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Issue 10, 2019
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High throughput gene expression profiling of yeast colonies with microgel-culture Drop-seq

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Abstract

Yeast can be engineered into “living foundries” for non-natural chemical production by reprogramming them via a “design-build-test” cycle. While methods for “design” and “build” are relatively scalable and efficient, “test” remains a bottleneck, limiting the effectiveness of the procedure. Here we describe isogenic colony sequencing (ICO-seq), a massively-parallel strategy to assess the gene expression, and thus engineered pathway efficacy, of large numbers of genetically distinct yeast colonies. We use the approach to characterize opaque-white switching in 658 C. albicans colonies. By profiling the transcriptomes of 1642 engineered S. cerevisiae strains, we assess gene expression heterogeneity in a protein mutagenesis library. Our approach will accelerate synthetic biology by allowing facile and cost-effective transcriptional profiling of large numbers of genetically distinct yeast strains.

Graphical abstract: High throughput gene expression profiling of yeast colonies with microgel-culture Drop-seq

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Supplementary files

Article information


Submitted
24 Jan 2019
Accepted
14 Apr 2019
First published
15 Apr 2019

Lab Chip, 2019,19, 1838-1849
Article type
Paper
Author version available

High throughput gene expression profiling of yeast colonies with microgel-culture Drop-seq

L. Liu, C. K. Dalal, B. M. Heineike and A. R. Abate, Lab Chip, 2019, 19, 1838
DOI: 10.1039/C9LC00084D

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