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Home > Molecular Characterization and Genome Wide Variability Studies of Full Length Genome of Hepatitis Delta Virus Circulating in Pakistan

Molecular Characterization and Genome Wide Variability Studies of Full Length Genome of Hepatitis Delta Virus Circulating in Pakistan

Thesis Info

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Author

Mahwish Aftab

Program

PhD

Institute

Lahore College for Women University

City

Lahore

Province

Punjab

Country

Pakistan

Thesis Completing Year

2019

Thesis Completion Status

Completed

Subject

Biotechnology

Language

English

Link

http://prr.hec.gov.pk/jspui/bitstream/123456789/11455/1/Mahwish%20Aftab%20Biotechnology%202019%20lcwu%20lhr.pdf

Added

2021-02-17 19:49:13

Modified

2024-03-24 20:25:49

ARI ID

1676726680490

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Hepatitis virus infections are among major health problems worldwide and the clinical outcomes of such infections are often underestimated and the therapeutic options for such infections are not fully explored and are time required. Hepatitis B is the foremost cause of the liver cancer globally and cause of the liver failure which contribute to the major mortality rate. However, Hepatitis Delta virus (HDV) being satellite virus of Hepatitis B virus (HBV) is more frightening, as the life threatening rate increases more than 10 times in dual infection of HDV among HBV positive patients as compared to HBV mono-infection. HDV is a highly pathogenic virus. Clinical presentation of hepatitis D in majority of the patients ranges from the fulminant hepatitis, increasing severity of underlying hepatitis B infection, accelerated progression to cirrhosis, early decomposition of the liver functions and development of hepatocellular carcinoma. Almost among 240 million chronic carriers of HBV worldwide, currently about 15 to 20 million people have been thought to be infected with HDV. Pakistan account for a significant proportion of the global hepatitis burden and is considered as endemic to HDV. Most of the data reported from the country based on seroprevalence of HDV however only three reports are available for genotype of HDV from the country with small sample size and not covering all major provinces (Punjab, Khyber Pakhtunkhawa and Sindh) while no full genome of this virus have been reported from Pakistan so far. Therefore, to estimate the current prevalence rate and circulating genotypes of HDV in HBV positive patients, a molecular based study was conducted and HDV genotyping was done along with the sequencing of the complete genome of the virus. Total 1913 hepatitis suspected samples recruited for the study. 1176 (61.5%) were from Punjab and 714 (37.3%) were from KPK and 23 (1.2%) were from Sindh. Out of total 1043 (54.5%) were males and 870 (45.5%) were females. HBV genotyping from HDV positive samples was also done along with genotyping of HDV. Whole genome from HDV samples were amplified using two primer pairs and were sequenced using Next Generation Sequencing. Out of Total, 276 (14.4%) samples were positive for HBV. From HBV positive cases, 46 (16.7%) samples were positive for HDV coinfection. From 181 HBV positive samples (121 males (66.85%), 60 females (33.15%)) from Punjab, 26 samples (14.36%) were positive for HDV among which 17 were males and 9 were females. From 85 HBV positive samples samples (49 males (57.65%), 36 females viii (42.35%)) from Khyber Pakhtunkhwa, 13 samples (15.29%) were positive for HDV among which 9 were males and 4 were females. From 10 HBV positive samples (6 Males (60%), 4 females (40%)) from Sindh, 7 samples (70%) were positive for HDV among which 5 were males and 2 were females. HBV genotyping from HDV positive samples showed the prevalence of Genotype D in 36 (74.5%) samples while Genotype A was prevalent in 13(25.5%) samples. HDV genotyping of the samples showed the prevalence of only Genotype I in all the positive genotyped samples. Whole genome of HDV samples were amplified and sequenced using NGS. Partial and complete sequences were submitted to NCBI GenBank data base. The phylogenetic analysis of the nucleotide sequence of the Pakistani HDV isolates cluster with HDV genotype I clade and showed 83% to 91% similarity with the reference sequence. This study gives a detailed picture of the true molecular prevalence of the HBV/HDV dual infection in the major regions of the country. This is the first study from the country to cover most of the regions with great sample size. Also this study reports the complete sequence of the HDV Pakistani isolate for the first time from the country. More studies can be done in future on viral quasispecies to understand more about the pathogenesis of the virus in the population. This will be helpful in designing drugs, study virus cell Interactions and will also helpful in vaccine development.
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مولاناحبیب الرحمن خان شروانی

مولانا حبیب الرحمن خان شروانی
افسوس ہے کہ ہماری بزم دوشین کی وہ آخری یادگار شمع بھی خاموش ہوگئی، جس سے مدتوں بزم کمال منور رہی، یعنی ۱۱؍اگست کو نواب صدر یارجنگ مولانا حبیب الرحمن خان شروانی نے چھیاسی سال کی عمر میں اس خاکدان سفلی کو الوداع کہا، عمر طبعی کو پہنچنے کے بعد موت ناگزیر ہے، لیکن بعض مرنے والوں کے ساتھ ایک پورا عہد اور پوری تاریخ دفن ہوجاتی ہے، مولانا شروانی مرحوم کا حادثۂ وفات انہی میں ہے، وہ مشرقی و اسلامی تہذیب و شرافت کا نمونہ اور علم و عمل، فضل و کمال، دین و تقویٰ، وقار و متانت، اخلاق و تواضع کا پیکر اور تنہا ایک عالم تھے، کامل ساٹھ سال تک مسلمانوں کی قومی زندگی سے وابستہ رہے، اس لئے ان کی وفات شخصی نہیں بلکہ قومی حادثہ اور ایک مرقعِ کمال اور قدیم تہذیب و شرافت کا ماتم ہے۔
اﷲ تعالیٰ نے ان کو دنیاوی دولت و وجاہت سے بھی نوازا تھا، وہ خاندانی رئیس تھے اور اپنے اوصاف میں دور زوال کے امراء سے بالکل مختلف تھے، وہ خود صاحب علم، اصحاب علم کے قدردان، علم دوست، علما نواز، اور علم فن کے شیدائی اور سرپرست تھے، ان کی پوری زندگی علمی مشاغل میں گزری، مسلمانوں کی علمی و تعلیمی تحریکوں میں ان کا نمایاں حصہ رہا، وہ ابتدا سے مدرسۃ العلوم، مسلم یونیورسٹی، اور دارالعلوم ندوۃ العلماء کے رکن رکین، معاون و مددگار آل انڈیا مسلم ایجوکیشنل کانفرنس کے سکریٹری انجمن ترقی اردو کے سرپرست اور مجلس دارالمصنفین کے صدرنشین تھے، عرصہ تک ریاست حیدرآباد کے شعبہ امور مذہبی کی صدارت پر فائز رہے، ان کی خدمات کی فہرست بہت طویل ہے، کوئی علمی و تعلیمی ادارہ ان کی اخلاقی امداد و امانت سے محروم نہ تھا، مسلم یونیورسٹی نے ان خدمات کے اعتراف میں ڈاکٹریٹ کی...

برصغیر میں محدثین کی خدمات حدیث: تاریخی و تجزیاتی جائزہ

After the Prophet r the Muslims all over the world associate themselves with him by following his pious deeds and acting upon his sayings (Hadith). The Muslims of the sub-continent have been very zealous in this respect and have done great job in this regard. In the subcontinent, the sayings of the Holy Prophet reached with Islam during the era of pious caliphs. In those days, according to some traditions, 25 companions of the Holy Prophet ﷺ Sahaba (R. A) and 42 Tabe-ien (those who had seen the Sahaba R. A i-e their successors) came to India and preached Islam. This preaching was continued by later Muslims and the rulers like Mohammad Bin Qasim and Mehmood Ghaznavi. The services of great Muhaddeseen (narrators and illustrators of the sayings of the Holy Prophet r like Musa Bin Yaqoob, Yazid Bin Abi Kabsha, Abu Musa Israeel Bin Musa and Abu Hafs Rabi Bin Sabih are note worthy. They provided local people the knowledge of Hadith. These scholars earned fame and prestige by their great works in this field. Shah Waliuallah wrote Mussffa and Maswwa, in subcontinent there are great many institutions like Jamia Salfiya Faisalabad, Jamia Ashrafia Lahore, Jamia Naeemia Lahore, Khair- ul-Madaras Multan, Jamia Mohammadia Gujranwala, Dar-ul-Hadith Delhi and Jamia Salfiya Banaras to teach the knowledge of Hadith.

Fasal Fil Ardh and its Punishment under Islamic Law

All┐h almighty has commanded that do not create mischief “Fas┐d” on earth after it has been set in order.(Al-I‘r┐f:56. According to the Holy Qur’┐n, this land was created neat, clean, peaceful and free from all kinds of disorders but due to subversive activities of Jinn and human being, and violation of laws revealed from God, the situation gradually changed and ultimately disorder prevailed on land and sea because of “What the people earned with their own hands” (Al-Rom: 30) Allah almighty sent revealed books and Messengers from time to time to guide the people toward the straight path and to reform the disorder on earth but disobedience continued and the situation continued to deteriorate gradually. The word ‘Fas┐d” is literally used in the meaning of putridity, wickedness, immorality, corruption, sinful act and badness. Technically, it means: the violation of commandments enjoined by the Shari‘ah nullifying its positive effects on the society”. The Hanafi jurists have used the word ‘Fasad or F┐sid for a contract where one or more of its conditions are missing. Its validity will stand restored as and when the missing conditions are fulfilled. According to majority of the jurists, the contract may be either valid or void and there is no provision of F┐sid contract. In Islamic jurisprudence, the expression ‘Fas┐d fil ’ar╔ is not used for the commission of any specific crime or sinful act. In the Holy Qur’┐n it has been used for various crimes and sinful acts ranging from minor crime, like destroying crops and cattle, less measuring, violation of the provisions of covenant, to heinous crimes like murder, dacoity, Infidelity, atheism and polytheism. Likewise, the activities of Gog and Magog, Namrod, Pharaoh, and the abominable deeds of the followers of Messenger Lut and the acts of disobedience by other tribes including Bani Israel,‘└d and Tham┴d have been termed as Fas┐d fil ’ar╔. The commentators of the Holy Qur’┐n while elaborating relevant verses on Fasad, have listed various crimes which come within the purview of Fas┐d fil ’ar╔ like, all Hud┴d and Qi╖┐╖ related crimes; infidelity; propaganda against Isl┐m and the Holy Prophet; contempt of the Holy Prophet etc. Some known scholars and writers have set a principle, according to which, a crime becomes Fas┐d fil ’ar╔ if it is committed in a horrifying manner, not in a normal way, creating terror in the locality, creating sense of insecurity in the society like using lethal weapons for killing a person, cutting his body parts into pieces or burning a dead body. In such circumstances, the crime will be treated as Fas┐d fil ’ar╔ and not a normal crime of murder. Likewise, if rape is committed in a broad day light by using weapons to create terror in the locality and forcing the victim to walk nakedly through the streets, it will be treated as Fas┐d fil ’ar╔ and not a simple crime of rape, liable to punishments prescribed for Fas┐d fil ’ar╔. According to Al-M┐idah: 33: “Those who fight against All┐h and His Messenger and run about trying to spread disorder on earth, their punishment is no other than that they shall be killed, or be crucified, or their hands and legs be cut off from different sides, or they be kept away from the land (they live in). That is a humiliation for them in this world, and there is a great punishment for them in hereafter.” According to jurists and renowned commentators of the Holy Qur’┐n, the punishment prescribed in the above verse shall not be confined to dacoity only but applied in other heinous crimes like rape, Gang rape, abduction for ransom, corruption and terrorism etc. These crimes are not less than war against All┐h and his Apostle in any sense. This view is also upheld by the Hon. Judges of superior Courts of Pakistan. It is on record that the rightly guided Caliphs had awarded death penalty for some of the crimes for which death penalty has been prescribed in the holy Quran and Sunnah of the Holy Prophet, like nonpayment of Zakat, drinking wine repeatedly, committing theft fourth times, sodomy, involvement in sorcery and incest etc. Under the principle of Siy┐sa-al-Shar‘┘ah, the head of the state or parliament has been given vast powers to take any measure to cope with the law &order situation, maintain peace and protect the interests of the community. There is a need to take benefit from the wisdom cantained in this expression while legislating laws in the country.If the expression Fasad fil ardh and the wisdom contained in it,is appropriately included in the existing criminal law, by defining it,bringing various crimes under it and prescribing punishment for it in the light of Qur’┐n and Sunnah, it will prove helpful in controlling crimes and restoring peace and tranquility in the society.