Genotyping the hepatitis B virus with a fragment of the HBV DNA polymerase gene in Shenyang, China
<p>Abstract</p> <p>The hepatitis B virus (HBV) has been classified into eight genotypes (A-H) based on intergenotypic divergence of at least 8% in the complete nucleotide sequence or more than 4% in the S gene. To facilitate the investigation of the relationship between the efficac...
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| Format: | Article |
| Language: | English |
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BMC
2011-06-01
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| Series: | Virology Journal |
| Subjects: | |
| Online Access: | http://www.virologyj.com/content/8/1/315 |
| _version_ | 1811286101312143360 |
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| author | Juan Feng Ding Yang Ma Ying Dou Xiao |
| author_facet | Juan Feng Ding Yang Ma Ying Dou Xiao |
| author_sort | Juan Feng |
| collection | DOAJ |
| description | <p>Abstract</p> <p>The hepatitis B virus (HBV) has been classified into eight genotypes (A-H) based on intergenotypic divergence of at least 8% in the complete nucleotide sequence or more than 4% in the S gene. To facilitate the investigation of the relationship between the efficacy of drug treatment and the mutation with specific genotype of HBV, we have established a new genotyping strategy based on a fragment of the HBV DNA polymerase gene. Pairwise sequence and phylogenetic analyses were performed using CLUSTAL V (DNASTAR) on the eight (A-H) standard full-length nucleotide sequences of HBV DNA from GenBank (NCBI) and the corresponding semi-nested PCR products from the HBV DNA polymerase gene. The differences in the semi-nested PCR fragments of the polymerase genes among genotypes A through F were greater than 4%, which is consistent with the intergenotypic divergence of at least 4% in HBV DNA S gene sequences. Genotyping using the semi-nested PCR products of the DNA polymerase genes revealed that only genotypes B, C, and D were present in the 50 cases, from Shenyang, China, with a distribution of 11 cases (22%), 25 cases (50%), and 14 cases (28%) respectively. These results demonstrate that our new genotyping method utilizing a fragment of the HBV DNA polymerase gene is valid and can be employed as a general genotyping strategy in areas with prevalent HBV genotypes A through F. In Shenyang, China, genotypes C, B, and D were identified with this new genotyping method, and genotype C was demonstrated to be the dominant genotype.</p> |
| first_indexed | 2024-04-13T02:54:43Z |
| format | Article |
| id | doaj.art-16ead7918e4149de92560b377d727eae |
| institution | Directory Open Access Journal |
| issn | 1743-422X |
| language | English |
| last_indexed | 2024-04-13T02:54:43Z |
| publishDate | 2011-06-01 |
| publisher | BMC |
| record_format | Article |
| series | Virology Journal |
| spelling | doaj.art-16ead7918e4149de92560b377d727eae2022-12-22T03:05:41ZengBMCVirology Journal1743-422X2011-06-018131510.1186/1743-422X-8-315Genotyping the hepatitis B virus with a fragment of the HBV DNA polymerase gene in Shenyang, ChinaJuan FengDing YangMa YingDou Xiao<p>Abstract</p> <p>The hepatitis B virus (HBV) has been classified into eight genotypes (A-H) based on intergenotypic divergence of at least 8% in the complete nucleotide sequence or more than 4% in the S gene. To facilitate the investigation of the relationship between the efficacy of drug treatment and the mutation with specific genotype of HBV, we have established a new genotyping strategy based on a fragment of the HBV DNA polymerase gene. Pairwise sequence and phylogenetic analyses were performed using CLUSTAL V (DNASTAR) on the eight (A-H) standard full-length nucleotide sequences of HBV DNA from GenBank (NCBI) and the corresponding semi-nested PCR products from the HBV DNA polymerase gene. The differences in the semi-nested PCR fragments of the polymerase genes among genotypes A through F were greater than 4%, which is consistent with the intergenotypic divergence of at least 4% in HBV DNA S gene sequences. Genotyping using the semi-nested PCR products of the DNA polymerase genes revealed that only genotypes B, C, and D were present in the 50 cases, from Shenyang, China, with a distribution of 11 cases (22%), 25 cases (50%), and 14 cases (28%) respectively. These results demonstrate that our new genotyping method utilizing a fragment of the HBV DNA polymerase gene is valid and can be employed as a general genotyping strategy in areas with prevalent HBV genotypes A through F. In Shenyang, China, genotypes C, B, and D were identified with this new genotyping method, and genotype C was demonstrated to be the dominant genotype.</p>http://www.virologyj.com/content/8/1/315Hepatitis B viruspolymerase genemutationgenotype |
| spellingShingle | Juan Feng Ding Yang Ma Ying Dou Xiao Genotyping the hepatitis B virus with a fragment of the HBV DNA polymerase gene in Shenyang, China Virology Journal Hepatitis B virus polymerase gene mutation genotype |
| title | Genotyping the hepatitis B virus with a fragment of the HBV DNA polymerase gene in Shenyang, China |
| title_full | Genotyping the hepatitis B virus with a fragment of the HBV DNA polymerase gene in Shenyang, China |
| title_fullStr | Genotyping the hepatitis B virus with a fragment of the HBV DNA polymerase gene in Shenyang, China |
| title_full_unstemmed | Genotyping the hepatitis B virus with a fragment of the HBV DNA polymerase gene in Shenyang, China |
| title_short | Genotyping the hepatitis B virus with a fragment of the HBV DNA polymerase gene in Shenyang, China |
| title_sort | genotyping the hepatitis b virus with a fragment of the hbv dna polymerase gene in shenyang china |
| topic | Hepatitis B virus polymerase gene mutation genotype |
| url | http://www.virologyj.com/content/8/1/315 |
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