| Identification of direct T-box target genes in the developing zebrafish mesoderm. | |
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MedLine Citation:
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PMID: 19158186 Owner: NLM Status: MEDLINE |
Abstract/OtherAbstract:
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The zebrafish genes spadetail (spt) and no tail (ntl) encode T-box transcription factors that are important for early mesoderm development. Although much has been done to characterize these genes, the identity and location of target regulatory elements remain largely unknown. Here, we survey the genome for downstream target genes of the Spt and Ntl T-box transcription factors. We find evidence for extensive additive interactions towards gene activation and limited evidence for combinatorial and antagonistic interactions between the two factors. Using in vitro binding selection assays to define Spt- and Ntl-binding motifs, we searched for target regulatory sequence via a combination of binding motif searches and comparative genomics. We identified regulatory elements for tbx6 and deltaD, and, using chromatin immunoprecipitation, in vitro DNA binding assays and transgenic methods, we provide evidence that both are directly regulated by T-box transcription factors. We also find that deltaD is directly activated by T-box factors in the tail bud, where it has been implicated in starting the segmentation clock, suggesting that spt and ntl act upstream of this process. |
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Authors:
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Aaron T Garnett; Tina M Han; Michael J Gilchrist; James C Smith; Michael B Eisen; Fiona C Wardle; Sharon L Amacher |
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Publication Detail:
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Type: Journal Article; Research Support, Non-U.S. Gov't Date: 2009-01-21 |
Journal Detail:
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Title: Development (Cambridge, England) Volume: 136 ISSN: 0950-1991 ISO Abbreviation: Development Publication Date: 2009 Mar |
Date Detail:
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Created Date: 2009-02-09 Completed Date: 2009-05-11 Revised Date: 2013-06-02 |
Medline Journal Info:
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Nlm Unique ID: 8701744 Medline TA: Development Country: England |
Other Details:
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Languages: eng Pagination: 749-60 Citation Subset: IM |
Affiliation:
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Department of Molecular and Cell Biology and Center for Integrative Genomics, University of California, Berkeley, CA 94720, USA. |
Export Citation:
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| MeSH Terms | |
Descriptor/Qualifier:
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Animals Animals, Genetically Modified Binding Sites / genetics DNA / genetics, metabolism Gene Expression Regulation, Developmental Mesoderm / embryology, metabolism Mice Molecular Sequence Data Mutation Nerve Tissue Proteins / genetics RNA, Messenger / genetics, metabolism Recombinant Fusion Proteins / genetics, metabolism Regulatory Elements, Transcriptional Sequence Homology, Nucleic Acid Signal Transduction T-Box Domain Proteins / genetics*, metabolism Tail / embryology, metabolism Wnt Proteins / genetics, metabolism Zebrafish / embryology*, genetics*, metabolism Zebrafish Proteins / genetics*, metabolism |
| Grant Support | |
ID/Acronym/Agency:
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//Medical Research Council; //Wellcome Trust |
| Chemical | |
Reg. No./Substance:
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0/DeltaD protein, zebrafish; 0/Nerve Tissue Proteins; 0/RNA, Messenger; 0/Recombinant Fusion Proteins; 0/T-Box Domain Proteins; 0/Wnt Proteins; 0/Zebrafish Proteins; 0/ntl protein, zebrafish; 0/tbx16 protein, zebrafish; 0/tbx6 protein, zebrafish; 9007-49-2/DNA |
| Comments/Corrections | |
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine
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