Comparison of Hepatitis C Virus Genotyping by 5′ Noncoding Region- and Core-Based Reverse Transcriptase PCR Assay with Sequencing and Use of the Assay for Determining Subtype Distribution in India

Lole, Kavita S.; Jha, J.; Shrotri, Sandhya P.; Tandon, B. N.; Prasad, V G Mohan; Arankalle, Vidya A.

doi:10.1128/jcm.41.11.5240-5244.2003

Cited by 74 publications

(71 citation statements)

References 35 publications

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“…In view of these findings, it is quite apparent that the patients infected with HCV infection in this area of north India come under the category of responding well to antiviral treatment. Our findings are in support of few other studies reported from this country [11,12].…”

Section: Discussionsupporting

confidence: 83%

“…In all these assays the 5'NCR has been frequently used for amplification followed by digestion by different sets of restriction enzymes to detect different subtypes. However, like in other assay systems it is not possible to detect all subtypes by using 5'NCR [12]. Attempts have been made to include the conserved part of other subgenomic regions also both in PCR-RFLP as well as Real Time PCR [40].…”

Section: Discussionmentioning

confidence: 99%

“…Genotypes 1, 2 and 3 are widely distributed while other genotypes are much more restricted to certain geographical areas. In India, genotype 3 is reported to be the most prevalent, followed by genotype 1 [11,12]. These genotypes of HCV have important epidemiological implications.…”

Section: Introductionmentioning

confidence: 99%

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HCV-Core Region: Its Significance in HCV-Genotyping and Type Dependent Genomic Expression

Ansari¹,

Lingaiah²,

Irshad³

2012

Macedonian Journal of Medical Sciences

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Section: Discussionsupporting

confidence: 83%

Section: Discussionmentioning

confidence: 99%

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HCV-Core Region: Its Significance in HCV-Genotyping and Type Dependent Genomic Expression

Ansari¹,

Lingaiah²,

Irshad³

2012

Macedonian Journal of Medical Sciences

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“…The core region was amplified by nested PCR as previous reported (Lole et al, 2003). Briefly, total 50μl of outer reaction mixture include of 5μl cDNA, 5μl of 10X PCR buffer, 125mmole of MgCl2 , 10mmole of dNTPs, 2.5U of Taq pol and 10µmole of each CC1 outer sense primer 5'-ACTGCCTGATAGGGTGCTTGC-3', CC2 outer antisense primer 5'-ATGTACCCCATGAGGTCGGC-3'.…”

Section: Hcv Genome Amplificationmentioning

confidence: 99%

Epidemiology of Hepatitis C Virus Genotypes in Northeastern Thai Blood Samples

Barusrux

Sengthong²,

Urwijitaroon³

2014

Asian Pacific Journal of Cancer Prevention

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Background: Hepatitis C virus (HCV) infection is an important cause of liver cancer in Thailand. The highest prevalence of anti-HCV positive among Thai blood donors is found in the northeastern region. The present analysis of the genotype distribution among anti-HCV positive northeastern-Thai blood donors was conducted to provide a base for the epidemiological pattern of HCV infection in this region. Materials and Methods: A total of 112 HCV seropositive healthy blood donors were randomly selected and tested for the presence of HCV-RNA by RT-PCR. HCV-RNA positive samples were genotyped by direct sequencing at core region genomes and confirmed by phylogenetic analysis. Results: HCV viremia was found in 94.6% (106/112) of HCV seropositive blood donors. There were 3 major genotypes distributed among this population. HCV genotype 3a was the most prevalent (71.7%) followed by genotypes 1a (7.5%), 1b (7.5%), 6i (3.8%), 6f (2.8%) and 6n (1.9%). Conclusions: HCV genotype 3a in asymptomatic infections in northeastern Thailand is significantly higher than other previous reports. Subgenotype 6 prevalence is less than in neighboring countries and distribution patterns differ. The findings are relevant as predictors for using interferon therapy in this population.

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“…In India, Lole et al [12] showed that the infection with type 3 was predominant in North, West and East Indian population, while genotype 1 was shown to be the predominant genotype in South India. The study by Hissar et al [8] also confirmed the predominance of genotype 3 in North and Central India.…”

mentioning

confidence: 99%

Diversity of Hepatitis C virus in Southern India Based on 5′UTR Sequence

2012

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Hepatitis C virus (HCV) exhibits genotypespecific variations in geographical distribution as a consequence of drug and immune induced evolution. Present study was aimed at discerning the distribution and prevalence of the various genotypes and subtypes of HCV in southern India. The HCV positive patient's serum was collected from different hospitals and blood banks from the states of Kerala, Tamil Nadu, Andhra Pradesh and Karnataka. Among 114 HCV positive samples, we could find only 44 isolates that are found both positive in ELISA and RT-PCR. From these samples 5 0 untranslated region (5 0 UTR) were amplified, sequenced and sub typed. Analysis of 5 0 UTR region of the 44 isolates shows that, genotypes 1, 3, 4 and 6 are present with genotype 3 being the most frequent. The present study shows that HCV genotype 3 subtype B was the most prevalent, forming 47.7 % among the population in southern India. The present study urges for discovering novel therapeutic agents that should be specific to genotype 3 subtype B, for the management of HCV in southern India.Hepatitis C virus (HCV, genus: Hepacivirus, family: Flaviviridae) exists as six major genotypes and more than 60 defined subtypes. The genomic sequences of different HCV genotypes vary by 30-35 % between genotypes and by 20-25 % between subtypes [19]. Such genetic heterogeneity accounts for several of the differences observed in the prognosis of the disease, as well as in the differences seen in response to prophylactic treatment procedures. For example, in individuals infected with HCV genotype 1, complete and permanent clearance of the infection has been observed in only 10-20 % of those on monotherapy with interferon and 40-50 % in those on combination therapy with interferon and ribavirin. The disease tends to be chronic in the rest, ultimately ending in hepatocellular carcinoma. However, in the case of type 2 and 3, 50 % on mono-therapy and 70-80 % on combination therapy show sustained clearance of the virus [15,26

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Comparison of Hepatitis C Virus Genotyping by 5′ Noncoding Region- and Core-Based Reverse Transcriptase PCR Assay with Sequencing and Use of the Assay for Determining Subtype Distribution in India

Cited by 74 publications

References 35 publications

HCV-Core Region: Its Significance in HCV-Genotyping and Type Dependent Genomic Expression

HCV-Core Region: Its Significance in HCV-Genotyping and Type Dependent Genomic Expression

Epidemiology of Hepatitis C Virus Genotypes in Northeastern Thai Blood Samples

Diversity of Hepatitis C virus in Southern India Based on 5′UTR Sequence

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