Molecular characterization of human coronaviruses and their circulation dynamics in Kenya, 2009-2012.
Identifieur interne : 000D12 ( PubMed/Corpus ); précédent : 000D11; suivant : 000D13Molecular characterization of human coronaviruses and their circulation dynamics in Kenya, 2009-2012.
Auteurs : Lenata A. Sipulwa ; Juliette R. Ongus ; Rodney L. Coldren ; Wallace D. BulimoSource :
- Virology journal [ 1743-422X ] ; 2016.
English descriptors
- KwdEn :
- Coronavirus (classification), Coronavirus (genetics), Coronavirus (isolation & purification), Coronavirus Infections (epidemiology), Coronavirus Infections (history), Coronavirus Infections (virology), Genes, pol, History, 21st Century, Humans, Kenya (epidemiology), Phylogeny, Population Surveillance, Prevalence, RNA, Viral.
- MESH :
- chemical : RNA, Viral.
- classification : Coronavirus.
- epidemiology : Coronavirus Infections, Kenya.
- genetics : Coronavirus.
- history : Coronavirus Infections.
- isolation & purification : Coronavirus.
- virology : Coronavirus Infections.
- Genes, pol, History, 21st Century, Humans, Phylogeny, Population Surveillance, Prevalence.
Abstract
Human Coronaviruses (HCoV) are a common cause of respiratory illnesses and are responsible for considerable morbidity and hospitalization across all age groups especially in individuals with compromised immunity. There are six known species of HCoV: HCoV-229E, HCoV-NL63, HCoV-HKU1, HCoV-OC43, MERS-CoV and SARS-HCoV. Although studies have shown evidence of global distribution of HCoVs, there is limited information on their presence and distribution in Kenya.
DOI: 10.1186/s12985-016-0474-x
PubMed: 26833249
Links to Exploration step
pubmed:26833249Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Molecular characterization of human coronaviruses and their circulation dynamics in Kenya, 2009-2012.</title><author><name sortKey="Sipulwa, Lenata A" sort="Sipulwa, Lenata A" uniqKey="Sipulwa L" first="Lenata A" last="Sipulwa">Lenata A. Sipulwa</name><affiliation><nlm:affiliation>College of Health Sciences (COHES), Jomo Kenyatta University of Agriculture and Technology, (JKUAT), Nairobi, Kenya. lenata7@gmail.com.</nlm:affiliation></affiliation></author><author><name sortKey="Ongus, Juliette R" sort="Ongus, Juliette R" uniqKey="Ongus J" first="Juliette R" last="Ongus">Juliette R. Ongus</name><affiliation><nlm:affiliation>College of Health Sciences (COHES), Jomo Kenyatta University of Agriculture and Technology, (JKUAT), Nairobi, Kenya. julietteongus@jkuat.ac.ke.</nlm:affiliation></affiliation></author><author><name sortKey="Coldren, Rodney L" sort="Coldren, Rodney L" uniqKey="Coldren R" first="Rodney L" last="Coldren">Rodney L. Coldren</name><affiliation><nlm:affiliation>Department of Emerging Infectious Diseases, US Army Medical Research Unit-Kenya, P.O. Box 606 00621, Village Market, Nairobi, Kenya. Rodney.Coldren@usamru-k.org.</nlm:affiliation></affiliation></author><author><name sortKey="Bulimo, Wallace D" sort="Bulimo, Wallace D" uniqKey="Bulimo W" first="Wallace D" last="Bulimo">Wallace D. Bulimo</name><affiliation><nlm:affiliation>Department of Emerging Infectious Diseases, US Army Medical Research Unit-Kenya, P.O. Box 606 00621, Village Market, Nairobi, Kenya. Wallace.bulimo@uonbi.ac.ke.</nlm:affiliation></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2016">2016</date><idno type="RBID">pubmed:26833249</idno><idno type="pmid">26833249</idno><idno type="doi">10.1186/s12985-016-0474-x</idno><idno type="wicri:Area/PubMed/Corpus">000D12</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000D12</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Molecular characterization of human coronaviruses and their circulation dynamics in Kenya, 2009-2012.</title><author><name sortKey="Sipulwa, Lenata A" sort="Sipulwa, Lenata A" uniqKey="Sipulwa L" first="Lenata A" last="Sipulwa">Lenata A. Sipulwa</name><affiliation><nlm:affiliation>College of Health Sciences (COHES), Jomo Kenyatta University of Agriculture and Technology, (JKUAT), Nairobi, Kenya. lenata7@gmail.com.</nlm:affiliation></affiliation></author><author><name sortKey="Ongus, Juliette R" sort="Ongus, Juliette R" uniqKey="Ongus J" first="Juliette R" last="Ongus">Juliette R. Ongus</name><affiliation><nlm:affiliation>College of Health Sciences (COHES), Jomo Kenyatta University of Agriculture and Technology, (JKUAT), Nairobi, Kenya. julietteongus@jkuat.ac.ke.</nlm:affiliation></affiliation></author><author><name sortKey="Coldren, Rodney L" sort="Coldren, Rodney L" uniqKey="Coldren R" first="Rodney L" last="Coldren">Rodney L. Coldren</name><affiliation><nlm:affiliation>Department of Emerging Infectious Diseases, US Army Medical Research Unit-Kenya, P.O. Box 606 00621, Village Market, Nairobi, Kenya. Rodney.Coldren@usamru-k.org.</nlm:affiliation></affiliation></author><author><name sortKey="Bulimo, Wallace D" sort="Bulimo, Wallace D" uniqKey="Bulimo W" first="Wallace D" last="Bulimo">Wallace D. Bulimo</name><affiliation><nlm:affiliation>Department of Emerging Infectious Diseases, US Army Medical Research Unit-Kenya, P.O. Box 606 00621, Village Market, Nairobi, Kenya. Wallace.bulimo@uonbi.ac.ke.</nlm:affiliation></affiliation></author></analytic><series><title level="j">Virology journal</title><idno type="eISSN">1743-422X</idno><imprint><date when="2016" type="published">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Coronavirus (classification)</term><term>Coronavirus (genetics)</term><term>Coronavirus (isolation & purification)</term><term>Coronavirus Infections (epidemiology)</term><term>Coronavirus Infections (history)</term><term>Coronavirus Infections (virology)</term><term>Genes, pol</term><term>History, 21st Century</term><term>Humans</term><term>Kenya (epidemiology)</term><term>Phylogeny</term><term>Population Surveillance</term><term>Prevalence</term><term>RNA, Viral</term></keywords><keywords scheme="MESH" type="chemical" xml:lang="en"><term>RNA, Viral</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Coronavirus</term></keywords><keywords scheme="MESH" qualifier="epidemiology" xml:lang="en"><term>Coronavirus Infections</term><term>Kenya</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Coronavirus</term></keywords><keywords scheme="MESH" qualifier="history" xml:lang="en"><term>Coronavirus Infections</term></keywords><keywords scheme="MESH" qualifier="isolation & purification" xml:lang="en"><term>Coronavirus</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Coronavirus Infections</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Genes, pol</term><term>History, 21st Century</term><term>Humans</term><term>Phylogeny</term><term>Population Surveillance</term><term>Prevalence</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Human Coronaviruses (HCoV) are a common cause of respiratory illnesses and are responsible for considerable morbidity and hospitalization across all age groups especially in individuals with compromised immunity. There are six known species of HCoV: HCoV-229E, HCoV-NL63, HCoV-HKU1, HCoV-OC43, MERS-CoV and SARS-HCoV. Although studies have shown evidence of global distribution of HCoVs, there is limited information on their presence and distribution in Kenya.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">26833249</PMID><DateCompleted><Year>2016</Year><Month>10</Month><Day>13</Day></DateCompleted><DateRevised><Year>2018</Year><Month>11</Month><Day>13</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1743-422X</ISSN><JournalIssue CitedMedium="Internet"><Volume>13</Volume><PubDate><Year>2016</Year><Month>Feb</Month><Day>01</Day></PubDate></JournalIssue><Title>Virology journal</Title><ISOAbbreviation>Virol. J.</ISOAbbreviation></Journal><ArticleTitle>Molecular characterization of human coronaviruses and their circulation dynamics in Kenya, 2009-2012.</ArticleTitle><Pagination><MedlinePgn>18</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/s12985-016-0474-x</ELocationID><Abstract><AbstractText Label="BACKGROUND" NlmCategory="BACKGROUND">Human Coronaviruses (HCoV) are a common cause of respiratory illnesses and are responsible for considerable morbidity and hospitalization across all age groups especially in individuals with compromised immunity. There are six known species of HCoV: HCoV-229E, HCoV-NL63, HCoV-HKU1, HCoV-OC43, MERS-CoV and SARS-HCoV. Although studies have shown evidence of global distribution of HCoVs, there is limited information on their presence and distribution in Kenya.</AbstractText><AbstractText Label="METHODS" NlmCategory="METHODS">HCoV strains that circulated in Kenya were retrospectively diagnosed and molecularly characterized. A total of 417 nasopharyngeal specimens obtained between January 2009 and December 2012 from around Kenya were analyzed by a real time RT-PCR using HCoV-specific primers. HCoV-positive specimens were subsequently inoculated onto monolayers of LL-CMK2 cells. The isolated viruses were characterized by RT-PCR amplification and sequencing of the partial polymerase (pol) gene.</AbstractText><AbstractText Label="RESULTS" NlmCategory="RESULTS">The prevalence of HCoV infection was as follows: out of the 417 specimens, 35 (8.4 %) were positive for HCoV, comprising 10 (2.4 %) HCoV-NL63, 12 (2.9 %) HCoV-OC43, 9 (2.1 %) HCoV-HKU1, and 4 (1 %) HCoV-229E. The Kenyan HCoV strains displayed high sequence homology to the prototypes and contemporaneous strains. Evolution analysis showed that the Kenyan HCoV-OC43 and HCoV-NL63 isolates were under purifying selection. Phylogenetic evolutionary analyses confirmed the identities of three HCoV-HKU1, five HCoV-NL63, eight HCoV-OC43 and three HCoV-229E.</AbstractText><AbstractText Label="CONCLUSIONS" NlmCategory="CONCLUSIONS">There were yearly variations in the prevalence and circulation patterns of individual HCoVs in Kenya. This paper reports on the first molecular characterization of human Coronaviruses in Kenya, which play an important role in causing acute respiratory infections among children.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Sipulwa</LastName><ForeName>Lenata A</ForeName><Initials>LA</Initials><AffiliationInfo><Affiliation>College of Health Sciences (COHES), Jomo Kenyatta University of Agriculture and Technology, (JKUAT), Nairobi, Kenya. lenata7@gmail.com.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Ongus</LastName><ForeName>Juliette R</ForeName><Initials>JR</Initials><AffiliationInfo><Affiliation>College of Health Sciences (COHES), Jomo Kenyatta University of Agriculture and Technology, (JKUAT), Nairobi, Kenya. julietteongus@jkuat.ac.ke.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Coldren</LastName><ForeName>Rodney L</ForeName><Initials>RL</Initials><AffiliationInfo><Affiliation>Department of Emerging Infectious Diseases, US Army Medical Research Unit-Kenya, P.O. Box 606 00621, Village Market, Nairobi, Kenya. Rodney.Coldren@usamru-k.org.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Special Foreign Activity of the Walter Reed Army Institute of Research, Silver Spring, MD, USA. Rodney.Coldren@usamru-k.org.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Bulimo</LastName><ForeName>Wallace D</ForeName><Initials>WD</Initials><AffiliationInfo><Affiliation>Department of Emerging Infectious Diseases, US Army Medical Research Unit-Kenya, P.O. Box 606 00621, Village Market, Nairobi, Kenya. Wallace.bulimo@uonbi.ac.ke.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Special Foreign Activity of the Walter Reed Army Institute of Research, Silver Spring, MD, USA. Wallace.bulimo@uonbi.ac.ke.</Affiliation></AffiliationInfo><AffiliationInfo><Affiliation>Department of Biochemistry, School of Medicine, University of Nairobi, Nairobi, Kenya. Wallace.bulimo@uonbi.ac.ke.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016456">Historical Article</PublicationType><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2016</Year><Month>02</Month><Day>01</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Virol J</MedlineTA><NlmUniqueID>101231645</NlmUniqueID><ISSNLinking>1743-422X</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D012367">RNA, Viral</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D017934" MajorTopicYN="N">Coronavirus</DescriptorName><QualifierName UI="Q000145" MajorTopicYN="Y">classification</QualifierName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName><QualifierName UI="Q000302" MajorTopicYN="N">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D018352" MajorTopicYN="N">Coronavirus Infections</DescriptorName><QualifierName UI="Q000453" MajorTopicYN="Y">epidemiology</QualifierName><QualifierName UI="Q000266" MajorTopicYN="N">history</QualifierName><QualifierName UI="Q000821" MajorTopicYN="Y">virology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D015751" MajorTopicYN="N">Genes, pol</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D049674" MajorTopicYN="N">History, 21st Century</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006801" MajorTopicYN="N">Humans</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D007630" MajorTopicYN="N">Kenya</DescriptorName><QualifierName UI="Q000453" MajorTopicYN="N">epidemiology</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D010802" MajorTopicYN="N">Phylogeny</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D011159" MajorTopicYN="N">Population Surveillance</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D015995" MajorTopicYN="N">Prevalence</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012367" MajorTopicYN="N">RNA, Viral</DescriptorName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2015</Year><Month>10</Month><Day>21</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2016</Year><Month>01</Month><Day>20</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2016</Year><Month>2</Month><Day>3</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2016</Year><Month>2</Month><Day>3</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2016</Year><Month>10</Month><Day>14</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>epublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">26833249</ArticleId><ArticleId IdType="doi">10.1186/s12985-016-0474-x</ArticleId><ArticleId IdType="pii">10.1186/s12985-016-0474-x</ArticleId><ArticleId IdType="pmc">PMC4736488</ArticleId></ArticleIdList><ReferenceList><Reference><Citation>Nucleic Acids Res. 2004;32(5):1792-7</Citation><ArticleIdList><ArticleId IdType="pubmed">15034147</ArticleId></ArticleIdList></Reference><Reference><Citation>Zhonghua Yu Fang Yi Xue Za Zhi. 2004 Mar;38(2):81-3</Citation><ArticleIdList><ArticleId IdType="pubmed">15061910</ArticleId></ArticleIdList></Reference><Reference><Citation>J Mol Biol. 1990 Oct 5;215(3):403-10</Citation><ArticleIdList><ArticleId IdType="pubmed">2231712</ArticleId></ArticleIdList></Reference><Reference><Citation>Virology. 1991 Feb;180(2):567-82</Citation><ArticleIdList><ArticleId IdType="pubmed">1846489</ArticleId></ArticleIdList></Reference><Reference><Citation>Adv Exp Med Biol. 1990;276:307-16</Citation><ArticleIdList><ArticleId IdType="pubmed">1966417</ArticleId></ArticleIdList></Reference><Reference><Citation>Clin Infect Dis. 2005 Mar 1;40(5):662-9</Citation><ArticleIdList><ArticleId IdType="pubmed">15714410</ArticleId></ArticleIdList></Reference><Reference><Citation>Adv Virus Res. 1997;48:1-100</Citation><ArticleIdList><ArticleId IdType="pubmed">9233431</ArticleId></ArticleIdList></Reference><Reference><Citation>J Virol. 2005 Jan;79(2):884-95</Citation><ArticleIdList><ArticleId IdType="pubmed">15613317</ArticleId></ArticleIdList></Reference><Reference><Citation>Clin Infect Dis. 2005 Jun 15;40(12):1721-9</Citation><ArticleIdList><ArticleId IdType="pubmed">15909257</ArticleId></ArticleIdList></Reference><Reference><Citation>Emerg Infect Dis. 2005 Aug;11(8):1225-9</Citation><ArticleIdList><ArticleId IdType="pubmed">16102311</ArticleId></ArticleIdList></Reference><Reference><Citation>J Clin Microbiol. 2006 Jun;44(6):2063-71</Citation><ArticleIdList><ArticleId IdType="pubmed">16757599</ArticleId></ArticleIdList></Reference><Reference><Citation>J Clin Microbiol. 2006 Jul;44(7):2382-8</Citation><ArticleIdList><ArticleId IdType="pubmed">16825353</ArticleId></ArticleIdList></Reference><Reference><Citation>FEMS Microbiol Rev. 2006 Sep;30(5):760-73</Citation><ArticleIdList><ArticleId IdType="pubmed">16911043</ArticleId></ArticleIdList></Reference><Reference><Citation>Pediatrics. 2007 Jan;119(1):e70-6</Citation><ArticleIdList><ArticleId IdType="pubmed">17130280</ArticleId></ArticleIdList></Reference><Reference><Citation>Exp Biol Med (Maywood). 2009 Oct;234(10):1117-27</Citation><ArticleIdList><ArticleId IdType="pubmed">19546349</ArticleId></ArticleIdList></Reference><Reference><Citation>JAMA. 2010 May 26;303(20):2051-7</Citation><ArticleIdList><ArticleId IdType="pubmed">20501927</ArticleId></ArticleIdList></Reference><Reference><Citation>J Virol. 2010 Nov;84(21):11255-63</Citation><ArticleIdList><ArticleId IdType="pubmed">20719951</ArticleId></ArticleIdList></Reference><Reference><Citation>BMC Infect Dis. 2011;11:65</Citation><ArticleIdList><ArticleId IdType="pubmed">21401965</ArticleId></ArticleIdList></Reference><Reference><Citation>J Clin Microbiol. 2011 Jun;49(6):2318-20</Citation><ArticleIdList><ArticleId IdType="pubmed">21490188</ArticleId></ArticleIdList></Reference><Reference><Citation>J Clin Virol. 2012 Feb;53(2):135-9</Citation><ArticleIdList><ArticleId IdType="pubmed">22188723</ArticleId></ArticleIdList></Reference><Reference><Citation>Syst Biol. 2012 May;61(3):539-42</Citation><ArticleIdList><ArticleId IdType="pubmed">22357727</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2012;7(6):e38638</Citation><ArticleIdList><ArticleId IdType="pubmed">22719912</ArticleId></ArticleIdList></Reference><Reference><Citation>N Engl J Med. 2012 Nov 8;367(19):1814-20</Citation><ArticleIdList><ArticleId IdType="pubmed">23075143</ArticleId></ArticleIdList></Reference><Reference><Citation>J Infect Dis. 2012 Dec 15;206 Suppl 1:S46-52</Citation><ArticleIdList><ArticleId IdType="pubmed">23169971</ArticleId></ArticleIdList></Reference><Reference><Citation>PLoS One. 2014;9(7):e99782</Citation><ArticleIdList><ArticleId IdType="pubmed">25080241</ArticleId></ArticleIdList></Reference><Reference><Citation>Influenza Other Respir Viruses. 2010 May 1;4(3):155-61</Citation><ArticleIdList><ArticleId IdType="pubmed">20409212</ArticleId></ArticleIdList></Reference><Reference><Citation>J Infect Dis. 2004 Feb 15;189(4):652-7</Citation><ArticleIdList><ArticleId IdType="pubmed">14767819</ArticleId></ArticleIdList></Reference></ReferenceList></PubmedData></pubmed></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Sante/explor/SrasV1/Data/PubMed/Corpus
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000D12 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/PubMed/Corpus/biblio.hfd -nk 000D12 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Sante
|area= SrasV1
|flux= PubMed
|étape= Corpus
|type= RBID
|clé= pubmed:26833249
|texte= Molecular characterization of human coronaviruses and their circulation dynamics in Kenya, 2009-2012.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/PubMed/Corpus/RBID.i -Sk "pubmed:26833249" \
| HfdSelect -Kh $EXPLOR_AREA/Data/PubMed/Corpus/biblio.hfd \
| NlmPubMed2Wicri -a SrasV1
| This area was generated with Dilib version V0.6.33. |  |