Proteome-wide analysis of human motif-domain interactions mapped on influenza a virus.
Identifieur interne : 000020 ( PubMed/Curation ); précédent : 000019; suivant : 000021Proteome-wide analysis of human motif-domain interactions mapped on influenza a virus.
Auteurs : Carlos A. García-Pérez [Mexique] ; Xianwu Guo [Mexique] ; Juan García Navarro [Mexique] ; Diego Alonso G Mez Aguilar [Mexique] ; Edgar E. Lara-Ramírez [Mexique]Source :
- BMC bioinformatics [ 1471-2105 ] ; 2018.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Protéome, Virus de la grippe A.
- Humains, Interactions hôte-pathogène.
English descriptors
- KwdEn :
- MESH :
- chemical , genetics : Proteome.
- genetics : Influenza A virus.
- Host-Pathogen Interactions, Humans.
Abstract
The influenza A virus (IAV) is a constant threat for humans worldwide. The understanding of motif-domain protein participation is essential to combat the pathogen.
DOI: 10.1186/s12859-018-2237-8
PubMed: 29940841
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García-Pérez</name><affiliation wicri:level="1"><nlm:affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas</wicri:regionArea></affiliation></author><author><name sortKey="Guo, Xianwu" sort="Guo, Xianwu" uniqKey="Guo X" first="Xianwu" last="Guo">Xianwu Guo</name><affiliation wicri:level="1"><nlm:affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas</wicri:regionArea></affiliation></author><author><name sortKey="Navarro, Juan Garcia" sort="Navarro, Juan Garcia" uniqKey="Navarro J" first="Juan García" last="Navarro">Juan García Navarro</name><affiliation wicri:level="1"><nlm:affiliation>Oracle MDC, Guadalajara, Mexico.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Oracle MDC, Guadalajara</wicri:regionArea></affiliation></author><author><name sortKey="Aguilar, Diego Alonso G Mez" sort="Aguilar, Diego Alonso G Mez" uniqKey="Aguilar D" first="Diego Alonso G Mez" last="Aguilar">Diego Alonso G Mez Aguilar</name><affiliation wicri:level="1"><nlm:affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas</wicri:regionArea></affiliation></author><author><name sortKey="Lara Ramirez, Edgar E" sort="Lara Ramirez, Edgar E" uniqKey="Lara Ramirez E" first="Edgar E" last="Lara-Ramírez">Edgar E. 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García-Pérez</name><affiliation wicri:level="1"><nlm:affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas</wicri:regionArea></affiliation></author><author><name sortKey="Guo, Xianwu" sort="Guo, Xianwu" uniqKey="Guo X" first="Xianwu" last="Guo">Xianwu Guo</name><affiliation wicri:level="1"><nlm:affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas</wicri:regionArea></affiliation></author><author><name sortKey="Navarro, Juan Garcia" sort="Navarro, Juan Garcia" uniqKey="Navarro J" first="Juan García" last="Navarro">Juan García Navarro</name><affiliation wicri:level="1"><nlm:affiliation>Oracle MDC, Guadalajara, Mexico.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Oracle MDC, Guadalajara</wicri:regionArea></affiliation></author><author><name sortKey="Aguilar, Diego Alonso G Mez" sort="Aguilar, Diego Alonso G Mez" uniqKey="Aguilar D" first="Diego Alonso G Mez" last="Aguilar">Diego Alonso G Mez Aguilar</name><affiliation wicri:level="1"><nlm:affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas</wicri:regionArea></affiliation></author><author><name sortKey="Lara Ramirez, Edgar E" sort="Lara Ramirez, Edgar E" uniqKey="Lara Ramirez E" first="Edgar E" last="Lara-Ramírez">Edgar E. Lara-Ramírez</name><affiliation wicri:level="1"><nlm:affiliation>Unidad de Investigación Biomédica de Zacatecas, Instituto Mexicano del Seguro Social, Interior Alameda # 45, Colonia Centro, CP. 98000, Zacatecas, Zac, Mexico. doc_lara_ram@hotmail.com.</nlm:affiliation><country xml:lang="fr">Mexique</country><wicri:regionArea>Unidad de Investigación Biomédica de Zacatecas, Instituto Mexicano del Seguro Social, Interior Alameda # 45, Colonia Centro, CP. 98000, Zacatecas, Zac</wicri:regionArea></affiliation></author></analytic><series><title level="j">BMC bioinformatics</title><idno type="eISSN">1471-2105</idno><imprint><date when="2018" type="published">2018</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Host-Pathogen Interactions</term><term>Humans</term><term>Influenza A virus (genetics)</term><term>Proteome (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Humains</term><term>Interactions hôte-pathogène</term><term>Protéome (génétique)</term><term>Virus de la grippe A (génétique)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>Proteome</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Influenza A virus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Protéome</term><term>Virus de la grippe A</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Host-Pathogen Interactions</term><term>Humans</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Humains</term><term>Interactions hôte-pathogène</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">The influenza A virus (IAV) is a constant threat for humans worldwide. The understanding of motif-domain protein participation is essential to combat the pathogen.</div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" IndexingMethod="Curated" Owner="NLM"><PMID Version="1">29940841</PMID><DateCompleted><Year>2019</Year><Month>02</Month><Day>13</Day></DateCompleted><DateRevised><Year>2019</Year><Month>02</Month><Day>15</Day></DateRevised><Article PubModel="Electronic"><Journal><ISSN IssnType="Electronic">1471-2105</ISSN><JournalIssue CitedMedium="Internet"><Volume>19</Volume><Issue>1</Issue><PubDate><Year>2018</Year><Month>06</Month><Day>25</Day></PubDate></JournalIssue><Title>BMC bioinformatics</Title><ISOAbbreviation>BMC Bioinformatics</ISOAbbreviation></Journal><ArticleTitle>Proteome-wide analysis of human motif-domain interactions mapped on influenza a virus.</ArticleTitle><Pagination><MedlinePgn>238</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.1186/s12859-018-2237-8</ELocationID><Abstract><AbstractText Label="BACKGROUND">The influenza A virus (IAV) is a constant threat for humans worldwide. The understanding of motif-domain protein participation is essential to combat the pathogen.</AbstractText><AbstractText Label="RESULTS">In this study, a data mining approach was employed to extract influenza-human Protein-Protein interactions (PPI) from VirusMentha,Virus MINT, IntAct, and Pfam databases, to mine motif-domain interactions (MDIs) stored as Regular Expressions (RegExp) in 3DID database. A total of 107 RegExp related to human MDIs were searched on 51,242 protein fragments from H1N1, H1N2, H2N2, H3N2 and H5N1 strains obtained from Virus Variation database. A total 46 MDIs were frequently mapped on the IAV proteins and shared between the different strains. IAV kept host-like MDIs that were associated with the virus survival, which could be related to essential biological process such as microtubule-based processes, regulation of cell cycle check point, regulation of replication and transcription of DNA, etc. in human cells. The amino acid motifs were searched for matches in the immune epitope database and it was found that some motifs are part of experimentally determined epitopes on IAV, implying that such interactions exist.</AbstractText><AbstractText Label="CONCLUSION">The directed data-mining method employed could be used to identify functional motifs in other viruses for envisioning new therapies.</AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>García-Pérez</LastName><ForeName>Carlos A</ForeName><Initials>CA</Initials><AffiliationInfo><Affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Guo</LastName><ForeName>Xianwu</ForeName><Initials>X</Initials><AffiliationInfo><Affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Navarro</LastName><ForeName>Juan García</ForeName><Initials>JG</Initials><AffiliationInfo><Affiliation>Oracle MDC, Guadalajara, Mexico.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Aguilar</LastName><ForeName>Diego Alonso Gómez</ForeName><Initials>DAG</Initials><AffiliationInfo><Affiliation>Centro de Biotecnología Genómica, Instituto Politécnico Nacional, Reynosa, Tamaulipas, Mexico.</Affiliation></AffiliationInfo></Author><Author ValidYN="Y"><LastName>Lara-Ramírez</LastName><ForeName>Edgar E</ForeName><Initials>EE</Initials><AffiliationInfo><Affiliation>Unidad de Investigación Biomédica de Zacatecas, Instituto Mexicano del Seguro Social, Interior Alameda # 45, Colonia Centro, CP. 98000, Zacatecas, Zac, Mexico. doc_lara_ram@hotmail.com.</Affiliation></AffiliationInfo></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType><PublicationType UI="D013485">Research Support, Non-U.S. Gov't</PublicationType></PublicationTypeList><ArticleDate DateType="Electronic"><Year>2018</Year><Month>06</Month><Day>25</Day></ArticleDate></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>BMC Bioinformatics</MedlineTA><NlmUniqueID>100965194</NlmUniqueID><ISSNLinking>1471-2105</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D020543">Proteome</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D054884" MajorTopicYN="N">Host-Pathogen Interactions</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D006801" MajorTopicYN="N">Humans</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D009980" MajorTopicYN="N">Influenza A virus</DescriptorName><QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D020543" 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