Exome Sequencing Reveals Mutations in TRPV3 as a Cause of Olmsted Syndrome

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胃癌组织中EBV、ARID1A及PIK3CA的表达及意义

胃癌组织中EBV、ARID1A及PIK3CA的表达及意义

胃癌组织中EBV、ARID1A及PIK3CA的表达及意义李红,谈顺,邢璐,李乾,周欢摘要:目的探讨胃癌组织中EBV、ARID1A和PIK3CA的表达及意义。

方法采用EBER原位杂交法及免疫组化SP法对86例胃癌组织及43例正常胃组织进行EBV、ARID1A和PIK3CA检测。

结果 86例胃癌组织中EBV阳性病例数为10例,阴性76例,阳性率为11.63%,正常胃组织中EBV表达全部阴性,胃癌组织中ARID1A表达下降或缺失(p<0.01),PIK3CA表达增强(p<0.01),两者的表达均与浸润深度有关(p<0.05),与年龄、性别、分化程度、组织学分型及淋巴结转移无关,EBV阳性胃癌组织与阴性组中ARID1A和PIK3CA均呈负相关(r=-0.629,P<0.05;r=-0.403,P<0.01).结论部分胃癌的发生与EBV感染、ARID1A和PIK3CA基因突变相关,可为探寻胃癌个体化治疗靶向药物提供依据。

关键词:胃癌;EBV; ARID1A;PIK3CA基金项目:海南自然科学基金面上项目()作者单位:海口市人民医院病理科570208作者简介:李红,女,主任医师。

Tel:,E-mail:Association between the expression of ARID1A and PIK3CA gene and EBV infection in gastric cancerLi Hong, Tan Shun,,Xing Lu,Li Qian, Zhou HuanAbstract: Objective To investigate the association between EBV infection and the expression of ARID1A and PIK3CA in gastric cancer. Methods 86 cases of primary gastric cancer diagnosed in our hospital from Jan 2015 to Aug 2017 and 43 cases of non-carcinoma tissue were involved in our study. EBV infection was examined by in situ hybridization, and the expression of ARID1A and PIK3CA were using immunohistochemistry SP method. Results 10 cases with EBV infection among 86 gastric cancer cases, the positive rate was 11.63%,while none case was found EBV infection positive among 43 non-carcinoma tissues. In contrast to non-carcinoma tissues the level of ARID1A was decreased in gastric cancer(p<0.01), while the expression of PIK3CA was increased in gastric cancer(p<0.01). The expression of ARID1A and PIK3CA were significantly associated with infiltration, but showed no difference in age, sexuality, differentiation, histological classification and lymphatic metastasis . ARID1A and PIK3CA were negative related among EBV infection positive cases(r=0.629,p<0.05;r=0.403,p<0.01). Conclusion A few gastric cancer cases were related to EBV infection and the mutation of ARID1A, PIK3CA gene. This finding may provide clue for targeted drugs in personal treatment of gastric cancer.Key words: Gastric cancer; EBV; ARID1A; PIK3CA胃癌是世界上常见恶性肿瘤之一,其发病率与死亡率均处于较高水平。

提名人简介

提名人简介

提名人简介仇子龙博士,男,1976年12月出生。

2009年回国后担任中国科学院上海生命科学研究院神经科学研究所研究员至今,主要从事自闭症、瑞特综合征等神经发育疾病的生物学研究,研究成果阐述了神经发育疾病的遗传、分子与神经环路机制,并建立了自闭症的非人灵长类动物模型。

在Nature, Developmental Cell, Molecular Psychiatry, Current Opinion in Neurobiology等国际生物学权威期刊上发表研究论文与应邀综述十余篇,引用逾两千余次。

自闭症的非人灵长类动物模型工作入选科技部2016年“中国科学十大进展”,中国科协2016年“中国生命科学十大进展”。

仇子龙研究员的工作围绕MECP2基因,从非人灵长类动物模型到分子细胞机制,获得了一系列原创性成果,代表性工作包括:1、自闭症相关基因MeCP2调控microRNA核内剪切加工与神经系统发育仇子龙研究员的工作发现MeCP2蛋白直接参与小RNA (microRNA)的核内剪切加工过程,而与其传统的转录调控功能无关。

此工作为自闭症相关蛋白MeCP2的功能研究提供了崭新的角度,进而提出神经发育性疾病的致病机理很可能与大脑中microRNA表达失调密切相关,为DNA甲基化与microRNA两种表观遗传学调控建立联系的同时,也为开展转化医学研究提供了理论依据。

2、自闭症的非人灵长类动物模型仇子龙研究员与神经所非人灵长类转基因平台合作,开展了自闭症的非人灵长类动物模型构建工作。

通过构建携带人类自闭症基因MECP2的转基因猴及对转基因猴进行分子遗传学与行为学分析,历时5年的工作发现MECP2转基因猴表现出类人类自闭症病人的重复运动模式、焦虑水平上升、刻板行为与社交障碍等行为表型。

研究团队还通过精巢异体移植与体外受精等方法,成功的得到了携带人类MECP2基因的第二代转基因猴,且发现其在社交行为方面也表现出了严重障碍。

外显子组测序数据分析流程

外显子组测序数据分析流程

外显子组测序介绍外显子(exon)是真核生物基因的一部分,包含着合成蛋白质所需要的信息。

全部外显子被称为“外显子组”(Exome)。

外显子组测序(Exome sequencing)是指利用序列捕获技术将全基因组外显子区域DNA捕捉并富集后进行高通量测序的基因组分析方法。

由于外显子组测序捕获目标区域只占人类基因组长度的约1%,因此远比进行全基因组序列测序来得更简便、经济,目标区域覆盖度也更高,便于变异检测。

该项技术可用于以下研究1)检测疾病样本中外显子区域内高风险碱基变异位点;2)配合大样本分析,确定孟德尔遗传疾病相关外显子SNP位点和基因;3)在癌症研究过程中,检测癌症样本外显子区域内的体细胞突变位点和潜在的融合基因;4)用于种群遗传学研究的大规模样本基因组分析,检测SNP位点、LD并绘制种群图谱。

我们能提供详尽的全基因组重测序数据的处理和分析服务。

如您没有标准化的数据、只需流程中的局部分析内容或要求特立独行的数据分析思路,我们亦能满足您的要求。

数据处理和分析流程图预期结果示例图示例图1 各类型SNV在样本中的个数统计。

示例图2 不同类型外显子区域上的SNV类型统计。

示例图4 融合基因预测[1]示例图4 大量样本的GWAS分析结果[2]示例图5 肿瘤样本高频率突变基因统计[3]示例图来源文献[1]. Kangaspeska, S., et al., Reanalysis of RNA-sequencing data reveals several additional fusion genes with multiple isoforms. PLoS One, 2012. 7(10): p. e48745.[2]. Craig, J.E., et al., Rapid inexpensive genome-wide association using pooled whole blood. Genome Res, 2009. 19(11): p. 2075-80.[3]. Bea, S., et al., Landscape of somatic mutations and clonal evolution in mantle cell lymphoma. Proc Natl Acad Sci U S A, 2013. 110(45): p. 18250-5.。

全身型幼年特发性关节炎 SJIA

全身型幼年特发性关节炎 SJIA

MAS命名的由来
• 嗜血细胞综合征分类 – 原发性(家族性嗜血细胞综合征) – 继发性
➢ 感染继发的嗜血细胞综合征 ➢ 肿瘤继发的嗜血细胞综合征 ➢ 免疫相关的嗜血细胞综合征-巨噬细胞活化综合征
• 最早1985年在儿童类风湿性关节炎全身型病人当中得名 • 儿童风湿免疫性疾病继发MAS最多见于So-JIA,其次为SLE、川崎病等
• 病程早期即可出现高甘油三酯血症,此外可有低密度脂蛋白增高和高密度 脂蛋白减低
MAS攻击的靶器官孰轻孰重
• MAS的血液系统受累 • MAS的神经系统受累 • MAS的肝脾受累 • MAS的肺部受累:既往鲜少关注
关注SJIA及继发MAS的肺部病变
SJIA及MAS的肺部病变
• 日本木村等人报道25例合并肺部病变的SJIA • 合并肺部病变死亡率68%,且在肺部病变发生1年内 • 临床特征:肺动脉高压,间质性肺病、肺泡蛋白沉积症、类脂性肺炎 • 与无肺部受累者相比,MAS发生率80%,合并肝脾大淋巴结大及杵状指多见 • 接受了更广泛的治疗,包括80%以上的生物制剂治疗 • 92%患者发现肺部受累时伴有活动性全身型疾病 • SJIA-LD被认为是病情“重中之重”
SJIA及MAS的肺部病变
• 2010-2019年,共18例sJIA-LD患者 • 影像学表现:弥漫性毛玻璃样变、胸膜下小叶间隔增厚和淋巴结病变。 • 病理表现包括淋巴浆细胞浸润不全,肺泡蛋白沉积(PAP)和内源性类脂性肺炎(ELP)的混
合特征。 • 与无LD的sJIA患者相比,sJIA-LD患儿发病早,易发生MAS,血清IL-18水平更高,对生物制
MAS攻击的靶器官-中枢神经系统
• 临床:主要表现为抽搐、易激惹、嗜睡、昏迷、活动障碍、颅神经损伤 及智力障碍等

遗传咨询师考试题库终极版

遗传咨询师考试题库终极版

基因变异Somatic cell genetic defects can not be transmitted to the next generation.对According to current researches, Single nucleotide variants (SNV) and Insertion–deletion variants (indels) are easier to be interpreted than other types of variants.对Variants in introns don’t affect the transcription regulation process.错In some genes, there are mutation hotspots which may contribute a lot to the disease pathogenicity.对Non-homologous equal crossover yields fusion genes.错PART II: FILL IN THE BLANKS.6. Human genetic variants can be classified into fivecategories.Apart from Insertion–deletion variants (indels), Block substitutions, and Inversion variants, what are the rest two categories? single nucleotide variants and copy number variants7. Effects of disease-causing mutations on function of gene product include four aspects, which are discribed as follows: loss of function, gain of function, acquisition of novel property, and abnormal expression: heterochronic or ectopic. Among them, the majority of the cause of pathology is loss of functionStrand slippage can be caused by ( ) and results in insertions and deletions. simple sequence repeats9. Splicing processes affected by mutations in introns which happen in the receptor sites or donor sites bring about intron retention, exon skipping and ( ) activation of cryptic splice sites10.( )mutations in exon coding sequences always create truncated proteins which may have a prior tendency to result in abnomal protein function. Nonsense致病基因的识别填空题Alleles of SNPs that are close together tending to be inherited together can be called as (haplotype)Transgenic animals can be set for modelling diseases and understanding of (gene function )多选题3.The 3 Generation Human Genetic Markers used for linkage analysis can be listed are follows, please sort them in chronological order:Restriction Fragment Length Polymorphism (RFLP),Microsatellite Markers (CA Repeats),Single Nucleotide Polymorphism (SNP) and HaplotypeSingle Nucleotide Polymorphism (SNP) and Haplotype,Microsatellite Markers (CA Repeats),Restriction Fragment Length Polymorphism (RFLP)Microsatellite Markers (CA Repeats),Restriction Fragment Length Polymorphism (RFLP),Single Nucleotide Polymorphism (SNP) and HaplotypeSingle Nucleotide Polymorphism (SNP) and Haplotype,Restriction Fragment Length Polymorphism (RFLP),Microsatellite Markers (CA Repeats)4.Positional cloning is a method to clone a gene based simply on knowing its position in the genome by linkage analysis without any idea of the function of that gene. We can carry out positional cloning by 3 steps, which can be listed in chronological order are follows.Fine mapping,Disease mapping,Candidate genesFine mapping,Candidate genes,Disease mappingCandidate genes,Disease mapping,Fine mappingDisease mapping,Fine mapping,Candidate genes窗体底端5.Mutation screening strategy includes ( )RT-PCR SSCP / Heteroduplex / dHPLC Sequencing / DNA chip6.Research and clinical testing of inherited monogenic diseases such as LCA can be carried out by ( )Single gene testing Targeted sequence captured panelWhole exome sequencing Whole genome sequencing是非题7.Families collection, linkage analysis and functional study of a gene are all important for position dependent candidate cloning and the identification of a candidate gene.true false8.aCGH (Array Comparative Genomic Hybridization) is a method of testing for SNP (Single Nucleotide Variation).true false9.The Genome Wide Association approach (GWAS) is a method based on the whole genome which can be applied mainly for polygenic disease. Researchers have identified a great many of susceptibility genes that may contribute to disease predisposition by GWAS.true false10.The identification of disease causative mutations can be largely assisted by the reference for related databases such as Online Mendelian Inheritance in Man (OMIM), Human Gene Mutation Database (HGMD),etc.true false遗传病的分子机理填空题DNA sequence that is homologous with a known gene but non-functional can be called as a (pseudogene ).A group of adjacent genes that are identical or related can be called as a (gene cluster).选择题3.The effects of gene mutations on protein function include:A.Loss of protein functionB.Gain of protein functionC.Novel property aquirementD.Heterochronic or Ectopic expression or both4.Which type of human globin genes DOESN’T express during prenatal period?A.αB.βC.γD.ξ5.A individual who carries the β0 /β0 genotype w ill present a phenotype called:A.Sickle cell anemia B.Hb Bart’s syndrome C.β-thalassemia trait D.β-thalassemia major6.Diseases can be due to mutations in the following different classes of proteins:A.Transport and storageB.Structure of cells and organsC.Extracellular homeostasisD.Developmental geneexpression E.Control of growth and differentiationF.Intercellular metabolism and communication判断题7.Thalassemias can arise in the following types of mutations: deletions and single nucleotide variations(SNV).true8.The mutation spectrum difference between α-thalassemia andβ-thalassemia is thatα-thalassemia is mainly caused by point mutations and β-thalassemia is mainly caused by deletions.false9.Mutations in different genes of a gene cluster result in the same disease subtype。

外显子组重测序

外显子组重测序

外显子组从测序应用领域复杂疾病研究糖尿病关联基因及变异研究(LUCAMP)[3]基因胚系de novo突变与自闭症之间的关联性研究成果[4]慢性乙型肝炎(CHB)相关罕见变异易感基因[5]研究注意力不足/多动症家系,找到潜在致病稀有变异[6]GWAS已发现44个银屑病相关的易感基因/位点[7]孟德尔遗传研究研究脊髓小脑性共济失调[8],发现致病基因-TGM6研究逆反性痤疮[9],发现致病基因-NCSTN研究高度近视[10],发现致病基因—ZNF644研究Olmsted 综合征[11],发现潜在靶标-TRPV3肿瘤研究肾上腺皮质肿瘤[12],找到发病密切相关基因-PRKACA膀胱移行细胞癌[13],发现染色质重塑相关基因- UTX等肾透明细胞癌[14],找到某种蛋白降解通路的相关基因胰岛素瘤[15],发现发病机理相关基因-T372R食管鳞癌[16],找到发生发展进程和临床预后相关的基因群体研究研究50个藏族人的高原适应性现象[17],发现显著差异的SNP位点千人基因组先导计划[18],极大地增加了已知SNPs数以上例举了部分BGI发表的各个研究方向的文章,如果需要更多、更详细的相关资料,可以联系我们免费索取。

参考索引1. Ng SB1, Turner EH., et al. Targeted capture and massively parallel sequencing of 12 human exomes. Nature.461(7261):272-6.2. Choi M1,Scholl UI., et al. Genetic diagnosis by whole exome capture and massively parallel DNA sequencing.Proc Natl Acad Sci USA. 106(45):19096-101.3. Albrechtsen A, Grarup N, Li Y., et al. Exome sequencing-driven discovery of coding polymorphisms associated with common metabolicphenotypes. Diabetologia. 56(2):298-310.4. Michaelson JJ, Shi Y, Gujral M., et al. Whole-genome sequencing in autism identifies hot spots for de novo germline mutation. Cell. 151(7):1431-42.5. Zhao Q1, Peng L, Huang W., et al. Rare inborn errors associated with chronic hepatitis B virus infection.Hepatology. 56(5):1661-70.6. Lyon GJ, et al. Exome Sequencing and Unrelated Findings in the context of Complex Disease Research: Ethical and Clinical Implications.Discov Med. 12(62):41-55.7. Tang H, Jin X., et al. A large-scale screen for coding variants predisposing to psoriasis. Nat Genet. 46(1):45-50.8. Wang JL, Yang X., et al. TGM6 identified as a novel causative gene of spinocerebellar ataxias using exome sequencing. Brain. 133(Pt 12):3510-8.9. Liu Y., et al. Confirmation by Exome Sequencing of the Pathogenic Role of NCSTN Mutations in Acne Inversa (Hidradenitis Suppurativa). J Invest Dermatol. 131(7):1570-2.10. Shi Y., et al. Exome Sequencing Identifies ZNF644 Mutations in High Myopia.PLoS Genet. 7(6):e1002084.11. Lin Z., et al. Exome Sequencing Reveals Mutations in TRPV3 as a Cause of Olmsted Syndrome. Am J Hum Genet. 90(3):558-64.12. Cao Y, He M., et al. Activating Hotspot L205R Mutation in PRKACA and Adrenal Cushing's Syndrome.Science. 344(6186):913-7.13. Gui, Y., et al., Frequent mutations of chromatin remodeling genes in transitional cell carcinoma of the bladder.Nat Genet, 2011. 43(9): p. 875-8.14. GuoG, GuiY., et al. Frequent mutations of genes encoding ubiquitin-mediated proteolysis pathway components in clear cell renal cell carcinoma.Nat Genet. 44(1):17-9.15. Cao Y, Gao Z., et al. Whole exome sequencing of insulinoma reveals recurrent T372R mutations in YY1. Nat Commun. 2013 Dec 10;4:2810.16. Song Y, Li L.,et al. Identification of genomic alterations in oesophageal squamous cell cancer. Nature. 2014 May 1;509(7498):91-5.17. Yi X, Liang Y., et al. Sequencing of 50 Human Exomes Reveals Adaptation to High Altitude . Science. 2010 Jul 2;329(5987):75-8.18. 1000 Genomes Project Consortium, et al. A map of human genome variation from population-scale sequencing. Nature. 467(7319):1061-73.[1] Li Y, Vinckenbosch N, Tian G, et al. Resequencing of 200 human exomes identifies an excess of low-frequency non-synonymous coding variants. Nat Genet. 2010, 42(11):969-972.[2] Guangwu Guo, Xiaojuan Sun,Chao Chen, et al.Whole-genome and exome sequencing of bladder cancer identifies frequent alterations in genes involved in sister chromatid cohesion and egregation. Nat Genet. 2013。

肝细胞核因子1B基因p.R276^()突变所致年轻的成年发病型糖尿病5型一例报道

肝细胞核因子1B基因p.R276^()突变所致年轻的成年发病型糖尿病5型一例报道

中国糖尿病杂志2021 年 1 月第29 卷第 1期 Chin J Diabetes January 2021,V〇1. 29, No. 1• 63 ••病例报告•肝细胞核因子I B基因P.R276*突变所致年轻的成年发病型糖尿病5型一例报道赵少倒龙沁刘升平覃恬恬金萍【提要】对1例伴多囊肾、胰腺发育不良、鞍状子宫的24岁M O D Y5患者进行遗传病因分析。

应用全外显子组测序分析发现,患者携带肝细胞核因子1B基因c.826C>T(p.R276*)突变。

日本人群中有报道该突变的致病性,但在中国人群本病例为首次报道。

【关键词】M O D Y5;多囊肾;肝细胞核因子1Bdoi : 10. 3969/j. issn. 1006-6187. 2021. 01. 012A case of MODY5 caused by HNF1B gene mutation p. R276* ZH A O Shauli.LO N G Q in, LIU Shengping,et al. Department o f Endocrinology, The Third Xiangya Hospital, Central South University, Changsha410007,ChinaCorresponding author :JIN Pi?ig, Email : ping. jin06@csu. edu. cn【Summary】To investigate the genetic etiology of a 24-year~old MOD Y5 patient with polycystic kidney,pancreatic dysplasia and saddle uterus. The whole-exome sequencing analysis showed that the patient washeterozygous for mutations of HNF1B c. 826C>T(p. R276*) mutation . The pathogenicity of the mutationwas previously reported in Japanese population, but it was the first report in Chinese population.【Key words】M a t u r i t y d i a b e t e s of youth 5; Multicystic dysplastic kidney; Hepatocyte nuclearfactor IBMODY是常染色体显性遗传的单基因DM,发病年龄<25岁。

高度近视的遗传学研究进展

高度近视的遗传学研究进展

高度近视的遗传学研究进展2 内蒙古自治区人民医院眼科,内蒙古呼和浩特市,010017摘要:高度近视是严重的全球公共卫生问题,在人群中的患病率约为1%,尤其是在亚洲国家患病率较高。

高度近视常伴有眼轴过度增长和严重的眼底病变等并发症,是致盲的主要原因之一。

高度近视的病因复杂,致病机制尚不清楚,研究表明遗传因素发挥着重要作用。

本文旨在从遗传学角度出发,对高度近视的遗传因素和基因检测方法的最新研究进展进行综述。

关键词:高度近视,基因,遗传学高度近视(High Myopia,HM)是等效球镜度(SE)为-6D或以上的一种屈光不正,[1]常伴有眼轴(AL)过度增长和眼底病变,如视网膜脱离,青光眼,白内障,近视黄斑病变和脉络膜新生血管等,可出现严重的视觉损害,甚至丧失视功能。

[2]一般认为,近视是多因素疾病,环境因素和遗传因素均起作用,但是相较于中低度近视,高度近视具有明显的遗传倾向,环境因素的影响并非决定性且仍然存在争议。

通过计算近视遗传度显示:高度近视同胞之间患病的危险度为20,而低度近视的危险度仅为1.5。

[3]通过遗传学研究方法,特别是通过探索高度近视眼的易感基因,来了解高度近视的发病机制以及遗传因素互相作用,寻求有效的防治方法,成为目前眼科和视觉研究的热点。

[4]1.高度近视的遗传因素父母患高度近视的人群患病率比其他人群高,揭示了近视的遗传易感性。

在高度近视的发生和进展中遗传起了重要作用。

[5]不同地区和民族的患病率不同。

高度近视在亚洲人群中发病率特别高,在7%至21%之间,而西方国家的发病率为2%至5%。

[6]我国高度近视患病率非常高,2012 年上海大学生患病率达19.5%,[7]2015年我国西部地区中学生的患病率为2.5%至3.1%,而17岁以上中学生达6.9%至12.9%。

[8]高度近视的遗传模式包括常染色体显性遗传、常染色体隐性遗传,X-性连锁隐性遗传等多种遗传模式,其中最常见的是常染色体隐性遗传模式。

全外显子组测序在肺癌的发病机制研究和诊治中的临床意义

全外显子组测序在肺癌的发病机制研究和诊治中的临床意义

全外显子组测序在肺癌的发病机制研究和诊治中的临床意义唐永莉;张瑞涛【摘要】全外显子组测序(WES)是利用序列捕获技术将全外显子区域DNA捕捉并富集后进行高通量测序的基因分析方法.外显子组测序较全基因组序列测序更简便、经济和高效,其目标区域覆盖度也更高,便于变异检测.外显子组测序技术已经应用到寻找与各种复杂疾病相关的致病基因和易感基因的研究中.肺癌是常见的恶性肿瘤之一,基于国内外对全外显子测序在肺癌中的研究成果,现就全外显子测序在肺癌的诊治以及肺癌的发生机制的研究进行综述.【期刊名称】《基础医学与临床》【年(卷),期】2019(039)002【总页数】5页(P272-276)【关键词】全外显子组测序;肺癌;易感基因;基因突变【作者】唐永莉;张瑞涛【作者单位】三峡大学医学院,湖北宜昌443000;三峡大学医学院,湖北宜昌443000【正文语种】中文【中图分类】R734.2外显子组是一个物种基因组中全部外显子区域的总和,它是基因行使其功能最直接的体现。

人类外显子组序列约占人类全部基因组序列的1%,但大约包含 85% 的致病突变。

全外显子组测序(whole exome sequencing,WES)是一种高效的基因组分析法,基于捕获技术的准确性和测序技术的高通量性,将基因组中全部的外显子区域捕获富集并进行测序。

外显子组测序是一种特异性测序,单纯针对基因组编码区域及其侧翼序列。

其基本流程包括外显子区域序列的富集、高通量测序及测序数据的生物信息学分析。

2009年科学家利用全外显子测序,找到了弗里曼谢尔登综合征患者的MYH3 突变,为全外显子作为遗传学研究的工具奠定了基础[1],2013年,对于外显子测序可用于临床诊断以及外显子测序的操作流程和生物信息学分析有了具体介绍,并提示外显子组测序可用于遗传病的临床诊断[2]。

2014年制定了人类疾病遗传变异研究指南和高通量测序临床应用指南,对于全外显子测序有了更深的认识[3- 4]。

Exome sequencing

Exome sequencing

Exome sequencing (also known as targeted exome capture) is an efficient strategy to selectively sequence the coding regions of the human genome to identify novel genes associated with rare and common disorders[1] . Routine whole genome sequencing of large numbers of individuals is still not feasible partly due to the high cost associated with the technique. At present, it is necessary to use an alternative approach, in which certain regions of the genome, such as the “exome”, are targeted, enriched and sequenced, which requires ~5% as much sequencing as a whole genome[2]. The “exome” represents all the exons in the human genome (i.e., theprotein-coding region of the genome). Exons are short, functionally important sequences of DNA which represent the regions in genes that are translated into protein. In total there are about 180,000 exons found in the human genome. These protein coding regions constitute about 1% of the human genome which translates to about 30 megabases (Mb) in length[2]. It is estimated that the protein coding regions of the human genome constitute about 85% of the disease-causing mutations[3].Exome Sequencing Workflow: Part 1.Exome Sequencing Workflow: Part 2.The robust approach to sequencing the complete coding region (exome) has the potential to be clinically relevant in genetic diagnosis due to current understanding of functional consequences in sequence variation [3]. The goal of this approach is to identify the functional variation that is responsible for both mendelian and common diseases such as Miller syndrome and Alzheimer’s disease without the high costs associated with whole-genome sequencing while maintaining high coverage in sequence depth[3].As an efficient strategyExome sequencing is an efficient strategy to identify these rare causal variants of mendelian disorders over whole genome sequencing due to few factors:1.Positional cloning strategies have reduced power to successfully identify causal rarevariants [1]2.The majority of genetic variants that underlie mendelian disorders disrupt protein-codingsequences [1]3. A large number or rare nonsynonymous substitutions are predicted to be deleterious [1]4.Splice sites also represent sequences in which there is high functional variation [1]The exome represents an enriched portion of the genome that can be used to search for variants with large effect sizes [1]. Mendelian disordersRare diseases affect less than 200,000 individuals in the United States and are of interest because the identification of the genetic basis can provide knowledge about biological pathways and therapeutic targets. It is suspected that there are more than 7,000 rare mendelian diseases which affect millions of people in the US[1]. The majority of mendelian diseases studied to date are known to be caused by rare mutations that affect protein function. The majority of mutations that are known to cause mendelian disorders are located in protein-coding regions while non-coding regions on the other hand are likely to have weak or neutral effects.To date, less than half of all rare monogenic disorders have been discovered. The identification of genetic variants for rare disorders is limited by a number of factors. These include sample size of affected individuals, reduced penetrance, locus heterogeneity, and alleles that impair reproductive fitness [1]. These factors make it difficult to map these traits by linkage analysis and they reduce the power of traditional positional cloning strategies to identify these variants. For both dominant and recessive traits finding an excess of independent mutationsin the same locus will provide evidence that a disease gene has been identified [3]. Exome sequencing is a powerful technique to identify genes in rare mendelian disorders because it requires only a small number of unrelated cases to identify a causal gene. Technological platformsThe technical platforms used to carry out exome sequencing are DNA microarrays and magnetic bead based systems for the enrichment of the exome DNA and next-generation sequencing technologies.Target-enrichment strategiesTarget-enrichment methods allow to selectively capture genomic regions of interest from a DNA sample prior to sequencing. Several target-enrichment strategies have been developed.PCRUniplex and Multiplex PCR.PCR is one of the most widely used enrichment strategies for over 20 years [4]. This approach is known to be useful in classical Sanger sequencing because a uniplex PCR used to generate a single DNA sequence is comparable in read length to a typical amplicon. Mutliplex PCR reactions which require several primers are challenging although strategies to get around this have been developed. A limitation to this method is the size of the genomic target due to workload and quantity of DNA required. The PCR based approach is highly effective, yet it is not feasible to target genomic regions that are several megabases in size due to quantity of DNA required and cost. Molecular Inversion Probes (MIP)Molecular Inversion Probes.This is an enzymatic technique that targets the amplification of genomic regions by multiplexing based on target circularization. Accurate genotypes can be achieved from massively parallel sequencing using this method. This method is suggested to be useful for small numbers of targets in a large number of samples. Major disadvantage of this method for target enrichment is the capture uniformity as well as the cost associated with covering large target sets [4].Hybrid captureIn-Solution Capture.This technique involves hybridizing shotgun libraries of genomic DNA to target-specific sequences on a microarray[4]. Roche NimbleGen was first to take this technology and adapt it for next-generation sequencing. They developed the Sequence Capture Human Exome 2.1M Array to capture ~180,000 coding exons[3]. This method is both time-saving and cost-effective compared to PCR based methods. The Agilent Capture Array and the comparative genomic hybridization array also other methods that can be used for hybrid capture of target sequences. Limitations in this technique include the need for expensive hardware as well as a relatively large amount of DNA [4].In-solution captureTo capture genomic regions of interest using in-solution capture, a pool of custom oligonucleotides (probes) is synthesized and hybridized in solution to a fragmented genomic DNA sample. The probes (labeled with beads) selectively hybridize to the genomic regions of interest after which the beads (now including the DNA fragments of interest) can be pulled down and washed to clear excess material. The beads are then removed and the genomic fragments can be sequenced allowing for selective DNA sequencing of genomic regions (e.g. exons) of interest. Several companies (e.g. FlexGen) offer custom pools of oligonucleotides or instruments to synthesize these oligopools in-house. This method was developed to improve on the hybridization capture target-enrichment method. In solution capture as opposed to hybrid capture, there is an excess of probes to target regions of interest over the amount of template required [4]. The optimal target size is about 3.5 Mb in length and yields excellent sequence coverage of the target regions. The preferred method is dependent on several factors including; size (bp) of region of interest, demands for reads on target, equipment in house, etc. [5]SequencingThere are several sequencing platforms available including the classical Sanger sequencing. Other platforms include the Roche 454 sequencer, the Illumina Genome Analyzer II and the Applied Biosystems SOLiD, which have both been used for exome sequencing. SignificanceA study published in September 2009 discussed a proof of concept experiment to determine if it was possible to identify causal genetic variants using exome sequencing. They sequenced four individuals with Freeman-Sheldon syndrome (FSS) (OMIM 193700), a rare autosomal dominant disorder known to be caused by a mutation in the gene MYH3[2]. Eight HapMap individuals were also sequenced to remove common variants in order to identify the causal gene for FSS. After exclusion of common variants, the authors were able to identify MYH3, which confirms that exome sequencing can be used to identify causal variants of rare disorders[2]. This is the first reported study that used exome sequencing as an approach to identify an unknown causal gene for a rare mendelian disorder.A second report was conducted on exome sequencing of individuals with a mendelian disorder known as Miller syndrome (MIM#263750), a rare disorder of autosomal recessive inheritance. Two siblings and two unrelated individuals with Miller syndrome were studied. They looked at variants that have the potential to be pathogenic such as non-synonymous mutations, splice acceptor and donor sites and shortcoding insertions or deletions[1]. Since Miller syndrome is a rare disorder, it is expected that the causal variant has not been previously identified. Previous exome sequencing studies of common single nucleotide polymorphisms (SNPs) in public SNP databases were used to further exclude candidate genes. After exclusion of these genes, the authors found mutations in DHODH that were shared among individuals with Miller syndrome. Each individual with Miller syndrome was a compound heterozygote for the DHODH mutations which was inherited as each parent of an affected individual was found to be a carrier[1].This is the first time exome sequencing has been shown to identify a novel gene responsible for a rare mendelian disease. This exciting finding demonstrates is that exome sequencing has the potential to locate causative genes in complex diseases, which previously has not been possible due to limitations in traditional methods. Targeted capture and massively parallel sequencing represents a cost-effective, reproducible and robust strategy with high sensitivity and specificity to detect variants causing protein-coding changes in individual human genomes.Comparison with genotypingThere are multiple technologies available to undertake methods to identify causal genetic variants associated with disease. Each technology has its own technical, financial and throughput limitations. Microarrays for example, require hybridization probes of known sequence and are therefore limited by probe design and thus prevent the identification of genetic changes that can be detected[4]. Massively parallel sequencing technologies used for exome sequencing on the other hand makes it now possible to identify the cause of many unknown diseases by screening thousands of loci at once[6]. This technology addresses the present limitations of hybridization genotyping arrays and classical sequencing.Although, exome sequencing is an expensive method relative to other technologies (e.g., hybridization-based technologies) currently available, it is an efficient strategy to identify the genetic bases that underlie rare mendelian disorders. This approach has become increasingly practical with the falling cost and increased throughput of whole genome sequencing. Even by only sequencing the exomes of individuals, a large quantity of data and sequence information is generated which requires a significant amount of data analysis. Challenges associated with the analysis of this data include changes in programs used to align and assemble sequence reads[4]. Various sequencetechnologies also have different error rates and generate various read-lengths which can pose challenges in comparing results from different sequencing platforms.LimitationsExome sequencing is able of only identify those variants found in the coding region of genes which affect protein function. It is not able to identify the structural and non-coding variants associated the disease which can be found using other methods such as whole genome sequencing [2]. There remains 99% of the human genome that is not covered using exome sequencing. Whole genome sequencing will eventually become a standard approach and allow us to gain a deeper understanding of genetic variation found in populations. Presently, this technique is not practical due to the high costs and time associated with sequencing large numbers of genomes. Exome sequencing allows sequencing of portions of the genome over at least 20 times as many samples compared to whole genome sequencing[2]. For translation of identified rare variants into the clinic, sample size and the ability to interpret the results to provide a clinical diagnosis indicates that with the current knowledge in genetics, exome sequencing may be the most valuable[3].The statistical analysis of the large quantity of data generated from sequencing approaches is a challenge. False positive and false negative findings are associated with genomic resequencing approaches and it is a critical issue. A few strategies have been developed to improve the quality of exome data such as:•Comparing the genetic variants identified between sequencing and array-based genotyping[2]•Comparing the coding SNPs to a whole genome sequenced individual with the disorder[2]•Comparing the coding SNPs with Sanger sequencing of HapMap individuals[2]Recessive disorders would not have single nucleotide polymorphisms (SNPs) in public databases such dbSNP. Genes for recessive disorders are usually easier to identify than dominant disorders because the genes are less likely to have more than one rare nonsynonymous variant [2]. The system screen common genetic variants relies on dbSNP which may not have accurate information about the variation of alleles. Using lists of common variation from a study exome or genome-wide sequenced individual would be more reliable. A challenge in this approach is that as the number of exomes sequenced increases, dbSNP will also increase in the number of uncommon variants. It will be necessary to develop thresholds to define the common variants that are unlikely to be associated with a disease phenotype [6].Genetic heterogeneity and population ethnicity are also major limitations as it may increase the number false positive and false negativefindings which will make the identification of candidate genes more difficult. Of course it is possible to reduce the stringency of the thresholdsin the presence of heterogeneity and ethnicity, however it will reduce the power to detect variants as well.Ethical implicationsNew technologies in genomics has changed the way researchers approach both basic and translational research. With approaches such asexome sequencing it is possible to significantly enhance the data generated from individual genomes which has put forth a series ofquestions on how to deal with the vast amount of information. Should the individuals in these studies be allowed to have access to theirsequencing information? Is it possible to interpret theses results for these individuals and are the identified genetic variants clinicallyrelevant? This data can lead to unexpected findings and complicate clinical utility and patient benefit.This area of genomics still remains achallenge and researchers are looking into how to address these questions [6].目标序列捕获及第二代测序概述目标序列捕获测序是将感兴趣的基因组区域定制成特异性探针与基因组DNA在序列捕获芯片(或溶液)进行杂交,将目标基因组区域的DNA片段进行富集后再利用第二代测序技术进行测序的研究策略。

COL4A3基因新突变致常染色体隐性遗传Alport综合征一家系

COL4A3基因新突变致常染色体隐性遗传Alport综合征一家系

COL4A3基因新突变致常染色体隐性遗传Alport综合征一家系杨阳;肖继红【摘要】目的探讨Alport综合征COL4A3基因突变谱.方法采用目的基因富集高通量测序技术,检测1例Alport综合征患儿、父母及2个妹妹的COL4A3基因Exon27、Exon48,对发现的变异基因位点进一步以PCR扩增直接正反向测序验证.结果检测COL4A3基因发现2个新的剪接位点改变,c.1928-2A>T杂合变异;Exon48:c.4280G>T(p.G1427V)杂合变异,该突变可导致Alport综合征.结论发现Alport综合征Ⅳ型胶原a3链的COL4A3基因的新突变,该发现丰富了引起Alport综合征的COL4A3基因的突变谱.【期刊名称】《临床儿科杂志》【年(卷),期】2015(033)012【总页数】4页(P1006-1008,1026)【关键词】Alport综合征;常染色体隐性遗传;Ⅳ型胶原;COL4A3基因【作者】杨阳;肖继红【作者单位】厦门大学附属第一医院福建医科大学教学医院儿科福建厦门361003;厦门大学附属第一医院福建医科大学教学医院儿科福建厦门361003【正文语种】中文Alport 综合征(alport syndrome,AS)是以肾脏进行性损害为主,伴耳聋和眼部异常的遗传性疾病,并可导致终末期肾衰竭。

直到20世纪90年代,其致病基因才相继被定位和克隆。

目前认为,AS的主要发病机制与肾小球基底膜(glumerular basement membrane,GBM)Ⅳ型胶原a3、a4、a5链的基因突变有关,其中Ⅳ型胶原蛋白a3和a4 (COL4A3和COL4A4)的突变被发现可以引起呈常染色体隐性或显性遗传的AS。

现报告一家系COL4A3基因的新突变致AS。

患儿女,12岁,因反复肉眼血尿24 d,于2013年9月就诊于厦门大学附属第一医院儿科。

患儿入院前24 d无明显诱因出现肉眼血尿,无其他伴随症状。

子宫内膜异位症相关卵巢癌和卵巢子宫内膜异位症患者血清CA125和Smac

子宫内膜异位症相关卵巢癌和卵巢子宫内膜异位症患者血清CA125和Smac
·18·
JOURNALOFBASICANDCLINICALONCOLOGYVol32No1Feb2019
子宫内膜异位症相关卵巢癌和卵巢子宫 内膜异位症患者血清 CA125和 Smac水平比较
王志红,赵 虎,袁 博,王 倩,方 莹,褚璐璐,王武亮
(郑州大学第二附属医院妇产科,河南 郑州 450014)
[16] 谢玲,陈稢,孙怡,等.中国结直肠癌、肺癌和胃癌患者 KRAS 基因突变情况分析[J].临床与实验病理学杂志,2016,32(2): 210-213.
[17] TANAKAOKAMOTOM,YABபைடு நூலகம்M,MUKAIM,etal.Elevationof CA199relatednovelmarker,core1sialylLewisA,inseraofad enocarcinomapatientsverifiedbyaSRMbasedmethod[J].JPro teomeRes,2016,15(1):152-165.
织中 的 表 达 意 义 [J].肿 瘤 基 础 与 临 床,2010,23(3): 209-213. [21] WUJ,JIAOY,DALMOLINM,etal.Wholeexomesequencingof neoplasticcystsofthepancreasrevealsrecurrentmutationsincom ponentsofubiquitindependentpathways[J].ProcNatlAcadSci USA,2011,108(52):21188-21193. [22] NARITAY,TANIGUCHIH,KOMORIA,etal.CA199levelasa prognosticandpredictivefactorofbevacizumabefficacyinmetastatic colorectalcancerpatientsundergoingoxaliplatinbasedchemotherapy [J].CancerChemotherPharmacol,2014,73(2):409-416.

全外显子测序技术在癫痫患儿致病基因检测中应用价值

全外显子测序技术在癫痫患儿致病基因检测中应用价值

•论著•全外显子测序技术在癫痫患儿致病基因检测中应用价值张冰.杨科,张玉薇,肖海,张倩.娄桂予,祁娜.廖世秀河南宵人民医院医学遗传研究所郑州大学人民医院河南省医学遗传研究所.河南郑州《〇〇〇3摘要:目的应用全外a子测序技术对2例癫痫患儿进行基w检测以明确诊断,探讨全外显子测序技术对癫痫的基因诊断价值。

方法分別提取2例癫痫患儿(患儿1、2)及其父母的外周血DNA,采用全外显子测序技术对其进行基因检测.采用Sanger测序法对2例患儿及其父母的可疑致病基因变异进行验证。

明确病因后,分别抽取2例孕妇(患儿母亲)的羊水,提取胎儿DNA,采用Sanger测序法进一步对胎儿进行产前诊断,结果患儿1SC.V2A基因存在c. 4399C>G错义杂合变异,其父_母该位点均为野生型,胎儿该位点也为野生型,其父母选择继续妊娠;患儿2 TB n D2 4基因存在c. 76G>T和c. 15950G复合杂合变异.分别遗传A其父母.胎儿为c. 76G>T杂合变异携带者.其父母选择继续妊娠。

结论 T B n D2.;基W c. 76G>T和c. 1595C>G复合杂合变异、S(’:V2A基因c.4399C>G杂合变异可能是爾痫患儿的致病原W,全外显子测序技术可快速、准确地对瘌痫进行基因诊断.关键词:癫痫;了议’;〇2.)基因;基因;全外M子测序技术Application of whole exome sequencing in the detection ofpathogenic genes in children with epilepsyZHANG Bing. YANG Ke, ZHANC;Yu-wei, XIAO Hai, ZHANG Qian. LOU Gui-yu, Q1 Na, IJAO Shi-xiuMedical Genetics Institute »Henan Provincial People's Has p iled ^Zhengzhou University People’s Hospital,Medical Genetics Institute o f Henafi Province >,Zhengzhou^ Henan 450003 ^ChinaCorresponding author:LIAO Shi-xiu, E-mail:****************Abstract: Objective To carry out mutation analysis for diagnosis of two children with epilepsy by whole exome sequencing (WES) and explore the value of WHS technology to the detection of pathogenic genes in children with epilepsy. Methods Peripheral blood DNA was extracted from two children (patient A and B) with epilepsy and their parents. WES was employed to detect potential mutations, and vSanger sequencing was applied to verify the mutations intwo patients and their p a re n ts.八fter the etiology of the patients was determined,the amniotic fluid wa‘s extracted fromtheir mothers to obiain DNA, of the fetus and the prenatal diagnosis of the fetus in the family was further conducted by Sanger sequencing. Results A de novo mutaion of SC'N2A c. 43990G was detected in patienl A, showing wide type inthe fetus and the parents. Compound heterozygous mutations of c. 76G>T and c. 15950* G in TBC1D24gene were detected in patient B, inherited from the parents, and the fetus was a carrier of c. 760T. The parents of these two children chose to continue pregnancy. Conclusion The de novo mutaion of SCN2A c. 4399C〉G and compound heterozygous mutations of c. 76G>T and c. 159S O G in T B C1D2I gene may be the main rea.sons for these patients, and WES can accurately and quickly make the diagnosis of heterogeneous epilepsy.Keywords:epilepsy;TBC1D2I gene;SCN2A gene;whole exome sequencing癫痫是由多种病w引起的慢性脑部疾病,其屮遗 传因素是导致癫痫的主要病因,癫痫具有明显临床异 质性和遗传异质性1。

COL2A1基因变异相关腭裂1例报告并文献复习

COL2A1基因变异相关腭裂1例报告并文献复习

doi:10.3969/j.issn.1000-3606.2021.03.006COL2A1基因变异相关腭裂1例报告并文献复习新春梅花张艳波王美琪内蒙古医科大学附属医院新生儿科(内蒙古呼和浩特 010050)摘要:目的探讨腭裂患儿的临床特征及致病基因。

方法回顾分析1例COL2A1基因变异腭裂患儿的临床资料,并复习c.2292delA变异相关腭裂相关文献。

结果患儿男,生后即发现上腭畸形,临床表现有双眼略凸出、哭声低哑、喉中痰鸣、呼吸阵发性急促有吐沫、下颌小、舌短、软腭及悬雍垂裂、硬腭部分裂开。

全外显子组基因靶向捕获-高通量测序示患儿COL2A1基因存在c.2292delA移码缺失变异。

文献复习发现,COL2A1基因移码变异已在人类基因变异数据库(HGMD)和ClinVar中报道,但本例患儿的变异位点未有报道,在正常人群数据库gnomAD、千人数据库和ExAC数据库中也均未被收录,为罕见变异。

结论COL2A1基因变异c.2292delA相关腭裂较罕见,基因检测可协助诊断。

关键词:腭裂;COL2A1基因;基因变异;新生儿Cleft palate associated with COL2A1 gene mutation:a case report and literature review XIN Chun, MEI Hua, ZHANG Yanbo, WANG Meiqi (Department of Pediatric, The Affiliated Hospital of Inner Mongolia Medical University, Hohhot 010050, Inner Mongolia, China)Abstract: Objective To explore the clinical features and pathogenic genes of cleft palate in children. Methods The clinical data of cleft palate associated with COL2A1 gene variation in a child was retrospectively analyzed, and the related literature of cleft palate with c.2292delA variation was reviewed. Results The male patient was found to have an upper palate deformity immediately after birth. The main clinical manifestations were slightly protruding eyes, hoarse cry, sputum in the throat, paroxysmal rapid breathing with spitting, small jaw, short tongue, soft palate and uvula cleft, and partly cracked hard palate. Whole exome gene targeted capture high-throughput sequencing showed a c.2292delA frameshift deletion mutation in COL2A1 gene. Literature review found that COL2A1 frameshift mutation has been reported in human genetic variation database (HGMD) and ClinVar, but the mutation site of this case has not been reported, Also it has not been included in normal population database gnomAD, thousand person database and ExAC database and it is a rare mutation. Conclusion Cleft palate associated with COL2A1 gene variation (c.2292delA) is rare, and genetic testing can assist in diagnosis.Key words:cleft palate; COL2A1 gene; genetic mutation; neonate唇腭裂是最常见的出生缺陷之一,其发病率随种族和地域不同而有明显变化。

PHIP_基因突变所致Chung-Jansen_综合征一例

PHIP_基因突变所致Chung-Jansen_综合征一例

841综合病例研究新医学2023年11月第54卷第11期PHIP 基因突变所致Chung -Jansen 综合征一例王慧超 李田华 杨柳 卢园园 【摘要】 Chung -Jansen 综合征(CHUJANS )是一种常染色体显性遗传病,是新近发现的罕见肥胖综合征,主要表现为发育迟缓、智力障碍、肥胖和畸形。

该文报道1例以肥胖、睾丸小为主要表现的CHUJANS 患儿,该患儿发育迟缓、智力障碍,伴有左肾缺如及低促性腺激素性性功能减退,基因检测结果提示PHIP 基因突变,突变位点c.600+1G>C ,最终诊断为CHUJANS 。

经过长期综合性治疗,患儿远期生活质量获得极大改善。

CHUJANS 发病率低,且累及多系统,该例扩展了CHUJANS 的基因突变谱,有助于提高临床医师对该疾病的认识水平,及早识别并给予干预将有助于改善患者预后。

【关键词】 Chung -Jansen 综合征;PHIP 基因;杂合突变;儿童A case of Chung -Jansen syndrome caused by PHIP gene mutation Wang Huichao △, Li Tianhua , Yang Liu , Lu Yuanyuan. △970 Hospital of the PLA Joint Logistic Support Force , Weihai 264299, China Corresponding author , Lu Yuanyuan , E -mail:*******************【Abstract 】 Chung -Jansen syndrome (CHUJANS ), an autosomal dominant genetic disorder , is a newly discovered rare obesitysyndrome , mainly manifesting as developmental delay , mental retardation , obesity and dysmorphism. We reported one CHUJANS child with obesity and small testes as the main manifestations. The patient had developmental delay , mental retardation , complicated with left renal agenesis and hypogonadotropic hypogonadism. Genetic testing prompted PHIP gene mutation at c.600+1G>C. The child was diagnosed with CHUJANS. After long -term comprehensive treatment , the long -term quality of life was significantly improved. As Chung -Jansen syndrome is low in prevalence and multi -systemic , this case report expands the spectrum of mutations in CHUJANS ,which can deepen clinicians ’ understanding of this disease. Early diagnosis and intervention contribute to enhancing clinical prognosis.【Key words 】 Chung -Jansen syndrome ; PHIP gene ; Heterozygous mutation ; ChildrenChung -Jansen 综合征(CHUJANS ,OMIM#617991)是一种以发育迟缓、智力障碍、肥胖和畸形为特征的常染色体显性遗传病,由位于6q14染色体上的PHIP 基因(OMIM#612870)中的杂合突变所致,可在婴儿期发病,大多为基因突变从头合成,少数为家族遗传[1]。

RUNX2基因变异致CCD合并严重脊柱侧弯家系分析

RUNX2基因变异致CCD合并严重脊柱侧弯家系分析

·3JOURNAL OF RARE AND UNCOMMON DISEASES, NOV. 2023,Vol.30, No.11, Total No.172【第一作者】夏小雪,女,医师,主要研究方向:正畸学。

E-mail:*************** 【通讯作者】刘瑞虹,女,助理研究员,主要研究方向:医学遗传学。

E-mail:***************** ·论著·RUNX2基因变异致CCD合并严重脊柱侧弯家系分析夏小雪1 刘瑞虹2,* 黄浩华3 林斯晓4 梁红梅11.中山大学附属第五医院口腔科 (广东 珠海 519000)2.中山大学附属第五医院临床实验医学部 (广东 珠海 519000)3.珠海固得迎宾北口腔门诊部 (广东 珠海 519000)4.中山大学附属第五医院中心实验室 (广东 珠海 519000)【摘要】目的 CCD是一种罕见的由RUNX2基因变异所致的常染色体显性遗传病,主要表现在骨骼及牙齿发育不良。

本研究旨在探讨颅骨锁骨发育不良综合征(CCD)临床表现,致病基因特点及诊疗方案。

方法 总结1家系中2例(母子)CCD患者的临床诊断及治疗。

我们对家系中的先证者进行了全外显子组测序。

并且用Sanger测序验证了相关变异。

同时也用对家系中另外一个患者的样本进行Sanger测序,来确认变异的家系共分离。

结果 家系两个患者的牙齿临床症状与已报道经典型CCD一致。

而先证者还有严重的脊柱侧弯的临床表型。

家系先证者的全外显子组测序发现RUNX2基因存在一个的无义突变(c.1096G>T,p.Glu366*)并且,先证者的全外显子基因测序未发现他携带其他已报道导致脊柱侧弯的致病性或可能致病性基因突变。

而家系中另一例CCD患者也携带了该变异,符合家系的共分离。

文中为两位患者设计了详细的诊疗方案,并强调早期治疗的重要性。

结论 我们对一个中国CCD家系中识别了一个罕见的致病性RUNX2基因变异。

多囊肝的病因、诊断及治疗的研究进展

多囊肝的病因、诊断及治疗的研究进展

多囊肝的病因、诊断及治疗的研究进展王芹芹【摘要】多囊肝是一种常染色体显性遗传疾病,常与成人多囊肾伴发,早期常无症状,很少影响肝功能,但随病情发展,可出现腹胀、腹痛及腹部包块,影响患者的正常生活.其病因及发病机制尚不明确,目前临床上的治疗方法都不太理想.本研究回顾了近几年国内外有关文献,主要对多囊肝的病因、危险因素、分级、诊断及治疗作一综述,用于指导临床诊断及治疗.【期刊名称】《同济大学学报(医学版)》【年(卷),期】2015(036)002【总页数】4页(P129-132)【关键词】多囊肝;多囊肾;基因突变【作者】王芹芹【作者单位】同济大学附属东方医院肝脏科,上海200120【正文语种】中文【中图分类】R575.2成人多囊肝简称多囊肝,是一种常染色体显性遗传疾病,主要特点是胆管上皮细胞的过度生长,表现为肝实质多个弥散分布的囊性病变,常与成人多囊肾伴发,也可以单独发生,但极其少见。

尸检其发病率为0.05%~0.53%[1]。

其起病隐匿,早期常无症状,肝功能正常,但随着肝脏体积的增大可出现腹胀、腹痛及腹部包块,影响患者的正常生活。

囊肿伴发感染、出血时患者可出现发热、腹痛等不适;极少数多囊肝晚期患者可出现黄疸、腹水、脾大、食管静脉曲张等肝功能衰竭症状。

多囊肝长期被认为是一种表型异常的多囊肾[2],然而PRKCSH和SEC63 2个基因突变的发现确认多囊肝是一种不同于多囊肾的疾病。

目前所知道的多囊肝的发病主要与4个基因有关: PRKCSH、SEC63、PKD1、PKD2。

PRKCSH是第1个发现的与多囊肝有关的基因,其定位于染色体19p13.2,编码非催化β-亚基的葡萄糖苷酶Ⅱ(GⅡβ),参与内质网中新合成的糖蛋白的易位、折叠。

据推测,质量缺陷的蛋白质能启动内质网的降解,从而使PRKCSH突变的患者肝细胞不稳定,导致细胞破碎和囊肿的形成[3]。

SEC63是第2个被发现的与肝囊肿有关的基因。

SEC63定位于染色体6q21,编码SEC63蛋白(SEC63p),参与内质网中蛋白质的转运机制,从而导致人类多囊肝病的形成。

tmb计算方法

tmb计算方法

TMB(Tumor Mutational Burden,肿瘤突变负担)是一种用于评估肿瘤组织中突变频率的指标,常用于免疫治疗的研究和临床应用。

TMB越高,表示肿瘤中突变的数量越多,可能导致免疫系统更容易识别和攻击肿瘤细胞。

TMB的计算方法可以有多种,以下是常见的计算方法之一:
1.外显子组测序:TMB的计算通常基于肿瘤组织或血液中的DNA测序数据,特别是外显子组测序(Exome Sequencing)数据。

外显子组测序用于测定基因组中编码蛋白质的外显子区域的序列。

2.突变检测:在外显子组测序数据中,识别出肿瘤细胞中的各种突变,包括点突变、插入、缺失等。

3.突变数量统计:计算在一定数量的外显子中检测到的突变数量,通常以每兆个碱基对(mutations per megabase,mut/Mb)作为单位。

这就是TMB的值,反映了肿瘤细胞中突变的密度。

4.过滤和排除:为了排除技术误差和非特异性突变,通常会对突变进行过滤和排除。

只有被认为是真正的突变才会被计入TMB的计算。

需要注意的是,不同实验室和研究可能会使用不同的测序技术、突变筛选方法和TMB的计算公式,因此具体的TMB计算方法可能会因情况而异。

在使用TMB作为指标时,应该了解具体的计算方法和标准,并结合临床和研究背景来解读结果。

播散性浅表性光化性汗孔角化症MVK基因突变检测

播散性浅表性光化性汗孔角化症MVK基因突变检测

播散性浅表性光化性汗孔角化症MVK基因突变检测ParimiLeelaRani;付希安;王真真;杨宝琦;施仲香;刘红;张福仁【摘要】目的:检测2个中国汉族播散性浅表性光化性汗孔角化症( DSAP )家系患者MVK基因突变。

方法:提取2个DSAP家系及100名无亲缘关系的健康对照外周血DNA,采用PCR扩增患者MVK基因的全部外显子及其侧翼序列,用Sanger测序法对PCR扩增产物直接测序检测基因突变。

结果:发现1个新的剪切位点突变( c.1040-2A>C)和1个已报道的错义突变( c.1094T>C)。

结论:本研究进一步证实MVK基因突变与DSAP发病相关。

%Objective:To detect mutations of MVK gene in 2 familial patients with disseminated superficial actinic porokeratosis (DSAP). Methods:Polymerase chain reaction and direct sequencing were performed in the 2 DSAP families and 100 healthy controls to identify the mutations of MVK gene. Results:One novel spli ̄cing mutation ( c. 1040-2A>C ) and one reported missense mutation ( c. 1094T>C ) were identified. Conclusion:This study further confirms that MVK is associated with the onset of DSAP , which contributes further to the understanding of the pathogenesis of DSAP .【期刊名称】《中国麻风皮肤病杂志》【年(卷),期】2016(032)003【总页数】3页(P133-135)【关键词】播散性浅表性光化性汗孔角化症;MVK基因;基因突变【作者】ParimiLeelaRani;付希安;王真真;杨宝琦;施仲香;刘红;张福仁【作者单位】; 山东大学医学院,济南,250000;; 山东大学医学院,济南,250000; 山东省皮肤病性病防治研究所,山东省医学科学院,济南,250022;山东省皮肤病性病防治研究所,山东省医学科学院,济南,250022;山东省皮肤病性病防治研究所,山东省医学科学院,济南,250022;山东省皮肤病性病防治研究所,山东省医学科学院,济南,250022;山东省皮肤病性病防治研究所,山东省医学科学院,济南,250022;; 山东省皮肤病性病防治研究所,山东省医学科学院,济南,250022【正文语种】中文播散性浅表性光化性汗孔角化症(disseminated superficial actinic porokeratosis,DSAP)是汗孔角化症最常见的类型[1],1969年由Anderson等[2]首次描述,属常染色体显性遗传。

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REPORTExome Sequencing Reveals Mutations in TRPV3as a Cause of Olmsted SyndromeZhimiao Lin,1,7Quan Chen,1,7Mingyang Lee,1,7Xu Cao,2,7Jie Zhang,1Donglai Ma,3Long Chen,4 Xiaoping Hu,5Huijun Wang,1Xiaowen Wang,1Peng Zhang,6Xuanzhu Liu,6Liping Guan,6Yiquan Tang,2Haizhen Yang,1Ping Tu,1Dingfang Bu,1Xuejun Zhu,1KeWei Wang,2Ruoyu Li,1,*and Yong Yang1,*Olmsted syndrome(OS)is a rare congenital disorder characterized by palmoplantar and periorificial keratoderma,alopecia in most cases, and severe itching.The genetic basis for OS remained unidentifiing whole-exome sequencing of case-parents trios,we have iden-tified a de novo missense mutation in TRPV3that produces p.Gly573Ser in an individual with OS.Nucleotide sequencing offive addi-tional affected individuals also revealed missense mutations in TRPV3(which produced p.Gly573Ser in three cases and p.Gly573Cys and p.Trp692Gly in one case each).Encoding a transient receptor potential vanilloid-3cation channel,TRPV3is primarily expressed in the skin,hair follicles,brain,and spinal cord.In transfected HEK293cells expressing TRPV3mutants,much larger inward currents were re-corded,probably because of the constitutive opening of the mutants.These gain-of-function mutations might lead to elevated apoptosis of keratinocytes and consequent skin hyperkeratosis in the affected individuals.Ourfindings suggest that TRPV3plays essential roles in skin keratinization,hair growth,and possibly itching sensation in humans and selectively targeting TRPV3could provide therapeutic potential for keratinization or itching-related skin disorders.Olmsted syndrome(OS)is a rare congenital disorder characterized by bilateral mutilating palmoplantar kerato-derma(PPK)and periorificial keratotic plaques with severe itching at all lesions.1,2Diffused alopecia,constriction of digits,and onychodystrophy have also been reported.2 Infections and squamous cell carcinomas can arise on the keratotic areas.3The diagnosis of OS is based on its charac-teristic clinical picture without any specific biologic markers or histopathological patterns.It should be differ-entiated from several genodermatoses,such as Vohwinkel syndrome(MIM124500)and acrodermatitis enteropathica (MIM201100).2Until recently,only46individuals with OS had been reported,4,5including36sporadic cases and four families containing ten affected individuals.The definite mode of inheritance was still uncertain,and auto-somal-dominant,6X-linked-dominant7and X-linked-recessive8modes of inheritance had been proposed. Treatment of OS includes surgical removal of keratotic palmoplantar mass and oral retinoids.However,the relief is often temporary with a high rate of recurrence.2No pathogenic mutations in any of the four genes(KRT1 [MIM139350],GJB2[MIM121011],SLURP1[MIM 606119],LOR[MIM152445]),which were previously implicated in the pathogenesis of several hereditary diseases with mutilating PPK,were identified in a single individual with OS.2Here,we demonstrate that gain-of-function mutations within TRPV3(MIM607066)on chro-mosomal region17p13,which encodes a transient receptor potential vanilloid-3cation channel,give rise to the OS phenotype.We investigated six cases of OS in China(Table1,Fig-ures1A–1C,and Figure S1,available online).Our study was approved by the Clinical Research Ethics Committee of Peking University First Hospital,Beijing China(institu-tional review board number2011[360]).Informed consent was obtained following the rules from the institutional review board.All the cases are sporadic except for indi-vidual3,whose affected daughter died of infection at 2years;no DNA sample from the daughter was available (Figure1F).In all affected individuals the symptoms devel-oped in thefirst year of life.Keratotic lesions were yellowish brown and had a sharp erythematous border. Periorificial keratotic plaques were present around the mouth,nostrils,ear meatus,anus,and perigenital region. They might appear to be mild and restricted or extend to involve neck,upper thorax,lower abdomen,inguinal folds,and upper inner thighs.PPK aggravated gradually to become mutilating,includingflexion deformity of the fingers,constriction of the digits,that is pseudoainhum, and even spontaneous amputation of the digits or the hands in the severely affected individuals.Painfulfissures on the soles interfered with walking in most of the affected individuals.Hair involvement varied,ranging from alopecia universalis with follicular papules to merely sparse curly hair.All individuals complained of severe itching in the lesions,resulting in frequent scratching and sleep1Department of Dermatology,Peking University First Hospital,Beijing100034,China;2Department of Neurobiology,Neuroscience Research Institute, Peking University Health Science Center,Beijing100191,China;3Department of Dermatology,Peking Union Medical College Hospital,Beijing 100005,China;4Department of Dermatology,Wuhan Number1Hospital,Wuhan430022,China;5Department of Dermatology,Peking University Shenzhen Hospital,Shenzhen518036,China;6Department of Mendelian Disorder Research,Beijing Genomics Institute at Shenzhen,Shenzhen 518083,China7These authors contributed equally to this work*Correspondence:lry0660@(R.L.),dryongyang@(Y.Y.)DOI10.1016/j.ajhg.2012.02.006.Ó2012by The American Society of Human Genetics.All rights reserved.disturbances.Thermosensation was normal in all individ-uals,even on affected areas.No additional neurologic or sensory anomalies were detected.No atopic history was reported,and the serum zinc level was within normal range in all the individuals.Consanguinity was denied in all the families.Individuals 1,2,and 6were treated with oral acitretin.Significant improvement in skin lesions and itching sensation were noted in the three individuals after 4weeks,though changes in hair growth seemed limited after 1year of treatment.The histopathological findings of skin biopsies from keratotic lesions of individ-uals 1,2,and 6demonstrated psoriasiform hyperplasia,orthohyperkeratosis,and parakeratosis with profound mast cell infiltration in the upper dermis (Figures 1D and 1E).Hair follicles from nonpalmoplantar skin biopsy were not examined in this study.On the basis of the familial case (individual 3)we enrolled and previous reports,6,7,9an autosomal-dominant trait of OS was postulated.In this way,a sporadic case was supposed to carry a de novo pathogenic heterozygous mutation in the causative gene.We then applied a genome-wide approach and sequenced the exomes of individual 1and her parents (Beijing Genomic Institute,Shenzhen,China).Exome capture was carried out with SureSelect Human All Exon Kit (Agilent,Santa Clara,CA,USA),guided by the manufacturer’s protocols and then sequenced by Hiseq2000platform (Illumina,San Diego,CA,USA).We obtained about 2.4to 3.7Gb of mappable sequence data per sample.Single-nucleotide variations of individual 1were filtered by dbSNP131,the 1000Genomes Project,and HapMap8databases.To detect de novo varia-tions,we further filtered out heterozygous variations from her parents.Forty-five apparent de novo damaging varia-tions were found in the individual through SIFT soft-ware 10prediction.Given that the expected rarity of true de novo events in the targeted exome is less than one per trio,11we sequenced all of these candidate variations by using Sanger sequencing.Only one de novo heterozygous point mutation,c.1717G >A in TRPV3,was identified in individual 1(Table S1).This transition substitution causes an amino acid alteration of p.Gly573Ser (Figure 2A).We then screened the coding exons and their flanking intron sequences (primers are listed in Table S2)in TRPV3in the five additional individuals and found heterozygous mis-sense mutations in all of them (Table 1and Figure 2A).No same variations were found in the parents of individ-uals 2,4,5,and 6,indicating that they are de novo muta-tions.The mother of individual 3passed away,so the origin of the mutation in individual 3cannot be identified.We also sequenced these sites in TRPV3in 216ethnically matched normal controls,and these three mutations were not detected.Because TRPV3is a transmembrane ion channel protein,we further investigated the electrophysiological effect of TRPV3mutations via the patch-clamp technique.cDNA clones of the whole coding region of human TRPV3in the pCMV6-AC-GFP vector was obtained from Origene (Rockville,MD).With this plasmid as the template,site-directed mutagenesis (Fast Mutagenesis System,Transgen Biotech,Beijing,China)was performed to obtain three clones containing the point mutations found in the indi-viduals with OS (the primers used are listed in Table S3).HEK293cells were transiently transfected with plasmids expressing wild-type (WT),p.Gly573Ser,p.Gly573Cys,or p.Trp692Gly TRPV3proteins with 1m l lipofectamine 2000(Invitrogen).After 24hr of transfection,HEK293cells with green fluorescence located primarily in the cellular membrane were chosen for patch-clamp recordings under an inverted fluorescence microscope (IX71,Olympus,To-kyo,Japan).Both whole-cell and inside-out patch were performed with an EPC10amplifier (HEKA,Lambrecht,Germany)driven by PatchMaster software (HEKA).Both bath and pipette solutions contained 130mM NaCl,3mM HEPES,and 0.3mM EGTA (pH 7.4).All measure-ments were carried out at room temperature (22–25 C).We evaluated the voltage-dependent properties for each mutant.After breaking into the whole-cell configuration,we found that patches from the HEK293cells expressing p.Gly573Ser,p.Gly573Cys,or p.Trp692Gly TRPV3altered channels were leaky and showed large inward leakage-like currents with almost linear current-voltage relation-ship and secondary conducting phase of TRPV3current.12This indicates that the mutant channels are fully open (Figures 3A–3D).To rule out the possibility that theseTable 1.Phenotypic Characteristics and Amino Acid Changes in TRPV3in Subjects with OS 19female Àþþþ,CDB þþþþþþþþGly573Ser 214female ÀþþþþþþþGly573Cys 325female þþþþþ,SDA þþþþþþþþGly573Ser 412female Àþþþþ,CDB,SDA þþþþþþGly573Ser 523male Àþþþ,CDB þþþþþTrp692Gly 627femaleÀþþ,CDBþþþ(dry curly hair)Gly573SerThe following abbreviations are used:CDB,Constricting digit bands;SDA,Spontaneous digit amputation.The following symbols are used:À,absent;þ,present;þþ,mild;þþþ,moderate;þþþþ,severe.large currents were caused by leakage due to poor cell conditions,we evaluated these mutants by inside-out patch recordings.It is notable that all the three mutants ex-hibited fast inactivation currents at a more depolarization potential (þ220mV)(Figure S2).For outwardly rectifying WT TRPV3channels,the inactivation can only be observed when the channels are fully activated by satu-rating concentrations of ligands,13,14indicating these mutants resembling an overactive WT TRPV3channel.To further test the pharmacology of the mutants in response to ligand stimulation,we determined agonist-evoked currents from inside-out patches by applying 300m M 2-aminoethoxydiphenyl borate (2-APB),and nonspecific leak currents were assessed by superfusing Ba 2þfrom intracellular side to completely block TRPV3currents.15Unlike WT TRPV3,the saturating concentra-tions of 2-APB had no significant effects on or even partially inhibited the basal currents from the cells express-ing the mutant channels (Figures 3E–3H).Indeed,2-APB not only activated TRPV3but also slightly inhibited the channel activity when the channel was fully open.14,16Collectively,our data indicate that p.Gly573Ser,p.Gly573Cys,and p.Trp692Gly TRPV3are constitutively active and act in a gain-of-function manner.Similarly,in a previous study that used Xenopus oocytes expressing murine p.Gly573Ser or p.Gly573Cys,larger basal currents and lower temperature thresholds were observed.17Because activation of TRPV3was previously shown to induce apoptosis,18we next evaluated whether these gain-of-function mutations in TRPV3could lead to increased cell death of transfected HEK293cells and kerati-nocytes in our individuals.Transfected HEK293cells (detailed above)were cultured for 24hr and then stained by Hoechst 33342and propidium iodide (PI)for 15min before morphological cell death assessment.Cells were observed by inverted fluorescence microscope (IX71,Olympus,Japan)with UV/488nm dual excitation.Dead cells,shown as PI positive,were counted in five randomly selected high-power fields (4003,more than 1,000cells total per specimen)with an ImageJ cell counter.Three independent experiments were conducted.For statistical analyses,the experimental data were analyzed by one-way analysis of variance (ANOVA).Comparison of mutant groups with the WT group was carried out by Fisher’s least significant difference (LSD)pared to WT,cells expressing the mutant TRPV3tended to result in a signifi-cantly higher cell death rate at 24hr after transfection (Figures 4A and 4B).The cell death could be partly rescued by a TRP channel inhibitor ruthenium red (Figure S3).In situ apoptosis examination of the keratinocytes in keratotic lesions in individuals 1,2,and 6was con-ducted with the TUNEL method (In Situ Cell Death Detec-tion Kit,Roche).Skin sections from the normal edge of surgically excised palm pigmented nevus in three unrelated healthy subjects were used as the controls.Images above the basal layer of the epidermis were taken randomly with a fluorescence microscope with the same photograph parameters.Total cells and apoptoticcellsFigure 1.Phenotypic Characteristics of OS(A)Bilateral mutilating palmoplantar keratoderma,flexion deformities and constriction of digits in individual 1.(B)Keratotic plaques involving periorificial,neck and axillary areas in individual 1.(C)Diffused alopecia with follicular papules in individual 2.(D)Skin biopsy section demonstrating psoriasiform hyperplasia,orthohyperkeratosis and parakeratosis in individual 1(hematoxylin-eosin staining;the scale bar represents 100m m).(E)Individual 1,skin biopsy section showing profound mast cell infiltration in upper dermis (toluidine blue staining;the scale bar repre-sents 100m m).(F)The pedigree of individual 3(arrow indicates individual 3).(with fluorescent nucleus)in five random high-power fields (4003)were counted,and the percentage of apoptotic cells was calculated (apoptotic cells/total cells 3100%).Apoptotic cell rates in the affected individuals were significantly higher compared to the normal controls (Figures 4C and 4D).Here we performed exome sequencing in a single family and have identified mutations in TRPV3as one of the genetic bases for OS.For sporadic cases of rare autosomal-dominant Mendelian disorders,exome sequencing of case-parents trios has proven to be a cost-effective and promising strategy to unravel causative genes.Our find-ings suggest OS is inherited in an autosomal-dominant pattern.However,only a few familial cases were reported,possibly because of the severe skin lesions.Other suggested modes of inheritance in OS,including X-linked dominant 7and X-linked recessive,8are probably due to genetic heterogeneity or incomplete penetrance of this disease.TRPV3was cloned in 2002.It belongs to a superfamily of transient receptor potential (TRP)cation channels.It is mainly expressed in keratinocytes,hair follicles,and the brain and spinal cord.19–21As a thermosensitive channel,TRPV3is activated at 33 C,and therefore,it was supposed to play a role in warm sensation.22Notably,in spite ofanFigure 2.Mutations and Schematic Structure of TRPV3(A)Sequencing results demonstrating heterozy-gous TRPV3mutation of c.1717G >A (amino acid change of p.Gly573Ser)in individuals 1,3,4,and 6;c.1717G >T (p.Gly573Cys)in individual 2;and c.2074T >G (p.Trp692Gly)in individual 5.(B)Schematic structure of TRPV3protein and multiple alignment of the linker region between S4and S5and the TRP domain,with the align-ments of corresponding segments of human TRPV1-2and 4-6proteins.Gly573and Trp692are highly conserved residues.The mutation sites that produce p.Gly573Ser (M1),p.Gly573Cys (M2),and p.Trp692Gly (M3)are also aligned with the substitution positions (black high-lighted).intolerant itching sensation,the individ-uals in our study did not experience any other abnormal sensation,including thermosensation.Recent data also suggest that TRPV3is not a major contributor to mouse heat sensation.23TRPV3is also ex-pressed in the central nervous system,but intriguingly,we did not observe any obvious neurological or psychiatric clinical symptoms other than itching in anyone of the individuals we studied.However,we cannot rule out the possibility that some related clinical manifestations were very subtle.Activation of TRPV3can ele-vate intracellular Ca 2þconcentration,induce apoptosis,and inhibit human hair growth,18which explains the manifestation of alopecia in these individuals.Recent studies also show that TRPV3is a Ca 2þentry pathway tightly associated with the TGF-a /EGFR signaling complex orchestrating keratinocyte terminal differentiation.24TRPV3knockout mice present abnormal hair morphology and skin barrier function.25Spontaneous mutant rodent strains,DS-Nh mice (carrying the TRPV3mutation that produces p.Gly573Ser)and WBN/Kob-Ht rats (carrying the TRPV3mutation that produces p.Gly573Cys),exhibit hairlessness and dermatitis.26However,it is still poorly understood how TRPV3functions in the keratinization of the skin in humans.Alignment of the TRPV paralogs demonstrates that Gly573and Trp692,the amino acids that we find altered in the six individuals in this study,have been completely conserved in this region of the protein.(Figure 2B).Notably,all the female individuals we studied carry mutations located in the site that produces Gly573.Individual 5,carrying p.Trp692Gly,has less severe alopecia (Figure S1).Individual 5is a male,and whether male gender and/or the characteristic mutation relate to his mild hair involvement is yet unknown.Because of the limited number of cases reported here,the genotype-phenotype correlation of OS remains to be defined.Interestingly,spontaneous mutant rodent strains DS-Nh mice and WBN/Kob-Ht rats carry p.Gly573Ser and p.Gly573Cys,respectively,identical to the altered proteins in individuals 1,2,3,4,and 6.These mutant rodents develop the phenotype of whole-body hairless and pruritic dermatitis on their faces without keratosis on their paws.They were considered as an animal model of atopic dermatitis.26Although all the individuals denied a history of atopy,the itching was obvious in the skin lesions.TRPV3channel contains six transmembrane domains with a pore region between the fifth (S5)and sixth (S6)segments,and both C and N termini are intracellularly located (Figure 2B).The two sites we detected,which produce Gly573and Trp692,are located in the linker region between S4and S5and in the TRP box (amino acid sequence of IWRLQR)of TRP domain (Figure 2B),respectively.Based on the high-resolution structure of voltage-gated potassium channel Kv1.2,the movement of the S4voltage sensor is coupled to pore opening via interactions between residues in the S4-S5linker and the C-terminal end of S6.27If the TRPV channels share a similar architecture with the Kv1.2channel,then the TRP domain is located at the C-terminal immediately after S6,poten-tially placing it in proximity to the S4-S5linker.WeFigure 3.Whole-Cell and Inside-Out Recordings of TRPV3Currents from Transfected HEK293Cells(A–D)Representative whole-cell current traces in HEK293cells expressing TRPV3or mutant channels in response to the voltage step protocol (left panels),and respective current-voltage plots from the steady-state currents (right panels).(E–H)Representative currents from inside-out patches in HEK293cells expressing TRPV3or mutant channels in response to stimulation by 300m M 2-APB or inhibition by 130mM Ba 2þto assess the level of leak currents,at À80mV and þ80mV.WT TRPV3current is acti-vated by 2-APB and followed by a characteristic decay.Note that the mutants Gly573Ser,Gly573Cys,and Trp692Gly show little activa-tion,then inhibition in the presence of 2-APB,and a robust block by Ba 2þ.(I)Comparison of ratios of currents evoked by 2-APB (300m M)over basal currents between the TRPV3WT and mutant channels.(t test,n ¼3–7.p ¼0.00001).Error bars represent SEM.proposed that similar to voltage-gated potassium chan-nels,28–30the S4-S5linker of TRPV channel might interact with the TRP domain to maintain the channel in closed state,and contributes to transferring activating mechan-ical energy to open the intracellular S6gate.Therefore,the mutations we detected could disrupt the coupling and lock the channel in the open conformation.Ion channels serve many functions,including the trans-port of ions and water,the control of electrical excitability,and the regulation of ionic homeostasis.Proliferation and differentiation of keratinocytes and hair follicles,as well as sensation of pain and itching,are precisely controlled by ionic signals.So far,several kinds of channelopathies mainly involved in skin have been identified.Gap junc-tion proteins,such as GJB2,GJB3,GJB4and GJB6,are defective in several kinds of keratoderma.Alterations in voltage-gated sodium channel type IX alpha subunit are responsible for primary erythromelalgia (MIM 133020),an autosomal-dominant disorder characterized by burning pain and skin redness in extremities.31Here,we show a skin channelopathy caused by TRPV3mutations.The mutant TRPV3might function in a dominant-positive manner to increase the constitutive TRPV3activity and elevate Ca 2þin keratinocytes,leading to severe kerato-derma and intolerant itching sensation.The nature of the mutations we described here also indicates that modu-lation of TRPV3activity could be an alternative approachto the treatment of skin keratinization,hair,and itching disorders.Supplemental DataSupplemental Data include three figures and three tables and can be found with this article online at /AJHG/.AcknowledgmentsWe are grateful to the patients and their family members for partic-ipation in this study.We appreciate the helpful discussions with Yan Shen,Jie Ding,Yi Rao,and Stephen G.Waxman.This work was supported in part by National Natural Science Foundation of China (81071289for Y.Y.and 30970919for K.W.),and the Program for New Century Excellent Talents (NCET06-0015to Y.Y.).Received:November 25,2011Revised:December 30,2011Accepted:February 7,2012Published online:March 8,2012Web ResourcesThe URLs for data presented herein are as follows:1000Genomes project,/International HapMap Project,/Figure 4.Cell Death of Transfected HEK293Cells and Apoptosis of Affected Individuals’Keratinocytes(A)Merged images of transfected HEK293cells stained with PI (red)and Hoechst 33342(blue).Mutants show significantly more PI-posi-tive cells compared to wild-type TRPV3.(B)Quantification of cell death rates in transfected HEK293cells (red nuclei/blue nuclei 3100%).Data are averaged from three indepen-dent experiments.*p <0.05,**p <0.01.(C)Fluorescence microscope images (TUNEL method)of palm skin biopsy sections from an unrelated control,individuals 1,2,and rge amount of apoptotic cells (with fluorescent nuclei)are seen in individuals with OS.The scale bars represent 50m m.(D)Quantification of apoptotic keratinocytes in the skin sections.The mean proportion of apoptotic cells are significantly higher in the group of OS patients than in the group of normal controls (t test,n ¼3,p ¼0.000005).Error bars represent SEM.Online Mendelian Inheritance in Man,/ UCSC Genome Browser,/References1.Olmsted,H.C.(1927).Keratodermia palmaris et plantaris con-genitalis:Report of a case showing associated lesions of unusual location.Am.J.Dis.Child.33,757–764.2.Mevorah,B.,Goldberg,I.,Sprecher,E.,Bergman,R.,Metzker,A.,Luria,R.,Gat, A.,and Brenner,S.(2005).Olmstedsyndrome:mutilating palmoplantar keratoderma with perior-ificial keratotic plaques.J.Am.Acad.Dermatol.53(5,Suppl1), S266–S272.3.Ogawa,F.,Udono,M.,Murota,H.,Shimizu,K.,Takahashi,H.,Ishida-Yamamoto,A.,Iizuka,H.,and Katayama,I.(2003).Olmsted syndrome with squamous cell carcinoma of extrem-ities and adenocarcinoma of the lung:failure to detect loricrin gene mutation.Eur.J.Dermatol.13,524–528.4.Vosynioti,V.,Kosmadaki,M.,Tagka,A.,and Katsarou,A.(2010).A case of Olmsted syndrome.Eur.J.Dermatol.20,837–838.5.Tharini,G.K.,Hema,N.,Jayakumar,S.,and Parveen,B.(2011).Olmsted syndrome:report of two cases.Indian J.Dermatol.56,591–593.6.Rivers,J.K.,Duke,E.E.,and Justus,D.W.(1985).Etretinate:management of keratoma hereditaria mutilans in four family members.J.Am.Acad.Dermatol.13,43–49.7.Cambiaghi,S.,Tadini,G.,Barbareschi,M.,and Caputo,R.(1995).Olmsted syndrome in twins.Arch.Dermatol.131, 738–739.rre`gue,M.,Callot,V.,Kanitakis,J.,Suau,A.M.,and Foret,M.(2000).Olmsted syndrome:report of two new cases and liter-ature review.J.Dermatol.27,557–568.9.Armstrong,A.P.,and Percival,N.(1997).Olmsted’s syndrome.J.R.Soc.Med.90,81–82.10.Kumar,P.,Henikoff,S.,and Ng,P.C.(2009).Predicting theeffects of coding non-synonymous variants on protein func-tion using the SIFT algorithm.Nat.Protoc.4,1073–1081. 11.Lynch,M.(2010).Rate,molecular spectrum,and conse-quences of human A107, 961–968.12.Grandl,J.,Hu,H.,Bandell,M.,Bursulaya,B.,Schmidt,M.,Pet-rus,M.,and Patapoutian,A.(2008).Pore region of TRPV3ion channel is specifically required for heat activation.Nat.Neu-rosci.11,1007–1013.13.Bang,S.,Yoo,S.,Yang,T.J.,Cho,H.,and Hwang,S.W.(2010).Farnesyl pyrophosphate is a novel pain-producing molecule via specific activation of TRPV3.J.Biol.Chem.285,19362–19371.14.Chung,M.K.,Lee,H.,Mizuno,A.,Suzuki,M.,and Caterina,M.J.(2004).2-aminoethoxydiphenyl borate activates and sensitizes the heat-gated ion channel TRPV3.J.Neurosci.24, 5177–5182.15.Yang,F.,Cui,Y.,Wang,K.,and Zheng,J.(2010).Thermosensi-tive TRP channel pore turret is part of the temperature activa-tion A107,7083–7088. 16.Hu,H.,Grandl,J.,Bandell,M.,Petrus,M.,and Patapoutian,A.(2009).Two amino acid residues determine2-APB sensitivity of the ion channels TRPV3and TRPV4.Proc.Natl.Acad.Sci.USA106,1626–1631.17.Xiao,R.,Tian,J.,Tang,J.,and Zhu,M.X.(2008).The TRPV3mutation associated with the hairless phenotype in rodents is constitutively active.Cell Calcium43,334–343.18.Borbı´ro´,I.,Lisztes,E.,To´th,B.I.,Czifra,G.,Ola´h,A.,Szo¨llosi,A.G.,Szentandra´ssy,N.,Na´na´si,P.P.,Pe´ter,Z.,Paus,R.,et al.(2011).Activation of transient receptor potential vanilloid-3 inhibits human hair growth.J.Invest.Dermatol.131,1605–1614.19.Smith,G.D.,Gunthorpe,M.J.,Kelsell,R.E.,Hayes,P.D.,Reilly,P.,Facer,P.,Wright,J.E.,Jerman,J.C.,Walhin,J.P.,Ooi,L.,et al.(2002).TRPV3is a temperature-sensitive vanilloid receptor-like protein.Nature418,186–190.20.Peier,A.M.,Reeve,A.J.,Andersson,D.A.,Moqrich,A.,Earley,T.J.,Hergarden,A.C.,Story,G.M.,Colley,S.,Hogenesch,J.B., McIntyre,P.,et al.(2002).A heat-sensitive TRP channel ex-pressed in keratinocytes.Science296,2046–2049.21.Xu,H.,Ramsey,I.S.,Kotecha,S.A.,Moran,M.M.,Chong,J.A.,Lawson,D.,Ge,P.,Lilly,J.,Silos-Santiago,I.,Xie,Y.,et al.(2002).TRPV3is a calcium-permeable temperature-sensitive cation channel.Nature418,181–186.22.Moqrich,A.,Hwang,S.W.,Earley,T.J.,Petrus,M.J.,Murray,A.N.,Spencer,K.S.,Andahazy,M.,Story,G.M.,and Patapou-tian,A.(2005).Impaired thermosensation in mice lacking TRPV3,a heat and camphor sensor in the skin.Science307, 1468–1472.23.Huang,S.M.,Li,X.,Yu,Y.,Wang,J.,and Caterina,M.J.(2011).TRPV3and TRPV4ion channels are not major contributors to mouse heat sensation.Mol.Pain7,37.24.Montell,C.(2010).Preventing a Perm with TRPV3.Cell141,218–220.25.Cheng,X.,Jin,J.,Hu,L.,Shen,D.,Dong,X.P.,Samie,M.A.,Knoff,J.,Eisinger,B.,Liu,M.L.,Huang,S.M.,et al.(2010).TRP channel regulates EGFR signaling in hair morphogenesis and skin barrier formation.Cell141,331–343.26.Asakawa,M.,Yoshioka,T.,Matsutani,T.,Hikita,I.,Suzuki,M.,Oshima,I.,Tsukahara,K.,Arimura,A.,Horikawa,T.,Hirasawa, T.,and Sakata,T.(2006).Association of a mutation in TRPV3 with defective hair growth in rodents.J.Invest.Dermatol.126,2664–2672.27.Long,S.B.,Tao,X.,Campbell,E.B.,and MacKinnon,R.(2007).Atomic structure of a voltage-dependent Kþchannel in a lipid membrane-like environment.Nature450,376–382.28.Tristani-Firouzi,M.,Chen,J.,and Sanguinetti,M.C.(2002).Interactions between S4-S5linker and S6transmembrane domain modulate gating of HERG Kþchannels.J.Biol.Chem.277,18994–19000.bro,A.J.,Boulet,I.R.,Choveau,F.S.,Mayeur,E.,Bruyns,T.,Loussouarn,G.,Raes,A.L.,and Snyders,D.J.(2011).The S4-S5linker of KCNQ1channels forms a structural scaffold with the S6segment controlling gate closure.J.Biol.Chem.286,717–725.30.Choveau,F.S.,Rodriguez,N.,Abderemane Ali,F.,Labro,A.J.,Rose,T.,Dahime`ne,S.,Boudin,H.,Le He´naff,C.,Escande,D.,Snyders, D.J.,et al.(2011).KCNQ1channels voltagedependence through a voltage-dependent binding of the S4-S5linker to the pore domain.J.Biol.Chem.286,707–716.31.Yang,Y.,Wang,Y.,Li,S.,Xu,Z.,Li,H.,Ma,L.,Fan,J.,Bu,D.,Liu,B.,Fan,Z.,et al.(2004).Mutations in SCN9A,encodinga sodium channel alpha subunit,in patients with primary er-ythermalgia.J.Med.Genet.41,171–174.。

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