PCR sequencing of the spike genes of geographically and chronologically distinct human coronaviruses 229E
A reverse transcription nested PCR (RT-PCR) sequencing methodology was developed and used to generate sequence data from the spike genes of three geographically and chronologically distinct human coronaviruses 229E. These three coronaviruses were isolated originally from the USA in the 1960s (human...
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| Veröffentlicht in: | Journal of virological methods 1998-11, Vol.75 (2), p.179-193 |
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| creator | Hays, J.P. Myint, S.H. |
| description | A reverse transcription nested PCR (RT-PCR) sequencing methodology was developed and used to generate sequence data from the spike genes of three geographically and chronologically distinct human coronaviruses 229E. These three coronaviruses were isolated originally from the USA in the 1960s (human coronavirus 229E strain ATCC VR-74), the UK in the 1990s (human coronavirus 229E LRI 281) and Ghana (human coronavirus 229E A162). Upon translation and alignment with the published spike protein sequence of human coronavirus 229E ‘LP’ (isolated in the UK in the 1970s), it was found that variation within the translated protein sequences was rather limited. In particular, minimal variation was observed between the translated spike protein sequence of human coronaviruses 229E LP and ATCC VR-74 (1/1012 amino acid differences), whilst most variation was observed between the translated spike protein sequence of human coronaviruses 229E LP and A162 (47/1012 amino acid changes). Further, the translated spike protein sequence of human coronavirus 229E A162 showed three clusters of amino acid changes, situated within the 5′ half of the translated spike protein sequence. |
| doi_str_mv | 10.1016/S0166-0934(98)00116-5 |
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These three coronaviruses were isolated originally from the USA in the 1960s (human coronavirus 229E strain ATCC VR-74), the UK in the 1990s (human coronavirus 229E LRI 281) and Ghana (human coronavirus 229E A162). Upon translation and alignment with the published spike protein sequence of human coronavirus 229E ‘LP’ (isolated in the UK in the 1970s), it was found that variation within the translated protein sequences was rather limited. In particular, minimal variation was observed between the translated spike protein sequence of human coronaviruses 229E LP and ATCC VR-74 (1/1012 amino acid differences), whilst most variation was observed between the translated spike protein sequence of human coronaviruses 229E LP and A162 (47/1012 amino acid changes). 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Psychology ; Genes, Viral - genetics ; Genetic Variation - genetics ; Ghana ; Human coronaviruses 229E ; Humans ; Membrane Glycoproteins - genetics ; Microbiology ; Molecular Sequence Data ; PCR ; Polymerase Chain Reaction ; Sequence Homology, Amino Acid ; Spike genes ; Spike Glycoprotein, Coronavirus ; Techniques used in virology ; Time Factors ; United Kingdom ; United States ; Viral Envelope Proteins - genetics ; Virology</subject><ispartof>Journal of virological methods, 1998-11, Vol.75 (2), p.179-193</ispartof><rights>1998 Elsevier Science B.V.</rights><rights>1999 INIST-CNRS</rights><rights>Copyright © 1998 Elsevier Science B.V. All rights reserved. 1998 Elsevier Science B.V.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c543t-be5ffede07f9c067912d1f0031975070ffea24cdcbd3966bd7454fb35df1c9ae3</citedby><cites>FETCH-LOGICAL-c543t-be5ffede07f9c067912d1f0031975070ffea24cdcbd3966bd7454fb35df1c9ae3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://www.sciencedirect.com/science/article/pii/S0166093498001165$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>230,314,776,780,881,3536,27903,27904,65309</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=1673960$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/9870593$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Hays, J.P.</creatorcontrib><creatorcontrib>Myint, S.H.</creatorcontrib><title>PCR sequencing of the spike genes of geographically and chronologically distinct human coronaviruses 229E</title><title>Journal of virological methods</title><addtitle>J Virol Methods</addtitle><description>A reverse transcription nested PCR (RT-PCR) sequencing methodology was developed and used to generate sequence data from the spike genes of three geographically and chronologically distinct human coronaviruses 229E. These three coronaviruses were isolated originally from the USA in the 1960s (human coronavirus 229E strain ATCC VR-74), the UK in the 1990s (human coronavirus 229E LRI 281) and Ghana (human coronavirus 229E A162). Upon translation and alignment with the published spike protein sequence of human coronavirus 229E ‘LP’ (isolated in the UK in the 1970s), it was found that variation within the translated protein sequences was rather limited. In particular, minimal variation was observed between the translated spike protein sequence of human coronaviruses 229E LP and ATCC VR-74 (1/1012 amino acid differences), whilst most variation was observed between the translated spike protein sequence of human coronaviruses 229E LP and A162 (47/1012 amino acid changes). Further, the translated spike protein sequence of human coronavirus 229E A162 showed three clusters of amino acid changes, situated within the 5′ half of the translated spike protein sequence.</description><subject>Adult</subject><subject>Amino Acid Sequence</subject><subject>Biological and medical sciences</subject><subject>Child</subject><subject>Coronavirus - genetics</subject><subject>Coronavirus 229E, Human</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genes, Viral - genetics</subject><subject>Genetic Variation - genetics</subject><subject>Ghana</subject><subject>Human coronaviruses 229E</subject><subject>Humans</subject><subject>Membrane Glycoproteins - genetics</subject><subject>Microbiology</subject><subject>Molecular Sequence Data</subject><subject>PCR</subject><subject>Polymerase Chain Reaction</subject><subject>Sequence Homology, Amino Acid</subject><subject>Spike genes</subject><subject>Spike Glycoprotein, Coronavirus</subject><subject>Techniques used in virology</subject><subject>Time Factors</subject><subject>United Kingdom</subject><subject>United States</subject><subject>Viral Envelope Proteins - genetics</subject><subject>Virology</subject><issn>0166-0934</issn><issn>1879-0984</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>1998</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkV2P1CAUhonRrOPqT9iEC2P0ogptgXKjMZP1I9lE48c1oXBo0Q6M0E6y_15mpxn1yhtIzvuel8N5ELqi5CUllL_6Wg5eEdm0z2X3ghBKecXuoQ3thCzlrr2PNmfLQ_Qo5x-EECaa5gJdyE4QJpsN8p-3X3CGXwsE48OAo8PzCDjv_U_AAwTIx9IAcUh6P3qjp-kW62CxGVMMcYrDWrM-zz6YGY_LTgdsYpH1wacll4i6lteP0QOnpwxP1vsSfX93_W37obr59P7j9u1NZVjbzFUPzDmwQISThnAhaW2pI6ShUjAiSBF13RprettIznsrWta6vmHWUSM1NJfo9Sl3v_Q7sAbCnPSk9snvdLpVUXv1rxL8qIZ4UIJSyQQvAc_WgBTLXvKsdj4bmCYdIC5ZcUmJqCktRnYymhRzTuDOj1CijozUHSN1BKBkp-4YKVb6rv6e8Ny1Qin601XXuSzXJV3Y5D_hXJSfk2J7c7JB2ebBQ1LZ-IIRrE9gZmWj_88gvwHryLEI</recordid><startdate>19981101</startdate><enddate>19981101</enddate><creator>Hays, J.P.</creator><creator>Myint, S.H.</creator><general>Elsevier B.V</general><general>Elsevier</general><general>Elsevier Science B.V</general><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>19981101</creationdate><title>PCR sequencing of the spike genes of geographically and chronologically distinct human coronaviruses 229E</title><author>Hays, J.P. ; Myint, S.H.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c543t-be5ffede07f9c067912d1f0031975070ffea24cdcbd3966bd7454fb35df1c9ae3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>1998</creationdate><topic>Adult</topic><topic>Amino Acid Sequence</topic><topic>Biological and medical sciences</topic><topic>Child</topic><topic>Coronavirus - genetics</topic><topic>Coronavirus 229E, Human</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Genes, Viral - genetics</topic><topic>Genetic Variation - genetics</topic><topic>Ghana</topic><topic>Human coronaviruses 229E</topic><topic>Humans</topic><topic>Membrane Glycoproteins - genetics</topic><topic>Microbiology</topic><topic>Molecular Sequence Data</topic><topic>PCR</topic><topic>Polymerase Chain Reaction</topic><topic>Sequence Homology, Amino Acid</topic><topic>Spike genes</topic><topic>Spike Glycoprotein, Coronavirus</topic><topic>Techniques used in virology</topic><topic>Time Factors</topic><topic>United Kingdom</topic><topic>United States</topic><topic>Viral Envelope Proteins - genetics</topic><topic>Virology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Hays, J.P.</creatorcontrib><creatorcontrib>Myint, S.H.</creatorcontrib><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Journal of virological methods</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Hays, J.P.</au><au>Myint, S.H.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>PCR sequencing of the spike genes of geographically and chronologically distinct human coronaviruses 229E</atitle><jtitle>Journal of virological methods</jtitle><addtitle>J Virol Methods</addtitle><date>1998-11-01</date><risdate>1998</risdate><volume>75</volume><issue>2</issue><spage>179</spage><epage>193</epage><pages>179-193</pages><issn>0166-0934</issn><eissn>1879-0984</eissn><coden>JVMEDH</coden><abstract>A reverse transcription nested PCR (RT-PCR) sequencing methodology was developed and used to generate sequence data from the spike genes of three geographically and chronologically distinct human coronaviruses 229E. These three coronaviruses were isolated originally from the USA in the 1960s (human coronavirus 229E strain ATCC VR-74), the UK in the 1990s (human coronavirus 229E LRI 281) and Ghana (human coronavirus 229E A162). Upon translation and alignment with the published spike protein sequence of human coronavirus 229E ‘LP’ (isolated in the UK in the 1970s), it was found that variation within the translated protein sequences was rather limited. In particular, minimal variation was observed between the translated spike protein sequence of human coronaviruses 229E LP and ATCC VR-74 (1/1012 amino acid differences), whilst most variation was observed between the translated spike protein sequence of human coronaviruses 229E LP and A162 (47/1012 amino acid changes). Further, the translated spike protein sequence of human coronavirus 229E A162 showed three clusters of amino acid changes, situated within the 5′ half of the translated spike protein sequence.</abstract><cop>London</cop><cop>Amsterdam</cop><cop>New York, NY</cop><pub>Elsevier B.V</pub><pmid>9870593</pmid><doi>10.1016/S0166-0934(98)00116-5</doi><tpages>15</tpages><oa>free_for_read</oa></addata></record> |
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| ispartof | Journal of virological methods, 1998-11, Vol.75 (2), p.179-193 |
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| source | MEDLINE; Elsevier ScienceDirect Journals |
| subjects | Adult Amino Acid Sequence Biological and medical sciences Child Coronavirus - genetics Coronavirus 229E, Human Fundamental and applied biological sciences. Psychology Genes, Viral - genetics Genetic Variation - genetics Ghana Human coronaviruses 229E Humans Membrane Glycoproteins - genetics Microbiology Molecular Sequence Data PCR Polymerase Chain Reaction Sequence Homology, Amino Acid Spike genes Spike Glycoprotein, Coronavirus Techniques used in virology Time Factors United Kingdom United States Viral Envelope Proteins - genetics Virology |
| title | PCR sequencing of the spike genes of geographically and chronologically distinct human coronaviruses 229E |
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