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Experimental exploration of a ribozyme neutral network using evolutionary algorithm and deep learning
https://oist.repo.nii.ac.jp/records/2763
https://oist.repo.nii.ac.jp/records/2763b977cb2f-0ae2-4bf3-b156-30c8358b5df6
名前 / ファイル | ライセンス | アクション |
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Rotrattanadumro-2022-Experimental exploration (2.2 MB)
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CC BY 4.0
Creative Commons Attribution 4.0 International (https://creativecommons.org/licenses/by/4.0/) |
Item type | 学術雑誌論文 / Journal Article(1) | |||||
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公開日 | 2022-08-23 | |||||
タイトル | ||||||
言語 | en | |||||
タイトル | Experimental exploration of a ribozyme neutral network using evolutionary algorithm and deep learning | |||||
言語 | ||||||
言語 | eng | |||||
資源タイプ | ||||||
資源タイプ識別子 | http://purl.org/coar/resource_type/c_6501 | |||||
資源タイプ | journal article | |||||
著者(英) |
Rotrattanadumrong, Rachapun
× Rotrattanadumrong, Rachapun× Yokobayashi, Yohei |
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書誌情報 |
en : Nature Communications 巻 13, 号 1, p. 4847, 発行日 2022-08-17 |
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抄録 | ||||||
内容記述タイプ | Other | |||||
内容記述 | A neutral network connects all genotypes with equivalent phenotypes in a fitness landscape and plays an important role in the mutational robustness and evolvability of biomolecules. In contrast to earlier theoretical works, evidence of large neutral networks has been lacking in recent experimental studies of fitness landscapes. This suggests that evolution could be constrained globally. Here, we demonstrate that a deep learning-guided evolutionary algorithm can efficiently identify neutral genotypes within the sequence space of an RNA ligase ribozyme. Furthermore, we measure the activities of all 216 variants connecting two active ribozymes that differ by 16 mutations and analyze mutational interactions (epistasis) up to the 16th order. We discover an extensive network of neutral paths linking the two genotypes and reveal that these paths might be predicted using only information from lower-order interactions. Our experimental evaluation of over 120,000 ribozyme sequences provides important empirical evidence that neutral networks can increase the accessibility and predictability of the fitness landscape. | |||||
出版者 | ||||||
出版者 | Nature Portfolio | |||||
ISSN | ||||||
収録物識別子タイプ | ISSN | |||||
収録物識別子 | 2041-1723 | |||||
PubMed番号 | ||||||
関連タイプ | isIdenticalTo | |||||
識別子タイプ | PMID | |||||
関連識別子 | info:pmid/35977956 | |||||
DOI | ||||||
関連タイプ | isIdenticalTo | |||||
識別子タイプ | DOI | |||||
関連識別子 | info:doi/10.1038/s41467-022-32538-z | |||||
権利 | ||||||
権利情報 | © 2022 The Author(s) | |||||
関連サイト | ||||||
識別子タイプ | URI | |||||
関連識別子 | https://www.nature.com/articles/s41467-022-32538-z | |||||
著者版フラグ | ||||||
出版タイプ | VoR | |||||
出版タイプResource | http://purl.org/coar/version/c_970fb48d4fbd8a85 |