Analysis of preferred codon usage in the coronavirus N genes and their implications for genome evolution and vaccine design
Identifieur interne : 000297 ( Main/Exploration ); précédent : 000296; suivant : 000298Analysis of preferred codon usage in the coronavirus N genes and their implications for genome evolution and vaccine design
Auteurs : Abdullah Sheikh [Arabie saoudite] ; Abdulla Al-Taher [Arabie saoudite] ; Mohammed Al-Nazawi [Arabie saoudite] ; Abdullah I. Al-Mubarak [Arabie saoudite] ; Mahmoud Kandeel [Arabie saoudite, Égypte]Source :
- Journal of Virological Methods [ 0166-0934 ] ; 2020.
Abstract
The nucleotide variations among the N genes of 13 different coronaviruses (CoVs) were interpreted. Overall, 18 amino acids observed with varying preferred codons. The effective number of codon values ranged from 40.43 to 53.85, revealing a slight codon bias. A highly significant correlation between GC3s and ENc values was observed in porcine epidemic diarrhea CoV, followed by Middle East respiratory syndrome CoV.
Url:
DOI: 10.1016/j.jviromet.2019.113806
PubMed: 31911390
PubMed Central: 7119019
Affiliations:
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last="Al-Taher">Abdulla Al-Taher</name><affiliation wicri:level="1"><nlm:aff id="aff0010">Department of Biomedical Sciences, College of Veterinary Medicine, King Faisal University, Alhofuf, Alahsa 31982, Saudi Arabia</nlm:aff><country xml:lang="fr">Arabie saoudite</country><wicri:regionArea>Department of Biomedical Sciences, College of Veterinary Medicine, King Faisal University, Alhofuf, Alahsa 31982</wicri:regionArea><wicri:noRegion>Alahsa 31982</wicri:noRegion></affiliation></author><author><name sortKey="Al Nazawi, Mohammed" sort="Al Nazawi, Mohammed" uniqKey="Al Nazawi M" first="Mohammed" last="Al-Nazawi">Mohammed Al-Nazawi</name><affiliation wicri:level="1"><nlm:aff id="aff0010">Department of Biomedical Sciences, College of Veterinary Medicine, King Faisal University, Alhofuf, Alahsa 31982, Saudi Arabia</nlm:aff><country xml:lang="fr">Arabie saoudite</country><wicri:regionArea>Department of Biomedical Sciences, College of Veterinary Medicine, King Faisal University, Alhofuf, Alahsa 31982</wicri:regionArea><wicri:noRegion>Alahsa 31982</wicri:noRegion></affiliation></author><author><name sortKey="Al Mubarak, Abdullah I" sort="Al Mubarak, Abdullah I" uniqKey="Al Mubarak A" first="Abdullah I." last="Al-Mubarak">Abdullah I. Al-Mubarak</name><affiliation wicri:level="1"><nlm:aff id="aff0015">Department of Microbiology, College of Veterinary Medicine, King Faisal University, Alhofuf, Alahsa 31982, Saudi Arabia</nlm:aff><country xml:lang="fr">Arabie saoudite</country><wicri:regionArea>Department of Microbiology, College of Veterinary Medicine, King Faisal University, Alhofuf, Alahsa 31982</wicri:regionArea><wicri:noRegion>Alahsa 31982</wicri:noRegion></affiliation></author><author><name sortKey="Kandeel, Mahmoud" sort="Kandeel, Mahmoud" uniqKey="Kandeel M" first="Mahmoud" last="Kandeel">Mahmoud Kandeel</name><affiliation wicri:level="1"><nlm:aff id="aff0010">Department of Biomedical Sciences, College of Veterinary Medicine, King Faisal University, Alhofuf, Alahsa 31982, Saudi Arabia</nlm:aff><country xml:lang="fr">Arabie saoudite</country><wicri:regionArea>Department of Biomedical Sciences, College of Veterinary Medicine, King Faisal University, Alhofuf, Alahsa 31982</wicri:regionArea><wicri:noRegion>Alahsa 31982</wicri:noRegion></affiliation><affiliation wicri:level="1"><nlm:aff id="aff0020">Department of Pharmacology, Faculty of Veterinary Medicine, Kafrelsheikh University, Kafrelsheikh 33516, Egypt</nlm:aff><country xml:lang="fr">Égypte</country><wicri:regionArea>Department of Pharmacology, Faculty of Veterinary Medicine, Kafrelsheikh University, Kafrelsheikh 33516</wicri:regionArea><wicri:noRegion>Kafrelsheikh 33516</wicri:noRegion></affiliation></author></analytic><series><title level="j">Journal of Virological Methods</title><idno type="ISSN">0166-0934</idno><idno type="eISSN">1879-0984</idno><imprint><date when="2020">2020</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><title>Highlights</title><p><list list-type="simple" id="lis0005"><list-item id="lsti0005"><label>•</label><p id="par0005">The nucleotide variations among the N genes of 13 different coronaviruses (CoVs) were interpreted.</p></list-item><list-item id="lsti0010"><label>•</label><p id="par0010">Overall, 18 amino acids observed with varying preferred codons.</p></list-item><list-item id="lsti0015"><label>•</label><p id="par0015">The effective number of codon values ranged from 40.43 to 53.85, revealing a slight codon bias.</p></list-item><list-item id="lsti0020"><label>•</label><p id="par0020">A highly significant correlation between GC3s and ENc values was observed in porcine epidemic diarrhea CoV, followed by Middle East respiratory syndrome CoV.</p></list-item></list></p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Ahn, I" uniqKey="Ahn I">I. 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Lu</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Arabie saoudite</li><li>Égypte</li></country></list><tree><country name="Arabie saoudite"><noRegion><name sortKey="Sheikh, Abdullah" sort="Sheikh, Abdullah" uniqKey="Sheikh A" first="Abdullah" last="Sheikh">Abdullah Sheikh</name></noRegion><name sortKey="Al Mubarak, Abdullah I" sort="Al Mubarak, Abdullah I" uniqKey="Al Mubarak A" first="Abdullah I." last="Al-Mubarak">Abdullah I. Al-Mubarak</name><name sortKey="Al Nazawi, Mohammed" sort="Al Nazawi, Mohammed" uniqKey="Al Nazawi M" first="Mohammed" last="Al-Nazawi">Mohammed Al-Nazawi</name><name sortKey="Al Taher, Abdulla" sort="Al Taher, Abdulla" uniqKey="Al Taher A" first="Abdulla" last="Al-Taher">Abdulla Al-Taher</name><name sortKey="Kandeel, Mahmoud" sort="Kandeel, Mahmoud" uniqKey="Kandeel M" first="Mahmoud" last="Kandeel">Mahmoud Kandeel</name></country><country name="Égypte"><noRegion><name sortKey="Kandeel, Mahmoud" sort="Kandeel, Mahmoud" uniqKey="Kandeel M" first="Mahmoud" last="Kandeel">Mahmoud Kandeel</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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