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Molecular Characterization of Syndromic and Nonsyndromic Forms of Deafness Using Molecular Genetic Approaches

Thesis Info

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Author

Faridi, Rabia

Program

PhD

Institute

University of the Punjab

City

Lahore

Province

Punjab

Country

Pakistan

Thesis Completing Year

2018

Thesis Completion Status

Completed

Subject

Molecular Biology

Language

English

Link

http://prr.hec.gov.pk/jspui/bitstream/123456789/11018/1/Rabia%20Faridi%20molecular%20biology%202018.pdf

Added

2021-02-17 19:49:13

Modified

2024-03-24 20:25:49

ARI ID

1676726692064

Similar


Hearing loss is a common neurosensory impairment, which has a significant genetic etiology. A hearing loss affects 1 in 1000 newborns and 1 in 300 children by the age of 4 years (Chang 2015). It has been estimated that 1% of almost 30,000 protein coding genes in human are associated with hearing phenotype (Friedman and Griffith 2003). The mechanism of hearing is not fully understood because of the challenges associated with studying inner ear architecture, but nonetheless some of the key genes encoding distinct mechanisms of hearing have been explored by using genetic tools. Recent studies in the field of human genetics have been influential in identifying some of the proteins underlying mechanisms essential for sound transduction, as for example, hair cells electromotility, mechanotransduction, development of inner and outer hair cells, and the molecular composition of the ribbon synapse. Using a genetic approach, this thesis research project explored novel genes involved in non-syndromic and syndromic forms of hearing loss. Participants from 85 families that are segregating moderate to severe degree of hearing loss are included in this study. The affected individuals from 85 different families were initially screened for mutations of GJB2 and HGF. Genetic variants of these two genes are common in the Pakistani population and there is only one protein-coding exon of GJB2 and two common intronic mutations of HGF which are easily sequenced for mutations. I have identified twenty five novel mutations in genes that have been associated with hearing loss and all of the identified novel mutations are predicted to be pathogenic according to multiple in silico tools and have an allele frequency less than 0.005%. Mutations of MYO15A, GJB2 and HGF are the three-major contributors to deafness in this cohort of eighty-five families. In this thesis research project, I have successfully utilized some of the latest techniques in genetics that includes Whole Exome Sequencing (WES), genome wide SNP genotyping, and Whole Genome Sequencing (WGS) and was able to identify novel genes involved in syndromic and non-syndromic forms of deafness. In family PKDF1400, I completed genome wide SNP genotyping of affected and unaffected individuals. Genotyping data revealed a significant linkage score on chromosome 19p13.2 that encompasses DFNB68 locus. Individuals from PKDF1400 were then subjected to WES and I identified a missense pathogenic variant of S1PR2 (p.Tyr140Cys). Sanger sequencing of the single nucleotide variant revealed co segregation with the phenotype in PKDF1400. This thesis project has contributed data in identifying a novel gene underlying DFNB68 form of deafness (Santos-Cortez et al. 2016). I also identified a variant of SGO2 that is necessary for fertility in a Perrault syndrome proband of family PKDF063, which was ascertained from Pakistan. Whole exome sequencing of affected and unaffected members of PKDF063 revealed a truncating mutation of SGO2 p.(Glu485Lysfs*5) associated with the proband’s infertility phenotype. This is the first report of an association of SGO2 with human infertility (Faridi et al. 2017). I was successful in identifying a rare truncating mutation in family PKDF461 using Whole genome sequencing. PKDF461 was ascertained as a family segregating non syndromic hearing loss. The family has significant linkage of deafness to the DFNB8/10 interval which was further narrowed after analyzing WGS data that revealed a novel nonsense mutation of KCNE1 (p.Tyr46*). Mutations of KCNE1 are associated with Jervell and Lange Nielson syndrome (JLNS2) but this is the first truncating mutation of this gene.Overall, this thesis research project has identified novel gene for human hearing and fertility and has expanded the genotype-phenotype spectrum associated with Perrault syndrome and Jervell and Lange Nielson syndrome. This study has contributed twenty five novel genetic variants in several different genes that are critical for normal auditory function. Overall, this research project utilized cutting-edge genomic technologies that have revealed molecular genetic explanations for hereditary hearing loss in human families and was successful in identifying novel genes for non-syndromic and syndromic forms of hearing loss.
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بی بی سی کا تاریخی تبصرہ

بی بی سی کا تاریخی تبصرہ

بھٹو کی پھانسی پر بی بی سی کا تبصرہ آج تک یاد کیا جاتا ہے ۔

احسان فراموش پاکستانیوں نے اپنا ہی لیڈر مار ڈالا

چالیس سال گزرنے کے بعد بھی یہ لفظ ہماری قومی تاریخ پر ایک زور دارطمانچہ ہیں ۔شاید تیس سے بھی کم لوگوں نے بھٹو کا جنازہ پڑھا ۔ضیاء کا جنازہ دس لاکھ افغانیوں نے پڑھا ۔جنازے اور ان کی تعداد مرنے والوں کی عظمت نہیں بیان کیا کرتے ۔رسول کریمؐ ،فاطمہؑ،حسینؑ،حسنؑ کے جنازوں میں کتنے لوگ شریک تھے ؟تاریخ کی کتابیں بھری پڑی ہیں ۔کس کی سوچ نے زمانے کو نئی زندگی دی اور کون حق پر تھا ؟

5جولائی 1977ء کا شب خون صرف جمہوریت پر ہی نہیں بلکہ انسانیت ،مذہبی آزاددی اور حقِ رائے پر شب خون تھا ۔شاہی قلعے کی سرنگوں میں آج بھی اس رقص کی یادیں موجود ہیں جو رزاق جھرنا نے موت کا پھندا گلے میں ڈالنے سے پہلے بیرک سے پھانسی گھا ٹ تک ایک پائوں پر ناچتے ہوئے کیا تھا ۔

ضیاء الحق کے سیاہ دور میں تشدد یا تختہ دار کے ذریعے شہید کییجانے والے چند شہدائے جمہوریت ۔

 

 

أنموذج مقترح لقيادة مٌديري المدارس التغيير التربوي بسلطنة عُمان في ضوء بعض النماذج المُعاصرة

هدفت الدراسة الحالية إلى وضع أنموذج لقيادة مٌديري المدارس التغيير التربوي بسلطنة عُمان في ضوء بعض النماذج المُعاصرة، واتبعت الدراسة المنهج الوصفي، كما استخدمت نظرية تحليل المضمون في تحليل الوثائق في جمع البيانات والمعلومات. وتوصلت نتائج الدراسة إلى وضع أنموذج لقيادة مٌديري المدارس التغيير التربوي بسلطنة عُمان تكون من سبعة مراحل هي: الإيمان العميق بضرورة التغيير، وتشكيل فريق إدارة التغيير، ونشر ثقافة التغيير، ووضع خطة للتغيير، وتنفيذ التغيير، وتقويم التغيير والاحتفال بالنجاحات، والمٌتابعة والتغذية الراجعة المٌستمرة.

Numerical Simulation of Fluid Flow and Heat Transfer Analysis Through Annular Sector Duct

Present work is aimed at designing, implementing and validating computational procedure for the fluid flow and heat transfer analysis through the annular sector duct. This work will provide the complete heat transfer analysis and will be useful in developing an understanding of controlling parameter characterizing the configuration of annular sector duct. Chapter 1 is devoted to introduction and literature review, whereas, in chapter 2, we have selected a literature problem and discretised that by using two well known techniques finite difference method, (FDM) and finite volume method, (FV M). By comparing the results obtained from both procedures with the literature, we have selected one procedure for further mathematical models of the dissertation. In the chapter 3, we have carried out the study of forced convective Newtonian fluid flow, by considering the two different cases. In the 1st case, we have studied the forced convective flow of Newtonian fluid under the influence of uniform transverse magnetic field, applied perpendicular to the direction of flow. In the 2nd case, we have studied the influence of uniform transverse magnetic field on electrically conducting Newtonian fluid flow through annulus sector duct, filled with Darcy Brinkman porous media. As most of the fluids in nature are non-Newtonian, therefore, to make our model more realistic, we have replaced the Newtonian fluid with the power law fluid. In the chapter 4, we have carried out the study of forced convective power law fluid flow, by considering the four different cases. In the 1st case, we have studied the impact of flow behaviour index, n, on the forced convective flow in both pseudo-plastic and dilatant fluids. In the 2nd case, we have carried out the influence of magnetic field on electrically conducting power law fluid. We have studied the impact of n in both fluids for different value of Ha. In both cases, successive over relaxation, (SOR), method is used to solve the system of algebraic equations, obtained by using the FV M. In the 3rd and 4th cases, we have studied the impact of porosity factor, K, on forced convective flow of power law fluid through an annular sector duct, filled with Darcy Brinkman porous media in the absence and presence of uniform transverse magnetic field. In both cases, we have used the strongly implicit procedure, (SIP), to solve the system of algebraic equation, and compared with SOR method on the based of convergence. To achieve further enhancement in the heat transfer rate, addition of nano scale particles to the base fluid is an established research methodology now a days. Therefore, in chapter 5, we have studied the impact the nano scale particles on the forced convective flow of power law fluid by considering two different cases. Two types of nano scale particle (i.e Copper, Cu and Titanium oxide, TiO2) are used. Finally to make the dissertation wholesome, in chapter 6, we have studied the combined effect of viscous dissipation and Joule heating on the forced convective flow of power law fluid in absence and presence of nano scale particles. At the end of dissertation, we give brief of the future work.