Identification of drought-induced transcription factors in Sorghum bicolor using GO term semantic similarity.
Identifieur interne : 001C99 ( Main/Exploration ); précédent : 001C98; suivant : 001D00Identification of drought-induced transcription factors in Sorghum bicolor using GO term semantic similarity.
Auteurs : Manoj Kumar Sekhwal ; Ajit Kumar Swami ; Vinay Sharma ; Renu SarinSource :
- Cellular & molecular biology letters [ 1689-1392 ] ; 2015.
Descripteurs français
- KwdFr :
- Arabidopsis (MeSH), Facteurs de transcription (composition chimique), Facteurs de transcription (isolement et purification), Gene Ontology (MeSH), Oryza (MeSH), Protéines végétales (composition chimique), Protéines végétales (isolement et purification), Régulation de l'expression des gènes végétaux (MeSH), Sorghum (composition chimique), Sorghum (métabolisme), Sécheresses (MeSH).
- MESH :
- composition chimique : Facteurs de transcription, Protéines végétales, Sorghum.
- isolement et purification : Facteurs de transcription, Protéines végétales.
- métabolisme : Sorghum.
- Arabidopsis, Gene Ontology, Oryza, Régulation de l'expression des gènes végétaux, Sécheresses.
English descriptors
- KwdEn :
- Arabidopsis (MeSH), Droughts (MeSH), Gene Expression Regulation, Plant (MeSH), Gene Ontology (MeSH), Oryza (MeSH), Plant Proteins (chemistry), Plant Proteins (isolation & purification), Sorghum (chemistry), Sorghum (metabolism), Transcription Factors (chemistry), Transcription Factors (isolation & purification).
- MESH :
- chemical , chemistry : Plant Proteins, Transcription Factors.
- chemical , isolation & purification : Plant Proteins, Transcription Factors.
- chemistry : Sorghum.
- metabolism : Sorghum.
- Arabidopsis, Droughts, Gene Expression Regulation, Plant, Gene Ontology, Oryza.
Abstract
Stress tolerance in plants is a coordinated action of multiple stress response genes that also cross talk with other components of the stress signal transduction pathways. The expression and regulation of stress-induced genes are largely regulated by specific transcription factors, families of which have been reported in several plant species, such as Arabidopsis, rice and Populus. In sorghum, the majority of such factors remain unexplored. We used 2DE refined with MALDI-TOF techniques to analyze drought stress-induced proteins in sorghum. A total of 176 transcription factors from the MYB, AUX_ARF, bZIP, AP2 and WRKY families of drought-induced proteins were identified. We developed a method based on semantic similarity of gene ontology terms (GO terms) to identify the transcription factors. A threshold value (≥ 90%) was applied to retrieve total 1,493 transcription factors with high semantic similarity from selected plant species. It could be concluded that the identified transcription factors regulate their target proteins with endogenous signals and environmental cues, such as light, temperature and drought stress. The regulatory network and cis-acting elements of the identified transcription factors in distinct families are involved in responsiveness to auxin, abscisic acid, defense, stress and light. These responses may be highly important in the modulation of plant growth and development.
DOI: 10.2478/s11658-014-0223-3
PubMed: 26204390
Affiliations:
Links toward previous steps (curation, corpus...)
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Identification of drought-induced transcription factors in Sorghum bicolor using GO term semantic similarity.</title><author><name sortKey="Sekhwal, Manoj Kumar" sort="Sekhwal, Manoj Kumar" uniqKey="Sekhwal M" first="Manoj Kumar" last="Sekhwal">Manoj Kumar Sekhwal</name></author><author><name sortKey="Swami, Ajit Kumar" sort="Swami, Ajit Kumar" uniqKey="Swami A" first="Ajit Kumar" last="Swami">Ajit Kumar Swami</name></author><author><name sortKey="Sharma, Vinay" sort="Sharma, Vinay" uniqKey="Sharma V" first="Vinay" last="Sharma">Vinay Sharma</name></author><author><name sortKey="Sarin, Renu" sort="Sarin, Renu" uniqKey="Sarin R" first="Renu" last="Sarin">Renu Sarin</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2015">2015</date><idno type="RBID">pubmed:26204390</idno><idno type="pmid">26204390</idno><idno type="doi">10.2478/s11658-014-0223-3</idno><idno type="wicri:Area/Main/Corpus">001C03</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Corpus" wicri:corpus="PubMed">001C03</idno><idno type="wicri:Area/Main/Curation">001C03</idno><idno type="wicri:explorRef" wicri:stream="Main" wicri:step="Curation">001C03</idno><idno type="wicri:Area/Main/Exploration">001C03</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Identification of drought-induced transcription factors in Sorghum bicolor using GO term semantic similarity.</title><author><name sortKey="Sekhwal, Manoj Kumar" sort="Sekhwal, Manoj Kumar" uniqKey="Sekhwal M" first="Manoj Kumar" last="Sekhwal">Manoj Kumar Sekhwal</name></author><author><name sortKey="Swami, Ajit Kumar" sort="Swami, Ajit Kumar" uniqKey="Swami A" first="Ajit Kumar" last="Swami">Ajit Kumar Swami</name></author><author><name sortKey="Sharma, Vinay" sort="Sharma, Vinay" uniqKey="Sharma V" first="Vinay" last="Sharma">Vinay Sharma</name></author><author><name sortKey="Sarin, Renu" sort="Sarin, Renu" uniqKey="Sarin R" first="Renu" last="Sarin">Renu Sarin</name></author></analytic><series><title level="j">Cellular & molecular biology letters</title><idno type="eISSN">1689-1392</idno><imprint><date when="2015" type="published">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Arabidopsis (MeSH)</term><term>Droughts (MeSH)</term><term>Gene Expression Regulation, Plant (MeSH)</term><term>Gene Ontology (MeSH)</term><term>Oryza (MeSH)</term><term>Plant Proteins (chemistry)</term><term>Plant Proteins (isolation & purification)</term><term>Sorghum (chemistry)</term><term>Sorghum (metabolism)</term><term>Transcription Factors (chemistry)</term><term>Transcription Factors (isolation & purification)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Arabidopsis (MeSH)</term><term>Facteurs de transcription (composition chimique)</term><term>Facteurs de transcription (isolement et purification)</term><term>Gene Ontology (MeSH)</term><term>Oryza (MeSH)</term><term>Protéines végétales (composition chimique)</term><term>Protéines végétales (isolement et purification)</term><term>Régulation de l'expression des gènes végétaux (MeSH)</term><term>Sorghum (composition chimique)</term><term>Sorghum (métabolisme)</term><term>Sécheresses (MeSH)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>Plant Proteins</term><term>Transcription Factors</term></keywords><keywords scheme="MESH" type="chemical" qualifier="isolation & purification" xml:lang="en"><term>Plant Proteins</term><term>Transcription Factors</term></keywords><keywords scheme="MESH" qualifier="chemistry" xml:lang="en"><term>Sorghum</term></keywords><keywords scheme="MESH" qualifier="composition chimique" xml:lang="fr"><term>Facteurs de transcription</term><term>Protéines végétales</term><term>Sorghum</term></keywords><keywords scheme="MESH" qualifier="isolement et purification" xml:lang="fr"><term>Facteurs de transcription</term><term>Protéines végétales</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Sorghum</term></keywords><keywords scheme="MESH" qualifier="métabolisme" xml:lang="fr"><term>Sorghum</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Arabidopsis</term><term>Droughts</term><term>Gene Expression Regulation, Plant</term><term>Gene Ontology</term><term>Oryza</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Arabidopsis</term><term>Gene Ontology</term><term>Oryza</term><term>Régulation de l'expression des gènes végétaux</term><term>Sécheresses</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Stress tolerance in plants is a coordinated action of multiple stress response genes that also cross talk with other components of the stress signal transduction pathways. The expression and regulation of stress-induced genes are largely regulated by specific transcription factors, families of which have been reported in several plant species, such as Arabidopsis, rice and Populus. In sorghum, the majority of such factors remain unexplored. We used 2DE refined with MALDI-TOF techniques to analyze drought stress-induced proteins in sorghum. A total of 176 transcription factors from the MYB, AUX_ARF, bZIP, AP2 and WRKY families of drought-induced proteins were identified. We developed a method based on semantic similarity of gene ontology terms (GO terms) to identify the transcription factors. A threshold value (≥ 90%) was applied to retrieve total 1,493 transcription factors with high semantic similarity from selected plant species. It could be concluded that the identified transcription factors regulate their target proteins with endogenous signals and environmental cues, such as light, temperature and drought stress. The regulatory network and cis-acting elements of the identified transcription factors in distinct families are involved in responsiveness to auxin, abscisic acid, defense, stress and light. These responses may be highly important in the modulation of plant growth and development. </div></front></TEI><pubmed><MedlineCitation Status="MEDLINE" Owner="NLM"><PMID Version="1">26204390</PMID><DateCompleted><Year>2016</Year><Month>05</Month><Day>12</Day></DateCompleted><DateRevised><Year>2018</Year><Month>12</Month><Day>04</Day></DateRevised><Article PubModel="Print"><Journal><ISSN IssnType="Electronic">1689-1392</ISSN><JournalIssue CitedMedium="Internet"><Volume>20</Volume><Issue>1</Issue><PubDate><Year>2015</Year><Month>Mar</Month></PubDate></JournalIssue><Title>Cellular & molecular biology letters</Title><ISOAbbreviation>Cell Mol Biol Lett</ISOAbbreviation></Journal><ArticleTitle>Identification of drought-induced transcription factors in Sorghum bicolor using GO term semantic similarity.</ArticleTitle><Pagination><MedlinePgn>1-23</MedlinePgn></Pagination><ELocationID EIdType="doi" ValidYN="Y">10.2478/s11658-014-0223-3</ELocationID><ELocationID EIdType="pii" ValidYN="Y">/j/cmble.2015.20.issue-1/s11658-014-0223-3/s11658-014-0223-3.xml</ELocationID><Abstract><AbstractText>Stress tolerance in plants is a coordinated action of multiple stress response genes that also cross talk with other components of the stress signal transduction pathways. The expression and regulation of stress-induced genes are largely regulated by specific transcription factors, families of which have been reported in several plant species, such as Arabidopsis, rice and Populus. In sorghum, the majority of such factors remain unexplored. We used 2DE refined with MALDI-TOF techniques to analyze drought stress-induced proteins in sorghum. A total of 176 transcription factors from the MYB, AUX_ARF, bZIP, AP2 and WRKY families of drought-induced proteins were identified. We developed a method based on semantic similarity of gene ontology terms (GO terms) to identify the transcription factors. A threshold value (≥ 90%) was applied to retrieve total 1,493 transcription factors with high semantic similarity from selected plant species. It could be concluded that the identified transcription factors regulate their target proteins with endogenous signals and environmental cues, such as light, temperature and drought stress. The regulatory network and cis-acting elements of the identified transcription factors in distinct families are involved in responsiveness to auxin, abscisic acid, defense, stress and light. These responses may be highly important in the modulation of plant growth and development. </AbstractText></Abstract><AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Sekhwal</LastName><ForeName>Manoj Kumar</ForeName><Initials>MK</Initials></Author><Author ValidYN="Y"><LastName>Swami</LastName><ForeName>Ajit Kumar</ForeName><Initials>AK</Initials></Author><Author ValidYN="Y"><LastName>Sharma</LastName><ForeName>Vinay</ForeName><Initials>V</Initials></Author><Author ValidYN="Y"><LastName>Sarin</LastName><ForeName>Renu</ForeName><Initials>R</Initials></Author></AuthorList><Language>eng</Language><PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType></PublicationTypeList></Article><MedlineJournalInfo><Country>England</Country><MedlineTA>Cell Mol Biol Lett</MedlineTA><NlmUniqueID>9607427</NlmUniqueID><ISSNLinking>1425-8153</ISSNLinking></MedlineJournalInfo><ChemicalList><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D010940">Plant Proteins</NameOfSubstance></Chemical><Chemical><RegistryNumber>0</RegistryNumber><NameOfSubstance UI="D014157">Transcription Factors</NameOfSubstance></Chemical></ChemicalList><CitationSubset>IM</CitationSubset><MeshHeadingList><MeshHeading><DescriptorName UI="D017360" MajorTopicYN="N">Arabidopsis</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D055864" MajorTopicYN="N">Droughts</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D018506" MajorTopicYN="N">Gene Expression Regulation, Plant</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D063990" MajorTopicYN="N">Gene Ontology</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D012275" MajorTopicYN="N">Oryza</DescriptorName></MeshHeading><MeshHeading><DescriptorName UI="D010940" MajorTopicYN="N">Plant Proteins</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000302" MajorTopicYN="Y">isolation & purification</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D045868" MajorTopicYN="N">Sorghum</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="Y">chemistry</QualifierName><QualifierName UI="Q000378" MajorTopicYN="N">metabolism</QualifierName></MeshHeading><MeshHeading><DescriptorName UI="D014157" MajorTopicYN="N">Transcription Factors</DescriptorName><QualifierName UI="Q000737" MajorTopicYN="N">chemistry</QualifierName><QualifierName UI="Q000302" MajorTopicYN="Y">isolation & purification</QualifierName></MeshHeading></MeshHeadingList></MedlineCitation><PubmedData><History><PubMedPubDate PubStatus="received"><Year>2014</Year><Month>05</Month><Day>19</Day></PubMedPubDate><PubMedPubDate PubStatus="accepted"><Year>2014</Year><Month>12</Month><Day>01</Day></PubMedPubDate><PubMedPubDate PubStatus="entrez"><Year>2015</Year><Month>7</Month><Day>24</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="pubmed"><Year>2015</Year><Month>7</Month><Day>24</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate><PubMedPubDate PubStatus="medline"><Year>2016</Year><Month>5</Month><Day>14</Day><Hour>6</Hour><Minute>0</Minute></PubMedPubDate></History><PublicationStatus>ppublish</PublicationStatus><ArticleIdList><ArticleId IdType="pubmed">26204390</ArticleId><ArticleId IdType="doi">10.2478/s11658-014-0223-3</ArticleId><ArticleId IdType="pii">/j/cmble.2015.20.issue-1/s11658-014-0223-3/s11658-014-0223-3.xml</ArticleId></ArticleIdList></PubmedData></pubmed><affiliations><list></list><tree><noCountry><name sortKey="Sarin, Renu" sort="Sarin, Renu" uniqKey="Sarin R" first="Renu" last="Sarin">Renu Sarin</name><name sortKey="Sekhwal, Manoj Kumar" sort="Sekhwal, Manoj Kumar" uniqKey="Sekhwal M" first="Manoj Kumar" last="Sekhwal">Manoj Kumar Sekhwal</name><name sortKey="Sharma, Vinay" sort="Sharma, Vinay" uniqKey="Sharma V" first="Vinay" last="Sharma">Vinay Sharma</name><name sortKey="Swami, Ajit Kumar" sort="Swami, Ajit Kumar" uniqKey="Swami A" first="Ajit Kumar" last="Swami">Ajit Kumar Swami</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Bois/explor/PoplarV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 001C99 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 001C99 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Bois
|area= PoplarV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= pubmed:26204390
|texte= Identification of drought-induced transcription factors in Sorghum bicolor using GO term semantic similarity.
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:26204390" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a PoplarV1
| This area was generated with Dilib version V0.6.37. |  |