From milliseconds to lifetimes: Tracking the dynamic behavior of transcription factors in gene networks
Identifieur interne : 000D72 ( Pmc/Curation ); précédent : 000D71; suivant : 000D73From milliseconds to lifetimes: Tracking the dynamic behavior of transcription factors in gene networks
Auteurs : Ying Li [États-Unis] ; Kranthi Varala [États-Unis] ; Gloria M. Coruzzi [États-Unis]Source :
- Trends in genetics : TIG [ 0168-9525 ] ; 2015.
Abstract
Modeling dynamic gene regulatory networks (GRNs) is a new frontier in systems biology. It has special implications for plants, whose survival requires rapid deployment of GRNs in response to environmental changes. However, capturing and dissecting transient interactions of transcription factors (TFs) and their targets in GRNs remains a considerable experimental challenge. Here, we review recent progress on understanding GRNs as a function of time, and discuss the relevance of these findings in plants to studies in other eukaryotes. We cover progress in profiling and modeling time-course transcriptome changes across plant species, and the insights they have provided into the regulatory mechanisms underlying these temporal transcriptional responses, with a focus on the dynamic behavior of TFs. Lastly, we review state-of-the-art techniques to monitor single-molecule dynamics of TFs
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DOI: 10.1016/j.tig.2015.05.005
PubMed: 26072453
PubMed Central: 4558309
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">From milliseconds to lifetimes: Tracking the dynamic behavior of transcription factors in gene networks</title><author><name sortKey="Li, Ying" sort="Li, Ying" uniqKey="Li Y" first="Ying" last="Li">Ying Li</name><affiliation wicri:level="1"><nlm:aff id="A1">Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003</wicri:regionArea></affiliation></author><author><name sortKey="Varala, Kranthi" sort="Varala, Kranthi" uniqKey="Varala K" first="Kranthi" last="Varala">Kranthi Varala</name><affiliation wicri:level="1"><nlm:aff id="A1">Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003</wicri:regionArea></affiliation></author><author><name sortKey="Coruzzi, Gloria M" sort="Coruzzi, Gloria M" uniqKey="Coruzzi G" first="Gloria M." last="Coruzzi">Gloria M. Coruzzi</name><affiliation wicri:level="1"><nlm:aff id="A1">Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003</wicri:regionArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">26072453</idno><idno type="pmc">4558309</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4558309</idno><idno type="RBID">PMC:4558309</idno><idno type="doi">10.1016/j.tig.2015.05.005</idno><date when="2015">2015</date><idno type="wicri:Area/Pmc/Corpus">000D73</idno><idno type="wicri:Area/Pmc/Curation">000D72</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">From milliseconds to lifetimes: Tracking the dynamic behavior of transcription factors in gene networks</title><author><name sortKey="Li, Ying" sort="Li, Ying" uniqKey="Li Y" first="Ying" last="Li">Ying Li</name><affiliation wicri:level="1"><nlm:aff id="A1">Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003</wicri:regionArea></affiliation></author><author><name sortKey="Varala, Kranthi" sort="Varala, Kranthi" uniqKey="Varala K" first="Kranthi" last="Varala">Kranthi Varala</name><affiliation wicri:level="1"><nlm:aff id="A1">Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003</wicri:regionArea></affiliation></author><author><name sortKey="Coruzzi, Gloria M" sort="Coruzzi, Gloria M" uniqKey="Coruzzi G" first="Gloria M." last="Coruzzi">Gloria M. Coruzzi</name><affiliation wicri:level="1"><nlm:aff id="A1">Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003</wicri:regionArea></affiliation></author></analytic><series><title level="j">Trends in genetics : TIG</title><idno type="ISSN">0168-9525</idno><imprint><date when="2015">2015</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p id="P1">Modeling dynamic gene regulatory networks (GRNs) is a new frontier in systems biology. It has special implications for plants, whose survival requires rapid deployment of GRNs in response to environmental changes. However, capturing and dissecting transient interactions of transcription factors (TFs) and their targets in GRNs remains a considerable experimental challenge. Here, we review recent progress on understanding GRNs as a function of time, and discuss the relevance of these findings in plants to studies in other eukaryotes. We cover progress in profiling and modeling time-course transcriptome changes across plant species, and the insights they have provided into the regulatory mechanisms underlying these temporal transcriptional responses, with a focus on the dynamic behavior of TFs. Lastly, we review state-of-the-art techniques to monitor single-molecule dynamics of TFs <italic>in vivo</italic>. Together, these advances have helped develop new models for dynamic transcriptional control with relevance across eukaryotes.</p></div></front></TEI><pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<pmc-dir>properties manuscript</pmc-dir>
<front><journal-meta><journal-id journal-id-type="nlm-journal-id">8507085</journal-id><journal-id journal-id-type="pubmed-jr-id">7839</journal-id><journal-id journal-id-type="nlm-ta">Trends Genet</journal-id><journal-id journal-id-type="iso-abbrev">Trends Genet.</journal-id><journal-title-group><journal-title>Trends in genetics : TIG</journal-title></journal-title-group><issn pub-type="ppub">0168-9525</issn></journal-meta><article-meta><article-id pub-id-type="pmid">26072453</article-id><article-id pub-id-type="pmc">4558309</article-id><article-id pub-id-type="doi">10.1016/j.tig.2015.05.005</article-id><article-id pub-id-type="manuscript">NIHMS693066</article-id><article-categories><subj-group subj-group-type="heading"><subject>Article</subject></subj-group></article-categories><title-group><article-title>From milliseconds to lifetimes: Tracking the dynamic behavior of transcription factors in gene networks</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Li</surname><given-names>Ying</given-names></name><xref ref-type="aff" rid="A1">1</xref></contrib><contrib contrib-type="author"><name><surname>Varala</surname><given-names>Kranthi</given-names></name><xref ref-type="aff" rid="A1">1</xref></contrib><contrib contrib-type="author"><name><surname>Coruzzi</surname><given-names>Gloria M.</given-names></name><xref ref-type="aff" rid="A1">1</xref></contrib></contrib-group><aff id="A1"><label>1</label>Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA</aff><author-notes><corresp id="cor1"><bold>Corresponding Author:</bold> Dr. Gloria M. Coruzzi, Center for Genomics and Systems Biology, Department of Biology, New York University, New York, NY 10003, USA. (212) 998-3963. <email>gloria.coruzzi@nyu.edu</email></corresp></author-notes><pub-date pub-type="nihms-submitted"><day>6</day><month>6</month><year>2015</year></pub-date><pub-date pub-type="epub"><day>10</day><month>6</month><year>2015</year></pub-date><pub-date pub-type="ppub"><month>9</month><year>2015</year></pub-date><pub-date pub-type="pmc-release"><day>01</day><month>9</month><year>2016</year></pub-date><volume>31</volume><issue>9</issue><fpage>509</fpage><lpage>515</lpage><pmc-comment>elocation-id from pubmed: 10.1016/j.tig.2015.05.005</pmc-comment>
<abstract><p id="P1">Modeling dynamic gene regulatory networks (GRNs) is a new frontier in systems biology. It has special implications for plants, whose survival requires rapid deployment of GRNs in response to environmental changes. However, capturing and dissecting transient interactions of transcription factors (TFs) and their targets in GRNs remains a considerable experimental challenge. Here, we review recent progress on understanding GRNs as a function of time, and discuss the relevance of these findings in plants to studies in other eukaryotes. We cover progress in profiling and modeling time-course transcriptome changes across plant species, and the insights they have provided into the regulatory mechanisms underlying these temporal transcriptional responses, with a focus on the dynamic behavior of TFs. Lastly, we review state-of-the-art techniques to monitor single-molecule dynamics of TFs <italic>in vivo</italic>. Together, these advances have helped develop new models for dynamic transcriptional control with relevance across eukaryotes.</p></abstract><kwd-group><kwd>Gene regulatory networks</kwd><kwd>transcription dynamics</kwd><kwd>transcription factors</kwd></kwd-group></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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