Unknown

Dataset Information

0

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.

SUBMITTER: Liu L 

PROVIDER: S-EPMC7909483 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature

altmetric image

Publications

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

Liu Leqian L   Dalal Chiraj K CK   Heineike Benjamin M BM   Abate Adam R AR  

Lab on a chip 20190501 10


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  ...[more]

Similar Datasets

2019-04-17 | GSE121271 | GEO
| PRJNA496508 | ENA
| S-EPMC4441486 | biostudies-other
| S-EPMC7454010 | biostudies-literature
| 2684555 | ecrin-mdr-crc
| S-EPMC6192987 | biostudies-literature
| S-EPMC6090667 | biostudies-literature
| S-EPMC6433287 | biostudies-literature
| S-EPMC7818754 | biostudies-literature
| S-EPMC2767369 | biostudies-literature