Issue 10, 2019

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

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

Supplementary files

Article information

Article type
Paper
Submitted
24 ⵉⵏⵏ 2019
Accepted
14 ⵉⴱⵔ 2019
First published
15 ⵉⴱⵔ 2019

Lab Chip, 2019,19, 1838-1849

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

To request permission to reproduce material from this article, please go to the Copyright Clearance Center request page.

If you are an author contributing to an RSC publication, you do not need to request permission provided correct acknowledgement is given.

If you are the author of this article, you do not need to request permission to reproduce figures and diagrams provided correct acknowledgement is given. If you want to reproduce the whole article in a third-party publication (excluding your thesis/dissertation for which permission is not required) please go to the Copyright Clearance Center request page.

Read more about how to correctly acknowledge RSC content.

Social activity

Spotlight

Advertisements