Item type |
学術雑誌論文 / Journal Article(1) |
公開日 |
2022-07-28 |
タイトル |
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タイトル |
Convergence in LINE-1 nucleotide variations can benefit redundantly forming triplexes with lncRNA in mammalian X-chromosome inactivation |
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言語 |
en |
言語 |
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言語 |
eng |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
LINE-1 |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
Long noncoding RNA |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
X-chromosome inactivation |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
Xist RNA |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
XIST RNA |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
Rsx RNA |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
Hoogsteen triplex |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
Reverse Hoogsteen triplex |
キーワード |
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言語 |
en |
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主題Scheme |
Other |
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主題 |
MC simulation |
資源タイプ |
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資源タイプ識別子 |
http://purl.org/coar/resource_type/c_6501 |
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資源タイプ |
journal article |
アクセス権 |
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アクセス権 |
open access |
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アクセス権URI |
http://purl.org/coar/access_right/c_abf2 |
著者 |
Matsuno, Yoko
Yamashita, Takefumi
Wagatsuma, Michiru
Yamakage, Hajime
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抄録 |
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内容記述タイプ |
Abstract |
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内容記述 |
Background: Associations between X-inactive transcript (Xist)-long noncoding RNA (lncRNA) and chromatin are critical intermolecular interactions in the X-chromosome inactivation (XCI) process. Despite high-resolution analyses of the Xist RNA-binding sites, specific interaction sequences are yet to be identified. Based on elusive features of the association between Xist RNA and chromatin and the possible existence of multiple low-affinity binding sites in Xist RNA, we defined short motifs (≥5 nucleotides), termed as redundant UC/TC (r-UC/TC) or AG (r-AG) motifs, which may help in the mediation of triplex formation between the lncRNAs and duplex DNA. Results: The study showed that r-UC motifs are densely dispersed throughout mouse and human Xist/XIST RNAs, whereas r-AG motifs are even more densely dispersed along opossum RNA-on-the-silent X (Rsx) RNA, and also along both full-length and truncated long interspersed nuclear elements (LINE-1s, L1s) of the three species. Predicted secondary structures of the lncRNAs showed that the length range of these sequence motifs available for forming triplexes was even shorter, mainly 5- to 9-nucleotides long. Quartz crystal microbalance (QCM) measurements and Monte Carlo (MC) simulations indicated that minimum-length motifs can reinforce the binding state by increasing the copy number of the motifs in the same RNA or DNA molecule. Further, r-AG motifs in L1s had a similar length-distribution pattern, regardless of the similarities in the length or sequence of L1s across the three species; this also applies to high-frequency mutations in r-AG motifs, which suggests convergence in L1 sequence variations. Conclusions: Multiple short motifs in both RNA and duplex DNA molecules could be brought together to form triplexes with either Hoogsteen or reverse Hoogsteen hydrogen bonding, by which their associations are cooperatively enhanced. This novel triplex interaction could be involved in associations between lncRNA and chromatin in XCI, particularly at the sites of L1s. Potential binding of Xist/XIST/Rsx RNAs specifically at L1s is most likely preserved through the r-AG motifs conserved in mammalian L1s through convergence in L1 nucleotide variations and by maintaining a particular r-UC/r-AG motif ratio in each of these lncRNAs, irrespective of their poorly conserved sequences. |
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言語 |
en |
書誌情報 |
en : Mobile DNA
巻 10,
p. 1-23,
発行日 2019-07
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出版者 |
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出版者 |
BioMed Central |
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言語 |
en |
ISSN |
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収録物識別子タイプ |
EISSN |
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収録物識別子 |
1759-8753 |
DOI |
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識別子タイプ |
DOI |
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関連識別子 |
https://doi.org/10.1186/s13100-019-0173-4 |
権利 |
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言語 |
en |
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権利情報 |
© The Author(s). 2019 |
権利 |
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言語 |
en |
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権利情報Resource |
https://creativecommons.org/licenses/by/4.0/ |
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権利情報 |
Creative Commons Attribution 4.0 International |
出版タイプ |
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出版タイプ |
VoR |
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出版タイプResource |
http://purl.org/coar/version/c_970fb48d4fbd8a85 |