- Case report
- Open Access
- Open Peer Review
Novel COL9A3 mutation in a family diagnosed with multiple epiphyseal dysplasia: a case report
© Jeong et al.; licensee BioMed Central Ltd. 2014
- Received: 13 May 2014
- Accepted: 23 October 2014
- Published: 8 November 2014
Multiple epiphyseal dysplasia is a common skeletal dysplasia characterized by mild short stature, early-onset osteoarthritis mainly involving the hip and knee joints, and abnormally small and/or irregular epiphyses. Multiple epiphyseal dysplasia is clinically and genetically heterogeneous and six genes are associated with the phenotype of multiple epiphyseal dysplasia.
A 12-year-old Korean boy presented with intermittent knee pain. His height was 144.6 cm (20th percentile) and family history was notable for early-onset osteoarthritis in his father. The proband’s x-rays revealed epiphyseal changes characteristic of multiple epiphyseal dysplasia associated with a collagen IX defect, with manifestations primarily restricted to the knees. Mutational analysis identified a novel c.104G > A substitution in exon 2 of COL9A3, resulting in p.Gly35Asp in the proband and his father. In silico analyses predicted the p.Gly35Asp amino acid change to be detelerious, and molecular dynamics simulation demonstrated a major structural change in the heterotrimeric collagen IX.
So far, three COL9A3 mutations, have been reported. These three mutations are located at the splice donor or acceptor site of COL9A3 and cause skipping of exon 3, resulting in the deletion of 12 aminoacids in the COL3 domain of COL9A3. In contrast, the novel missense mutation identified in this two-generation family with multiple epiphyseal dysplasia is a missense mutation affecting the Gly residue of the Pro-Pro-Gly repeat sequence in the COL3 domain of collage IX, with accompanying major structural change of the collagen peptide.
- Multiple epiphyseal dysplasia
- Molecular dynamics simulation
Multiple epiphyseal dysplasia (MED) is clinically and genetically heterogeneous group of skeletal dysplasias characterized by early-onset osteoarthritis, a waddling gait, restriction of joint mobility, pain and stiffness in the weight-bearing joints and sometimes short stature. Mutations in six different genes cause MED. Mutations in genes encoding cartilage oligomeric matrix protein (COMP), matrilin-3 (MATN3), and the alpha 1–3 chains of type IX collagen (COL9A1, COL9A2, COL9A3) result in autosomal dominant MED , and a specific mutation in the diastrophic dysplasia sulfate transporter (DTDST) is associated with an autosomal recessive form of MED . The frequencies of mutations in these genes among MED patients have yet to be determined. Previous studies in European MED patients have shown frequencies of 7–35% for COMP, 14% for DTDST, 5–10% for MATN3, and 5–15% for the type IX collagen genes [3, 4]. The frequencies of causative genes showed racial differences. A comprehensive screening in a Japanese population indicated that frequencies differ in East Asian patients, with reported frequencies of 23% in MATN3, 20% in COMP, 6% in COL9A2, and none in DTDST. In Korean patients, MATN3 mutations were found in 55% of patients, followed by COMP mutations in 41%, and COL9A2 and DTDST mutations in one patients (2%), respectively . Genotype-phenotype correlations of MED has been described and MED resulting from collagen IX defects (COL9-MED) result in more severe involvement of the knees with relative sparing of the hips.
Here we report a two-generation family with MED phenotypes consistent with COL9-MED, that were caused by a novel missense mutation in COL9A3.
The proband was a 12-year-old Korean boy born to non-consanguineous parents. He had been treated for partial seizure disorder for 2 years. He was referred to the pediatric orthopedic clinic for the evaluation of intermittent knee pain that had occurred for a few months. His height was 144.6 cm (20th percentile) and bodyweight was 41 kg (60th percentile). The height of his father and mother was 170 cm and 160 cm, respectively. His father also suffered from intermittent mild knee joint pain. The proband and his father did not show muscle weakness and pain suggesting myopathy. There was no Gower sign and Trendelenberg sign on physical examination. The level of creatine kinase and lactate were normal. Informed consent was obtained from the parents of the child.
Orthopedic and radiologic evaluations
PCR primer sequences for COL9A1, COL9A2, COL9A3, COMP, and MATN3
Product size (bp)
F - CCGATGTGCTCCACTAACCT
R - GGCCAAGTTTAGAGCCACAG
F - CAGCTTCCTGCACTGTCTGA
R - GACGAGGGGCACTACATCTC
F - TGAGCCGTAGTGTGCTGTCT
R - CTGGAGGTCAATTGGCAGAG
F - TTTGGGTCTCACCGAGGA
R - GCCTGGTTTTCTCTCCATCA
F - CTTGAGGGACCCCTGATTTT
R - TGTTCTGAGTTCCCCCTTTC
F - GCATTTTGCTTCATTGCTGA
R - AATTAGGGCCGGACTCCTC
F - TTGAGGCGGGGTTGGGTG
R - ACCGTGCCGAGCCGTAGAT
F - AGGAGTGTGACCTTTGCCTTCT
R - CTAGTCCAGCTTACCCCATCC
F - GAAGTCATTCTGGCCTGGTC
R - AGCGTTTTGTCAAAGGCTACC
F - CGGGTAGCCTTTGACAAAACG
R - GCCCGCCCACCGTAGAC
F - GGCGGGCCCTGACTTTAG
R - ATAACCCCGCCCCTCTGT
F - GTTCTGGGTGCCAGGTTC
R - AAGGGTTTTACGGAGGGTCAT
F - TGCTCCCAACTGTCTCTCCA
R - ACCTGGGCCTGTGTGTCC
F - TCTGAGAGGGAAGGGTCTGG
R - CCCTTCTCACTTCCCCCTCA
F - AAAGGAGCCCAGAGAGCAAT
R - CAGTCCAAAACCTGGAGCAT
Molecular Dynamics (MD) simulation of wild type and mutant model structure of trimer collagen IX
The clinical and radiographic phenotypes of MED vary heterogenously according to the genetic mutation. COMP and MATN3 mutations show marked abnormalities in hip and knee joints. Patients with the COMP mutation have characteristics of marked alterations of hip joints leading to severe osteoarthritis in early childhood . The MATN3 mutation has dysplastic epiphysis of the proximal and distal femur . Clinical features of autosomal recessive MED associated with DTDST mutations include scoliosis and abnormal findings such as clubfoot, cleft palate, cystic ear swelling, and clinodactyly are present at birth in approximately 50% of individuals . COL9-MED is generally the mildest form of MED and is characterized by joint pain in the hips and/or knees and stiffness presenting in the first decade of life, while radiographic abnormalities are primarily restricted to the knees with relative sparing of the hips . Epiphyseal flattening and irregularity of affected joint are evident. MED-related myopathy has been reported in some families with COL9A3, COMP, and COL9A2 mutations [17, 18].
We presently describe an autosomal dominant MED family with novel COL9A3 mutation. The proband and his father presented with mild knee joint pain. The height of the proband was in the 20th percentile but his father’s height was average for Korean males. Radiographs of the proband showed epiphyseal changes of MED. The knee joints were most severely affected but other joints revealed minor involvement including ankle, foot, and wrist. Sparing of hip joints, no history of clubfoot or other deformities at birth, and the pattern of inheritance distinguished their conditions from the other MED caused by COMP, MATN3, and DTDST mutations. Therefore, we analyzed the genes associated with collagen type IX on the bases of clinical and radiographic phenotypes. It is interesting that the COL9A3 mutation detected in the proband and his father is a missense mutation. Previously reported COL9A3 mutations were splice site acceptor or donor mutations in intron 2 or 3, that invariably resulted in skipping of exon 3 of COL9A3[17, 19] with deletion of 12 amino acids in the COL3 domain of COL9A3. The c.104G> A substitution in exon 2 of COL9A3, resulting in p.Gly35Asp, affects the COL3 domain of COL9A3, and results in a substitution of Gly to Asp in the third position of “Pro-Pro-Gly” consecutive sequence. The COL3 domain is consistently affected in COL9A2 and COL9A3 mutations associated with MED, thus emphasizing the role of the COL3 domain in the pathogenesis of MED. Although, the novel mutation does not result in a splicing defect of the COL3 domain, it affects an important amino acid in a conserved “Pro-Pro-Gly” repeat sequence of the highly conserved COL3 domain.
Another point of interest is that the proband had been treated for seizure disorder. A study characterizing a microdeletion of 20q13.33, a cytogenetic locus in which COL9A3 is located, demonstrated that this abnormality is associated with several clinical features including mental retardation, developmental delay, speech and language deficits, behavior problems and seizures. In the study, two of six patients had deletions that encompassed COL9A3 and one had seizure disorder, but they lacked in clinical features reminiscent of MED. The association between seizure and COL9A3 is not clear, but the possibility should be considered. In addition, the authors remarked that the suggested deletion of COL9A3 did not cause the MED symptom . However, we have a reservation with this opinion, because symptoms of MED caused by COL9A3 mutations are mild and the patients with microdeletion at 20q13.33 had combined abnormalities in morphology and psychomotor and behavioral development. It should be defined after careful clinical and radiographic assessment.
Type IX collagen is the structural component of hyaline cartilage and vitreous of the eye, and has been observed in various tissues including the notochord, inner ear, heart, brain, and skin in mice . Collagen IX is a hetero-trimeric molecule that consists of three α chains, α1(IX), α2(IX), and α3(IX)) in a 1:1:1 ratio. And the sizes of the domains and amino acid sequences of the α1(IX), α2(IX), and α3(IX) chains are highly conserved. Also the reported mutations in COL9A2 and COL9A3 show a remarkable consistency in affecting the COL3 domain , and clearly indicates that the COL3 domain is a functionally important component of type IX collagen in vivo. MD simulation of heterotrimer collagen IX revealed that the wild type structure formed hydrogen bonds with its neighboring strand, while the mutant showed self-aggregation. In addition, the distances between the mutation site (C-alpha) of wild type and mutant collagen are almost twice and the calculated energy state of the mutant is much lower, causing a self-aggregation. Our results reveal that the substitution of Gly to Asp produces a large local disruption to the COL3 domain of COL9A3, enough to lead to a malfunction of the type IX collagen.
Lastly, the phenotypic difference within family members was also observed but neither of the family members showed neuromuscular manifestations, a feature that has been associated in a previous MED patient with COL9A3 mutation . It remains to be determined whether both inter- and intra-familial phenotypic diversity are common in type IX collagen mutations. As well, the relationship between MED and other neuromuscular manifestations must be clarified.
Written informed consent was obtained from the parents of the child for publication of this Case report and any accompanying images. A copy of the written consent is available for review by the Editor of this journal.
We are grateful to the patient and parents assisting us in carrying out this study and compiling this report. The authors wish to acknowledge the financial support of the Catholic Medical Center Research Foundation made in the program year of 2012.
- Unger S, Hecht JT: Pseudoachondroplasia and multiple epiphyseal dysplasia: new etiologic developments. Am J Med Genet. 2001, 106: 244-250. 10.1002/ajmg.10234.View ArticlePubMedGoogle Scholar
- Superti-Furga LN A, Riebel T, Eich G, Steinmann B, Spranger J, Kunze J: Recessively inherited multiple epiphyseal dysplasia with normal stature, club foot, and double layered patella caused by a DTDST mutation. J Med Genet. 1999, 36: 621-624.Google Scholar
- Briggs MD, Chapman KL: Pseudoachondroplasia and multiple epiphyseal dysplasia: mutation review, molecular interactions, and genotype to phenotype correlations. Hum Mutat. 2002, 19: 465-478. 10.1002/humu.10066.View ArticlePubMedGoogle Scholar
- Jackson GC, Mittaz-Crettol L, Taylor JA, Mortier GR, Spranger J, Zabel B, Le Merrer M, Cormier-Daire V, Hall CM, Offiah A, Wright MJ, Savarirayan R, Nishimura G, Ramsden SC, Elles R, Bonafe L, Superti-Furga A, Unger S, Zankl A, Briggs MD: Pseudoachondroplasia and multiple epiphyseal dysplasia: a 7-year comprehensive analysis of the known disease genes identify novel and recurrent mutations and provides an accurate assessment of their relative contribution. Hum Mutat. 2012, 33: 144-157. 10.1002/humu.21611.View ArticlePubMedGoogle Scholar
- Itoh T, Shirahama S, Nakashima E, Maeda K, Haga N, Kitoh H, Kosaki R, Ohashi H, Nishimura G, Ikegawa S: Comprehensive screening of multiple epiphyseal dysplasia mutations in Japanese population. Am J Med Genet A. 2006, 140A: 1280-1284. 10.1002/ajmg.a.31292.View ArticleGoogle Scholar
- Kim OH, Park H, Seong MW, Cho TJ, Nishimura G, Superti-Furga A, Unger S, Ikegawa S, Choi IH, Song HR, Kim HW, Yoo WJ, Shim JS, Chung CY, Oh CW, Jeong C, Song KS, Seo SG, Cho SI, Yeo IK, Kim SY, Park S, Park SS, Kim HW, Yoo WJ, Shim JS, Chung CY, Oh CW, Jeong C, Song KS, et al: Revisit of multiple epiphyseal dysplasia: ethnic difference in genotypes and comparison of radiographic features linked to the COMP and MATN3 genes. Am J Med Genet A. 2011, 155A: 2669-2680.View ArticlePubMedGoogle Scholar
- Ramensky V, Bork P, Sunyaev S: Human non-synonymous SNPs: server and survey. Nucleic Acids Res. 2002, 30: 3894-3900. 10.1093/nar/gkf493.View ArticlePubMedPubMed CentralGoogle Scholar
- Ng PC, Henikoff S: Predicting deleterious amino acid substitutions. Genome Res. 2001, 11: 863-874. 10.1101/gr.176601.View ArticlePubMedPubMed CentralGoogle Scholar
- Case DA, Cheatham TE, Darden T, Gohlke H, Luo R, Merz KM, Onufriev A, Simmerling C, Wang B, Woods RJ: The Amber biomolecular simulation programs. J Comput Chem. 2005, 26: 1668-1688. 10.1002/jcc.20290.View ArticlePubMedPubMed CentralGoogle Scholar
- Hawkins DG, Cramer JC, Truhlar GD: Parametrized models of aqueous free energies of solvation based on pairwise descreening of solute atomic charges from a dielectric medium. J Phys Chem. 1996, 100: 19824-19839. 10.1021/jp961710n.View ArticleGoogle Scholar
- Izaguirre JA, Catarello DP, Wozniak JM, Skeel RD: Langevin stabilization of molecular dynamics. J Chem Phys. 2001, 114: 2090-2098. 10.1063/1.1332996.View ArticleGoogle Scholar
- Gotz AW, Williamson MJ, Xu D, Poole D, Le Grand S, Walker RC: Routine microsecond molecular dynamics simulations with AMBER on GPUs. 1. Generalized born. J Chem Theory Comput. 2012, 8: 1542-1555. 10.1021/ct200909j.View ArticlePubMedPubMed CentralGoogle Scholar
- Ryckaert J-P, Ciccotti G, Berendsen HJC: Numerical integration of the cartesian equations of motion of a system with constraints: molecular dynamics of n-alkanes. J Comput Phys. 1977, 23: 327-341. 10.1016/0021-9991(77)90098-5.View ArticleGoogle Scholar
- Briggs MD, Hoffman SM, King LM, Olsen AS, Mohrenweiser H, Leroy JG, Mortier GR, Rimoin DL, Lachman RS, Gaines ES, Cekleniak JA, Knowlton RG, Cohn DH: Pseudoachondroplasia and multiple epiphyseal dysplasia due to mutations in the cartilage oligomeric matrix protein gene. Nat Genet. 1995, 10: 330-336. 10.1038/ng0795-330.View ArticlePubMedGoogle Scholar
- Chapman KL, Mortier GR, Chapman K, Loughlin J, Grant ME, Briggs MD: Mutations in the region encoding the von Willebrand factor A domain of matrilin-3 are associated with multiple epiphyseal dysplasia. Nat Genet. 2001, 28: 393-396. 10.1038/ng573.View ArticlePubMedGoogle Scholar
- Ballhausen D, Bonafé L, Terhal P, Unger SL, Bellus G, Classen M, Hamel BC, Spranger J, Zabel B, Cohn DH, Cole WG, Hecht JT, Superti-Furga A, Cole WG, Hecht JT, Superti-Furga A: Recessive multiple epiphyseal dysplasia (rMED): phenotype delineation in eighteen homozygotes for DTDST mutatio R279W. J Med Genet. 2003, 40: 65-67. 10.1136/jmg.40.1.65.View ArticlePubMedPubMed CentralGoogle Scholar
- Bonnemann CG, Cox GF, Shapiro F, Wu JJ, Feener CA, Thompson TG, Anthony DC, Eyre DR, Darras BT, Kunkel LM: A mutation in the alpha 3 chain of type IX collagen causes autosomal dominant multiple epiphyseal dysplasia with mild myopathy. Proc Natl Acad Sci U S A. 2000, 97: 1212-1217. 10.1073/pnas.97.3.1212.View ArticlePubMedPubMed CentralGoogle Scholar
- Jackson GC, Marcus-Soekarman D, Stolte-Dijkstra I, Verrips A, Taylor JA, Briggs MD: Type IX collagen gene mutations can result in multiple epiphyseal dysplasia that is associated with osteochondritis dissecans and a mild myopathy. Am J Med Genet A. 2010, 152A: 863-869. 10.1002/ajmg.a.33240.View ArticlePubMedPubMed CentralGoogle Scholar
- Nakashima E, Kitoh H, Maeda K, Haga N, Kosaki R, Mabuchi A, Nishimura G, Ohashi H, Ikegawa S: Novel COL9A3 mutation in a family with multiple epiphyseal dysplasia. Am J Med Genet A. 2005, 132A: 181-184. 10.1002/ajmg.a.30411.View ArticlePubMedGoogle Scholar
- Traylor RN, Bruno DL, Burgess T, Wildin R, Spencer A, Ganesamoorthy D, Amor DJ, Hunter M, Caplan M, Rosenfeld JA, Theisen A, Torchia BS, Shaffer LG, Ballif BC, Slater HR: A genotype-first approach for the molecular and clinical characterization of uncommon de novo microdeletion of 20q13.33. PloS One. 2010, 5: e12462-10.1371/journal.pone.0012462.View ArticlePubMedPubMed CentralGoogle Scholar
- Nishimura I, Muragaki Y, Hayashi M, Ninomiya Y, Olsen BR: Tissue-specific expression of type IX collagen. Ann N Y Acad Sci. 1990, 580: 112-119. 10.1111/j.1749-6632.1990.tb17923.x.View ArticlePubMedGoogle Scholar
- Muragaki Y, Mariman EC, van Beersum SE, Perala M, van Mourik JB, Warman ML, Olsen BR, Hamel BC: A mutation in the gene encoding the alpha 2 chain of the fibril-associated collagen IX, COL9A2, causes multiple epiphyseal dysplasia (EDM2). Nat Genet. 1996, 12: 103-105. 10.1038/ng0196-103.View ArticlePubMedGoogle Scholar
- The pre-publication history for this paper can be accessed here:http://www.biomedcentral.com/1471-2474/15/371/prepub
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