CRISPy-web: An online resource to design sgRNAs for CRISPR applications
CRISPR/Cas9-based genome editing has been one of the major achievements of molecular biology, allowing the targeted engineering of a wide range of genomes. The system originally evolved in prokaryotes as an adaptive immune system against bacteriophage infections. It now sees widespread application i...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
| Published: |
KeAi Communications Co., Ltd.
2016-06-01
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| Series: | Synthetic and Systems Biotechnology |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2405805X15300168 |
| _version_ | 1797203650427224064 |
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| author | Kai Blin Lasse Ebdrup Pedersen Tilmann Weber Sang Yup Lee |
| author_facet | Kai Blin Lasse Ebdrup Pedersen Tilmann Weber Sang Yup Lee |
| author_sort | Kai Blin |
| collection | DOAJ |
| description | CRISPR/Cas9-based genome editing has been one of the major achievements of molecular biology, allowing the targeted engineering of a wide range of genomes. The system originally evolved in prokaryotes as an adaptive immune system against bacteriophage infections. It now sees widespread application in genome engineering workflows, especially using the Streptococcus pyogenes endonuclease Cas9. To utilize Cas9, so-called single guide RNAs (sgRNAs) need to be designed for each target gene. While there are many tools available to design sgRNAs for the popular model organisms, only few tools that allow designing sgRNAs for non-model organisms exist. Here, we present CRISPy-web (http://crispy.secondarymetabolites.org/), an easy to use web tool based on CRISPy to design sgRNAs for any user-provided microbial genome. CRISPy-web allows researchers to interactively select a region of their genome of interest to scan for possible sgRNAs. After checks for potential off-target matches, the resulting sgRNA sequences are displayed graphically and can be exported to text files. All steps and information are accessible from a web browser without the requirement to install and use command line scripts. |
| first_indexed | 2024-04-24T08:22:42Z |
| format | Article |
| id | doaj.art-9232448c26634b9dab1ca9276a4f4c71 |
| institution | Directory Open Access Journal |
| issn | 2405-805X |
| language | English |
| last_indexed | 2024-04-24T08:22:42Z |
| publishDate | 2016-06-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Synthetic and Systems Biotechnology |
| spelling | doaj.art-9232448c26634b9dab1ca9276a4f4c712024-04-17T00:33:30ZengKeAi Communications Co., Ltd.Synthetic and Systems Biotechnology2405-805X2016-06-011211812110.1016/j.synbio.2016.01.003CRISPy-web: An online resource to design sgRNAs for CRISPR applicationsKai Blin0Lasse Ebdrup Pedersen1Tilmann Weber2Sang Yup Lee3The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kogle Alle 6, 2970 Hørsholm, DenmarkThe Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kogle Alle 6, 2970 Hørsholm, DenmarkThe Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kogle Alle 6, 2970 Hørsholm, DenmarkThe Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kogle Alle 6, 2970 Hørsholm, DenmarkCRISPR/Cas9-based genome editing has been one of the major achievements of molecular biology, allowing the targeted engineering of a wide range of genomes. The system originally evolved in prokaryotes as an adaptive immune system against bacteriophage infections. It now sees widespread application in genome engineering workflows, especially using the Streptococcus pyogenes endonuclease Cas9. To utilize Cas9, so-called single guide RNAs (sgRNAs) need to be designed for each target gene. While there are many tools available to design sgRNAs for the popular model organisms, only few tools that allow designing sgRNAs for non-model organisms exist. Here, we present CRISPy-web (http://crispy.secondarymetabolites.org/), an easy to use web tool based on CRISPy to design sgRNAs for any user-provided microbial genome. CRISPy-web allows researchers to interactively select a region of their genome of interest to scan for possible sgRNAs. After checks for potential off-target matches, the resulting sgRNA sequences are displayed graphically and can be exported to text files. All steps and information are accessible from a web browser without the requirement to install and use command line scripts.http://www.sciencedirect.com/science/article/pii/S2405805X15300168CRISPRCas9sgRNAGuide RNAGenome editingGenome engineering |
| spellingShingle | Kai Blin Lasse Ebdrup Pedersen Tilmann Weber Sang Yup Lee CRISPy-web: An online resource to design sgRNAs for CRISPR applications Synthetic and Systems Biotechnology CRISPR Cas9 sgRNA Guide RNA Genome editing Genome engineering |
| title | CRISPy-web: An online resource to design sgRNAs for CRISPR applications |
| title_full | CRISPy-web: An online resource to design sgRNAs for CRISPR applications |
| title_fullStr | CRISPy-web: An online resource to design sgRNAs for CRISPR applications |
| title_full_unstemmed | CRISPy-web: An online resource to design sgRNAs for CRISPR applications |
| title_short | CRISPy-web: An online resource to design sgRNAs for CRISPR applications |
| title_sort | crispy web an online resource to design sgrnas for crispr applications |
| topic | CRISPR Cas9 sgRNA Guide RNA Genome editing Genome engineering |
| url | http://www.sciencedirect.com/science/article/pii/S2405805X15300168 |
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