Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression
Abstract Biological networks are inherently modular, yet little is known about how modules are assembled to enable coordinated and complex functions. We used RNAi and time series, whole‐genome microarray analyses to systematically perturb and characterize components of a Caenorhabditis elegans linea...
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| Main Authors: | , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Springer Nature
2008-02-01
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| Series: | Molecular Systems Biology |
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| Online Access: | https://doi.org/10.1038/msb.2008.6 |
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| _version_ | 1849225766823264256 |
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| author | Itai Yanai L Ryan Baugh Jessica J Smith Casey Roehrig Shai S Shen‐Orr Julia M Claggett Andrew A Hill Donna K Slonim Craig P Hunter |
| author_facet | Itai Yanai L Ryan Baugh Jessica J Smith Casey Roehrig Shai S Shen‐Orr Julia M Claggett Andrew A Hill Donna K Slonim Craig P Hunter |
| author_sort | Itai Yanai |
| collection | DOAJ |
| description | Abstract Biological networks are inherently modular, yet little is known about how modules are assembled to enable coordinated and complex functions. We used RNAi and time series, whole‐genome microarray analyses to systematically perturb and characterize components of a Caenorhabditis elegans lineage‐specific transcriptional regulatory network. These data are supported by selected reporter gene analyses and comprehensive yeast one‐hybrid and promoter sequence analyses. Based on these results, we define and characterize two modules composed of muscle‐ and epidermal‐specifying transcription factors that function together within a single cell lineage to robustly specify multiple cell types. The expression of these two modules, although positively regulated by a common factor, is reliably segregated among daughter cells. Our analyses indicate that these modules repress each other, and we propose that this cross‐inhibition coupled with their relative time of induction function to enhance the initial asymmetry in their expression patterns, thus leading to the observed invariant gene expression patterns and cell lineage. The coupling of asynchronous and topologically distinct modules may be a general principle of module assembly that functions to potentiate genetic switches. |
| format | Article |
| id | doaj-art-61310b3d1d874b08b9efa5abfff7860d |
| institution | Kabale University |
| issn | 1744-4292 |
| language | English |
| publishDate | 2008-02-01 |
| publisher | Springer Nature |
| record_format | Article |
| series | Molecular Systems Biology |
| spelling | doaj-art-61310b3d1d874b08b9efa5abfff7860d2025-08-24T12:01:20ZengSpringer NatureMolecular Systems Biology1744-42922008-02-014111210.1038/msb.2008.6Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expressionItai Yanai0L Ryan Baugh1Jessica J Smith2Casey Roehrig3Shai S Shen‐Orr4Julia M Claggett5Andrew A Hill6Donna K Slonim7Craig P Hunter8Department of Molecular and Cellular Biology, Harvard UniversityDepartment of Molecular and Cellular Biology, Harvard UniversityDepartment of Molecular and Cellular Biology, Harvard UniversityDepartment of Molecular and Cellular Biology, Harvard UniversityDepartment of Molecular and Cellular Biology, Harvard UniversityDepartment of Molecular and Cellular Biology, Harvard UniversityBiological Technologies, Wyeth ResearchDepartment of Computer Science, Tufts UniversityDepartment of Molecular and Cellular Biology, Harvard UniversityAbstract Biological networks are inherently modular, yet little is known about how modules are assembled to enable coordinated and complex functions. We used RNAi and time series, whole‐genome microarray analyses to systematically perturb and characterize components of a Caenorhabditis elegans lineage‐specific transcriptional regulatory network. These data are supported by selected reporter gene analyses and comprehensive yeast one‐hybrid and promoter sequence analyses. Based on these results, we define and characterize two modules composed of muscle‐ and epidermal‐specifying transcription factors that function together within a single cell lineage to robustly specify multiple cell types. The expression of these two modules, although positively regulated by a common factor, is reliably segregated among daughter cells. Our analyses indicate that these modules repress each other, and we propose that this cross‐inhibition coupled with their relative time of induction function to enhance the initial asymmetry in their expression patterns, thus leading to the observed invariant gene expression patterns and cell lineage. The coupling of asynchronous and topologically distinct modules may be a general principle of module assembly that functions to potentiate genetic switches.https://doi.org/10.1038/msb.2008.6C. elegansgene regulatory networkmoduletranscription factor |
| spellingShingle | Itai Yanai L Ryan Baugh Jessica J Smith Casey Roehrig Shai S Shen‐Orr Julia M Claggett Andrew A Hill Donna K Slonim Craig P Hunter Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression Molecular Systems Biology C. elegans gene regulatory network module transcription factor |
| title | Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression |
| title_full | Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression |
| title_fullStr | Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression |
| title_full_unstemmed | Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression |
| title_short | Pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression |
| title_sort | pairing of competitive and topologically distinct regulatory modules enhances patterned gene expression |
| topic | C. elegans gene regulatory network module transcription factor |
| url | https://doi.org/10.1038/msb.2008.6 |
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