Different gene regulation strategies revealed by analysis of binding motifs
Coordinated regulation of gene expression relies on transcription factors (TFs) binding to specific DNA sites. Our large-scale information-theoretic analysis of >950 TF-binding motifs demonstrates that prokaryotes and eukaryotes use strikingly different strategies to target TFs to specific genom...
| Main Authors: | , |
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| Other Authors: | |
| Format: | Article |
| Language: | en_US |
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Elsevier Ltd.
2009
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| Online Access: | http://hdl.handle.net/1721.1/49486 https://orcid.org/0000-0002-0785-5410 |
| _version_ | 1826216030964285440 |
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| author | Mirny, Leonid A. Wunderlich, Zeba |
| author2 | Harvard University--MIT Division of Health Sciences and Technology |
| author_facet | Harvard University--MIT Division of Health Sciences and Technology Mirny, Leonid A. Wunderlich, Zeba |
| author_sort | Mirny, Leonid A. |
| collection | MIT |
| description | Coordinated regulation of gene expression relies on transcription factors (TFs)
binding to specific DNA sites. Our large-scale information-theoretic analysis of >950 TF-binding motifs demonstrates that prokaryotes and eukaryotes use strikingly different strategies to target TFs to specific genome locations. Although bacterial TFs can recognize a specific DNA site in the genomic background, eukaryotic TFs exhibit widespread, nonfunctional binding and require clustering of sites to achieve specificity. We find support for this mechanism in a range of experimental studies and in our evolutionary analysis of DNA-binding domains. Our systematic
characterization of binding motifs provides a quantitative assessment of the
differences in transcription regulation in prokaryotes and eukaryotes. |
| first_indexed | 2024-09-23T16:40:53Z |
| format | Article |
| id | mit-1721.1/49486 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T16:40:53Z |
| publishDate | 2009 |
| publisher | Elsevier Ltd. |
| record_format | dspace |
| spelling | mit-1721.1/494862022-09-29T20:45:16Z Different gene regulation strategies revealed by analysis of binding motifs Mirny, Leonid A. Wunderlich, Zeba Harvard University--MIT Division of Health Sciences and Technology Mirny, Leonid A. Mirny, Leonid A. Coordinated regulation of gene expression relies on transcription factors (TFs) binding to specific DNA sites. Our large-scale information-theoretic analysis of >950 TF-binding motifs demonstrates that prokaryotes and eukaryotes use strikingly different strategies to target TFs to specific genome locations. Although bacterial TFs can recognize a specific DNA site in the genomic background, eukaryotic TFs exhibit widespread, nonfunctional binding and require clustering of sites to achieve specificity. We find support for this mechanism in a range of experimental studies and in our evolutionary analysis of DNA-binding domains. Our systematic characterization of binding motifs provides a quantitative assessment of the differences in transcription regulation in prokaryotes and eukaryotes. 2009-10-19T13:46:31Z 2009-10-19T13:46:31Z 2009-10 2009-05 Article http://purl.org/eprint/type/SubmittedJournalArticle 0168-9525 http://hdl.handle.net/1721.1/49486 Wunderlich, Zeba, and Leonid A. Mirny. “Different gene regulation strategies revealed by analysis of binding motifs.” Trends in Genetics 25.10 (2009): 434-440. https://orcid.org/0000-0002-0785-5410 en_US http://dx.doi.org/10.1016/j.tig.2009.08.003 Trends in Genetics Article is made available in accordance with the publisher's policy and may be subject to US copyright law. Please refer to the publisher's site for terms of use. http://www.sciencedirect.com/science?_ob=UserSubscriptionURL&_method=displayTerms&_acct=C000022659&_version=1&_urlVersion=1&_userid=501045&md5=7cdb1f68fc45ff42079e3734f66cfd85 application/pdf Elsevier Ltd. Leonid Mirny |
| spellingShingle | Mirny, Leonid A. Wunderlich, Zeba Different gene regulation strategies revealed by analysis of binding motifs |
| title | Different gene regulation strategies revealed by analysis of binding motifs |
| title_full | Different gene regulation strategies revealed by analysis of binding motifs |
| title_fullStr | Different gene regulation strategies revealed by analysis of binding motifs |
| title_full_unstemmed | Different gene regulation strategies revealed by analysis of binding motifs |
| title_short | Different gene regulation strategies revealed by analysis of binding motifs |
| title_sort | different gene regulation strategies revealed by analysis of binding motifs |
| url | http://hdl.handle.net/1721.1/49486 https://orcid.org/0000-0002-0785-5410 |
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