Analysis of the genome sequence of an alpaca coronavirus.
Identifieur interne : 000E90 ( Main/Exploration ); précédent : 000E89; suivant : 000E91Analysis of the genome sequence of an alpaca coronavirus.
Auteurs : L. Jin [États-Unis] ; C K Cebra ; R J Baker ; D E Mattson ; S A Cohen ; D E Alvarado ; G F RohrmannSource :
- Virology [ 0042-6822 ] ; 2007.
Descripteurs français
- KwdFr :
- MESH :
- analyse : Glycoprotéines membranaires, Protéines de l'enveloppe virale.
- génétique : Coronavirus, Coronavirus bovin.
- virologie : Fèces.
- Analyse de séquence d'ADN, Animaux, Coronavirus, Données de séquences moléculaires, Glycoprotéine de spicule des coronavirus, Génome viral.
English descriptors
- KwdEn :
- MESH :
- chemical , analysis : Membrane Glycoproteins, Viral Envelope Proteins.
- classification : Coronavirus.
- genetics : Coronavirus, Coronavirus, Bovine.
- virology : Feces.
- Animals, Genome, Viral, Molecular Sequence Data, Sequence Analysis, DNA, Spike Glycoprotein, Coronavirus.
Abstract
Coronaviral infection of New World camelids was first identified in 1998 in llamas and alpacas with severe diarrhea. In order to understand this infection, one of the coronavirus isolates was sequenced and analyzed. It has a genome of 31,076 nt including the poly A tail at the 3' end. This virus designated as ACoV-00-1381 (ACoV) encodes all 10 open reading frames (ORFs) characteristic of Group 2 bovine coronavirus (BCoV). Phylogenetic analysis showed that the ACoV genome is clustered closely (>99.5% identity) with two BCoV strains, ENT and LUN, and was also closely related to other BCoV strains (Mebus, Quebec, DB2), a human corona virus (strain 043) (>96%), and porcine hemagglutinating encephalomyelitis virus (>93% identity). A total of 145 point mutations and one nucleotide deletion were found relative to the BCoV ENT. Most of the ORFs were highly conserved; however, the predicted spike protein (S) has 9 and 12 amino acid differences from BCoV LUN and ENT, respectively, and shows a higher relative number of changes than the other proteins. Phylogenetic analysis suggests that ACoV shares the same ancestor as BCoV ENT and LUN.
DOI: 10.1016/j.virol.2007.03.035
PubMed: 17459444
Affiliations:
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Le document en format XML
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Jin</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biomedical Sciences, College of Veterinary Medicine, Oregon State University, Corvallis, OR 97331, USA. ling.jin@oregonstate.edu </nlm:affiliation> <country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Biomedical Sciences, College of Veterinary Medicine, Oregon State University, Corvallis, OR 97331</wicri:regionArea><wicri:noRegion>OR 97331</wicri:noRegion></affiliation></author><author><name sortKey="Cebra, C K" sort="Cebra, C K" uniqKey="Cebra C" first="C K" last="Cebra">C K Cebra</name></author><author><name sortKey="Baker, R J" sort="Baker, R J" uniqKey="Baker R" first="R J" last="Baker">R J Baker</name></author><author><name sortKey="Mattson, D E" sort="Mattson, D E" uniqKey="Mattson D" first="D E" last="Mattson">D E Mattson</name></author><author><name sortKey="Cohen, S A" sort="Cohen, S A" uniqKey="Cohen S" first="S A" last="Cohen">S A Cohen</name></author><author><name sortKey="Alvarado, D E" sort="Alvarado, D E" uniqKey="Alvarado D" first="D E" last="Alvarado">D E Alvarado</name></author><author><name sortKey="Rohrmann, G F" sort="Rohrmann, G F" uniqKey="Rohrmann G" first="G F" last="Rohrmann">G F Rohrmann</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2007">2007</date><idno type="RBID">pubmed:17459444</idno><idno type="pmid">17459444</idno><idno type="doi">10.1016/j.virol.2007.03.035</idno><idno type="wicri:Area/PubMed/Corpus">000693</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000693</idno><idno type="wicri:Area/PubMed/Curation">000693</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000693</idno><idno type="wicri:Area/PubMed/Checkpoint">000686</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000686</idno><idno type="wicri:Area/Ncbi/Merge">000094</idno><idno type="wicri:Area/Ncbi/Curation">000094</idno><idno type="wicri:Area/Ncbi/Checkpoint">000094</idno><idno type="wicri:doubleKey">0042-6822:2007:Jin L:analysis:of:the</idno><idno type="wicri:Area/Main/Merge">000E96</idno><idno type="wicri:Area/Main/Curation">000E90</idno><idno type="wicri:Area/Main/Exploration">000E90</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Analysis of the genome sequence of an alpaca coronavirus.</title><author><name sortKey="Jin, L" sort="Jin, L" uniqKey="Jin L" first="L" last="Jin">L. Jin</name><affiliation wicri:level="1"><nlm:affiliation>Department of Biomedical Sciences, College of Veterinary Medicine, Oregon State University, Corvallis, OR 97331, USA. ling.jin@oregonstate.edu </nlm:affiliation> <country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Biomedical Sciences, College of Veterinary Medicine, Oregon State University, Corvallis, OR 97331</wicri:regionArea><wicri:noRegion>OR 97331</wicri:noRegion></affiliation></author><author><name sortKey="Cebra, C K" sort="Cebra, C K" uniqKey="Cebra C" first="C K" last="Cebra">C K Cebra</name></author><author><name sortKey="Baker, R J" sort="Baker, R J" uniqKey="Baker R" first="R J" last="Baker">R J Baker</name></author><author><name sortKey="Mattson, D E" sort="Mattson, D E" uniqKey="Mattson D" first="D E" last="Mattson">D E Mattson</name></author><author><name sortKey="Cohen, S A" sort="Cohen, S A" uniqKey="Cohen S" first="S A" last="Cohen">S A Cohen</name></author><author><name sortKey="Alvarado, D E" sort="Alvarado, D E" uniqKey="Alvarado D" first="D E" last="Alvarado">D E Alvarado</name></author><author><name sortKey="Rohrmann, G F" sort="Rohrmann, G F" uniqKey="Rohrmann G" first="G F" last="Rohrmann">G F Rohrmann</name></author></analytic><series><title level="j">Virology</title><idno type="ISSN">0042-6822</idno><imprint><date when="2007" type="published">2007</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>Coronavirus (classification)</term><term>Coronavirus (genetics)</term><term>Coronavirus, Bovine (genetics)</term><term>Feces (virology)</term><term>Genome, Viral</term><term>Membrane Glycoproteins (analysis)</term><term>Molecular Sequence Data</term><term>Sequence Analysis, DNA</term><term>Spike Glycoprotein, Coronavirus</term><term>Viral Envelope Proteins (analysis)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Animaux</term><term>Coronavirus ()</term><term>Coronavirus (génétique)</term><term>Coronavirus bovin (génétique)</term><term>Données de séquences moléculaires</term><term>Fèces (virologie)</term><term>Glycoprotéine de spicule des coronavirus</term><term>Glycoprotéines membranaires (analyse)</term><term>Génome viral</term><term>Protéines de l'enveloppe virale (analyse)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="analysis" xml:lang="en"><term>Membrane Glycoproteins</term><term>Viral Envelope Proteins</term></keywords><keywords scheme="MESH" qualifier="analyse" xml:lang="fr"><term>Glycoprotéines membranaires</term><term>Protéines de l'enveloppe virale</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Coronavirus</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Coronavirus</term><term>Coronavirus, Bovine</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Coronavirus</term><term>Coronavirus bovin</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Fèces</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Feces</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Genome, Viral</term><term>Molecular Sequence Data</term><term>Sequence Analysis, DNA</term><term>Spike Glycoprotein, Coronavirus</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Analyse de séquence d'ADN</term><term>Animaux</term><term>Coronavirus</term><term>Données de séquences moléculaires</term><term>Glycoprotéine de spicule des coronavirus</term><term>Génome viral</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Coronaviral infection of New World camelids was first identified in 1998 in llamas and alpacas with severe diarrhea. In order to understand this infection, one of the coronavirus isolates was sequenced and analyzed. It has a genome of 31,076 nt including the poly A tail at the 3' end. This virus designated as ACoV-00-1381 (ACoV) encodes all 10 open reading frames (ORFs) characteristic of Group 2 bovine coronavirus (BCoV). Phylogenetic analysis showed that the ACoV genome is clustered closely (>99.5% identity) with two BCoV strains, ENT and LUN, and was also closely related to other BCoV strains (Mebus, Quebec, DB2), a human corona virus (strain 043) (>96%), and porcine hemagglutinating encephalomyelitis virus (>93% identity). A total of 145 point mutations and one nucleotide deletion were found relative to the BCoV ENT. Most of the ORFs were highly conserved; however, the predicted spike protein (S) has 9 and 12 amino acid differences from BCoV LUN and ENT, respectively, and shows a higher relative number of changes than the other proteins. Phylogenetic analysis suggests that ACoV shares the same ancestor as BCoV ENT and LUN.</div></front></TEI><affiliations><list><country><li>États-Unis</li></country></list><tree><noCountry><name sortKey="Alvarado, D E" sort="Alvarado, D E" uniqKey="Alvarado D" first="D E" last="Alvarado">D E Alvarado</name><name sortKey="Baker, R J" sort="Baker, R J" uniqKey="Baker R" first="R J" last="Baker">R J Baker</name><name sortKey="Cebra, C K" sort="Cebra, C K" uniqKey="Cebra C" first="C K" last="Cebra">C K Cebra</name><name sortKey="Cohen, S A" sort="Cohen, S A" uniqKey="Cohen S" first="S A" last="Cohen">S A Cohen</name><name sortKey="Mattson, D E" sort="Mattson, D E" uniqKey="Mattson D" first="D E" last="Mattson">D E Mattson</name><name sortKey="Rohrmann, G F" sort="Rohrmann, G F" uniqKey="Rohrmann G" first="G F" last="Rohrmann">G F Rohrmann</name></noCountry><country name="États-Unis"><noRegion><name sortKey="Jin, L" sort="Jin, L" uniqKey="Jin L" first="L" last="Jin">L. Jin</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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