Complete sequence and organization of <it>Antheraea pernyi </it>nucleopolyhedrovirus, a <it>dr</it>-rich baculovirus
<p>Abstract</p> <p>Background</p> <p>The completion and reporting of baculovirus genomes is extremely important as it advances our understanding of gene function and evolution. Due to the large number of viral genomes now sequenced it is very important that authors pres...
| Main Authors: | , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2007-07-01
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| Series: | BMC Genomics |
| Online Access: | http://www.biomedcentral.com/1471-2164/8/248 |
| _version_ | 1818113812537016320 |
|---|---|
| author | Chen Jian Yu Lin-Lin Yang Ling Xu Jie Chen Fang Song Li Jiang Cai-Ying He Ping-An Wang Dan Zhang Zhi-Fang Nie Zuo-Ming Lv Zheng-Bing Lu Jing-Jing Wu Xiang-Fu Zhang Yao-Zhou |
| author_facet | Chen Jian Yu Lin-Lin Yang Ling Xu Jie Chen Fang Song Li Jiang Cai-Ying He Ping-An Wang Dan Zhang Zhi-Fang Nie Zuo-Ming Lv Zheng-Bing Lu Jing-Jing Wu Xiang-Fu Zhang Yao-Zhou |
| author_sort | Chen Jian |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The completion and reporting of baculovirus genomes is extremely important as it advances our understanding of gene function and evolution. Due to the large number of viral genomes now sequenced it is very important that authors present significantly detailed analyses to advance the understanding of the viral genomes. However, there is no report of the <it>Antheraea pernyi </it>nucleopolyhedrovirus (AnpeNPV) genome.</p> <p>Results</p> <p>The genome of AnpeNPV, which infects Chinese tussah silkworm (<it>Antheraea pernyi</it>), was sequenced and analyzed. The genome was 126,629 bp in size. The G+C content of the genome, 53.4%, was higher than that of most of the sequenced baculoviruses. 147 open reading frames (ORFs) that putatively encode proteins of 50 or more amino acid residues with minimal overlap were determined. Of the 147 ORFs, 143 appeared to be homologous to other baculovirus genes, and 4 were unique to AnpeNPV. Furthermore, there are still 29 and 33 conserved genes present in all baculoviruses and all lepidopteran baculoviruses respectively. In addition, the total number of genes common to all lepidopteran NPVs is sill 74, however the 74 genes are somewhat different from the 74 genes identified before because of some new sequenced NPVs. Only 6 genes were found exclusively in all lepidopteran NPVs and 12 genes were found exclusively in all Group I NPVs. AnpeNPV encodes <it>v-trex</it>(Anpe115, a 3' to 5' repair exonuclease), which was observed only in CfMNPV and CfDEFNPV in Group I NPVs. This gene potentially originated by horizontal gene transfer from an ancestral host. In addition, AnpeNPV encodes two <it>conotoxin</it>-like gene homologues (<it>ctls</it>), <it>ctl1 </it>and <it>ctl2</it>, which were observed only in HycuNPV, OpMNPV and LdMNPV. Unlike other baculoviruses, only 3 typical homologous regions (<it>hr</it>s) were identified containing 2~9 repeats of a 30 bp-long palindromic core. However, 24 perfect or imperfect direct repeats (<it>dr</it>s) with a high degree of AT content were found within the intergenic spacer regions that may function as non-<it>hr</it>, <it>ori</it>-like regions found in GrleGV, CpGV and AdorGV. 9 <it>dr</it>s were also found in intragenic spacer regions of AnpeNPV.</p> <p>Conclusion</p> <p>AnpeNPV belongs to Group I NPVs and is most similar to HycuNPV, EppoNPV, OpMNPV and CfMNPV based on gene content, genome arrangement, and amino acid identity. In addition, analysis of genes that flank <it>hr</it>s supported the argument that these regions are involved in the transfer of sequences between the virus and host.</p> |
| first_indexed | 2024-12-11T03:40:47Z |
| format | Article |
| id | doaj.art-a66841337db445b89b3213aa6722a945 |
| institution | Directory Open Access Journal |
| issn | 1471-2164 |
| language | English |
| last_indexed | 2024-12-11T03:40:47Z |
| publishDate | 2007-07-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Genomics |
| spelling | doaj.art-a66841337db445b89b3213aa6722a9452022-12-22T01:22:08ZengBMCBMC Genomics1471-21642007-07-018124810.1186/1471-2164-8-248Complete sequence and organization of <it>Antheraea pernyi </it>nucleopolyhedrovirus, a <it>dr</it>-rich baculovirusChen JianYu Lin-LinYang LingXu JieChen FangSong LiJiang Cai-YingHe Ping-AnWang DanZhang Zhi-FangNie Zuo-MingLv Zheng-BingLu Jing-JingWu Xiang-FuZhang Yao-Zhou<p>Abstract</p> <p>Background</p> <p>The completion and reporting of baculovirus genomes is extremely important as it advances our understanding of gene function and evolution. Due to the large number of viral genomes now sequenced it is very important that authors present significantly detailed analyses to advance the understanding of the viral genomes. However, there is no report of the <it>Antheraea pernyi </it>nucleopolyhedrovirus (AnpeNPV) genome.</p> <p>Results</p> <p>The genome of AnpeNPV, which infects Chinese tussah silkworm (<it>Antheraea pernyi</it>), was sequenced and analyzed. The genome was 126,629 bp in size. The G+C content of the genome, 53.4%, was higher than that of most of the sequenced baculoviruses. 147 open reading frames (ORFs) that putatively encode proteins of 50 or more amino acid residues with minimal overlap were determined. Of the 147 ORFs, 143 appeared to be homologous to other baculovirus genes, and 4 were unique to AnpeNPV. Furthermore, there are still 29 and 33 conserved genes present in all baculoviruses and all lepidopteran baculoviruses respectively. In addition, the total number of genes common to all lepidopteran NPVs is sill 74, however the 74 genes are somewhat different from the 74 genes identified before because of some new sequenced NPVs. Only 6 genes were found exclusively in all lepidopteran NPVs and 12 genes were found exclusively in all Group I NPVs. AnpeNPV encodes <it>v-trex</it>(Anpe115, a 3' to 5' repair exonuclease), which was observed only in CfMNPV and CfDEFNPV in Group I NPVs. This gene potentially originated by horizontal gene transfer from an ancestral host. In addition, AnpeNPV encodes two <it>conotoxin</it>-like gene homologues (<it>ctls</it>), <it>ctl1 </it>and <it>ctl2</it>, which were observed only in HycuNPV, OpMNPV and LdMNPV. Unlike other baculoviruses, only 3 typical homologous regions (<it>hr</it>s) were identified containing 2~9 repeats of a 30 bp-long palindromic core. However, 24 perfect or imperfect direct repeats (<it>dr</it>s) with a high degree of AT content were found within the intergenic spacer regions that may function as non-<it>hr</it>, <it>ori</it>-like regions found in GrleGV, CpGV and AdorGV. 9 <it>dr</it>s were also found in intragenic spacer regions of AnpeNPV.</p> <p>Conclusion</p> <p>AnpeNPV belongs to Group I NPVs and is most similar to HycuNPV, EppoNPV, OpMNPV and CfMNPV based on gene content, genome arrangement, and amino acid identity. In addition, analysis of genes that flank <it>hr</it>s supported the argument that these regions are involved in the transfer of sequences between the virus and host.</p>http://www.biomedcentral.com/1471-2164/8/248 |
| spellingShingle | Chen Jian Yu Lin-Lin Yang Ling Xu Jie Chen Fang Song Li Jiang Cai-Ying He Ping-An Wang Dan Zhang Zhi-Fang Nie Zuo-Ming Lv Zheng-Bing Lu Jing-Jing Wu Xiang-Fu Zhang Yao-Zhou Complete sequence and organization of <it>Antheraea pernyi </it>nucleopolyhedrovirus, a <it>dr</it>-rich baculovirus BMC Genomics |
| title | Complete sequence and organization of <it>Antheraea pernyi </it>nucleopolyhedrovirus, a <it>dr</it>-rich baculovirus |
| title_full | Complete sequence and organization of <it>Antheraea pernyi </it>nucleopolyhedrovirus, a <it>dr</it>-rich baculovirus |
| title_fullStr | Complete sequence and organization of <it>Antheraea pernyi </it>nucleopolyhedrovirus, a <it>dr</it>-rich baculovirus |
| title_full_unstemmed | Complete sequence and organization of <it>Antheraea pernyi </it>nucleopolyhedrovirus, a <it>dr</it>-rich baculovirus |
| title_short | Complete sequence and organization of <it>Antheraea pernyi </it>nucleopolyhedrovirus, a <it>dr</it>-rich baculovirus |
| title_sort | complete sequence and organization of it antheraea pernyi it nucleopolyhedrovirus a it dr it rich baculovirus |
| url | http://www.biomedcentral.com/1471-2164/8/248 |
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