PMC:7106203 / 2883-6937 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/7106203","sourcedb":"PMC","sourceid":"7106203","source_url":"https://www.ncbi.nlm.nih.gov/pmc/7106203","text":"It is interesting that our nucleotide sequence alignment also revealed ninety-three mutations over the entire genomes of SARS-CoV-2 (Table 1 ). Forty-two missense mutations were identified in all the major non-structural and structural proteins, except the envelope protein. Twenty-nine missense mutations were in the ORF1ab polyprotein, eight in the spike surface glycoprotein, one in the matrix protein, and four in the nucleocapsid protein. Of note, three mutations (D354, Y364, and F367) located in the spike surface glycoprotein receptor-binding domain. The spike surface glycoprotein plays an essential role in binding to receptors on the host cell and determines host tropism (Fung and Liu, 2019). It is also the major target of neutralizing antibodies (Yu et al., 2020). Mutations in the spike surface glycoprotein might induce its conformational changes, which probably led to the changing antigenicity. To date, a study on localization of amino acids involved in conformational changes of the SARS-CoV-2 spike surface glycoprotein structure is not available. The identification of these amino acids is of significance and should be investigated by further studies.\nTable 1 Mutations found in the entire genome of SARS-CoV-2 strains. The number in the parentheses indicated the location of amino acid in its protein.\nGenomic region No. nt mutations Missense mutation SARV-CoV-2 strain\n5′ UTR 8 N/A\nORF1ab polyprotein 48 29\nA (117) → T USA/CA3/2020/EPI_ISL_408008USA/CA4/2020/EPI_ISL_408009\nP (309) → S France/IDF0515/2020/EPI ISL_408430\nS (428) → N USA/CA1/2020/EPI_ISL_406034\nT (609) → I USA/CA5/2020/EPI_ISL_408010\nA (1176) → V Japan/TY-WK-012/2020/EPI_ISL_408665\nL (1599) → F Korea/KCDC03/2020/EPI_ISL_407193\nI (1607) → V USA/CA3/2020/EPI_ISL_408008USA/CA4/2020/EPI_ISL_408009\nM (2194) → T Shenzhen/SZTH-004/2020/EPI_ISL_406595\nL (2235) → I Wuhan/WH01/2019/EPI_ISL_406798\nI (2244) → T Wuhan/IPBCAMS-WH-03/2019/EPI_ISL_403930\nG (2251) → S Wuhan/WIV05/2019/EPI_ISL_402128\nA (2345) → V Shandong/IVDC-SD-001/2020/EPI_ISL_408482\nG (2534) → V Wuhan/IPBCAMS-WH-05/2020/EPI_ISL_403928\nD (2579) → A Wuhan/WIV07/2019/EPI_ISL_402130\nN (2708) → S Wuhan/IPBCAMS-WH-01/2019/EPI_ISL_402123\nF (2908) → I Wuhan/IPBCAMS-WH-01/2019/EPI_ISL_402123\nT (3058) → I France/IDF0515/2020/EPI_ISL_408430\nS (3099) → L Shenzhen/HKU-SZ-005/2020/EPI_ISL_405839\nL (3606) → F Yunnan/IVDC-YN-003/2020/EPI_ISL_408480Shandong/IVDC-SD-001/2020/EPI_ISL_408482Chongqing/IVDC-CQ-001/2020/EPI_ISL_408481Singapore/3/2020/EPI_ISL_407988France/IDF0515/2020/EPI_ISL_408430USA/AZ1/2020/EPI_ISL_406223\nE (3764) → D Japan/KY-V-029/2020/EPI_ISL_408669\nN (3833) → K Wuhan/WH01/2019/EPI_ISL_406798\nW (5308) → C Taiwan/2/2020/EPI_ISL_406031\nT (5579) → I USA/CA2/2020/EPI_ISL_406036\nI (6075) → T England/02/2020/EPI_ISL_407073England/01/2020/EPI_ISL_407071\nP (6083) → L Japan/AI/I-004/2020/EPI_ISL_407084\nF (6309) → Y Sichuan/IVDC-SC-001/2020/EPI_ISL_408484\nE (6565) → D Shenzhen/SZTH-004/2020/EPI_ISL_406595\nK (6958) → R Wuhan/WIV05/2019/EPI_ISL_402128\nD (7018) → N Wuhan/WIV02/2019/EPI_ISL_402127\nSpike polyprotein 14 8\nF (32) → I Wuhan/HBCDC-HB-01/2019/EPI_ISL_402132\nH (49) → Y Guangdong/20SF174/2020/EPI_ISL_406531Guangdong/20SF040/2020/EPI_ISL_403937Guangdong/20SF028/2020/EPI_ISL_403936\nS (247) → R Australia/VIC01/2020/EPI_ISL_406844\nN (354) → D Shenzhen/SZTH-004/2020/EPI_ISL_406595\nD (364) → Y Shenzhen/SZTH-004/2020/EPI_ISL_406595\nV (367) → F France/IDF0372/2020/EPI_ISL_406596France/IDF0373/2020/EPI_ISL_406597\nD (614) → G Germany/BavPat1/2020/EPI_ISL_406862\nP (1143) → L Australia/QLD02/2020/EPI_ISL_407896\nIntergenic region 5 N/A\nEnvelope protein 0 0\nMatrix protein 2 1\nD (209) → H Singapore/2/2020/EPI_ISL_407987\nIntergenic region 6 N/A\nNucleocapsid protein 7 4\nT (148) → I Shenzhen/SZTH-004/2020/EPI_ISL_406595\nS (194) → L Shenzhen/SZTH-003/2020/EPI_ISL_406594Foshan/20SF207/2020/EPI_ISL_406534USA/CA3/2020/EPI_ISL_408008USA/CA4/2020/EPI_ISL_408009\nS (202) → N Australia/QLD02/2020/EPI_ISL_407896\nP (344) → S Guangzhou/20SF206/2020/EPI_ISL_406533\n3′UTR 3 N/A\nComplete genome 93 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