Structurally distinct manganese-sensing riboswitch aptamers regulate different expression platform architectures Article Swipe
Christine Stephen
,
Danea Palmer
,
Christian T. Bautista
,
Tatiana V. Mishanina
·
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1093/nar/gkaf477
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1093/nar/gkaf477
Manganese (Mn)-sensing riboswitches protect bacteria from Mn toxicity by upregulating expression of Mn exporters. The Mn aptamers share key features but diverge in other important elements, including within the metal-binding core. Although X-ray crystal structures of isolated aptamers exist, these structural snapshots lack crucial details about how the aptamer communicates the presence or absence of ligand to the expression platform. In this work, we investigated the Mn-sensing translational riboswitches in Escherichia coli (mntP and alx), which differ in aptamer secondary structure, nucleotide sequence, and pH-dependence of Mn response. We performed co-transcriptional RNA chemical probing, allowing us to visualize RNA folding intermediates that form and resolve en route to the final folded riboswitch. For the first time, we report that sampling of metal ions by the RNA begins before the aptamer synthesis and folding are complete. At a single-nucleotide resolution, we pinpoint the transcription window where “riboswitching” occurs in response to Mn binding and uncover key differences in how the alx and mntP riboswitches fold. Finally, we describe riboswitch-specific effects of pH, providing insights into how two members of the same riboswitch family differentially sense two distinct environmental cues: concentration of Mn and pH.
Related Topics
Concepts
Biology
Riboswitch
Aptamer
Computational biology
Manganese
Gene expression
Base sequence
Genetics
Cell biology
Gene
Non-coding RNA
Organic chemistry
Chemistry
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1093/nar/gkaf477
- https://academic.oup.com/nar/article-pdf/53/11/gkaf477/63470059/gkaf477.pdf
- OA Status
- gold
- Cited By
- 2
- References
- 57
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4411209493
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4411209493Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.1093/nar/gkaf477Digital Object Identifier
- Title
-
Structurally distinct manganese-sensing riboswitch aptamers regulate different expression platform architecturesWork title
- Type
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articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2025Year of publication
- Publication date
-
2025-05-23Full publication date if available
- Authors
-
Christine Stephen, Danea Palmer, Christian T. Bautista, Tatiana V. MishaninaList of authors in order
- Landing page
-
https://doi.org/10.1093/nar/gkaf477Publisher landing page
- PDF URL
-
https://academic.oup.com/nar/article-pdf/53/11/gkaf477/63470059/gkaf477.pdfDirect link to full text PDF
- Open access
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YesWhether a free full text is available
- OA status
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goldOpen access status per OpenAlex
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https://academic.oup.com/nar/article-pdf/53/11/gkaf477/63470059/gkaf477.pdfDirect OA link when available
- Concepts
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Biology, Riboswitch, Aptamer, Computational biology, Manganese, Gene expression, Base sequence, Genetics, Cell biology, Gene, Non-coding RNA, Organic chemistry, ChemistryTop concepts (fields/topics) attached by OpenAlex
- Cited by
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2Total citation count in OpenAlex
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2025: 2Per-year citation counts (last 5 years)
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57Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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