Journal
NATURE PROTOCOLS
Volume 12, Issue 2, Pages 429-438Publisher
NATURE PUBLISHING GROUP
DOI: 10.1038/nprot.2016.181
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Funding
- National Institutes of Health (NIH) Biotechnology Training Grant
- NIH Director's New Innovator Award [DP2OD006466]
- National Science Foundation CAREER Award [MCB-1149328]
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Single-cell microscopy is a powerful tool for studying gene functions using strain libraries, but it suffers from throughput limitations. Here we describe the Strain Library Imaging Protocol ( SLIP), which is a high-throughput, automated microscopy workflow for large strain collections that requires minimal user involvement. SLIP involves transferring arrayed bacterial cultures from multiwell plates onto large agar pads using inexpensive replicator pins and automatically imaging the resulting single cells. The acquired images are subsequently reviewed and analyzed by custom MATLAB scripts that segment single-cell contours and extract quantitative metrics. SLIP yields rich data sets on cell morphology and gene expression that illustrate the function of certain genes and the connections among strains in a library. For a library arrayed on 96-well plates, image acquisition can be completed within 4 min per plate.
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