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Environmentally Induced Foregut Remodeling by PHA-4/FoxA and DAF-12/NHR.

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Title: Environmentally Induced Foregut Remodeling by PHA-4/FoxA and DAF-12/NHR.
Authors: Ao, Wanyuan, Caudet, Jeb, Kent, W. James, Muttumu, Srikanth, Mango, Susan E.
Source: Science (pre-March 2025). 9/17/2004, Vol. 305 Issue 5691, p1743-1746. 4p. 2 Charts.
Subjects: Genetics, Information science, Heredity, Rheology, Computers in medicine, Genomes
Abstract: Growth and development of the Caenorhabditis etegans foregut (pharynx) depends on coordinated gene expression, mediated by pharynx defective (PHA)-4/FoxA in combination with additional, Largely unidentified transcription factors. Here, we used whole genome analysis to establish clusters of genes expressed in different pharyngeal cell types. We created an expectation maximization algorithm to identify cis-regulatory elements that activate expression within the pharyngeal gene clusters. One of these elements mediates the response to environmental conditions within pharyngeat muscles and is recognized by the nuclear hormone receptor (NHR) DAF-12. Our data suggest that PHA-4 and DAF-12 endow the pharynx with transcriptional plasticity to respond to diverse developmental and physiological cues. Our combination of bioinformatics and in vivo analysis has provided a powerful means for genome-wide investigation of transcriptional control. [ABSTRACT FROM AUTHOR]
Copyright of Science (pre-March 2025) is the property of American Association for the Advancement of Science and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract. (Copyright applies to all Abstracts.)
Database: Psychology and Behavioral Sciences Collection
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  Data: Environmentally Induced Foregut Remodeling by PHA-4/FoxA and DAF-12/NHR.
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  Data: <searchLink fieldCode="AR" term="%22Ao%2C+Wanyuan%22">Ao, Wanyuan</searchLink><br /><searchLink fieldCode="AR" term="%22Caudet%2C+Jeb%22">Caudet, Jeb</searchLink><br /><searchLink fieldCode="AR" term="%22Kent%2C+W%2E+James%22">Kent, W. James</searchLink><br /><searchLink fieldCode="AR" term="%22Muttumu%2C+Srikanth%22">Muttumu, Srikanth</searchLink><br /><searchLink fieldCode="AR" term="%22Mango%2C+Susan+E%2E%22">Mango, Susan E.</searchLink>
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  Data: <searchLink fieldCode="JN" term="%22Science+%28pre-March+2025%29%22">Science (pre-March 2025)</searchLink>. 9/17/2004, Vol. 305 Issue 5691, p1743-1746. 4p. 2 Charts.
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  Data: <searchLink fieldCode="DE" term="%22Genetics%22">Genetics</searchLink><br /><searchLink fieldCode="DE" term="%22Information+science%22">Information science</searchLink><br /><searchLink fieldCode="DE" term="%22Heredity%22">Heredity</searchLink><br /><searchLink fieldCode="DE" term="%22Rheology%22">Rheology</searchLink><br /><searchLink fieldCode="DE" term="%22Computers+in+medicine%22">Computers in medicine</searchLink><br /><searchLink fieldCode="DE" term="%22Genomes%22">Genomes</searchLink>
– Name: Abstract
  Label: Abstract
  Group: Ab
  Data: Growth and development of the Caenorhabditis etegans foregut (pharynx) depends on coordinated gene expression, mediated by pharynx defective (PHA)-4/FoxA in combination with additional, Largely unidentified transcription factors. Here, we used whole genome analysis to establish clusters of genes expressed in different pharyngeal cell types. We created an expectation maximization algorithm to identify cis-regulatory elements that activate expression within the pharyngeal gene clusters. One of these elements mediates the response to environmental conditions within pharyngeat muscles and is recognized by the nuclear hormone receptor (NHR) DAF-12. Our data suggest that PHA-4 and DAF-12 endow the pharynx with transcriptional plasticity to respond to diverse developmental and physiological cues. Our combination of bioinformatics and in vivo analysis has provided a powerful means for genome-wide investigation of transcriptional control. [ABSTRACT FROM AUTHOR]
– Name: AbstractSuppliedCopyright
  Label:
  Group: Ab
  Data: <i>Copyright of Science (pre-March 2025) is the property of American Association for the Advancement of Science and its content may not be copied or emailed to multiple sites without the copyright holder's express written permission. Additionally, content may not be used with any artificial intelligence tools or machine learning technologies. However, users may print, download, or email articles for individual use. This abstract may be abridged. No warranty is given about the accuracy of the copy. Users should refer to the original published version of the material for the full abstract.</i> (Copyright applies to all Abstracts.)
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        Text: English
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        StartPage: 1743
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        Type: general
      – SubjectFull: Information science
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      – SubjectFull: Heredity
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      – TitleFull: Environmentally Induced Foregut Remodeling by PHA-4/FoxA and DAF-12/NHR.
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            NameFull: Kent, W. James
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            NameFull: Muttumu, Srikanth
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            NameFull: Mango, Susan E.
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              Text: 9/17/2004
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              Y: 2004
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