Engineering circular RNA for enhanced protein production

Circular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can encode proteins, raising the promise of circRNA as a platform for gene expression. In this study, we developed a systematic approach for rapid...

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Published inNature biotechnology Vol. 41; no. 2; pp. 262 - 272
Main Authors Chen, Robert, Wang, Sean K., Belk, Julia A., Amaya, Laura, Li, Zhijian, Cardenas, Angel, Abe, Brian T., Chen, Chun-Kan, Wender, Paul A., Chang, Howard Y.
Format Journal Article
LanguageEnglish
Published New York Nature Publishing Group US 01.02.2023
Nature Publishing Group
Subjects
3' Untranslated regions
631/1647/2300
631/208/1792
631/61/201
631/61/51/391
Agriculture
Aptamers
Bioinformatics
Biomedical and Life Sciences
Biomedical Engineering/Biotechnology
Biomedicine
Biotechnology
Circular RNA
Cloning
Design optimization
Gene expression
In vivo methods and tests
Life Sciences
mRNA
Protein folding
Proteins
Ribonucleic acid
RNA
RNA - genetics
RNA - metabolism
RNA Splicing
RNA, Circular - genetics
RNA, Messenger - genetics
RNA, Messenger - metabolism
Severe acute respiratory syndrome coronavirus 2
Splicing
Topology
Transgenes
Translation
Translation initiation
Online AccessGet full text

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Abstract Circular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can encode proteins, raising the promise of circRNA as a platform for gene expression. In this study, we developed a systematic approach for rapid assembly and testing of features that affect protein production from synthetic circRNAs. To maximize circRNA translation, we optimized five elements: vector topology, 5′ and 3′ untranslated regions, internal ribosome entry sites and synthetic aptamers recruiting translation initiation machinery. Together, these design principles improve circRNA protein yields by several hundred-fold, provide increased translation over messenger RNA in vitro, provide more durable translation in vivo and are generalizable across multiple transgenes. Protein expression from circular RNAs is enhanced several hundred-fold by optimizing vector design.
AbstractList Circular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can encode proteins, raising the promise of circRNA as a platform for gene expression. In this study, we developed a systematic approach for rapid assembly and testing of features that affect protein production from synthetic circRNAs. To maximize circRNA translation, we optimized five elements: vector topology, 5′ and 3′ untranslated regions, internal ribosome entry sites and synthetic aptamers recruiting translation initiation machinery. Together, these design principles improve circRNA protein yields by several hundred-fold, provide increased translation over messenger RNA in vitro, provide more durable translation in vivo and are generalizable across multiple transgenes. Protein expression from circular RNAs is enhanced several hundred-fold by optimizing vector design.
Circular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can encode proteins, raising the promise of circRNA as a platform for gene expression. In this study, we developed a systematic approach for rapid assembly and testing of features that affect protein production from synthetic circRNAs. To maximize circRNA translation, we optimized five elements: vector topology, 5′ and 3′ untranslated regions, internal ribosome entry sites and synthetic aptamers recruiting translation initiation machinery. Together, these design principles improve circRNA protein yields by several hundred-fold, provide increased translation over messenger RNA in vitro, provide more durable translation in vivo and are generalizable across multiple transgenes.
Circular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can encode proteins, raising the promise of circRNA as a platform for gene expression. In this study, we developed a systematic approach for rapid assembly and testing of features that affect protein production from synthetic circRNAs. To maximize circRNA translation, we optimized five elements: vector topology, 5' and 3' untranslated regions, internal ribosome entry sites and synthetic aptamers recruiting translation initiation machinery. Together, these design principles improve circRNA protein yields by several hundred-fold, provide increased translation over messenger RNA in vitro, provide more durable translation in vivo and are generalizable across multiple transgenes.Circular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can encode proteins, raising the promise of circRNA as a platform for gene expression. In this study, we developed a systematic approach for rapid assembly and testing of features that affect protein production from synthetic circRNAs. To maximize circRNA translation, we optimized five elements: vector topology, 5' and 3' untranslated regions, internal ribosome entry sites and synthetic aptamers recruiting translation initiation machinery. Together, these design principles improve circRNA protein yields by several hundred-fold, provide increased translation over messenger RNA in vitro, provide more durable translation in vivo and are generalizable across multiple transgenes.
Circular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can encode proteins, raising the promise of circRNA as a platform for gene expression. In this study, we developed a systematic approach for rapid assembly and testing of features that affect protein production from synthetic circRNAs. To maximize circRNA translation, we optimized five elements: vector topology, 5′ and 3′ untranslated regions, internal ribosome entry sites and synthetic aptamers recruiting translation initiation machinery. Together, these design principles improve circRNA protein yields by several hundred-fold, provide increased translation over messenger RNA in vitro, provide more durable translation in vivo and are generalizable across multiple transgenes.Protein expression from circular RNAs is enhanced several hundred-fold by optimizing vector design.
Author Cardenas, Angel
Abe, Brian T.
Wang, Sean K.
Wender, Paul A.
Chang, Howard Y.
Li, Zhijian
Chen, Chun-Kan
Amaya, Laura
Chen, Robert
Belk, Julia A.
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– sequence: 2
  givenname: Sean K.
  orcidid: 0000-0003-1557-8510
  surname: Wang
  fullname: Wang, Sean K.
  organization: Center for Personal Dynamic Regulomes, Stanford University, Department of Ophthalmology, Stanford University School of Medicine
– sequence: 3
  givenname: Julia A.
  orcidid: 0000-0003-4724-6158
  surname: Belk
  fullname: Belk, Julia A.
  organization: Department of Computer Science, Stanford University
– sequence: 4
  givenname: Laura
  orcidid: 0000-0002-8742-9111
  surname: Amaya
  fullname: Amaya, Laura
  organization: Center for Personal Dynamic Regulomes, Stanford University
– sequence: 5
  givenname: Zhijian
  surname: Li
  fullname: Li, Zhijian
  organization: Department of Chemistry, Stanford University
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  surname: Cardenas
  fullname: Cardenas, Angel
  organization: Center for Personal Dynamic Regulomes, Stanford University
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  surname: Abe
  fullname: Abe, Brian T.
  organization: Center for Personal Dynamic Regulomes, Stanford University
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  givenname: Chun-Kan
  surname: Chen
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  givenname: Paul A.
  orcidid: 0000-0001-6319-2829
  surname: Wender
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  organization: Department of Chemistry, Stanford University, Department of Chemical and Systems Biology, Stanford University
– sequence: 10
  givenname: Howard Y.
  orcidid: 0000-0002-9459-4393
  surname: Chang
  fullname: Chang, Howard Y.
  email: howchang@stanford.edu
  organization: Center for Personal Dynamic Regulomes, Stanford University, Howard Hughes Medical Institute, Stanford University
BackLink https://www.ncbi.nlm.nih.gov/pubmed/35851375$$D View this record in MEDLINE/PubMed
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Snippet Circular RNAs (circRNAs) are stable and prevalent RNAs in eukaryotic cells that arise from back-splicing. Synthetic circRNAs and some endogenous circRNAs can...
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SubjectTerms 3' Untranslated regions
631/1647/2300
631/208/1792
631/61/201
631/61/51/391
Agriculture
Aptamers
Bioinformatics
Biomedical and Life Sciences
Biomedical Engineering/Biotechnology
Biomedicine
Biotechnology
Circular RNA
Cloning
Design optimization
Gene expression
In vivo methods and tests
Life Sciences
mRNA
Protein folding
Proteins
Ribonucleic acid
RNA
RNA - genetics
RNA - metabolism
RNA Splicing
RNA, Circular - genetics
RNA, Messenger - genetics
RNA, Messenger - metabolism
Severe acute respiratory syndrome coronavirus 2
Splicing
Topology
Transgenes
Translation
Translation initiation
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Title Engineering circular RNA for enhanced protein production
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