Next-generation sequencing identifies rare pathogenic and novel candidate variants in a cohort of Chinese patients with syndromic or nonsyndromic hearing loss.

Abstract:

BACKGROUND:Hearing loss (HL) is a common sensory disorder in humans characterized by extreme clinical and genetic heterogeneity. In recent years, next-generation sequencing (NGS) technologies have proven to be highly effective and powerful tools for population genetic studies of HL. Here, we analyzed clinical and molecular data from 21 Chinese deaf families who did not have hotspot mutations in the common deafness genes GJB2, SLC26A4, GJB3, and MT-RNR1. METHOD:Targeted next-generation sequencing (TGS) of 127 known deafness genes was performed in probands of 12 families, while whole-exome sequencing (WES) or trio-WES was used for the remaining nine families. RESULTS:Potential pathogenic mutations in a total of 12 deafness genes were identified in 13 probands; the mutations were observed in GJB2, CDH23, EDNRB, MYO15A, OTOA, OTOF, TBC1D24, SALL1, TMC1, TWNK, USH1C, and USH1G, with eight of the identified mutations being novel. Further, a copy number variant (CNV) was detected in one proband with heterozygous deletion of chromosome 4p16.3-4p15.32. Thus, the total diagnostic rate using NGS in our deafness patients reached 66.67% (14/21). CONCLUSIONS:These results expand the mutation spectrum of deafness-causing genes and provide support for the use of NGS detection technologies for routine molecular diagnosis in Chinese deaf populations.

journal_name

Mol Genet Genomic Med

authors

Xiang YB,Xu CY,Xu YZ,Li HZ,Zhou LL,Xu XQ,Chen ZH,Tang SH

doi

10.1002/mgg3.1539

subject

Has Abstract

pub_date

2020-12-01 00:00:00

pages

e1539

issue

12

issn

2324-9269

journal_volume

8

pub_type

杂志文章
  • Behavioral abnormalities are common and severe in patients with distal 22q11.2 microdeletions and microduplications.

    abstract::We describe six individuals with microdeletions and microduplications in the distal 22q11.2 region detected by microarray. Five of the abnormalities have breakpoints in the low-copy repeats (LCR) in this region and one patient has an atypical rearrangement. Two of the six patients with abnormalities in the region betw...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.146

    authors: Lindgren V,McRae A,Dineen R,Saulsberry A,Hoganson G,Schrift M

    更新日期:2015-07-01 00:00:00

  • TSLP and TSLP receptors variants are associated with smoking.

    abstract:BACKGROUND:To search for new prevention markers for early detection of the diseases caused by tobacco, we aimed to investigate the polymorphisms in TSLP and TSLPRs associated with cigarette smoking in the Saudi population. MATERIALS AND METHODS:Samples were collected from 177 smokers and 126 healthy controls. Three TS...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.842

    authors: Semlali A,Almutairi M,Azzi A,Reddy Parine N,AlAmri A,Alsulami S,Meshal Alumri T,Saud Alanazi M,Rouabhia M

    更新日期:2019-08-01 00:00:00

  • Missed diagnoses: Clinically relevant lessons learned through medical mysteries solved by the Undiagnosed Diseases Network.

    abstract:BACKGROUND:Resources within the Undiagnosed Diseases Network (UDN), such as genome sequencing (GS) and model organisms aid in diagnosis and identification of new disease genes, but are currently difficult to access by clinical providers. While these resources do contribute to diagnoses in many cases, they are not alway...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1397

    authors: Cope H,Spillmann R,Rosenfeld JA,Brokamp E,Signer R,Schoch K,Kelley EG,Sullivan JA,Macnamara E,Lincoln S,Golden-Grant K,Undiagnosed Diseases Network.,Orengo JP,Clark G,Burrage LC,Posey JE,Punetha J,Robertson A,Cogan J

    更新日期:2020-10-01 00:00:00

  • Genetics and genomics in Peru: Clinical and research perspective.

    abstract::Peruvians currently preserve in their DNA the history of 2.5 million years of human evolution and 150,000 years of migration from Africa to Peru or the Americas. The development of Genetics and Genomics in the clinical and academic field is shown in this review. ...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章,评审

    doi:10.1002/mgg3.533

    authors: Guio H,Poterico JA,Levano KS,Cornejo-Olivas M,Mazzetti P,Manassero-Morales G,Ugarte-Gil MF,Acevedo-Vásquez E,Dueñas-Roque M,Piscoya A,Fujita R,Sanchez C,Casavilca-Zambrano S,Jaramillo-Valverde L,Sullcahuaman-Allende Y,Igles

    更新日期:2018-11-01 00:00:00

  • A de novo variant in the X-linked gene CNKSR2 is associated with seizures and mild intellectual disability in a female patient.

    abstract:BACKGROUND:Eight different deletions and point variants of the X-chromosomal gene CNKSR2 have been reported in families with males presenting intellectual disability (ID) and epilepsy. Obligate carrier females with a frameshift variant in the N-terminal protein coding part of CNKSR2 or with a deletion of the complete g...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.861

    authors: Polla DL,Saunders HR,de Vries BBA,van Bokhoven H,de Brouwer APM

    更新日期:2019-10-01 00:00:00

  • Diagnostic accuracy of midkine for hepatocellular carcinoma: A meta-analysis.

    abstract:BACKGROUND:There have been many reports on midkine as a promising marker in the diagnosis of hepatocellular carcinoma (HCC). However, the results are inconsistent and even conflicting. METHODS:This meta-analysis was performed to investigate the accuracy of midkine in the diagnosis of HCC. Meta-DiSc 1.4 software was us...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章,评审

    doi:10.1002/mgg3.1071

    authors: Zhang Y,Tang J,Zhou X,Zhu SL,Li LQ

    更新日期:2020-02-01 00:00:00

  • The phenotype-driven computational analysis yields clinical diagnosis for patients with atypical manifestations of known intellectual disability syndromes.

    abstract:BACKGROUND:Due to extensive clinical and genetic heterogeneity of intellectual disability (ID) syndromes, the process of diagnosis is very challenging even for expert clinicians. Despite recent advancements in molecular diagnostics methodologies, a significant fraction of ID patients remains without a clinical diagnosi...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1263

    authors: Jezela-Stanek A,Ciara E,Jurkiewicz D,Kucharczyk M,Jędrzejowska M,Chrzanowska KH,Krajewska-Walasek M,Żemojtel T

    更新日期:2020-09-01 00:00:00

  • Genetics and genetic counseling in psychiatry: Results from an opinion survey of professionals and users.

    abstract:BACKGROUND:The heritability of several psychiatric disorders is high, and specific at-risk variants have been identified. Therefore, genetic counseling and genetic testing can be prescribed to some psychiatric patients, but these services are not standardized for most of the population. The aims of the study were to ga...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.830

    authors: Martorell L,Sanfeliu A,Blázquez A,Lojo E,Cortés MJ,de Pablo J,Vilella E

    更新日期:2019-08-01 00:00:00

  • Defective INPP5E distribution in NPHP1-related Senior-Loken syndrome.

    abstract:BACKGROUND:Senior-Loken syndrome is a rare genetic disorder that presents with nephronophthisis and retinal degeneration, leading to end-stage renal disease and progressive blindness. The most frequent cause of juvenile nephronophthisis is a mutation in the nephronophthisis type 1 (NPHP1) gene. NPHP1 encodes the protei...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1566

    authors: Ning K,Song E,Sendayen BE,Prosseda PP,Chang KC,Ghaffarieh A,Alvarado JA,Wang B,Haider KM,Berbari NF,Hu Y,Sun Y

    更新日期:2020-12-11 00:00:00

  • Whole exome sequencing reveals novel CEP104 mutations in a Chinese patient with Joubert syndrome.

    abstract:BACKGROUND:Joubert syndrome (JS, OMIM: 213300) is a recessive developmental disorder characterized by cerebellar vermis hypoplasia and a distinctive mid-hindbrain malformation called the "molar tooth sign" on axial magnetic resonance imaging. To date, more than 35 ciliary genes have been identified as the causative gen...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1004

    authors: Luo M,Cao L,Cao Z,Ma S,Shen Y,Yang D,Lu C,Lin Z,Liu Z,Yu Y,Cai R,Chen C,Gao H,Wang X,Cao M,Ma X

    更新日期:2019-12-01 00:00:00

  • A novel molecular diagnostics platform for somatic and germline precision oncology.

    abstract:BACKGROUND:Next-generation sequencing (NGS) opens new options in clinical oncology, from therapy selection to genetic counseling. However, realization of this potential not only requires succeeding in the bioinformatics and interpretation of the results, but also in their integration into the clinical practice. We have...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.291

    authors: Cabanillas R,Diñeiro M,Castillo D,Pruneda PC,Penas C,Cifuentes GA,de Vicente Á,Durán NS,Álvarez R,Ordóñez GR,Cadiñanos J

    更新日期:2017-04-23 00:00:00

  • Prevalence of ABCC3-1767G/A polymorphism among patients with antiretroviral-associated hepatotoxicity.

    abstract:BACKGROUND:Plasma concentrations of antiretrovirals (ARVs) regimens have considerably varied in individuals of human immunodeficiency virus (HIV) because of variations in the expression of drug-metabolizing and transporter genes. Transporter genes play an important role in the disposition of drugs. Polymorphism in tran...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1124

    authors: Singh H,Lata S,Choudhari R,Dhole TN

    更新日期:2020-06-01 00:00:00

  • The +3187A/G HLA-G polymorphic site is associated with polar forms and reactive reaction in leprosy.

    abstract::Considering that variability in immune response genes has been associated with susceptibility to leprosy and with disease severity, leprosy presents clinicopathological variants that are highly associated with the immune response, HLA-G has a well-recognized role in the modulation of the immune response, and polymorph...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.14

    authors: Lucena-Silva N,Teixeira MA,Ramos Ade L,de Albuquerque RS,Diniz GT,Mendes-Junior CT,Castelli EC,Donadi EA

    更新日期:2013-09-01 00:00:00

  • The role of FOXO3 polymorphisms in susceptibility to tuberculosis in a Chinese population.

    abstract:BACKGROUND:Tuberculosis (TB) is a significant worldwide health problem, and is caused by Mycobacteria tuberculosis. Recent studies have suggested that FOXO3 plays vital roles in the risk of immune-related infectious diseases such as TB. METHODS AND RESULTS:The present study aimed to evaluate FOXO3 genetic variants and...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.770

    authors: Wang B,Wang Y,Wang L,He X,He Y,Bai M,Zhu L,Zheng J,Yuan D,Jin T

    更新日期:2019-08-01 00:00:00

  • BRPF1-associated intellectual disability, ptosis, and facial dysmorphism in a multiplex family.

    abstract:BACKGROUND:Over 500 epigenetic regulators have been identified throughout the human genome. Of these, approximately 30 chromatin modifiers have been implicated thus far in human disease. Recently, variants in BRPF1, encoding a chromatin reader, have been associated with a previously unrecognized autosomal dominant synd...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.665

    authors: Pode-Shakked N,Barel O,Pode-Shakked B,Eliyahu A,Singer A,Nayshool O,Kol N,Raas-Rothschild A,Pras E,Shohat M

    更新日期:2019-06-01 00:00:00

  • Variability in pathogenicity prediction programs: impact on clinical diagnostics.

    abstract::Current practice by clinical diagnostic laboratories is to utilize online prediction programs to help determine the significance of novel variants in a given gene sequence. However, these programs vary widely in their methods and ability to correctly predict the pathogenicity of a given sequence change. The performanc...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.116

    authors: Walters-Sen LC,Hashimoto S,Thrush DL,Reshmi S,Gastier-Foster JM,Astbury C,Pyatt RE

    更新日期:2015-03-01 00:00:00

  • Endocrine profiling in patients with Fanconi anemia, homozygous for a FANCG founder mutation.

    abstract:BACKGROUND:Fanconi anemia (FA) is phenotypically diverse, hereditary condition associated with bone marrow failure, multiple physical abnormalities, and an increased susceptibility to the development of malignancies. Less recognized manifestations of FA include endocrine abnormalities. International discourse has highl...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1351

    authors: Dillon B,Feben C,Segal D,du Plessis J,Reynders D,Wainwright R,Poole J,Krause A

    更新日期:2020-08-01 00:00:00

  • Novel variants of CYP21A2 in Vietnamese patients with congenital adrenal hyperplasia.

    abstract:BACKGROUND:Congenital adrenal hyperplasia (CAH) (OMIM #201910) is a complex disease most often caused by pathogenic variant of the CYP21A2 gene. We have designed an efficient multistep approach to diagnose and classify CAH cases due to CYP21A2 variant and to study the genotype-phenotype relationship. METHODS:A large c...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.623

    authors: Chi DV,Tran TH,Nguyen DH,Luong LH,Le PT,Ta MH,Ngo HTT,Nguyen MP,Le-Anh TP,Nguyen DP,Bui TH,Ta VT,Tran VK

    更新日期:2019-05-01 00:00:00

  • A de novo heterozygous variant in the SON gene is associated with Zhu-Tokita-Takenouchi-Kim syndrome.

    abstract:BACKGROUND:Zhu-Tokita-Takenouchi-Kim (ZTTK, OMIM# 617140) syndrome is a rare, autosomal dominant genetic disorder caused by heterozygous variants in the SON gene (OMIM#182465, GenBank#NC_000021.9). There are only 33 cases and 26 causative SON variants reported to date since the first report in 2015. Here, we report a n...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1496

    authors: Yang L,Yang F

    更新日期:2020-11-01 00:00:00

  • A comprehensive assessment of Next-Generation Sequencing variants validation using a secondary technology.

    abstract:BACKGROUND:Recently, increasing innovations improved the accuracy of next generation sequencing (NGS) data. However, the validation of all NGS variants increased the cost and turn-around time of clinical diagnosis, and therefore limited the further development of clinical applications. We aimed to comprehensively asses...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.748

    authors: Zheng J,Zhang H,Banerjee S,Li Y,Zhou J,Yang Q,Tan X,Han P,Fu Q,Cui X,Yuan Y,Zhang M,Shen R,Song H,Zhang X,Zhao L,Peng Z,Wang W,Yin Y

    更新日期:2019-07-01 00:00:00

  • The Enamel Phenotype in Homozygous Fam83h Truncation Mice.

    abstract:BACKGROUND:Truncation FAM83H mutations cause human autosomal dominant hypocalcified amelogenesis imperfecta (ADHCAI), an inherited disorder characterized by severe hardness defects in dental enamel. No enamel defects were observed in Fam83h null mice suggesting that Fam83h truncation mice would better replicate human m...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.724

    authors: Wang SK,Hu Y,Smith CE,Yang J,Zeng C,Kim JW,Hu JC,Simmer JP

    更新日期:2019-06-01 00:00:00

  • A comparison of genomic laboratory reports and observations that may enhance their clinical utility for providers and patients.

    abstract:PURPOSE:To assess clinical chromosomal microarray (CMA) genomic testing reports for the following: (a) usage of reporting elements consistent with 2011 ACMG guidelines and other elements identified in the primary literature, (b) information quality, and (c) readability. METHODS:We retrospectively analyzed genomic test...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.551

    authors: Davis KW,Hamby Erby L,Fiallos K,Martin M,Wassman ER

    更新日期:2019-07-01 00:00:00

  • Forensic characteristics and phylogenetic analyses of one branch of Tai-Kadai language-speaking Hainan Hlai (Ha Hlai) via 23 autosomal STRs included in the Huaxia™ Platinum System.

    abstract:BACKGROUND:Hainan Island, located in the South China Sea and separated from the Leizhou Peninsula by Qiongzhou Strait, is the second largest island after Taiwan in China. With the expansion of Han Chinese and the gradual formation of "South Hlai and North Han", nowadays, Hainan Hlai is the second largest population aft...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1462

    authors: Li W,Wang X,Wang X,Wang F,Du Z,Fu F,Wu W,Wang S,Mu Z,Chen C,Hu X,Ding J,Meng Y,Qiu P,Fan H

    更新日期:2020-10-01 00:00:00

  • Screening of known disease genes in congenital scoliosis.

    abstract:BACKGROUND:Congenital scoliosis (CS) is defined as a lateral curvature of the spine due to the vertebral malformations and has an incidence of 0.5-1/1,000 births. We previously examined TBX6 in Japanese CS patients and revealed that approximately 10% of CS was caused by TBX6 mutations. However, the genetic cause of rem...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.466

    authors: Takeda K,Kou I,Mizumoto S,Yamada S,Kawakami N,Nakajima M,Otomo N,Ogura Y,Miyake N,Matsumoto N,Kotani T,Sudo H,Yonezawa I,Uno K,Taneichi H,Watanabe K,Shigematsu H,Sugawara R,Taniguchi Y,Minami S,Nakamura M,Matsum

    更新日期:2018-11-01 00:00:00

  • Atypical nested 22q11.2 duplications between LCR22B and LCR22D are associated with neurodevelopmental phenotypes including autism spectrum disorder with incomplete penetrance.

    abstract:BACKGROUND:Chromosome 22q11.2 is susceptible to genomic rearrangements and the most frequently reported involve deletions and duplications between low copy repeats LCR22A to LCR22D. Atypical nested deletions and duplications are rarer and can provide a valuable opportunity to investigate the dosage effects of a smaller...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.507

    authors: Woodward KJ,Stampalia J,Vanyai H,Rijhumal H,Potts K,Taylor F,Peverall J,Grumball T,Sivamoorthy S,Alinejad-Rokny H,Wray J,Whitehouse A,Nagarajan L,Scurlock J,Afchani S,Edwards M,Murch A,Beilby J,Baynam G,Kiraly-Borri

    更新日期:2019-02-01 00:00:00

  • Whole exome sequencing identifies multiple novel candidate genes in familial gastroschisis.

    abstract:BACKGROUND:Genetic association studies for gastroschisis have highlighted several candidate variants. However, genetic basis in gastroschisis from noninvestigated heritable factors could provide new insights into the human biology for this birth defect. We aim to identify novel gastroschisis susceptibility variants by ...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1176

    authors: Salinas-Torres VM,Gallardo-Blanco HL,Salinas-Torres RA,Cerda-Flores RM,Lugo-Trampe JJ,Villarreal-Martínez DZ,Ibarra-Ramírez M,Martínez de Villarreal LE

    更新日期:2020-05-01 00:00:00

  • Rare variant (p.Ser43Asn) of familial transthyretin amyloidosis associated with isolated cardiac phenotype: A case series with literature review.

    abstract:BACKGROUND:p.Ser43Asn is a very rare transthyretin (TTR) mutation leading to familial amyloidosis of transthyretin type, ATTR amyloidosis. It was previously observed in four patients worldwide and is associated almost invariably with an isolated cardiac phenotype. METHODS AND RESULTS:We report here on an Italian famil...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1581

    authors: Papathanasiou M,Carpinteiro A,Kersting D,Jakstaite AM,Hagenacker T,Schlosser TW,Rischpler C,Rassaf T,Luedike P

    更新日期:2020-12-20 00:00:00

  • Medical genetics and genomic medicine in Turkey: a bright future at a new era in life sciences.

    abstract::Medical genetics and genomic medicine in Turkey: a bright future at a new era in life sciences. ...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.326

    authors: Özçelik T

    更新日期:2017-09-03 00:00:00

  • MYH2 myopathy, a new case expands the clinical and pathological spectrum of the recessive form.

    abstract:BACKGROUND:Hereditary myosin myopathies are a group of rare muscle disorders, caused by mutations in genes encoding for skeletal myosin heavy chains (MyHCs). MyHCIIa is encoded by MYH2 and is expressed in fast type 2A and 2B muscle fibers. MYH2 mutations are responsible for an autosomal dominant (AD) progressive myopat...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.1320

    authors: Telese R,Pagliarani S,Lerario A,Ciscato P,Fagiolari G,Cassandrini D,Grimoldi N,Conte G,Cinnante C,Santorelli FM,Comi GP,Sciacco M,Peverelli L

    更新日期:2020-09-01 00:00:00

  • The promising novel biomarkers and candidate small molecule drugs in kidney renal clear cell carcinoma: Evidence from bioinformatics analysis of high-throughput data.

    abstract:BACKGROUND:Kidney renal clear cell carcinoma (KIRC) is the most common subtype of renal tumor. However, the molecular mechanisms of KIRC pathogenesis remain little known. The purpose of our study was to identify potential key genes related to the occurrence and prognosis of KIRC, which could serve as novel diagnostic a...

    journal_title:Molecular genetics & genomic medicine

    pub_type: 杂志文章

    doi:10.1002/mgg3.607

    authors: Zhang B,Wu Q,Wang Z,Xu R,Hu X,Sun Y,Wang Q,Ju F,Ren S,Zhang C,Qin L,Ma Q,Zhou YL

    更新日期:2019-05-01 00:00:00