Identification of a Fusobacterial RNA-binding protein involved in host small RNA-mediated growth inhibition Article Swipe
Pu‐Ting Dong
,
Mengdi Yang
,
Jie Hu
,
Lujia Cen
,
Peng Zhou
,
Difei Xu
,
Peng Xiong
,
Jiahe Li
,
Xuesong He
·
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1038/s41368-025-00378-4
YOU?
·
· 2025
· Open Access
·
· DOI: https://doi.org/10.1038/s41368-025-00378-4
Host-derived small RNAs are emerging as critical regulators in the dynamic interactions between host tissues and the microbiome, with implications for microbial pathogenesis and host defense. Among these, transfer RNA-derived small RNAs (tsRNAs) have garnered attention for their roles in modulating microbial behavior. However, the bacterial factors mediating tsRNA interaction and functionality remain poorly understood. In this study, using RNA affinity pull-down assay in combination with mass spectrometry, we identified a putative membrane-bound protein, annotated as P-type ATPase transporter (PtaT) in Fusobacterium nucleatum ( Fn ), which binds Fn -targeting tsRNAs in a sequence-specific manner. Through targeted mutagenesis and phenotypic characterization, we showed that in both the Fn type strain and a clinical tumor isolate, deletion of ptaT led to reduced tsRNA intake and enhanced resistance to tsRNA-induced growth inhibition. Global RNA sequencing and label-free Raman spectroscopy revealed the phenotypic differences between Fn wild type and PtaT-deficient mutant, highlighting the functional significance of PtaT in purine and pyrimidine metabolism. Furthermore, AlphaFold 3 prediction provides evidence supporting the specific binding between PtaT and Fn -targeting tsRNA. By uncovering the first RNA-binding protein in Fn implicated in growth modulation through interactions with host-derived small RNAs (sRNAs), our study offers new insights into sRNA-mediated host-pathogen interplay within the context of microbiome-host interactions.
Related Topics
Concepts
RNA
Identification (biology)
Host (biology)
Host factors
RNA-binding protein
Biology
Cell biology
Computational biology
Genetics
Gene
Virus
Ecology
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1038/s41368-025-00378-4
- https://www.nature.com/articles/s41368-025-00378-4.pdf
- OA Status
- gold
- Cited By
- 1
- References
- 66
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4411211212
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4411211212Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1038/s41368-025-00378-4Digital Object Identifier
- Title
-
Identification of a Fusobacterial RNA-binding protein involved in host small RNA-mediated growth inhibitionWork title
- Type
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articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2025Year of publication
- Publication date
-
2025-06-11Full publication date if available
- Authors
-
Pu‐Ting Dong, Mengdi Yang, Jie Hu, Lujia Cen, Peng Zhou, Difei Xu, Peng Xiong, Jiahe Li, Xuesong HeList of authors in order
- Landing page
-
https://doi.org/10.1038/s41368-025-00378-4Publisher landing page
- PDF URL
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https://www.nature.com/articles/s41368-025-00378-4.pdfDirect link to full text PDF
- Open access
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://www.nature.com/articles/s41368-025-00378-4.pdfDirect OA link when available
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RNA, Identification (biology), Host (biology), Host factors, RNA-binding protein, Biology, Cell biology, Computational biology, Genetics, Gene, Virus, EcologyTop concepts (fields/topics) attached by OpenAlex
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1Total citation count in OpenAlex
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2025: 1Per-year citation counts (last 5 years)
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66Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.ptaT | 118 |
| abstract_inverted_index.that | 104 |
| abstract_inverted_index.this | 57 |
| abstract_inverted_index.type | 109, 145 |
| abstract_inverted_index.wild | 144 |
| abstract_inverted_index.with | 19, 66, 190 |
| abstract_inverted_index.Among | 27 |
| abstract_inverted_index.Raman | 136 |
| abstract_inverted_index.assay | 63 |
| abstract_inverted_index.binds | 88 |
| abstract_inverted_index.first | 179 |
| abstract_inverted_index.roles | 39 |
| abstract_inverted_index.small | 2, 31, 192 |
| abstract_inverted_index.study | 196 |
| abstract_inverted_index.their | 38 |
| abstract_inverted_index.tsRNA | 49, 122 |
| abstract_inverted_index.tumor | 114 |
| abstract_inverted_index.using | 59 |
| abstract_inverted_index.which | 87 |
| abstract_inverted_index.(PtaT) | 80 |
| abstract_inverted_index.ATPase | 78 |
| abstract_inverted_index.Global | 131 |
| abstract_inverted_index.P-type | 77 |
| abstract_inverted_index.growth | 129, 186 |
| abstract_inverted_index.intake | 123 |
| abstract_inverted_index.offers | 197 |
| abstract_inverted_index.poorly | 54 |
| abstract_inverted_index.purine | 156 |
| abstract_inverted_index.remain | 53 |
| abstract_inverted_index.showed | 103 |
| abstract_inverted_index.strain | 110 |
| abstract_inverted_index.study, | 58 |
| abstract_inverted_index.these, | 28 |
| abstract_inverted_index.tsRNA. | 175 |
| abstract_inverted_index.tsRNAs | 91 |
| abstract_inverted_index.within | 204 |
| abstract_inverted_index.Through | 96 |
| abstract_inverted_index.between | 13, 142, 170 |
| abstract_inverted_index.binding | 169 |
| abstract_inverted_index.context | 206 |
| abstract_inverted_index.dynamic | 11 |
| abstract_inverted_index.factors | 47 |
| abstract_inverted_index.manner. | 95 |
| abstract_inverted_index.mutant, | 148 |
| abstract_inverted_index.protein | 181 |
| abstract_inverted_index.reduced | 121 |
| abstract_inverted_index.through | 188 |
| abstract_inverted_index.tissues | 15 |
| abstract_inverted_index.(sRNAs), | 194 |
| abstract_inverted_index.(tsRNAs) | 33 |
| abstract_inverted_index.Abstract | 0 |
| abstract_inverted_index.However, | 44 |
| abstract_inverted_index.affinity | 61 |
| abstract_inverted_index.clinical | 113 |
| abstract_inverted_index.critical | 7 |
| abstract_inverted_index.defense. | 26 |
| abstract_inverted_index.deletion | 116 |
| abstract_inverted_index.emerging | 5 |
| abstract_inverted_index.enhanced | 125 |
| abstract_inverted_index.evidence | 165 |
| abstract_inverted_index.garnered | 35 |
| abstract_inverted_index.insights | 199 |
| abstract_inverted_index.isolate, | 115 |
| abstract_inverted_index.protein, | 74 |
| abstract_inverted_index.provides | 164 |
| abstract_inverted_index.putative | 72 |
| abstract_inverted_index.revealed | 138 |
| abstract_inverted_index.specific | 168 |
| abstract_inverted_index.targeted | 97 |
| abstract_inverted_index.transfer | 29 |
| abstract_inverted_index.AlphaFold | 161 |
| abstract_inverted_index.annotated | 75 |
| abstract_inverted_index.attention | 36 |
| abstract_inverted_index.bacterial | 46 |
| abstract_inverted_index.behavior. | 43 |
| abstract_inverted_index.interplay | 203 |
| abstract_inverted_index.mediating | 48 |
| abstract_inverted_index.microbial | 22, 42 |
| abstract_inverted_index.nucleatum | 83 |
| abstract_inverted_index.pull-down | 62 |
| abstract_inverted_index.-targeting | 90, 174 |
| abstract_inverted_index.functional | 151 |
| abstract_inverted_index.identified | 70 |
| abstract_inverted_index.implicated | 184 |
| abstract_inverted_index.label-free | 135 |
| abstract_inverted_index.modulating | 41 |
| abstract_inverted_index.modulation | 187 |
| abstract_inverted_index.phenotypic | 100, 140 |
| abstract_inverted_index.prediction | 163 |
| abstract_inverted_index.pyrimidine | 158 |
| abstract_inverted_index.regulators | 8 |
| abstract_inverted_index.resistance | 126 |
| abstract_inverted_index.sequencing | 133 |
| abstract_inverted_index.supporting | 166 |
| abstract_inverted_index.uncovering | 177 |
| abstract_inverted_index.RNA-binding | 180 |
| abstract_inverted_index.RNA-derived | 30 |
| abstract_inverted_index.combination | 65 |
| abstract_inverted_index.differences | 141 |
| abstract_inverted_index.inhibition. | 130 |
| abstract_inverted_index.interaction | 50 |
| abstract_inverted_index.metabolism. | 159 |
| abstract_inverted_index.microbiome, | 18 |
| abstract_inverted_index.mutagenesis | 98 |
| abstract_inverted_index.transporter | 79 |
| abstract_inverted_index.understood. | 55 |
| abstract_inverted_index.Furthermore, | 160 |
| abstract_inverted_index.Host-derived | 1 |
| abstract_inverted_index.highlighting | 149 |
| abstract_inverted_index.host-derived | 191 |
| abstract_inverted_index.implications | 20 |
| abstract_inverted_index.interactions | 12, 189 |
| abstract_inverted_index.pathogenesis | 23 |
| abstract_inverted_index.significance | 152 |
| abstract_inverted_index.spectroscopy | 137 |
| abstract_inverted_index.Fusobacterium | 82 |
| abstract_inverted_index.functionality | 52 |
| abstract_inverted_index.host-pathogen | 202 |
| abstract_inverted_index.interactions. | 209 |
| abstract_inverted_index.sRNA-mediated | 201 |
| abstract_inverted_index.spectrometry, | 68 |
| abstract_inverted_index.tsRNA-induced | 128 |
| abstract_inverted_index.PtaT-deficient | 147 |
| abstract_inverted_index.membrane-bound | 73 |
| abstract_inverted_index.microbiome-host | 208 |
| abstract_inverted_index.characterization, | 101 |
| abstract_inverted_index.sequence-specific | 94 |
| cited_by_percentile_year.max | 95 |
| cited_by_percentile_year.min | 91 |
| countries_distinct_count | 2 |
| institutions_distinct_count | 9 |
| citation_normalized_percentile.value | 0.83998709 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | True |