Recent advances in metabolic engineering of Saccharomyces cerevisiae: new tools and their applications

J Lian, S Mishra, H Zhao - Metabolic engineering, 2018 - Elsevier
Metabolic engineering aims to develop efficient cell factories by rewiring cellular
metabolism. As one of the most commonly used cell factories, Saccharomyces cerevisiae …

Synthetic biology and molecular genetics in non-conventional yeasts: current tools and future advances

JM Wagner, HS Alper - Fungal Genetics and Biology, 2016 - Elsevier
Coupling the tools of synthetic biology with traditional molecular genetic techniques can
enable the rapid prototy** and optimization of yeast strains. While the era of yeast …

Controlling gene expression with deep generative design of regulatory DNA

J Zrimec, X Fu, AS Muhammad, C Skrekas… - Nature …, 2022 - nature.com
Abstract Design of de novo synthetic regulatory DNA is a promising avenue to control gene
expression in biotechnology and medicine. Using mutagenesis typically requires screening …

A highly characterized yeast toolkit for modular, multipart assembly

ME Lee, WC DeLoache, B Cervantes… - ACS synthetic …, 2015 - ACS Publications
Saccharomyces cerevisiae is an increasingly attractive host for synthetic biology because of
its long history in industrial fermentations. However, until recently, most synthetic biology …

Deep learning suggests that gene expression is encoded in all parts of a co-evolving interacting gene regulatory structure

J Zrimec, CS Börlin, F Buric, AS Muhammad… - Nature …, 2020 - nature.com
Understanding the genetic regulatory code governing gene expression is an important
challenge in molecular biology. However, how individual coding and non-coding regions of …

Genetic circuit design automation for yeast

Y Chen, S Zhang, EM Young, TS Jones… - Nature …, 2020 - nature.com
Cells can be programmed to monitor and react to their environment using genetic circuits.
Design automation software maps a desired circuit function to a DNA sequence, a process …

Increased CO2 fixation enables high carbon-yield production of 3-hydroxypropionic acid in yeast

N Qin, L Li, X Wan, X Ji, Y Chen, C Li, P Liu… - Nature …, 2024 - nature.com
CO2 fixation plays a key role to make biobased production cost competitive. Here, we use 3-
hydroxypropionic acid (3-HP) to showcase how CO2 fixation enables approaching …

Automated design of thousands of nonrepetitive parts for engineering stable genetic systems

A Hossain, E Lopez, SM Halper, DP Cetnar… - Nature …, 2020 - nature.com
Engineered genetic systems are prone to failure when their genetic parts contain repetitive
sequences. Designing many nonrepetitive genetic parts with desired functionalities remains …

The development and characterization of synthetic minimal yeast promoters

H Redden, HS Alper - Nature communications, 2015 - nature.com
Synthetic promoters, especially minimally sized, are critical for advancing fungal synthetic
biology. Fungal promoters often span hundreds of base pairs, nearly ten times the amount of …

Advances in promoter engineering: novel applications and predefined transcriptional control

AP Cazier, J Blazeck - Biotechnology Journal, 2021 - Wiley Online Library
Synthetic biology continues to progress by relying on more robust tools for transcriptional
control, of which promoters are the most fundamental component. Numerous studies have …