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      Mechanisms of pathogenicity in the hypertrophic cardiomyopathy-associated TPM1 variant S215L

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          Abstract

          Hypertrophic cardiomyopathy (HCM) is an inherited disorder often caused by mutations to sarcomeric genes. Many different HCM-associated TPM1 mutations have been identified but they vary in their degrees of severity, prevalence, and rate of disease progression. The pathogenicity of many TPM1 variants detected in the clinical population remains unknown. Our objective was to employ a computational modeling pipeline to assess pathogenicity of one such variant of unknown significance, TPM1 S215L, and validate predictions using experimental methods. Molecular dynamic simulations of tropomyosin on actin suggest that the S215L significantly destabilizes the blocked regulatory state while increasing flexibility of the tropomyosin chain. These changes were quantitatively represented in a Markov model of thin-filament activation to infer the impacts of S215L on myofilament function. Simulations of in vitro motility and isometric twitch force predicted that the mutation would increase Ca 2+ sensitivity and twitch force while slowing twitch relaxation. In vitro motility experiments with thin filaments containing TPM1 S215L revealed higher Ca 2+ sensitivity compared with wild type. Three-dimensional genetically engineered heart tissues expressing TPM1 S215L exhibited hypercontractility, upregulation of hypertrophic gene markers, and diastolic dysfunction. These data form a mechanistic description of TPM1 S215L pathogenicity that starts with disruption of the mechanical and regulatory properties of tropomyosin, leading thereafter to hypercontractility and finally induction of a hypertrophic phenotype. These simulations and experiments support the classification of S215L as a pathogenic mutation and support the hypothesis that an inability to adequately inhibit actomyosin interactions is the mechanism whereby thin-filament mutations cause HCM.

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          VMD: Visual molecular dynamics

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            Directed cardiomyocyte differentiation from human pluripotent stem cells by modulating Wnt/β-catenin signaling under fully defined conditions.

            The protocol described here efficiently directs human pluripotent stem cells (hPSCs) to functional cardiomyocytes in a completely defined, growth factor- and serum-free system by temporal modulation of regulators of canonical Wnt signaling. Appropriate temporal application of a glycogen synthase kinase 3 (GSK3) inhibitor combined with the expression of β-catenin shRNA or a chemical Wnt inhibitor is sufficient to produce a high yield (0.8-1.3 million cardiomyocytes per cm(2)) of virtually pure (80-98%) functional cardiomyocytes in 14 d from multiple hPSC lines without cell sorting or selection. Qualitative (immunostaining) and quantitative (flow cytometry) characterization of differentiated cells is described to assess the expression of cardiac transcription factors and myofilament proteins. Flow cytometry of BrdU incorporation or Ki67 expression in conjunction with cardiac sarcomere myosin protein expression can be used to determine the proliferative capacity of hPSC-derived cardiomyocytes. Functional human cardiomyocytes differentiated via these protocols may constitute a potential cell source for heart disease modeling, drug screening and cell-based therapeutic applications.
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              Reassessment Of Mendelian Gene Pathogenicity Using 7,855 Cardiomyopathy Cases And 60,706 Reference Samples

              Purpose The accurate interpretation of variation in Mendelian disease genes has lagged behind data generation as sequencing has become increasingly accessible. Ongoing large sequencing efforts present huge interpretive challenges, but also provide an invaluable opportunity to characterize the spectrum and importance of rare variation. Methods Here we analyze sequence data from 7,855 clinical cardiomyopathy cases and 60,706 ExAC reference samples to better understand genetic variation in a representative autosomal dominant disorder. Results We show that in some genes previously reported as important causes of a given cardiomyopathy, rare variation is not clinically informative as there is an unacceptably high likelihood of false positive interpretation. By contrast, in other genes, we find that diagnostic laboratories may be overly conservative when assessing variant pathogenicity. Conclusions We outline improved analytical approaches that evaluate which genes and variant classes are interpretable and propose that these will increase the clinical utility of testing across a range of Mendelian diseases.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PNAS Nexus
                PNAS Nexus
                pnasnexus
                PNAS Nexus
                Oxford University Press (US )
                2752-6542
                March 2023
                21 January 2023
                21 January 2023
                : 2
                : 3
                : pgad011
                Affiliations
                Department of Biomedical Engineering, Yale University , New Haven, CT 06511
                Department of Physiology/Biophysics , Boston University, Boston, MA 02215
                Department of Biomedical Engineering, Yale University , New Haven, CT 06511
                Department of Biomedical Engineering, Yale University , New Haven, CT 06511
                Department of Internal Medicine, Columbia University , New York, NY 10032
                Department of Biological Sciences, University of Massachusetts Lowell , MA 01854
                Department of Biological Sciences, University of Massachusetts Lowell , MA 01854
                Department of Physiology/Biophysics , Boston University, Boston, MA 02215
                Department of Biomedical Engineering, Yale University , New Haven, CT 06511
                Author notes
                To whom correspondence should be addressed: E-mail: stuart.campbell@ 123456yale.edu

                Competing Interest: S.G.C. holds equity ownership in Propria LLC, which has licensed technology used in the research reported in this publication.

                Author information
                https://orcid.org/0000-0002-3050-3624
                https://orcid.org/0000-0003-2629-1865
                https://orcid.org/0000-0002-1527-0770
                Article
                pgad011
                10.1093/pnasnexus/pgad011
                9991458
                36896133
                c5e94b24-6e54-4aaa-8eaf-834bc86e9ed0
                © The Author(s) 2023. Published by Oxford University Press on behalf of National Academy of Sciences.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 10 May 2022
                : 12 July 2022
                : 09 January 2023
                : 07 March 2023
                Page count
                Pages: 15
                Categories
                Biological, Health, and Medical Sciences
                Biophysics and Computational Biology
                AcademicSubjects/MED00010
                AcademicSubjects/SCI00010
                AcademicSubjects/SOC00010

                hypertrophic cardiomyopathy,tropomyosin,engineered heart tissue

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