Architectures and complex functions of tandem riboswitches
Riboswitch architectures that involve the binding of a single ligand to a single RNA aptamer domain result in ordinary dose-response curves that require approximately a 100-fold change in ligand concentration to cover nearly the full dynamic range for gene regulation. However, by using multiple ribo...
| Main Authors: | , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Taylor & Francis Group
2022-12-01
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| Series: | RNA Biology |
| Subjects: | |
| Online Access: | http://dx.doi.org/10.1080/15476286.2022.2119017 |
| _version_ | 1797404001369587712 |
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| author | Madeline E. Sherlock Gadareth Higgs Diane Yu Danielle L. Widner Neil A. White Narasimhan Sudarsan Harini Sadeeshkumar Kevin R. Perkins Gayan Mirihana Arachchilage Sarah N. Malkowski Christopher G. King Kimberly A. Harris Glenn Gaffield Ruben M. Atilho Ronald R. Breaker |
| author_facet | Madeline E. Sherlock Gadareth Higgs Diane Yu Danielle L. Widner Neil A. White Narasimhan Sudarsan Harini Sadeeshkumar Kevin R. Perkins Gayan Mirihana Arachchilage Sarah N. Malkowski Christopher G. King Kimberly A. Harris Glenn Gaffield Ruben M. Atilho Ronald R. Breaker |
| author_sort | Madeline E. Sherlock |
| collection | DOAJ |
| description | Riboswitch architectures that involve the binding of a single ligand to a single RNA aptamer domain result in ordinary dose-response curves that require approximately a 100-fold change in ligand concentration to cover nearly the full dynamic range for gene regulation. However, by using multiple riboswitches or aptamer domains in tandem, these ligand-sensing structures can produce additional, complex gene control outcomes. In the current study, we have computationally searched for tandem riboswitch architectures in bacteria to provide a more complete understanding of the diverse biological and biochemical functions of gene control elements that are made exclusively of RNA. Numerous different arrangements of tandem homologous riboswitch architectures are exploited by bacteria to create more ‘digital’ gene control devices, which operate over a narrower ligand concentration range. Also, two heterologous riboswitch aptamers are sometimes employed to create two-input Boolean logic gates with various types of genetic outputs. These findings illustrate the sophisticated genetic decisions that can be made by using molecular sensors and switches based only on RNA. |
| first_indexed | 2024-03-09T02:46:47Z |
| format | Article |
| id | doaj.art-d97719da4d29432b890e0c781466c70c |
| institution | Directory Open Access Journal |
| issn | 1547-6286 1555-8584 |
| language | English |
| last_indexed | 2024-03-09T02:46:47Z |
| publishDate | 2022-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | RNA Biology |
| spelling | doaj.art-d97719da4d29432b890e0c781466c70c2023-12-05T16:09:51ZengTaylor & Francis GroupRNA Biology1547-62861555-85842022-12-011911059107610.1080/15476286.2022.21190172119017Architectures and complex functions of tandem riboswitchesMadeline E. Sherlock0Gadareth Higgs1Diane Yu2Danielle L. Widner3Neil A. White4Narasimhan Sudarsan5Harini Sadeeshkumar6Kevin R. Perkins7Gayan Mirihana Arachchilage8Sarah N. Malkowski9Christopher G. King10Kimberly A. Harris11Glenn Gaffield12Ruben M. Atilho13Ronald R. Breaker14Yale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityYale UniversityRiboswitch architectures that involve the binding of a single ligand to a single RNA aptamer domain result in ordinary dose-response curves that require approximately a 100-fold change in ligand concentration to cover nearly the full dynamic range for gene regulation. However, by using multiple riboswitches or aptamer domains in tandem, these ligand-sensing structures can produce additional, complex gene control outcomes. In the current study, we have computationally searched for tandem riboswitch architectures in bacteria to provide a more complete understanding of the diverse biological and biochemical functions of gene control elements that are made exclusively of RNA. Numerous different arrangements of tandem homologous riboswitch architectures are exploited by bacteria to create more ‘digital’ gene control devices, which operate over a narrower ligand concentration range. Also, two heterologous riboswitch aptamers are sometimes employed to create two-input Boolean logic gates with various types of genetic outputs. These findings illustrate the sophisticated genetic decisions that can be made by using molecular sensors and switches based only on RNA.http://dx.doi.org/10.1080/15476286.2022.2119017aptamernoncoding rnagene regulationlogic gatetranscription controltranslation control |
| spellingShingle | Madeline E. Sherlock Gadareth Higgs Diane Yu Danielle L. Widner Neil A. White Narasimhan Sudarsan Harini Sadeeshkumar Kevin R. Perkins Gayan Mirihana Arachchilage Sarah N. Malkowski Christopher G. King Kimberly A. Harris Glenn Gaffield Ruben M. Atilho Ronald R. Breaker Architectures and complex functions of tandem riboswitches RNA Biology aptamer noncoding rna gene regulation logic gate transcription control translation control |
| title | Architectures and complex functions of tandem riboswitches |
| title_full | Architectures and complex functions of tandem riboswitches |
| title_fullStr | Architectures and complex functions of tandem riboswitches |
| title_full_unstemmed | Architectures and complex functions of tandem riboswitches |
| title_short | Architectures and complex functions of tandem riboswitches |
| title_sort | architectures and complex functions of tandem riboswitches |
| topic | aptamer noncoding rna gene regulation logic gate transcription control translation control |
| url | http://dx.doi.org/10.1080/15476286.2022.2119017 |
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