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| Status |
Public on Oct 31, 2023 |
| Title |
Model-driven design of synthetic N-terminal coding sequences for fine-tuning gene expression in yeast and bacteria |
| Organisms |
Bacillus subtilis; Saccharomyces cerevisiae |
| Experiment type |
Other
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| Summary |
N-terminal coding sequences (NCS) are key regulatory elements for fine-tuning gene expression during translation initiation, the rate-limiting step of translation. However, due to complex combinatory effects of NCS biophysical factors and endogenous regulation, designing NCS remains challenging. Herein, we implemented multi-view learning strategy for model-driven generation of synthetic NCS for Saccharomyces cerevisiae and Bacillus subtilis, which are model microorganisms widely used in the laboratory and industry.
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| Overall design |
NCS expression level was measured using a “FACS-seq” reporter-based assay. Libraries of yeast and bacteria cells harboring a plasmid in which GFP expression was driven by Pbs, and randomly-generated NCS were inserted after the start codon (ATG) of GFP. Cells of each strain were FACS-sorted into high and low bins on the basis of expression. Specifically, NCS libraries for S. cerevisiae and B. subtilis has nearly 150,000 cells that were sorted, respectively.
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| Contributor(s) |
Wang C, Zhang W, Tian R, Zhang J, Zhang L, Deng Z, Liu L, Du G, Liu Y |
| Citation missing |
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| Submission date |
Oct 22, 2021 |
| Last update date |
Oct 31, 2023 |
| Contact name |
Yanfeng Liu |
| E-mail(s) |
yanfengliu@jiangnan.edu.cn
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| Phone |
86-510-85197117
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| Organization name |
Jiangnan University
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| Street address |
No.1800, Lihu Avenue
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| City |
Wuxi |
| State/province |
Jiangsu |
| ZIP/Postal code |
214122 |
| Country |
China |
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| Platforms (2) |
| GPL27812 |
Illumina NovaSeq 6000 (Saccharomyces cerevisiae) |
| GPL30886 |
Illumina NovaSeq 6000 (Bacillus subtilis) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA773670 |
| SRA |
SRP342686 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE186378_RAW.tar |
120.0 Kb |
(http)(custom) |
TAR (of CSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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