Biallelic variants in CCN2 underlie an autosomal recessive kyphomelic dysplasia

• Published in: European journal of human genetics : EJHG 2025, Vol.33 (1), p.30-37
• Main Authors: Singh, Swati, Danda, Sumita, Sharma, Neetu, Shah, Hitesh, Madhuri, Vrisha, Mir, Tariq Altaf, Padala, Nadia Zipporah, Medishetti, Raghavender, Ekbote, Alka, Bhavani, Gandham SriLakshmi, Sevilimedu, Aarti, Girisha, Katta M.
• Format: Article
• Language: English
• Subjects: 45; 45/22; 45/23; 45/77; 631/208; 64; 64/116; 692/699; 82/80; Alleles; Animals; Bioinformatics; Biomedical and Life Sciences; Biomedicine; Birth defects; Bone dysplasia; Child; Chondrocytes; Chondrogenesis; Cleft lip/palate; Connective tissue growth factor; Connective Tissue Growth Factor - genetics; CRISPR; Cytogenetics; Danio rerio; Female; Frameshift Mutation; Gene Expression; Genes, Recessive; Hip dislocation; Homozygote; Human Genetics; Humans; Limbs; Long bone; Male; Mutation, Missense; Pedigree; Phenotype; Phenotypes; Skeleton; Vertebrae; Whole genome sequencing; Zebrafish - genetics
• ISSN: 1018-4813; 1476-5438; 1476-5438
• DOI: 10.1038/s41431-024-01725-5

Kyphomelic dysplasia is a rare heterogenous group of skeletal dysplasia, characterized by bowing of the limbs, severely affecting femora with distinct facial features. Despite its first description nearly four decades ago, the precise molecular basis of this condition remained elusive until the recent discovery of de novo variants in the KIF5B-related kyphomelic dysplasia. We ascertained two unrelated consanguineous families with kyphomelic dysplasia. They had six affected offsprings and we performed a detailed clinical evaluation, skeletal survey, and exome sequencing in three probands. All the probands had short stature, cleft palate, and micro-retrognathia. Radiographs revealed kyphomelic femora, bowing of long bones, radial head dislocations and mild platyspondyly. We noted two novel homozygous variants in CCN2 as possible candidates that segregated with the phenotype in the families: a missense variant c.443G>A; p.(Cys148Tyr) in exon 3 and a frameshift variant, c.779_786del; p.(Pro260LeufsTer7) in exon 5. CCN2 is crucial for proliferation and differentiation of chondrocytes. Earlier studies have shown that Ccn2 -deficient mice exhibit twisted limbs, short and kinked sterna, broad vertebrae, domed cranial vault, shorter mandibles, and cleft palate. We studied the impact of CCN2 knockout in zebrafish models via CRISPR-Cas9 gene editing. F0 knockouts of ccn2a in zebrafish showed altered body curvature, impaired cartilage formation in craniofacial region and either bent or missing tails. Our observations in humans and zebrafish combined with previously described skeletal phenotype of Ccn2 knock out mice, confirm that biallelic loss of function variants in CCN2 result in an autosomal recessive kyphomelic dysplasia.