4.5 Article

Mutation Update: The Spectra of Nebulin Variants and Associated Myopathies

Journal

HUMAN MUTATION
Volume 35, Issue 12, Pages 1418-1426

Publisher

WILEY-BLACKWELL
DOI: 10.1002/humu.22693

Keywords

nebulin; NEB; nemaline (rod) myopathy; actin-myosin; sarcomere

Funding

  1. Association Francaise contre les Myopathies
  2. Sigrid Juselius Foundation
  3. Academy of Finland
  4. Finska Lakaresallskapet
  5. Medicinska understodsforeningen Livoch Halsa r.f
  6. National Institute of Arthritis and Musculoskeletal and Skin Diseases (NIH) [R01 AR044345]
  7. Muscular Dystrophy Association (USA) [MDA201302]
  8. NHMRC of Australia [APP1035828, APP1026933]
  9. Foundation for Building Strength for Nemaline Myopathy
  10. Australian National Health and Medical Research Council (NHMRC) [APP1002147]
  11. NHMRC EU [APP1055295]

Ask authors/readers for more resources

A mutation update on the nebulin gene (NEB) is necessary because of recent developments in analysis methodology, the identification of increasing numbers and novel types of variants, and a widening in the spectrum of clinical and histological phenotypes associated with this gigantic, 183 exons containing gene. Recessive pathogenic variants in NEB are the major cause of nemaline myopathy (NM), one of the most common congenital myopathies. Moreover, pathogenic NEB variants have been identified in core-rod myopathy and in distal myopathies. In this update, we present the disease-causing variants in NEB in 159 families, 143 families with NM, and 16 families with NM-related myopathies. Eighty-eight families are presented here for the first time. We summarize 86 previously published and 126 unpublished variants identified in NEB. Furthermore, we have analyzed the NEB variants deposited in the Exome Variant Server (), identifying that pathogenic variants are a minor fraction of all coding variants (approximate to 7%). This indicates that nebulin tolerates substantial changes in its amino acid sequence, providing an explanation as to why variants in such a large gene result in relatively rare disorders. Lastly, we discuss the difficulties of drawing reliable genotype-phenotype correlations in NEB-associated disease.

Authors

I am an author on this paper
Click your name to claim this paper and add it to your profile.

Reviews

Primary Rating

4.5
Not enough ratings

Secondary Ratings

Novelty
-
Significance
-
Scientific rigor
-
Rate this paper

Recommended

Article Psychology, Developmental

Sex- and age-related differences in autistic behaviours in children with neurofibromatosis type 1

Anita K. Chisholm, Francesca Lami, Kristina M. Haebich, Alex Ure, Amanda Brignell, Tiba Maloof, Natalie A. Pride, Karin S. Walsh, Alice Maier, Melissa Rouel, Yael Granader, Belinda Barton, Hayley Darke, Ian Fuelscher, Gabriel Dabscheck, Vicki A. Anderson, Katrina Williams, Kathryn N. North, Jonathan M. Payne

Summary: This study investigated sex and age differences in autistic behaviors in children with NF1. Males exhibited greater social communication deficits compared to females, and age-related improvement of social communication difficulties was observed in males but not females. No sex differences were found for restricted/repetitive behaviors, which were stable over time for both males and females.

JOURNAL OF AUTISM AND DEVELOPMENTAL DISORDERS (2023)

Article Clinical Neurology

Loss of function variants in DNAJB4 cause a myopathy with early respiratory failure

Conrad C. Weihl, Ana Topf, Rocio Bengoechea, Jennifer Duff, Richard Charlton, Solange Kapetanovic Garcia, Cristina Dominguez-Gonzalez, Abdulaziz Alsaman, Aurelio Hernandez-Lain, Luis Varona Franco, Monica Elizabeth Ponce Sanchez, Sarah J. Beecroft, Hayley Goullee, Jil Daw, Ankan Bhadra, Heather True, Michio Inoue, Andrew R. Findlay, Nigel Laing, Montse Olive, Gianina Ravenscroft, Volker Straub

Summary: This article reports a novel chaperonopathy associated with the DNAJB4 gene, causing muscle weakness and early respiratory failure. Loss of DNAJB4 function may lead to the accumulation of its client proteins, resulting in muscle dysfunction and degeneration.

ACTA NEUROPATHOLOGICA (2023)

Article Biochemistry & Molecular Biology

A KLHL40 3' UTR splice-altering variant causes milder NEM8, an under-appreciated disease mechanism

Lein N. H. Dofash, Gavin Monahan, Emilia Servian-Morilla, Eloy Rivas, Fathimath Faiz, Patricia Sullivan, Emily Oates, Joshua Clayton, Rhonda L. Taylor, Mark R. Davis, Traude Beilharz, Nigel G. Laing, Macarena Cabrera-Serrano, Gianina Ravenscroft

Summary: Nemaline myopathy 8 (NEM8) is a severe autosomal recessive disorder caused by variants in the KLHL40 gene. This study reports a case of a 26-year-old man with mild NEM8, characterized by hypotonia, fractures, and contractures. Genetic analysis identified compound heterozygous variants in KLHL40, including a truncating deletion and a likely pathogenic variant in the 3' UTR. Functional analysis revealed that the 3' UTR variant induced aberrant splicing and decreased expression of KLHL40 mRNA and protein. This study highlights the importance of considering abnormal 3' UTR splicing in variant curation for Mendelian diseases.

HUMAN MOLECULAR GENETICS (2023)

Article Clinical Neurology

A novel phenotype of AChR-deficiency syndrome with predominant facial and distal weakness resulting from the inclusion of an evolutionary alternatively-spliced exon in CHRNA1

Pedro M. Rodriguez Cruz, Gianina Ravenscroft, Daniel Natera, Aisling Carr, Adnan Manzur, Wei Wei Liu, Norbert R. Vella, Ivonne Jerico, Lidia Gonzalez-Quereda, Pia Gallano, Simon Attard Montalto, Mark R. Davis, Phillipa J. Lamont, Nigel G. Laing, Pierre Bourque, Andres Nascimento, Francesco Muntoni, Kiran Polavarapu, Hanns Lochmueller, Jacqueline Palace, David Beeson

Summary: This study reports the clinical and molecular features of 13 patients with acetylcholine receptor deficiency. The patients were found to carry the CHRNA1 variant NM_001039523.3:c.257G > A (p.Arg86His), which resulted in a non-functional acetylcholine receptor α-subunit. The study also emphasizes the importance of including alternative exons in variant analysis.

NEUROMUSCULAR DISORDERS (2023)

Article Medicine, General & Internal

Deep Intronic FGF14 GAA Repeat Expansion in Late-Onset Cerebellar Ataxia

D. Pellerin, M. C. Danzi, C. Wilke, M. Renaud, S. Fazal, M. -J Dicaire, C. K. Scriba, C. Ashton, C. Yanick, D. Beijer, A. Rebelo, C. Rocca, Z. Jaunmuktane, J. A. Sonnen, R. Lariviere, D. Genis, L. Molina Porcel, K. Choquet, R. Sakalla, S. Provost, R. Robertson, X. Allard-Chamard, M. Tetreault, S. J. Reiling, S. Nagy, V Nishadham, M. Purushottam, S. Vengalil, M. Bardhan, A. Nalini, Z. Chen, J. Mathieu, R. Massie, C. H. Chalk, A. -L Lafontaine, F. Evoy, M. -F Rioux, J. Ragoussis, K. M. Boycott, M. -P Dube, A. Duquette, H. Houlden, G. Ravenscroft, N. G. Laing, P. J. Lamont, M. A. Saporta, R. Schuele, L. Schoels, R. La Piana, M. Synofzik, S. Zuchner, B. Brais

Summary: A repeat expansion in the FGF14 gene was found to be associated with late-onset cerebellar ataxias (LOCAs) in French Canadian and German populations as well as in Australian and Indian patients. This discovery provides important insights for further research and diagnosis of LOCAs.

NEW ENGLAND JOURNAL OF MEDICINE (2023)

Article Biochemistry & Molecular Biology

Genetic Predisposition to Neurological Complications in Patients with COVID-19

Nikhil Shri Sahajpal, Alex R. R. Hastie, Maximilian Schieck, Ashis K. K. Mondal, Marc Felde, Caspar I. I. van der Made, Janet S. S. Chou, Adrienne G. G. Randolph, Thomas Illig, Michael C. C. Zody, Catherine A. A. Brownstein, Alan H. H. Beggs, Alexander Hoischen, Alka Chaubey, Ravindra Kolhe

Summary: Several studies have found genetic variants associated with severe COVID-19, but none have reported genetic determinants for neurological complications. This report identifies rare/unique structural variants implicated in neurological functions in two individuals with neurological manifestations of COVID-19. It highlights the potential genetic link to neurological symptoms and calls for collective efforts to study these cohorts for possible genetic factors.

BIOMOLECULES (2023)

Article Genetics & Heredity

Australian Genomics: Outcomes of a 5-year national program to accelerate the integration of genomics in healthcare

Zornitza Stark, Tiffany Boughtwood, Matilda Haas, Jeffrey Braithwaite, Clara L. Gaff, Ilias Goranitis, Amanda B. Spurdle, David P. Hansen, Oliver Hofmann, Nigel Laing, Sylvia Metcalfe, Ainsley J. Newson, Hamish S. Scott, Natalie Thorne, Robyn L. Ward, Marcel E. Dinger, Stephanie Best, Janet C. Long, Sean M. Grimmond, John Pearson, Nicola Waddell, Christopher P. Barnett, Matthew Cook, Michael Field, David Fielding, Stephen B. Fox, Jozef Gecz, Adam Jaffe, Richard J. Leventer, Paul J. Lockhart, Sebastian Lunke, Andrew J. Mallett, Julie McGaughran, Linda Mileshkin, Katia Nones, Tony Roscioli, Ingrid E. Scheffer, Christopher Semsarian, Cas Simons, David M. Thomas, David R. Thorburn, Richard Tothill, Deborah White, Sally Dunwoodie, Peter T. Simpson, Peta Phillips, Marie-Jo Brion, Keri Finlay, Michael CJ. Quinn, Tessa Mattiske, Emma Tudini, Kirsten Boggs, Sean Murray, Kathy Wells, John Cannings, Andrew H. Sinclair, John Christodoulou, Kathryn N. North

Summary: Australian Genomics is a national collaborative partnership that aims to integrate genomics into healthcare through a whole-of-system approach. It has evaluated genomic testing outcomes in over 5,200 individuals across rare disease and cancer studies and provided evidence-based changes in policy and practice, resulting in government funding and access to genomic tests. It has also developed national skills, infrastructure, policy, and data resources to support data sharing and improve clinical genomic delivery.

AMERICAN JOURNAL OF HUMAN GENETICS (2023)

Article Genetics & Heredity

Economic evaluation of population-based, expanded reproductive carrier screening for genetic diseases in Australia

Deborah Schofield, Evelyn Lee, Jayamala Parmar, Simon Kelly, Matthew Hobbs, Nigel Laing, Jan Mumford, Rupendra Shrestha

Summary: The purpose of this study was to evaluate the cost effectiveness of population-based, expanded reproductive carrier screening. The results showed that expanded screening was cost effective and could avert a significant number of affected births and save healthcare resources.

GENETICS IN MEDICINE (2023)

Article Clinical Neurology

Expanding the phenotype of DNMT3A as a cause a congenital myopathy with rhabdomyolysis

Roula Ghaoui, Thuong T. Ha, Jennifer Kerkhof, Haley McConkey, Song Gao, Milena Babic, Rob King, Gianina Ravenscroft, Barbara Koszyca, Sophia Otto, Nigel G. Laing, Hamish Scott, Bekim Sadikovic, Karin S. Kassahn

Summary: This study reports a patient with a pathogenic variant in the DNMT3A gene who presented to the neuromuscular clinic with congenital myopathy, rhabdomyolysis, severe myalgias, and chest pain, along with phenotypic features associated with TBRS. Muscle biopsy showed minor myopathic features, and cardiac investigations revealed mildly impaired bi-ventricular systolic function. The study highlights the phenotypic overlap in patients with syndromic disorders presenting to neuromuscular clinics and the limitations of gene panels in establishing a molecular diagnosis.

NEUROMUSCULAR DISORDERS (2023)

Article Genetics & Heredity

Real-world analysis of healthcare resource utilization by patients with X-linked myotubular myopathy (XLMTM) in the United States

Robert J. Graham, Basil T. Darras, Tmirah Haselkorn, Dan Fisher, Casie A. Genetti, Weston Miller, Alan H. Beggs

Summary: This study analyzed healthcare resource utilization in XLMTM patients within a US medical claims database. The results showed a significant increase in healthcare resource use among XLMTM patients over the past five years. Most patients required respiratory and feeding support and had multiple hospitalizations throughout childhood and beyond.

ORPHANET JOURNAL OF RARE DISEASES (2023)

Article Clinical Neurology

Novel Compound Heterozygous Splice-Site Variants in TPM3 Revealed by RNA Sequencing in a Patient with an Unusual Form of Nemaline Myopathy: A Case Report

Katarina Pelin, Lydia Sagath, Johanna Lehtonen, Kirsi Kiiski, Olli Tynninen, Anders Paetau, Mridul Johari, Marco Savarese, Carina Wallgren-Pettersson, Vilma-Lotta Lehtokari

Summary: The study identified novel biallelic splice-site variants in the TPM3 gene which significantly reduce TPM3 protein expression, leading to the development of nemaline myopathy.

JOURNAL OF NEUROMUSCULAR DISEASES (2023)

Article Biotechnology & Applied Microbiology

Introme accurately predicts the impact of coding and noncoding variants on gene splicing, with clinical applications

Patricia J. Sullivan, Velimir Gayevskiy, Ryan L. Davis, Marie Wong, Chelsea Mayoh, Amali Mallawaarachchi, Yvonne Hort, Mark J. McCabe, Sarah Beecroft, Matilda R. Jackson, Peer Arts, Andrew Dubowsky, Nigel Laing, Marcel E. Dinger, Hamish S. Scott, Emily Oates, Mark Pinese, Mark J. Cowley

Summary: Introme is a tool that uses machine learning to comprehensively evaluate the likelihood of a variant impacting splicing by integrating predictions from multiple splice detection tools, additional splicing rules, and gene architecture features. Through extensive benchmarking, Introme outperformed other tools in detecting clinically significant splice variants.

GENOME BIOLOGY (2023)

Article Genetics & Heredity

Self-reported functioning among patients with ultra-rare nemaline myopathy or a related disorder in Finland: a pilot study

Vilma-Lotta Lehtokari, Minna Simila, Marianne Tammepuu, Carina Wallgren-Pettersson, Sonja Strang-Karlsson, Sinikka Hiekkala

Summary: This pilot study is the first comprehensive survey-based study of the physical, psychological, and social functioning of adult persons with nemaline myopathy or related disorders. The results indicate that non-ambulatory patients face more challenges in all areas of functioning compared to ambulatory patients, and the COVID-19 pandemic has a greater impact on non-ambulatory patients. The study provides directions for improving future research.

ORPHANET JOURNAL OF RARE DISEASES (2023)

Article Genetics & Heredity

Titin copy number variations associated with dominant inherited phenotypes

Aurelien Perrin, Corinne Metay, Marco Savarese, Rabah Ben Yaou, German Demidov, Isabelle Nelson, Guilhem Sole, Yann Pereon, Enrico Silvio Bertini, Fabiana Fattori, Adele D'Amico, Federica Ricci, Mira Ginsberg, Andreea Seferian, Odile Boespflug-Tanguy, Laurent Servais, Francoise Chapon, Emmeline Lagrange, Karen Gaudon, Adrien Bloch, Robin Ghanem, Lucie Guyant-Marechal, Mridul Johari, Charles Van Goethem, Michel Fardeau, Raul Juntas Morales, Casie A. Genetti, Minttu Marttila, Michel Koenig, Alan Beggs, Bjarne Udd, Gisele Bonne, Mireille Cossee

Summary: Titinopathies are complex neuromuscular pathologies caused by mutations in the titin gene (TTN). A study identified multiple deletion-type CNVs in the TTN gene in several families, revealing new genotype-phenotype associations, mainly distal myopathy.

JOURNAL OF MEDICAL GENETICS (2023)

Article Clinical Neurology

RFC1 in an Australasian neurological disease cohort: extending the genetic heterogeneity and implications for diagnostics

Carolin K. Scriba, Igor Stevanovski, Sanjog R. Chintalaphani, Hasindu Gamaarachchi, Roula Ghaoui, Darshan Ghia, Robert D. Henderson, Nerissa Jordan, Antony Winkel, Phillipa J. Lamont, Miriam J. Rodrigues, Richard H. Roxburgh, Ben Weisburd, Nigel G. Laing, Ira W. Deveson, Mark R. Davis, Gianina Ravenscroft

Summary: Cerebellar ataxia, neuropathy and vestibular areflexia syndrome is a neurological disorder associated with biallelic pentanucleotide expansions in the RFC1 gene. In an Australasian cohort, known pathogenic expansions were detected in 15.3% of patients, along with the identification of novel repeat motifs. This study demonstrates the substantial contribution of RFC1 pathogenic expansions to neurological disease in the Australasian population and highlights the heterogeneity of the locus.

BRAIN COMMUNICATIONS (2023)

No Data Available