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Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR)

Human immunodeficiency virus type 1 (HIV-1) has been recognized as the causative agent of acquired immunodeficiency syndrome (AIDS). Approximately 42 million people carrying the virus at present, but its case fatality rate is close to 100%, making it an infection of devastating ferocity. Since th...

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Main Author: Minal, Noor Hamizah
Format: Monograph
Language:English
Published: Universiti Sains Malaysia 2013
Subjects:
R5-920 Medicine (General)
Online Access:http://eprints.usm.my/56278/1/NOOR%20HAMIZAH%20BINTI%20MINAL%20-%20e.pdf
http://eprints.usm.my/56278/
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spelling my.usm.eprints.56278 http://eprints.usm.my/56278/ Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR) Minal, Noor Hamizah R5-920 Medicine (General) Human immunodeficiency virus type 1 (HIV-1) has been recognized as the causative agent of acquired immunodeficiency syndrome (AIDS). Approximately 42 million people carrying the virus at present, but its case fatality rate is close to 100%, making it an infection of devastating ferocity. Since the evolutionary change of the virus is at rapid rate, it imposes a challenge on HIV diagnostic development, vaccine development, antiretroviral drug sensitivity and drug resistance. Rapid and sensitive methods for the detection of HIV-1 viruses would be valuable in controlling this disease. Currently, nucleic acid amplification tests such as reverse transcription polymerase chain reaction (RT-PCR) and real-time PCR (rtPCR) are widely used in detecting HIV-1 viruses. These tests are commonly applied in blood donation screening and early detection of HIV-1 in infants. High sequence variations of the HIV-1 viruses from Kelantan have led to the failure to obtain the amplification product using published primers. Therefore, in this study, a few set of primers were designed based on the sequence alignments of published HTV-1 viruses from Malaysia and Kelantan which were retrieved from NCBI genebank. The primers were evaluated on 30 confirmed HIV-1 positive samples from Kelantan, Malaysia. HIV LTRF2 and HIV LTR2 were chosen as the best primers to detect these viruses since they were successfully amplified all the 30 samples used in this study. The primers were further evaluated their sensitivity and specificity against 3 viruses which are Japanese encephalitis (JE), Chikungunya and Western encephalitis virus (WEE) where no expected band yielded. These primers were sensitive and specific enough in detecting HIV-1 viruses from Kelantan. They were further evaluated for use in the real-time PCR and can be used in this test. Thus, these primers could be potentially use for the future diagnosis of HIV-1 viruses from Kelantan either by conventional or real time PCR. Universiti Sains Malaysia 2013 Monograph NonPeerReviewed application/pdf en http://eprints.usm.my/56278/1/NOOR%20HAMIZAH%20BINTI%20MINAL%20-%20e.pdf Minal, Noor Hamizah (2013) Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR). Other. Universiti Sains Malaysia. (Submitted)
institution Universiti Sains Malaysia
building Hamzah Sendut Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Sains Malaysia
content_source USM Institutional Repository
url_provider http://eprints.usm.my/
language English
topic R5-920 Medicine (General)
spellingShingle R5-920 Medicine (General)
Minal, Noor Hamizah
Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR)
description Human immunodeficiency virus type 1 (HIV-1) has been recognized as the causative agent of acquired immunodeficiency syndrome (AIDS). Approximately 42 million people carrying the virus at present, but its case fatality rate is close to 100%, making it an infection of devastating ferocity. Since the evolutionary change of the virus is at rapid rate, it imposes a challenge on HIV diagnostic development, vaccine development, antiretroviral drug sensitivity and drug resistance. Rapid and sensitive methods for the detection of HIV-1 viruses would be valuable in controlling this disease. Currently, nucleic acid amplification tests such as reverse transcription polymerase chain reaction (RT-PCR) and real-time PCR (rtPCR) are widely used in detecting HIV-1 viruses. These tests are commonly applied in blood donation screening and early detection of HIV-1 in infants. High sequence variations of the HIV-1 viruses from Kelantan have led to the failure to obtain the amplification product using published primers. Therefore, in this study, a few set of primers were designed based on the sequence alignments of published HTV-1 viruses from Malaysia and Kelantan which were retrieved from NCBI genebank. The primers were evaluated on 30 confirmed HIV-1 positive samples from Kelantan, Malaysia. HIV LTRF2 and HIV LTR2 were chosen as the best primers to detect these viruses since they were successfully amplified all the 30 samples used in this study. The primers were further evaluated their sensitivity and specificity against 3 viruses which are Japanese encephalitis (JE), Chikungunya and Western encephalitis virus (WEE) where no expected band yielded. These primers were sensitive and specific enough in detecting HIV-1 viruses from Kelantan. They were further evaluated for use in the real-time PCR and can be used in this test. Thus, these primers could be potentially use for the future diagnosis of HIV-1 viruses from Kelantan either by conventional or real time PCR.
format Monograph
author Minal, Noor Hamizah
author_facet Minal, Noor Hamizah
author_sort Minal, Noor Hamizah
title Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR)
title_short Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR)
title_full Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR)
title_fullStr Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR)
title_full_unstemmed Valuation of primers for the detection of hiv-1 viruses from Kelantan by using reverse transcription polymerase chain Reaction (RT-PCR)
title_sort valuation of primers for the detection of hiv-1 viruses from kelantan by using reverse transcription polymerase chain reaction (rt-pcr)
publisher Universiti Sains Malaysia
publishDate 2013
url http://eprints.usm.my/56278/1/NOOR%20HAMIZAH%20BINTI%20MINAL%20-%20e.pdf
http://eprints.usm.my/56278/
_version_ 1758579131629436928
score 13.211869

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