Efficient CRISPR/Cas9-based genome editing and its application to conditional genetic analysis in Marchantia polymorpha
Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant, the efficiency was too low to apply to functional analysis. In this study, we show the establishment of CRISPR/Cas9 genome editing vectors w...
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Published in | PloS one Vol. 13; no. 10; p. e0205117 |
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Main Authors | , , , , , , , , , |
Format | Journal Article |
Language | English |
Published |
United States
Public Library of Science
31.10.2018
Public Library of Science (PLoS) |
Subjects | |
Online Access | Get full text |
ISSN | 1932-6203 1932-6203 |
DOI | 10.1371/journal.pone.0205117 |
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Abstract | Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant, the efficiency was too low to apply to functional analysis. In this study, we show the establishment of CRISPR/Cas9 genome editing vectors with high efficiency for both construction and genome editing. Codon optimization of Cas9 to Arabidopsis achieved over 70% genome editing efficiency at two loci tested. Systematic assessment revealed that guide sequences of 17 nt or shorter dramatically decreased this efficiency. We also demonstrated that a combinatorial use of this system and a floxed complementation construct enabled conditional analysis of a nearly essential gene. This study reports that simple, rapid, and efficient genome editing is feasible with the series of developed vectors. |
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AbstractList | Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant, the efficiency was too low to apply to functional analysis. In this study, we show the establishment of CRISPR/Cas9 genome editing vectors with high efficiency for both construction and genome editing. Codon optimization of Cas9 to Arabidopsis achieved over 70% genome editing efficiency at two loci tested. Systematic assessment revealed that guide sequences of 17 nt or shorter dramatically decreased this efficiency. We also demonstrated that a combinatorial use of this system and a floxed complementation construct enabled conditional analysis of a nearly essential gene. This study reports that simple, rapid, and efficient genome editing is feasible with the series of developed vectors. Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant, the efficiency was too low to apply to functional analysis. In this study, we show the establishment of CRISPR/Cas9 genome editing vectors with high efficiency for both construction and genome editing. Codon optimization of Cas9 to Arabidopsis achieved over 70% genome editing efficiency at two loci tested. Systematic assessment revealed that guide sequences of 17 nt or shorter dramatically decreased this efficiency. We also demonstrated that a combinatorial use of this system and a floxed complementation construct enabled conditional analysis of a nearly essential gene. This study reports that simple, rapid, and efficient genome editing is feasible with the series of developed vectors.Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant, the efficiency was too low to apply to functional analysis. In this study, we show the establishment of CRISPR/Cas9 genome editing vectors with high efficiency for both construction and genome editing. Codon optimization of Cas9 to Arabidopsis achieved over 70% genome editing efficiency at two loci tested. Systematic assessment revealed that guide sequences of 17 nt or shorter dramatically decreased this efficiency. We also demonstrated that a combinatorial use of this system and a floxed complementation construct enabled conditional analysis of a nearly essential gene. This study reports that simple, rapid, and efficient genome editing is feasible with the series of developed vectors. Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant, the efficiency was too low to apply to functional analysis. In this study, we show the establishment of CRISPR/Cas9 genome editing vectors with high efficiency for both construction and genome editing. Codon optimization of Cas9 to Arabidopsis achieved over 70% genome editing efficiency at two loci tested. Systematic assessment revealed that guide sequences of 17 nt or shorter dramatically decreased this efficiency. We also demonstrated that a combinatorial use of this system and a floxed complementation construct enabled conditional analysis of a nearly essential gene. This study reports that simple, rapid, and efficient genome editing is feasible with the series of developed vectors. |
Author | Matsuda, Yoriko Sugano, Shigeo S. Shirakawa, Makoto Osakabe, Keishi Ishida, Sakiko Shimada, Tomoo Hara-Nishimura, Ikuko Nishihama, Ryuichi Takagi, Junpei Kohchi, Takayuki |
AuthorAffiliation | 1 R-GIRO, Ritsumeikan University, Kusatsu, Shiga, Japan University of Tsukuba, JAPAN 3 Graduate School of Biostudies, Kyoto University, Kyoto, Japan 2 JST, PRESTO, Kawaguchi, Saitama, Japan 4 Graduate School of Science, Kyoto University, Kyoto, Japan 5 Faculty of Bioscience and Bioindustry, Tokushima University, Tokushima, Tokushima, Japan |
AuthorAffiliation_xml | – name: 1 R-GIRO, Ritsumeikan University, Kusatsu, Shiga, Japan – name: 2 JST, PRESTO, Kawaguchi, Saitama, Japan – name: 5 Faculty of Bioscience and Bioindustry, Tokushima University, Tokushima, Tokushima, Japan – name: University of Tsukuba, JAPAN – name: 3 Graduate School of Biostudies, Kyoto University, Kyoto, Japan – name: 4 Graduate School of Science, Kyoto University, Kyoto, Japan |
Author_xml | – sequence: 1 givenname: Shigeo S. surname: Sugano fullname: Sugano, Shigeo S. – sequence: 2 givenname: Ryuichi orcidid: 0000-0002-7032-732X surname: Nishihama fullname: Nishihama, Ryuichi – sequence: 3 givenname: Makoto surname: Shirakawa fullname: Shirakawa, Makoto – sequence: 4 givenname: Junpei surname: Takagi fullname: Takagi, Junpei – sequence: 5 givenname: Yoriko surname: Matsuda fullname: Matsuda, Yoriko – sequence: 6 givenname: Sakiko surname: Ishida fullname: Ishida, Sakiko – sequence: 7 givenname: Tomoo surname: Shimada fullname: Shimada, Tomoo – sequence: 8 givenname: Ikuko surname: Hara-Nishimura fullname: Hara-Nishimura, Ikuko – sequence: 9 givenname: Keishi surname: Osakabe fullname: Osakabe, Keishi – sequence: 10 givenname: Takayuki orcidid: 0000-0002-9712-4872 surname: Kohchi fullname: Kohchi, Takayuki |
BackLink | https://www.ncbi.nlm.nih.gov/pubmed/30379827$$D View this record in MEDLINE/PubMed |
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ContentType | Journal Article |
Copyright | 2018 Sugano et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. 2018 Sugano et al 2018 Sugano et al |
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Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 14 content type line 23 Competing Interests: This study was partly funded by a donation from Otsuka Pharmaceuticals to Tokushima University. There are no patents, products in development or marketed products to declare. This does not alter our adherence to all the PLOS ONE policies on sharing data and materials, as detailed online in the guide for authors. |
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Snippet | Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant,... Marchantia polymorpha is one of the model species of basal land plants. Although CRISPR/Cas9-based genome editing has already been demonstrated for this plant,... |
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SubjectTerms | Biology and life sciences Cell cycle Combinatorial analysis Complementation CRISPR Editing Efficiency Engineering and Technology Feasibility studies Flowers & plants Functional analysis Gene expression Genetic analysis Genetics Genome editing Genomes Genomics Kinases Marchantia polymorpha Mutation Optimization Proteins Research and Analysis Methods RNA polymerase Sequences Trends |
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Title | Efficient CRISPR/Cas9-based genome editing and its application to conditional genetic analysis in Marchantia polymorpha |
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