Rare missense functional variants at COL4A1 and COL4A2 in sporadic intracerebral hemorrhage

Chung, J. et al. (2021) Rare missense functional variants at COL4A1 and COL4A2 in sporadic intracerebral hemorrhage. Neurology, 97(3), e236-e247. (doi: 10.1212/WNL.0000000000012227) (PMID:34031201)

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Abstract

Objective: To test the genetic contribution of rare missense variants in COL4A1 and COL4A2 in which common variants are genetically associated with sporadic intracerebral hemorrhage (ICH), we performed rare variant analysis in multiple sequencing data for the risk for sporadic ICH. Methods: We performed sequencing across 559Kbp at 13q34 including COL4A1 and COL4A2 among 2,133 individuals (1,055 ICH cases; 1,078 controls) in US-based and 1,492 individuals (192 ICH cases; 1,189 controls) from Scotland-based cohorts, followed by sequence annotation, functional impact prediction, genetic association testing, and in silico thermodynamic modeling. Results: We identified 107 rare nonsynonymous variants in sporadic ICH, of which two missense variants, rs138269346 (COL4A1I110T) and rs201716258 (COL4A2H203L), were predicted to be highly functional and occurred in multiple ICH cases but not in controls from the US-based cohort. The minor allele of rs201716258 was also present in Scottish ICH patients, and rs138269346 was observed in two ICH-free controls with a history of hypertension and myocardial infarction. Rs138269346 was nominally associated with non-lobar ICH risk (P=0.05), but not with lobar ICH (P=0.08), while associations between rs201716258 and ICH subtypes were non-significant (P>0.12). Both variants were considered pathogenic based on minor allele frequency (<0.00035 in EUR), predicted functional impact (deleterious or probably damaging), and in silico modeling studies (substantially altered physical length and thermal stability of collagen). Conclusions: We identified rare missense variants in COL4A1/A2 in association with sporadic ICH. Our annotation and simulation studies suggest that these variants are highly functional and may represent targets for translational follow-up.

Item Type:Articles
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Hamilton, Dr Graham and Van Agtmael, Dr Tom
Authors: Chung, J., Hamilton, G., Kim, M., Marini, S., Montgomery, B., Henry, J., Cho, A. E., Brown, D. L., Worrall, B. B., Meschia, J. F., Silliman, S. L., Selim, M., Tirschwell, D. L., Kidwell, C. S., Kissela, B., Greenberg, S. M., Viswanathan, A., Goldstein, J. N., Langefeld, C. D., Rannikmae, K., Sudlow, C. L.M., Samarasekera, N., Rodrigues, M., Al-Shahi Salman, R., Prendergast, J. G.D., Harris, S. E., Deary, I., Woo, D., Rosand, J., Van Agtmael, T., and Anderson, C. D.
College/School:College of Medical Veterinary and Life Sciences > Institute of Cancer Sciences
College of Medical Veterinary and Life Sciences > Institute of Cardiovascular and Medical Sciences
Journal Name:Neurology
Publisher:American Academy of Neurology
ISSN:0028-3878
ISSN (Online):1526-632X
Published Online:24 May 2021
Copyright Holders:Copyright © 2021 The Authors
First Published:First published in Neurology 97(3): e236-e247
Publisher Policy:Reproduced under a Creative Commons License

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Project CodeAward NoProject NamePrincipal InvestigatorFunder's NameFunder RefLead Dept
302164Collagen IV variants and their role in intracerebral haemorrhage in the general populationTom Van AgtmaelMedical Research Council (MRC)MR/R005567/1CAMS - Cardiovascular Science
300478Elucidation of molecular pathways underlying cardiac disease caused by Col4a1 mutationsTom Van AgtmaelHeart Research UK (HEARTRES)RG 2664/17/20CAMS - Cardiovascular Science