk. Here, we present a blood-based epigenome-wide association study meta-analysis in 9706 samples passing stringent quality control (6763 patients, 2943 controls). We identified a total of 45 differentially methylated positions (DMPs) annotated to 42 genes, which are enriched for pathways and traits related to metabolism, cholesterol biosynthesis, and immunity. We then tested 39 DNA methylation-based proxies of putative ALS risk factors and found that high-density lipoprotein cholesterol, body mass index, white blood cell proportions, and alcohol intake were independently associated with ALS. Integration of these results with our latest genome-wide association study showed that cholesterol biosynthesis was potentially causally related to ALS. Last, DNA methylation at several DMPs and blood cell proportion estimates derived from DNA methylation data were associated with survival rate in patients, suggesting that they might represent indicators of underlying disease processes potentially amenable to therapeutic interventions.

Genome-wide study of DNA methylation shows alterations in metabolic, inflammatory, and cholesterol pathways in ALS / P.J. Hop, R.A.J. Zwamborn, E. Hannon, G.L. Shireby, M.F. Nabais, E.M. Walker, W. van Rheenen, J.J.F.A. van Vugt, A.M. Dekker, H.-. Westeneng, G.H.P. Tazelaar, K.R. van Eijk, M. Moisse, D. Baird, A. Al Khleifat, A. Iacoangeli, N. Ticozzi, A. Ratti, J. Cooper-Knock, K.E. Morrison, P.J. Shaw, A.N. Basak, A. Chio, A. Calvo, C. Moglia, A. Canosa, M. Brunetti, M. Grassano, M. Gotkine, Y. Lerner, M. Zabari, P. Vourc'H, P. Corcia, P. Couratier, J.S. Mora Pardina, T. Salas, P. Dion, J.P. Ross, R.D. Henderson, S. Mathers, P.A. Mccombe, M. Needham, G. Nicholson, D.B. Rowe, R. Pamphlett, K.A. Mather, P.S. Sachdev, S. Furlong, F.C. Garton, A.K. Henders, T. Lin, S.T. Ngo, F.J. Steyn, L. Wallace, K.L. Williams, M.M. Neto, R.J. Cauchi, I.P. Blair, M.C. Kiernan, V. Drory, M. Povedano, M. de Carvalho, S. Pinto, M. Weber, G.A. Rouleau, V. Silani, J.E. Landers, C.E. Shaw, P.M. Andersen, A.F. Mcrae, M.A. van Es, R.J. Pasterkamp, N.R. Wray, R.L. Mclaughlin, O. Hardiman, K.P. Kenna, E. Tsai, H. Runz, A. Al-Chalabi, L.H. van den Berg, P. Van Damme, J. Mill, J.H. Veldink, B.T. Heijmans, P.A.C. t Hoen, J. van Meurs, R. Jansen, L. Franke, D.I. Boomsma, R. Pool, J. van Dongen, J.J. Hottenga, M.M.J. van Greevenbroek, C.D.A. Stehouwer, C.J.H. van der Kallen, C.G. Schalkwijk, C. Wijmenga, S. Zhernakova, E.F. Tigchelaar, P.E. Slagboom, M. Beekman, J. Deelen, D. van Heemst, C.M. van Duijn, B.A. Hofman, A. Isaacs, A.G. Uitterlinden, P.M. Jhamai, M. Verbiest, E.H.D. Suchiman, M. Verkerk, R. van der Breggen, J. van Rooij, N. Lakenberg, H. Mei, M. van Iterson, M. van Galen, J. Bot, P. van 'T Hof, I. Nooren, M. Moed, M. Vermaat, R. Luijk, M.J. Bonder, F. van Dijk, W. Arindrarto, S.M. Kielbasa, M.A. Swertz, E.W. van Zwet, G. Bensimon, G.D. Smith. - In: SCIENCE TRANSLATIONAL MEDICINE. - ISSN 1946-6234. - 14:633(2022 Feb 23), pp. eabj0264.1-eabj0264.16. [10.1126/scitranslmed.abj0264]

Genome-wide study of DNA methylation shows alterations in metabolic, inflammatory, and cholesterol pathways in ALS

Hop P. J.;Zwamborn R. A. J.;Hannon E.;Shireby G. L.;Nabais M. F.;Walker E. M.;van Rheenen W.;van Vugt J. J. F. A.;Dekker A. M.;Westeneng H. -J.;Tazelaar G. H. P.;van Eijk K. R.;Moisse M.;Baird D.;Al Khleifat A.;Iacoangeli A.;N. Ticozzi;A. Ratti;Cooper-Knock J.;Morrison K. E.;Shaw P. J.;Basak A. N.;Chio A.;Calvo A.;Moglia C.;Canosa A.;Brunetti M.;Grassano M.;Gotkine M.;Lerner Y.;Zabari M.;Vourc'H P.;Corcia P.;Couratier P.;Mora Pardina J. S.;Salas T.;Dion P.;Ross J. P.;Henderson R. D.;Mathers S.;McCombe P. A.;Needham M.;Nicholson G.;Rowe D. B.;Pamphlett R.;Mather K. A.;Sachdev P. S.;Furlong S.;Garton F. C.;Henders A. K.;Lin T.;Ngo S. T.;Steyn F. J.;Wallace L.;Williams K. L.;Neto M. M.;Cauchi R. J.;Blair I. P.;Kiernan M. C.;Drory V.;Povedano M.;de Carvalho M.;Pinto S.;Weber M.;Rouleau G. A.;V. Silani;Landers J. E.;Shaw C. E.;Andersen P. M.;McRae A. F.;van Es M. A.;Pasterkamp R. J.;Wray N. R.;McLaughlin R. L.;Hardiman O.;Kenna K. P.;Tsai E.;Runz H.;Al-Chalabi A.;van den Berg L. H.;Van Damme P.;Mill J.;Veldink J. H.;Heijmans B. T.;t Hoen P. A. C.;van Meurs J.;Jansen R.;Franke L.;Boomsma D. I.;Pool R.;van Dongen J.;Hottenga J. J.;van Greevenbroek M. M. J.;Stehouwer C. D. A.;van der Kallen C. J. H.;Schalkwijk C. G.;Wijmenga C.;Zhernakova S.;Tigchelaar E. F.;Slagboom P. E.;Beekman M.;Deelen J.;van Heemst D.;van Duijn C. M.;Hofman B. A.;Isaacs A.;Uitterlinden A. G.;Jhamai P. M.;Verbiest M.;Suchiman E. H. D.;Verkerk M.;van der Breggen R.;van Rooij J.;Lakenberg N.;Mei H.;van Iterson M.;van Galen M.;Bot J.;van 'T Hof P.;Nooren I.;Moed M.;Vermaat M.;Luijk R.;Bonder M. J.;van Dijk F.;Arindrarto W.;Kielbasa S. M.;Swertz M. A.;van Zwet E. W.;Bensimon G.;Smith G. D.

2022

Abstract

Amyotrophic lateral sclerosis (ALS) is a fatal neurodegenerative disease with an estimated heritability between 40 and 50%. DNA methylation patterns can serve as proxies of (past) exposures and disease progression, as well as providing a potential mechanism that mediates genetic or environmental risk. Here, we present a blood-based epigenome-wide association study meta-analysis in 9706 samples passing stringent quality control (6763 patients, 2943 controls). We identified a total of 45 differentially methylated positions (DMPs) annotated to 42 genes, which are enriched for pathways and traits related to metabolism, cholesterol biosynthesis, and immunity. We then tested 39 DNA methylation-based proxies of putative ALS risk factors and found that high-density lipoprotein cholesterol, body mass index, white blood cell proportions, and alcohol intake were independently associated with ALS. Integration of these results with our latest genome-wide association study showed that cholesterol biosynthesis was potentially causally related to ALS. Last, DNA methylation at several DMPs and blood cell proportion estimates derived from DNA methylation data were associated with survival rate in patients, suggesting that they might represent indicators of underlying disease processes potentially amenable to therapeutic interventions.

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	Settori scientifico-disciplinari dell'articolo (sola visualizzazione)
	
				Settore MED/26 - Neurologia
Settore MED/03 - Genetica Medica
Settore BIO/12 - Biochimica Clinica e Biologia Molecolare Clinica
			
	Settori scientifico-disciplinari dell'articolo (validi dal 09/05/2024)
	
				Settore MEDS-12/A - Neurologia
Settore MEDS-01/A - Genetica medica
Settore BIOS-09/A - Biochimica clinica e biologia molecolare clinica
			
	Data di pubblicazione
	
				23-feb-2022
			
	Rivista in ANCE
	
				SCIENCE TRANSLATIONAL MEDICINE
			
	DOI
	
				https://dx.doi.org/10.1126/scitranslmed.abj0264
			
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