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1.
Front Immunol ; 15: 1419748, 2024.
Article in English | MEDLINE | ID: mdl-39040103

ABSTRACT

Immunodeficiency, Centromeric instability and Facial anomalies (ICF) syndrome is a rare genetic disorder characterized by variable immunodeficiency. More than half of the affected individuals show mild to severe intellectual disability at early onset. This disorder is genetically heterogeneous and ZBTB24 is the causative gene of the subtype 2, accounting for about 30% of the ICF cases. ZBTB24 is a multifaceted transcription factor belonging to the Zinc-finger and BTB domain-containing protein family, which are key regulators of developmental processes. Aberrant DNA methylation is the main molecular hallmark of ICF syndrome. The functional link between ZBTB24 deficiency and DNA methylation errors is still elusive. Here, we generated a novel ICF2 disease model by deriving induced pluripotent stem cells (iPSCs) from peripheral CD34+-blood cells of a patient homozygous for the p.Cys408Gly mutation, the most frequent missense mutation in ICF2 patients and which is associated with a broad clinical spectrum. The mutation affects a conserved cysteine of the ZBTB24 zinc-finger domain, perturbing its function as transcriptional activator. ICF2-iPSCs recapitulate the methylation defects associated with ZBTB24 deficiency, including centromeric hypomethylation. We validated that the mutated ZBTB24 protein loses its ability to directly activate expression of CDCA7 and other target genes in the patient-derived iPSCs. Upon hematopoietic differentiation, ICF2-iPSCs showed decreased vitality and a lower percentage of CD34+/CD43+/CD45+ progenitors. Overall, the ICF2-iPSC model is highly relevant to explore the role of ZBTB24 in DNA methylation homeostasis and provides a tool to investigate the early molecular events linking ZBTB24 deficiency to the ICF2 clinical phenotype.


Subject(s)
Induced Pluripotent Stem Cells , Phenotype , Primary Immunodeficiency Diseases , Repressor Proteins , Humans , Induced Pluripotent Stem Cells/metabolism , Primary Immunodeficiency Diseases/genetics , Repressor Proteins/genetics , Repressor Proteins/deficiency , DNA Methylation , Immunologic Deficiency Syndromes/genetics , Male , Mutation , Female , Face/abnormalities , Nuclear Proteins
2.
Pol Merkur Lekarski ; 52(3): 356-362, 2024.
Article in English | MEDLINE | ID: mdl-39007475

ABSTRACT

OBJECTIVE: Aim: The aim of the article is a comparative analysis of the main aspects of existing medical and diagnostic measures in patients with abnormal types of occlusal relationships and methods of mathematical and graphic reproduction of the shape of the dental arches, taking into account the individual characteristics of the maxillofacial area. PATIENTS AND METHODS: Materials and Methods: The search for relevant publications related to the objective topic was carried out through scientific databases: Scopus, PubMed, BVS and Scielo. CONCLUSION: Conclusions: The analysis of regression models of the reproduction of individual characteristics of the dental arch of the jaws will avoid errors that occur when comparing the actual sizes with their statistical norm, which will allow to correctly determine the proportionality and ratio of dif f erent departments of the dental and jaw system, the necessary amount of orthodontic measures in the treatment of anomalies of the dental arches.


Subject(s)
Dental Arch , Humans , Dental Arch/anatomy & histology , Cephalometry , Face/anatomy & histology , Face/abnormalities , Malocclusion
3.
Zhonghua Yi Xue Za Zhi ; 104(27): 2549-2555, 2024 Jul 16.
Article in Chinese | MEDLINE | ID: mdl-38978380

ABSTRACT

Objective: To establish a prediction model for the identifying of cataplexy facial features based on clinical shooting videos by using a deep learning image recognition network ResNet-18. Methods: A cross-sectional study. Twenty-five narcolepsy type 1 patients who were first diagnosed and never received treatment and 25 healthy controls recruited by advertisement in the Second Affiliated Hospital of Nanchang University from 2020 to 2023.After image preprocessing, a total of 1 180 images were obtained, including 583 cataplexy faces and 597 normal faces.90% were selected as the training set and validation set, and then expanded the data by 5 times.80% of the expanded data set was extracted as the training set and 20% as the validation set, that is, the number of the training set was (583+597)×0.9×0.8×5=4 248, the number of the validation set was (583+597)×0.9×0.2×5=1 062. The data sets for training and validation were used train parameters to establish the model and were trained through the five-fold cross-validation method, to establish the ResNet-18 cataplexy face recognition model via transfer learning.10% (118 images) of the original non-amplified images were extracted as the test set. The test set data did not participate in data enhancement and model training, and was only used to evaluate the final performance of the model. Finally, ResNet-18 was compared with VGG-16, ResNet-34 and Inception V3 deep learning models, and the receiver operating characteristic curve was used to evaluate the value of ResNet-18 image recognition network in cataplexy face recognition. Results: Among 25 patients with narcolepsy type 1, 15 were males and 10 were females, aged [M (Q1, Q3)] of 14.0(11.0, 20.5) years.Among 25 healthy controls, 14 were males and 11 were females, with a median age of 16.0(14.4, 23.0) years.The overall accuracy of ResNet-18 image recognition network in the test set was 90.9%, the sensitivity was 96.4% and the specificity was 85.2%. The area under the ROC curve was 0.99(95%CI:0.96-1.00). The ResNet-18 model parameter amount was 11.69 M, the floating point operation amount was 1 824.03 M, and the single image recognition time was 5.9 ms. Conclusions: The cataplexy face prediction model built based on the deep learning image recognition network ResNet-18 has a high accuracy in identifying cataplexy faces.


Subject(s)
Cataplexy , Deep Learning , Narcolepsy , Humans , Narcolepsy/diagnosis , Cross-Sectional Studies , Cataplexy/diagnosis , Face/abnormalities , Image Processing, Computer-Assisted , Male , Female , Neural Networks, Computer
4.
Res Dev Disabil ; 151: 104769, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38865789

ABSTRACT

ARID1B-related disorders constitute a clinical continuum, from classic Coffin-Siris syndrome to intellectual disability (ID) with or without nonspecific dysmorphic features. Here, we describe an 11-year-old boy with an ARID1B mutation whose phenotype changed from severe developmental delay and ID to a complex neurodevelopmental disorder with multidimensional impairments, including normal intelligence despite heterogeneous IQ scores, severe motor coordination disorder, oral language disorder and attention-deficit/hyperactivity disorder. Phenotypic changes occurred after early intensive remediation and paralleled the normalization of myelination impairments, as evidenced by early brain imaging. WHAT THIS PAPER ADDS?: This report describes a 10-year multidisciplinary follow-up of a child with an ARID1B mutation who received early intensive remediation and whose phenotype changed during development. Clinical improvement paralleled the normalization of myelination impairments. This case supports a dimensional approach for complex neurodevelopmental disorders.


Subject(s)
DNA-Binding Proteins , Intellectual Disability , Micrognathism , Phenotype , Transcription Factors , Humans , Male , Child , Intellectual Disability/genetics , Transcription Factors/genetics , DNA-Binding Proteins/genetics , Micrognathism/genetics , Micrognathism/diagnostic imaging , Follow-Up Studies , Face/abnormalities , Face/diagnostic imaging , Brain/diagnostic imaging , Brain/abnormalities , Hand Deformities, Congenital/genetics , Hand Deformities, Congenital/diagnostic imaging , Neck/abnormalities , Neck/diagnostic imaging , Attention Deficit Disorder with Hyperactivity/genetics , Magnetic Resonance Imaging , Neurodevelopmental Disorders/genetics , Abnormalities, Multiple/genetics , Abnormalities, Multiple/diagnostic imaging , Developmental Disabilities/genetics , Motor Skills Disorders/genetics , Mutation , Foot Deformities, Congenital/genetics , Foot Deformities, Congenital/diagnostic imaging , Joint Instability/diagnostic imaging , Joint Instability/genetics
5.
PLoS Genet ; 20(6): e1011310, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38857303

ABSTRACT

Growth deficiency is a characteristic feature of both Kabuki syndrome 1 (KS1) and Kabuki syndrome 2 (KS2), Mendelian disorders of the epigenetic machinery with similar phenotypes but distinct genetic etiologies. We previously described skeletal growth deficiency in a mouse model of KS1 and further established that a Kmt2d-/- chondrocyte model of KS1 exhibits precocious differentiation. Here we characterized growth deficiency in a mouse model of KS2, Kdm6atm1d/+. We show that Kdm6atm1d/+ mice have decreased femur and tibia length compared to controls and exhibit abnormalities in cortical and trabecular bone structure. Kdm6atm1d/+ growth plates are also shorter, due to decreases in hypertrophic chondrocyte size and hypertrophic zone height. Given these disturbances in the growth plate, we generated Kdm6a-/- chondrogenic cell lines. Similar to our prior in vitro model of KS1, we found that Kdm6a-/- cells undergo premature, enhanced differentiation towards chondrocytes compared to Kdm6a+/+ controls. RNA-seq showed that Kdm6a-/- cells have a distinct transcriptomic profile that indicates dysregulation of cartilage development. Finally, we performed RNA-seq simultaneously on Kmt2d-/-, Kdm6a-/-, and control lines at Days 7 and 14 of differentiation. This revealed surprising resemblance in gene expression between Kmt2d-/- and Kdm6a-/- at both time points and indicates that the similarity in phenotype between KS1 and KS2 also exists at the transcriptional level.


Subject(s)
Abnormalities, Multiple , Chondrocytes , Disease Models, Animal , Face , Hematologic Diseases , Histone Demethylases , Vestibular Diseases , Animals , Vestibular Diseases/genetics , Vestibular Diseases/pathology , Mice , Face/abnormalities , Histone Demethylases/genetics , Histone Demethylases/metabolism , Hematologic Diseases/genetics , Hematologic Diseases/pathology , Chondrocytes/metabolism , Abnormalities, Multiple/genetics , Abnormalities, Multiple/pathology , Cell Differentiation/genetics , Chondrogenesis/genetics , DNA-Binding Proteins/genetics , DNA-Binding Proteins/deficiency , Humans , Mice, Knockout , Phenotype , Histone-Lysine N-Methyltransferase , Myeloid-Lymphoid Leukemia Protein
6.
BMC Pregnancy Childbirth ; 24(1): 420, 2024 Jun 10.
Article in English | MEDLINE | ID: mdl-38858685

ABSTRACT

BACKGROUND: Frontonasal dysplasia (FND) is a rare congenital anomaly resulting from the underdevelopment of the frontonasal process, and it can be syndromic or nonsyndromic. The typical features of FND include a deformed nose and ocular hypertelorism, which are sometimes associated with cleft lip and/or palate. Only approximately 10 cases of prenatally diagnosed nonsyndromic FND have been reported in the past 30 years. CASE PRESENTATION: A 33-year-old woman (G2P1) was referred to our center at 20 gestational weeks for bilateral hydrocephaly. We detected typical features of FND, including severe hypertelorism, median nasal bifidity, a minor cleft lip, and multiple limb anomalies using three-dimensional (3D) ultrasound. A hypoplastic corpus callosum, unilateral microtia, and a ventricular septal defect were also detected. Genetic testing, including karyotype analysis, copy number variation (CNV) analysis, trio-whole exome sequencing (trio-WES), and trio-whole-gene sequencing (trio-WGS), was performed; however, we did not find any de novo gene variants in the fetus as compared to the parents. Postmortem examination confirmed the prenatal diagnosis of FND. CONCLUSION: The present case expands the wide phenotypic spectrum of prenatal FND patients. 3D ultrasound is a useful tool for detecting facial and limb deformities.


Subject(s)
Agenesis of Corpus Callosum , Craniofacial Abnormalities , Face , Hydrocephalus , Imaging, Three-Dimensional , Limb Deformities, Congenital , Ultrasonography, Prenatal , Humans , Female , Adult , Pregnancy , Craniofacial Abnormalities/diagnostic imaging , Agenesis of Corpus Callosum/diagnostic imaging , Agenesis of Corpus Callosum/genetics , Limb Deformities, Congenital/diagnostic imaging , Limb Deformities, Congenital/genetics , Face/abnormalities , Face/diagnostic imaging , Hydrocephalus/diagnostic imaging , Heart Septal Defects, Ventricular/diagnostic imaging , Heart Septal Defects, Ventricular/genetics , Abnormalities, Multiple/diagnostic imaging , Abnormalities, Multiple/genetics
7.
Front Immunol ; 15: 1341745, 2024.
Article in English | MEDLINE | ID: mdl-38765012

ABSTRACT

Individuals with Kabuki syndrome present with immunodeficiency; however, how pathogenic variants in the gene encoding the histone-modifying enzyme lysine methyltransferase 2D (KMT2D) lead to immune alterations remain poorly understood. Following up on our prior report of KMT2D-altered integrin expression in B-cells, we performed targeted analyses of KMT2D's influence on integrin expression in T-cells throughout development (thymocytes through peripheral T-cells) in murine cells with constitutive- and conditional-targeted Kmt2d deletion. Using high-throughput RNA-sequencing and flow cytometry, we reveal decreased expression (both at the transcriptional and translational levels) of a cluster of leukocyte-specific integrins, which perturb aspects of T-cell activation, maturation, adhesion/localization, and effector function. H3K4me3 ChIP-PCR suggests that these evolutionary similar integrins are under direct control of KMT2D. KMT2D loss also alters multiple downstream programming/signaling pathways, including integrin-based localization, which can influence T-cell populations. We further demonstrated that KMT2D deficiency is associated with the accumulation of murine CD8+ single-positive (SP) thymocytes and shifts in both human and murine peripheral T-cell populations, including the reduction of the CD4+ recent thymic emigrant (RTE) population. Together, these data show that the targeted loss of Kmt2d in the T-cell lineage recapitulates several distinct features of Kabuki syndrome-associated immune deficiency and implicates epigenetic mechanisms in the regulation of integrin signaling.


Subject(s)
Gene Expression Regulation , Histone-Lysine N-Methyltransferase , Integrins , Myeloid-Lymphoid Leukemia Protein , T-Lymphocytes , Animals , Humans , Mice , Abnormalities, Multiple , DNA-Binding Proteins/genetics , DNA-Binding Proteins/metabolism , Face/abnormalities , Gene Expression Regulation/genetics , Hematologic Diseases , Histone-Lysine N-Methyltransferase/genetics , Histone-Lysine N-Methyltransferase/metabolism , Integrins/metabolism , Integrins/genetics , Lymphocyte Activation/genetics , Mice, Inbred C57BL , Mice, Knockout , Neoplasm Proteins/genetics , Neoplasm Proteins/immunology , Neoplasm Proteins/metabolism , Signal Transduction , T-Lymphocytes/immunology , T-Lymphocytes/metabolism , Vestibular Diseases/genetics , Vestibular Diseases/immunology , Vestibular Diseases/metabolism
9.
Zhonghua Yi Xue Yi Chuan Xue Za Zhi ; 41(6): 758-760, 2024 Jun 10.
Article in Chinese | MEDLINE | ID: mdl-38818565

ABSTRACT

Char syndrome is a rare autosomal dominant genetic disorder characterized by patent ductus arteriosus, facial dysmorphism, and dysplasia of fingers/toes. It may also be associated with multiple papillae, dental dysplasia, and sleep disorders. TFAP2B has proven to be a pathogenic gene for neural crest derivation and development, and several variants of this gene have been identified. Bone morphogenetic protein signaling plays an important role in embryonic development by participating in limb growth and patterning, and regulation of neural crest cell development. TFAP2B is an upstream regulatory gene for bone morphogenetic proteins 2 and 4. Variants of the TFAP2B gene may lead to abnormal proliferation of neural crest cells by affecting the expression of bone morphogenetic proteins, resulting in multiple organ dysplasia syndrome. In addition, TFAP2B variants may only lead to patent ductus arteriosus instead of typical Char syndrome.


Subject(s)
Ductus Arteriosus, Patent , Humans , Ductus Arteriosus, Patent/genetics , Transcription Factor AP-2/genetics , Abnormalities, Multiple/genetics , Bone Morphogenetic Proteins/genetics , Bone Morphogenetic Proteins/metabolism , Neural Crest/metabolism , Neural Crest/embryology , Face/abnormalities , Fingers/abnormalities
10.
Eur J Med Genet ; 69: 104948, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38735569

ABSTRACT

Anorectal malformations (ARMs) represent a wide spectrum of congenital anomalies of the anus and rectum, of which more than half are syndromic. Their etiology is highly heterogeneous and still poorly understood. We report a 4-year-old girl who initially presented with an isolated ARM, and subsequently developed a global developmental delay as part of an ARID1B-related Coffin-Siris syndrome (CSS). A co-occurrence of ARMs and CSS in an individual by chance is unexpected since both diseases are very rare. A review of the literature enabled us to identify 10 other individuals with both CSS and ARMs. Among the ten individuals reported in this study, 8 had a variant in ARID1A, 2 in ARID1B, and 1 in SMARCA4. This more frequent than expected association between CSS and ARM indicates that some ARMs are most likely part of the CSS spectrum, especially for ARID1A-related CSS.


Subject(s)
Abnormalities, Multiple , Anorectal Malformations , DNA-Binding Proteins , Face , Hand Deformities, Congenital , Intellectual Disability , Micrognathism , Neck , Transcription Factors , Humans , Female , Micrognathism/genetics , Micrognathism/pathology , Child, Preschool , Intellectual Disability/genetics , Intellectual Disability/pathology , Transcription Factors/genetics , Neck/abnormalities , Neck/pathology , Hand Deformities, Congenital/genetics , Hand Deformities, Congenital/pathology , Abnormalities, Multiple/genetics , Abnormalities, Multiple/pathology , DNA-Binding Proteins/genetics , Anorectal Malformations/genetics , Face/abnormalities , Face/pathology , DNA Helicases/genetics , Nuclear Proteins/genetics , Anal Canal/abnormalities , Anal Canal/pathology , Phenotype
11.
EBioMedicine ; 104: 105156, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38768529

ABSTRACT

BACKGROUND: Kabuki syndrome (KS) is a genetic disorder caused by DNA mutations in KMT2D, a lysine methyltransferase that methylates histones and other proteins, and therefore modifies chromatin structure and subsequent gene expression. Ketones, derived from the ketogenic diet, are histone deacetylase inhibitors that can 'open' chromatin and encourage gene expression. Preclinical studies have shown that the ketogenic diet rescues hippocampal memory neurogenesis in mice with KS via the epigenetic effects of ketones. METHODS: Single-cell RNA sequencing and mass spectrometry-based proteomics were used to explore molecular mechanisms of disease in individuals with KS (n = 4) versus controls (n = 4). FINDINGS: Pathway enrichment analysis indicated that loss of function mutations in KMT2D are associated with ribosomal protein dysregulation at an RNA and protein level in individuals with KS (FDR <0.05). Cellular proteomics also identified immune dysregulation and increased abundance of other lysine modification and histone binding proteins, representing a potential compensatory mechanism. A 12-year-old boy with KS, suffering from recurrent episodes of cognitive decline, exhibited improved cognitive function and neuropsychological assessment performance after 12 months on the ketogenic diet, with concomitant improvement in transcriptomic ribosomal protein dysregulation. INTERPRETATION: Our data reveals that lysine methyltransferase deficiency is associated with ribosomal protein dysfunction, with secondary immune dysregulation. Diet and the production of bioactive molecules such as ketone bodies serve as a significant environmental factor that can induce epigenetic changes and improve clinical outcomes. Integrating transcriptomic, proteomic, and clinical data can define mechanisms of disease and treatment effects in individuals with neurodevelopmental disorders. FUNDING: This study was supported by the Dale NHMRC Investigator Grant (APP1193648) (R.D), Petre Foundation (R.D), and The Sydney Children's Hospital Foundation/Kids Research Early and Mid-Career Researcher Grant (E.T).


Subject(s)
DNA-Binding Proteins , Diet, Ketogenic , Face , Hematologic Diseases , Proteomics , Ribosomal Proteins , Vestibular Diseases , Vestibular Diseases/genetics , Vestibular Diseases/metabolism , Vestibular Diseases/diet therapy , Humans , Face/abnormalities , Male , Hematologic Diseases/metabolism , Hematologic Diseases/genetics , Hematologic Diseases/etiology , Hematologic Diseases/diet therapy , DNA-Binding Proteins/genetics , DNA-Binding Proteins/metabolism , Ribosomal Proteins/genetics , Ribosomal Proteins/metabolism , Child , Proteomics/methods , Female , Neoplasm Proteins/genetics , Neoplasm Proteins/metabolism , Gene Expression Regulation , Mutation , Transcriptome , Abnormalities, Multiple
12.
Genome Res ; 34(5): 696-710, 2024 06 25.
Article in English | MEDLINE | ID: mdl-38702196

ABSTRACT

Many Mendelian developmental disorders caused by coding variants in epigenetic regulators have now been discovered. Epigenetic regulators are broadly expressed, and each of these disorders typically shows phenotypic manifestations from many different organ systems. An open question is whether the chromatin disruption-the root of the pathogenesis-is similar in the different disease-relevant cell types. This is possible in principle, because all these cell types are subject to effects from the same causative gene, which has the same kind of function (e.g., methylates histones) and is disrupted by the same germline variant. We focus on mouse models for Kabuki syndrome types 1 and 2 and find that the chromatin accessibility changes in neurons are mostly distinct from changes in B or T cells. This is not because the neuronal accessibility changes occur at regulatory elements that are only active in neurons. Neurons, but not B or T cells, show preferential chromatin disruption at CpG islands and at regulatory elements linked to aging. A sensitive analysis reveals that regulatory elements disrupted in B/T cells do show chromatin accessibility changes in neurons, but these are very subtle and of uncertain functional significance. Finally, we are able to identify a small set of regulatory elements disrupted in all three cell types. Our findings reveal the cellular-context-specific effect of variants in epigenetic regulators and suggest that blood-derived episignatures, although useful diagnostically, may not be well suited for understanding the mechanistic basis of neurodevelopment in Mendelian disorders of the epigenetic machinery.


Subject(s)
Abnormalities, Multiple , Aging , Chromatin , CpG Islands , Face , Hematologic Diseases , Neurons , Vestibular Diseases , Animals , Hematologic Diseases/genetics , Hematologic Diseases/metabolism , Mice , Face/abnormalities , Chromatin/metabolism , Chromatin/genetics , Vestibular Diseases/genetics , Neurons/metabolism , Aging/genetics , Abnormalities, Multiple/genetics , Disease Models, Animal , Epigenesis, Genetic , T-Lymphocytes/metabolism , B-Lymphocytes/metabolism
13.
Eur J Med Genet ; 69: 104945, 2024 Jun.
Article in English | MEDLINE | ID: mdl-38697389

ABSTRACT

To date 11 patients with Coffin-Siris syndrome type 7 (OMIM 618027) have been described since the first literature report. All reported patients carried de novo variants with presumed dominant negative effect, which localized in the PHD1/PHD2 domains of DPF2. Here we report on the first familial case of Coffin-Siris syndrome type 7. The index patient presented during the 1st year of life with failure to thrive and ectodermal anomalies. The genetic analysis using whole exome sequencing showed a likely pathogenic missense variant in the PHD1 region. The family analysis showed that the mother as well as the older brother of the index patient also carried the detected DPF2 variant in heterozygous state. The mother had a history of school difficulties but no history of failure to thrive and was overall mildly affected. The brother showed developmental delay with autistic features, ectodermal anomalies and overlapping morphologic features but did not have a history of growth failure problems. To our knowledge this is the first report of an inherited likely pathogenic variant in DPF2, underlining the variability of the associated phenotype as well as the importance of considering inherited DPF2 variants during the variant filtering strategy of whole exome data.


Subject(s)
Abnormalities, Multiple , Face , Hand Deformities, Congenital , Intellectual Disability , Micrognathism , Neck , Pedigree , Transcription Factors , Adult , Female , Humans , Infant , Male , Abnormalities, Multiple/genetics , Abnormalities, Multiple/pathology , DNA-Binding Proteins/genetics , Face/abnormalities , Face/pathology , Hand Deformities, Congenital/genetics , Hand Deformities, Congenital/pathology , Intellectual Disability/genetics , Intellectual Disability/pathology , Micrognathism/genetics , Micrognathism/pathology , Mutation, Missense , Neck/abnormalities , Neck/pathology , Phenotype , Transcription Factors/genetics
14.
BMC Med Genomics ; 17(1): 142, 2024 May 24.
Article in English | MEDLINE | ID: mdl-38790056

ABSTRACT

Coffin-Siris syndrome (CSS) is a rare autosomal dominant inheritance disorder characterized by distinctive facial features, hypoplasia of the distal phalanx or nail of the fifth and additional digits, developmental or cognitive delay of varying degree, hypotonia, hirsutism/hypertrichosis, sparse scalp hair and varying kind of congenital anomalies. CSS can easily be misdiagnosed as other syndromes or disorders with a similar clinical picture because of their genetic and phenotypic heterogeneity. We describde the genotype-phenotype correlation of one patient from a healthy Chinese family with a novel genotype underlying CSS, who was first diagnosed in the ophthalmology department as early-onset high myopia (eoHM). Comprehensive ophthalmic tests as well as other systemic examinations were performed on participants to confirm the phenotype. The genotype was identified using whole exome sequencing, and further verified the results among other family members by Sanger sequencing. Real-time quantitative PCR (RT-qPCR) technology was used to detect the relative mRNA expression levels of candidate genes between proband and normal family members. The pathogenicity of the identified variant was determined by The American College of Medical Genetics and Genomics (ACMG) guidelines. STRING protein-protein interactions (PPIs) network analysis was used to detect the interaction of candidate gene-related proteins with high myopia gene-related proteins. The patient had excessive eoHM, cone-rod dystrophy, coarse face, excessive hair growth on the face, sparse scalp hair, developmental delay, intellectual disability, moderate hearing loss, dental hypoplasia, patent foramen ovale, chronic non-atrophic gastritis, bilateral renal cysts, cisterna magna, and emotional outbursts with aggression. The genetic assessment revealed that the patient carries a de novo heterozygous frameshift insertion variant in the ARID1B c.3981dup (p.Glu1328ArgfsTer5), which are strongly associated with the typical clinical features of CSS patients. The test results of RT-qPCR showed that mRNA expression of the ARID1B gene in the proband was approximately 30% lower than that of the normal control in the family, suggesting that the variant had an impact on the gene function at the level of mRNA expression. The variant was pathogenic as assessed by ACMG guidelines. Analysis of protein interactions in the STRING online database revealed that the ARID1A protein interacts with the high myopia gene-related proteins FGFR3, ASXL1, ERBB3, and SOX4, whereas the ARID1A protein antagonizes the ARID1B protein. Therefore, in this paper, we are the first to report a de novo heterozygous frameshift insertion variant in the ARID1B gene causing CSS with excessive eoHM. Our study extends the genotypic and phenotypic spectrums for ARID1B-CSS and supplies evidence of significant association of eoHM with variant in ARID1B gene. As CSS has high genetic and phenotypic heterogeneity, our findings highlight the importance of molecular genetic testing and an interdisciplinary clinical diagnostic workup to avoid misdiagnosis as some disorders with similar manifestations of CSS.


Subject(s)
DNA-Binding Proteins , Face , Hand Deformities, Congenital , Intellectual Disability , Micrognathism , Myopia , Neck , Pedigree , Transcription Factors , Humans , Intellectual Disability/genetics , Transcription Factors/genetics , Face/abnormalities , Male , Micrognathism/genetics , Female , Hand Deformities, Congenital/genetics , Myopia/genetics , DNA-Binding Proteins/genetics , Neck/abnormalities , Neck/pathology , Abnormalities, Multiple/genetics , Adult , Asian People/genetics , Genetic Association Studies , China , Phenotype , Exome Sequencing , Mutation , East Asian People
16.
Clin Oral Investig ; 28(5): 287, 2024 Apr 30.
Article in English | MEDLINE | ID: mdl-38684576

ABSTRACT

OBJECTIVES: Coffin-Siris Syndrome (CSS) is a congenital disorder characterized by delayed growth, dysmorphic facial features, hypoplastic nails and phalanges of the fifth digit, and dental abnormalities. Tooth agenesis has been reported in CSS patients, but the mechanisms regulating this syndromic tooth agenesis remain largely unknown. This study aims to identify the pathogenic mutation of CSS presenting tooth genesis and explore potential regulatory mechanisms. MATERIALS AND METHODS: We utilized whole-exome sequencing to identify variants in a CSS patient, followed by Sanger validation. In silico analysis including conservation analysis, pathogenicity predictions, and 3D structural assessments were carried out. Additionally, single-cell RNA sequencing and fluorescence in situ hybridization (FISH) were applied to explore the spatio-temporal expression of Sox4 expression during murine tooth development. Weighted Gene Co-expression Network Analysis (WGCNA) was employed to examine the functional role of SOX4. RESULTS: A novel de novo SOX4 missense mutation (c.1255C > G, p.Leu419Val) was identified in a Chinese CSS patient exhibiting tooth agenesis. Single-cell RNA sequencing and FISH further verified high expression of Sox4 during murine tooth development, and WGCNA confirmed its central role in tooth development pathways. Enriched functions included cell-substrate junctions, focal adhesion, and RNA splicing. CONCLUSIONS: Our findings link a novel SOX4 mutation to syndromic tooth agenesis in CSS. This is the first report of SOX4 missense mutation causing syndromic tooth agenesis. CLINICAL RELEVANCE: This study not only enhances our understanding of the pathogenic mutation for syndromic tooth agenesis but also provides genetic diagnosis and potential therapeutic insights for syndromic tooth agenesis.


Subject(s)
Anodontia , Exome Sequencing , Face , Intellectual Disability , Micrognathism , Mutation, Missense , Neck , SOXC Transcription Factors , Animals , Female , Humans , Male , Mice , Abnormalities, Multiple/genetics , Anodontia/genetics , Face/abnormalities , Hand Deformities, Congenital/genetics , In Situ Hybridization, Fluorescence , Micrognathism/genetics , Neck/abnormalities , SOXC Transcription Factors/genetics
17.
Zhonghua Yi Xue Yi Chuan Xue Za Zhi ; 41(5): 546-550, 2024 May 10.
Article in Chinese | MEDLINE | ID: mdl-38684298

ABSTRACT

OBJECTIVE: To explore the clinical and genetic characteristics of four children with Kabuki syndrome (KS) due to variants of KMT2D gene. METHODS: Four children with KS diagnosed at the Children's Hospital of Shanxi Province between January 2020 and December 2022 were selected as the study subjects. Whole exome sequencing was carried out for the children and their family members. Candidate variants were verified by Sanger sequencing and pathogenicity analysis. RESULTS: The KS phenotype scores for the four children were 7, 8, 6, and 6, respectively. Child 2 also presented with a rare solitary kidney malformation. Genetic testing revealed that all children had harbored novel de novo variants of the KMT2D gene, including c.16472_16473del, c.858dup, c.11899C>T, and c.12844C>T, respectively. Based on the guidelines from the American College of Medical Genetics and Genomics (ACMG), all of the variants were classified as pathogenic. CONCLUSION: For children showing phenotypes such as distinctive facial features, intellectual disability, developmental delay, cardiac abnormalities, and urinary system anomalies, KS should be considered. Early diagnosis and intervention can be achieved through genetic testing, especially in the presence of KMT2D gene mutations.


Subject(s)
Abnormalities, Multiple , DNA-Binding Proteins , Face/abnormalities , Hematologic Diseases , Neoplasm Proteins , Vestibular Diseases , Humans , Vestibular Diseases/genetics , Hematologic Diseases/genetics , Abnormalities, Multiple/genetics , DNA-Binding Proteins/genetics , Male , Child , Neoplasm Proteins/genetics , Female , Child, Preschool , Mutation , Phenotype , Exome Sequencing , Infant , Genetic Testing
19.
Am J Med Genet A ; 194(8): e63626, 2024 Aug.
Article in English | MEDLINE | ID: mdl-38591849

ABSTRACT

De novo germline variants of the SRY-related HMG-box 11 gene (SOX11) have been reported to cause Coffin-Siris syndrome-9 (CSS-9), a rare congenital disorder associated with multiple organ malformations, including ear anomalies. Previous clinical and animal studies have found that intragenic pathogenic variant or haploinsufficiency in the SOX11 gene could cause inner ear malformation, but no studies to date have documented the external ear malformation caused by SOX11 deficiency. Here, we reported a Chinese male with unilateral microtia and bilateral sensorineural deafness who showed CSS-like manifestations, including dysmorphic facial features, impaired neurodevelopment, and fingers/toes malformations. Using trio-based whole-exome sequencing, a de novo missense variant in SOX11 (NM_003108.4: c.347A>G, p.Y116C) was identified and classified as pathogenic variant as per American College of Medical Genetics guidelines. Moreover, a systematic search of the literature yielded 12 publications that provided data of 55 SOX11 intragenic variants affecting various protein-coding regions of SOX11 protein. By quantitatively analyzing phenotypic spectrum information related to these 56 SOX11 variants (including our case), we found variants affecting different regions of SOX11 protein (high-mobility group [HMG] domain and non-HMG regions) appear to influence the phenotypic spectrum of organ malformations in CSS-9; variants altering the HMG domain were more likely to cause the widest range of organ anomalies. In summary, this is the first report of CSS with external ear malformation caused by pathogenic variant in SOX11, indicating that the SOX11 gene may be not only essential for the development of the inner ear but also critical for the morphogenesis of the external ear. In addition, thorough clinical examination is recommended for patients who carry pathogenic SOX11 variants that affect the HMG domain, as these variants may cause the widest range of organ anomalies underlying this condition.


Subject(s)
Abnormalities, Multiple , Hand Deformities, Congenital , Intellectual Disability , Micrognathism , SOXC Transcription Factors , Humans , Male , Abnormalities, Multiple/genetics , Abnormalities, Multiple/pathology , Ear, External/abnormalities , Ear, External/pathology , Exome Sequencing , Face/abnormalities , Face/pathology , Hand Deformities, Congenital/genetics , Hand Deformities, Congenital/pathology , Intellectual Disability/genetics , Intellectual Disability/pathology , Micrognathism/genetics , Micrognathism/pathology , Micrognathism/diagnosis , Mutation, Missense/genetics , Neck/abnormalities , Neck/pathology , Phenotype , SOXC Transcription Factors/genetics
20.
J Clin Immunol ; 44(5): 105, 2024 Apr 27.
Article in English | MEDLINE | ID: mdl-38676773

ABSTRACT

Kabuki Syndrome (KS) is a multisystemic genetic disorder. A portion of patients has immunological manifestations characterized by increased susceptibility to infections and autoimmunity. Aiming to describe the clinical and laboratory immunological aspects of KS, we conducted a retrospective multicenter observational study on patients with KS treated in centers affiliated to the Italian Primary Immunodeficiency Network.Thirty-nine patients were enrolled, with a median age at evaluation of 10 years (range: 3 m-21y). All individuals had organ malformations of variable severity. Congenital heart defect (CHD) was present in 19/39 patients (49%) and required surgical correction in 9/39 (23%), with associated thymectomy in 7/39 (18%). Autoimmune cytopenia occurred in 6/39 patients (15%) and was significantly correlated with thymectomy (p < 0.002), but not CHD. Individuals with cytopenia treated with mycophenolate as long-term immunomodulatory treatment (n = 4) showed complete response. Increased susceptibility to infections was observed in 22/32 patients (69%). IgG, IgA, and IgM were low in 13/29 (45%), 13/30 (43%) and 4/29 (14%) patients, respectively. Immunoglobulin substitution was required in three patients. Lymphocyte subsets were normal in all patients except for reduced naïve T-cells in 3/15 patients (20%) and reduced memory switched B-cells in 3/17 patients (18%). Elevated CD3 + TCRαß + CD4-CD8-T-cells were present in 5/17 individuals (23%) and were correlated with hematological and overall autoimmunity (p < 0.05).In conclusion, immunological manifestations of KS in our cohort include susceptibility to infections, antibody deficiency, and autoimmunity. Autoimmune cytopenia is correlated with thymectomy and elevated CD3 + TCRαß + CD4-CD8-T-cells, and benefits from treatment with mycophenolate.


Subject(s)
Abnormalities, Multiple , Face/abnormalities , Hematologic Diseases , Vestibular Diseases , Humans , Female , Retrospective Studies , Male , Child , Hematologic Diseases/immunology , Hematologic Diseases/therapy , Adolescent , Italy , Vestibular Diseases/immunology , Child, Preschool , Young Adult , Abnormalities, Multiple/immunology , Infant , Autoimmunity , Adult
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