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GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes
BACKGROUND: Balancer chromosomes are tools used by fruit fly geneticists to prevent meiotic recombination. Recently, CRISPR/Cas9 genome editing has been shown capable of generating inversions similar to the chromosomal rearrangements present in balancer chromosomes. Extending the benefits of balance...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6416924/ https://www.ncbi.nlm.nih.gov/pubmed/30866794 http://dx.doi.org/10.1186/s12859-019-2712-x |
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author | Merritt, Brian B. Cheung, Lily S. |
author_facet | Merritt, Brian B. Cheung, Lily S. |
author_sort | Merritt, Brian B. |
collection | PubMed |
description | BACKGROUND: Balancer chromosomes are tools used by fruit fly geneticists to prevent meiotic recombination. Recently, CRISPR/Cas9 genome editing has been shown capable of generating inversions similar to the chromosomal rearrangements present in balancer chromosomes. Extending the benefits of balancer chromosomes to other multicellular organisms could significantly accelerate biomedical and plant genetics research. RESULTS: Here, we present GRIBCG (Guide RNA Identifier for Balancer Chromosome Generation), a tool for the rational design of balancer chromosomes. GRIBCG identifies single guide RNAs (sgRNAs) for use with Streptococcus pyogenes Cas9 (SpCas9). These sgRNAs would efficiently cut a chromosome multiple times while minimizing off-target cutting in the rest of the genome. We describe the performance of this tool on six model organisms and compare our results to two routinely used fruit fly balancer chromosomes. CONCLUSION: GRIBCG is the first of its kind tool for the design of balancer chromosomes using CRISPR/Cas9. GRIBCG can accelerate genetics research by providing a fast, systematic and simple to use framework to induce chromosomal rearrangements. |
format | Online Article Text |
id | pubmed-6416924 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-64169242019-03-25 GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes Merritt, Brian B. Cheung, Lily S. BMC Bioinformatics Software BACKGROUND: Balancer chromosomes are tools used by fruit fly geneticists to prevent meiotic recombination. Recently, CRISPR/Cas9 genome editing has been shown capable of generating inversions similar to the chromosomal rearrangements present in balancer chromosomes. Extending the benefits of balancer chromosomes to other multicellular organisms could significantly accelerate biomedical and plant genetics research. RESULTS: Here, we present GRIBCG (Guide RNA Identifier for Balancer Chromosome Generation), a tool for the rational design of balancer chromosomes. GRIBCG identifies single guide RNAs (sgRNAs) for use with Streptococcus pyogenes Cas9 (SpCas9). These sgRNAs would efficiently cut a chromosome multiple times while minimizing off-target cutting in the rest of the genome. We describe the performance of this tool on six model organisms and compare our results to two routinely used fruit fly balancer chromosomes. CONCLUSION: GRIBCG is the first of its kind tool for the design of balancer chromosomes using CRISPR/Cas9. GRIBCG can accelerate genetics research by providing a fast, systematic and simple to use framework to induce chromosomal rearrangements. BioMed Central 2019-03-12 /pmc/articles/PMC6416924/ /pubmed/30866794 http://dx.doi.org/10.1186/s12859-019-2712-x Text en © The Author(s). 2019 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Software Merritt, Brian B. Cheung, Lily S. GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes |
title | GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes |
title_full | GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes |
title_fullStr | GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes |
title_full_unstemmed | GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes |
title_short | GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes |
title_sort | gribcg: a software for selection of sgrnas in the design of balancer chromosomes |
topic | Software |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6416924/ https://www.ncbi.nlm.nih.gov/pubmed/30866794 http://dx.doi.org/10.1186/s12859-019-2712-x |
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