Identification of probable genomic packaging signal sequence from SARS-CoV genome by bioinformatics analysis
文献类型：期刊论文
| 作者 | Qin, L; Xiong, B ; Luo, C; Guo, ZM; Hao, P; Su, J; Nan, P; Feng, Y; Shi, YX; Yu, XJ
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| 刊名 | ACTA PHARMACOLOGICA SINICA
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| 出版日期 | 2003-06 |
| 卷号 | 24期号:6页码:489-496 |
| 关键词 | severe acute respiratory syndrome (SARS) packaging signal stem-loop structure N protein M protein antisense RNA interfere RNA |
| ISSN号 | 1671-4083 |
| 文献子类 | Article |
| 英文摘要 | AIM: To predict the probable genomic packaging signal of SARS-CoV by bioinformatics analysis. The derived packaging signal may be used to design antisense RNA and RNA interfere (RNAi) drugs treating SARS. METHODS: Based on the studies about the genomic packaging signals of MHV and BCoV, especially the information about primary and secondary structures, the putative genomic packaging signal of SARS-CoV were analyzed by using bioinformatic tools. Multi-alignment for the genomic sequences was performed among SARS-CoV, MHV, BCoV, PEDV and HCoV 229E. Secondary structures of RNA sequences were also predicted for the identification of the possible genomic packaging signals. Meanwhile, the N and M proteins of all five viruses were analyzed to study the evolutionary relationship with genomic packaging signals. RESULTS: The putative genomic packaging signal of SARS-CoV locates at the 3' end of ORF1b near that of MHV and BCoV, where is the most variable region of this gene. The RNA secondary structure of SARS-CoV genomic packaging signal is very similar to that of MHV and BCoV. The same result was also obtained in studying the genomic packaging signals of PEDV and HCoV 229E. Further more, the genomic sequence multi-alignment indicated that the locations of packaging signals of SARS-CoV, PEDV, and HCoV overlaped each other. It seems that the mutation rate of packaging signal sequences is much higher than the N protein, while only subtle variations for the M protein. CONCLUSIONS: The probable genomic packaging signal of SARS-CoV is analogous to that of MHV and BCoV, with the corresponding secondary RNA structure locating at the similar region of ORF1b. The positions where genomic packaging signals exist have suffered rounds of mutations, which may influence the primary structures of the N and M proteins consequently. |
| WOS关键词 | DEFECTIVE INTERFERING RNAS ; VIRAL ENVELOPE PROTEIN ; MURINE CORONAVIRUS ; VIRUS ; ENCAPSIDATION ; GENE |
| WOS研究方向 | Chemistry ; Pharmacology & Pharmacy |
| 语种 | 英语 |
| CSCD记录号 | CSCD:1272766 |
| WOS记录号 | WOS:000183575100002 |
| 出版者 | SHANGHAI INST MATERIA MEDICA |
| 源URL | [http://119.78.100.183/handle/2S10ELR8/274224]  |
| 专题 | 新药研究国家重点实验室 中科院受体结构与功能重点实验室 |
| 通讯作者 | Shen, X |
| 作者单位 | 1.Chinese Acad Sci, Shanghai Inst Biol Sci, Shanghai Inst Mat Med, State Key Lab Drug Res,Drug Discovery & Design Ct, Shanghai 201203, Peoples R China 2.Shanghai Ctr Bioinformat Technol, Shanghai 201203, Peoples R China 3.Chinese Acad Sci, Shanghai Inst Biol Sci, Shanghai 200031, Peoples R China 4.Fudan Univ, Sch Life Sci, Shanghai 200433, Peoples R China |
| 推荐引用方式 GB/T 7714 | Qin, L,Xiong, B,Luo, C,et al. Identification of probable genomic packaging signal sequence from SARS-CoV genome by bioinformatics analysis[J]. ACTA PHARMACOLOGICA SINICA,2003,24(6):489-496. |
| APA | Qin, L.,Xiong, B.,Luo, C.,Guo, ZM.,Hao, P.,...&Li, YX.(2003).Identification of probable genomic packaging signal sequence from SARS-CoV genome by bioinformatics analysis.ACTA PHARMACOLOGICA SINICA,24(6),489-496. |
| MLA | Qin, L,et al."Identification of probable genomic packaging signal sequence from SARS-CoV genome by bioinformatics analysis".ACTA PHARMACOLOGICA SINICA 24.6(2003):489-496. |
入库方式： OAI收割
来源：上海药物研究所
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