Genetic interaction mapping with microfluidic-based single cell sequencing.
Genetic interaction mapping is useful for understanding the molecular basis of cellular decision making, but elucidating interactions genome-wide is challenging due to the massive number of gene combinations that must be tested. Here, we demonstrate a simple approach to thoroughly map genetic intera...
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2017-01-01
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| Series: | PLoS ONE |
| Online Access: | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0171302&type=printable |
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| _version_ | 1849716985851543552 |
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| author | John R Haliburton Wenjun Shao Adam Deutschbauer Adam Arkin Adam R Abate |
| author_facet | John R Haliburton Wenjun Shao Adam Deutschbauer Adam Arkin Adam R Abate |
| author_sort | John R Haliburton |
| collection | DOAJ |
| description | Genetic interaction mapping is useful for understanding the molecular basis of cellular decision making, but elucidating interactions genome-wide is challenging due to the massive number of gene combinations that must be tested. Here, we demonstrate a simple approach to thoroughly map genetic interactions in bacteria using microfluidic-based single cell sequencing. Using single cell PCR in droplets, we link distinct genetic information into single DNA sequences that can be decoded by next generation sequencing. Our approach is scalable and theoretically enables the pooling of entire interaction libraries to interrogate multiple pairwise genetic interactions in a single culture. The speed, ease, and low-cost of our approach makes genetic interaction mapping viable for routine characterization, allowing the interaction network to be used as a universal read out for a variety of biology experiments, and for the elucidation of interaction networks in non-model organisms. |
| format | Article |
| id | doaj-art-c1a2ca4f240a4bc9be8c0d0239794312 |
| institution | DOAJ |
| issn | 1932-6203 |
| language | English |
| publishDate | 2017-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj-art-c1a2ca4f240a4bc9be8c0d02397943122025-08-20T03:12:49ZengPublic Library of Science (PLoS)PLoS ONE1932-62032017-01-01122e017130210.1371/journal.pone.0171302Genetic interaction mapping with microfluidic-based single cell sequencing.John R HaliburtonWenjun ShaoAdam DeutschbauerAdam ArkinAdam R AbateGenetic interaction mapping is useful for understanding the molecular basis of cellular decision making, but elucidating interactions genome-wide is challenging due to the massive number of gene combinations that must be tested. Here, we demonstrate a simple approach to thoroughly map genetic interactions in bacteria using microfluidic-based single cell sequencing. Using single cell PCR in droplets, we link distinct genetic information into single DNA sequences that can be decoded by next generation sequencing. Our approach is scalable and theoretically enables the pooling of entire interaction libraries to interrogate multiple pairwise genetic interactions in a single culture. The speed, ease, and low-cost of our approach makes genetic interaction mapping viable for routine characterization, allowing the interaction network to be used as a universal read out for a variety of biology experiments, and for the elucidation of interaction networks in non-model organisms.https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0171302&type=printable |
| spellingShingle | John R Haliburton Wenjun Shao Adam Deutschbauer Adam Arkin Adam R Abate Genetic interaction mapping with microfluidic-based single cell sequencing. PLoS ONE |
| title | Genetic interaction mapping with microfluidic-based single cell sequencing. |
| title_full | Genetic interaction mapping with microfluidic-based single cell sequencing. |
| title_fullStr | Genetic interaction mapping with microfluidic-based single cell sequencing. |
| title_full_unstemmed | Genetic interaction mapping with microfluidic-based single cell sequencing. |
| title_short | Genetic interaction mapping with microfluidic-based single cell sequencing. |
| title_sort | genetic interaction mapping with microfluidic based single cell sequencing |
| url | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0171302&type=printable |
| work_keys_str_mv | AT johnrhaliburton geneticinteractionmappingwithmicrofluidicbasedsinglecellsequencing AT wenjunshao geneticinteractionmappingwithmicrofluidicbasedsinglecellsequencing AT adamdeutschbauer geneticinteractionmappingwithmicrofluidicbasedsinglecellsequencing AT adamarkin geneticinteractionmappingwithmicrofluidicbasedsinglecellsequencing AT adamrabate geneticinteractionmappingwithmicrofluidicbasedsinglecellsequencing |