Advancing Yarrowia lipolytica as a superior biomanufacturing platform by tuning gene expression using promoter engineering

ML Sun, TQ Shi, L Lin, R Ledesma-Amaro, XJ Ji - Bioresource Technology, 2022 - Elsevier
Yarrowia lipolytica is recognized as an excellent non-conventional yeast in the field of
biomanufacturing, where it is used as a host to produce oleochemicals, terpenes, organic …

Plant promoters: an approach of structure and function

MS Porto, MPN Pinheiro, VGL Batista… - Molecular …, 2014 - Springer
With current advances in genomics, several technological processes have been generated,
resulting in improvement in different segments of molecular research involving prokaryotic …

Single-molecule visualization of twin-supercoiled domains generated during transcription

R Janissen, R Barth, M Polinder… - Nucleic acids …, 2024 - academic.oup.com
Transcription-coupled supercoiling of DNA is a key factor in chromosome compaction and
the regulation of genetic processes in all domains of life. It has become common knowledge …

Blue light-mediated transcriptional activation and repression of gene expression in bacteria

P Jayaraman, K Devarajan, TK Chua… - Nucleic acids …, 2016 - academic.oup.com
Light-regulated modules offer unprecedented new ways to control cellular behavior in
precise spatial and temporal resolution. The availability of such tools may dramatically …

MethSMRT: an integrative database for DNA N6-methyladenine and N4-methylcytosine generated by single-molecular real-time sequencing

P Ye, Y Luan, K Chen, Y Liu, C **ao… - Nucleic acids …, 2016 - academic.oup.com
DNA methylation is an important type of epigenetic modifications, where 5-methylcytosine
(5mC), 6-methyadenine (6mA) and 4-methylcytosine (4mC) are the most common types …

Recent advances in the applications of promoter engineering for the optimization of metabolite biosynthesis

N Xu, L Wei, J Liu - World Journal of Microbiology and Biotechnology, 2019 - Springer
Cell metabolism in living organisms is largely regulated at the transcriptional level, and the
promoters are regarded as basic regulatory elements responsible for transcription initiation …

Tailored UPRE2 variants for dynamic gene regulation in yeast

C **ao, X Liu, Y Pan, Y Li, L Qin… - Proceedings of the …, 2024 - National Acad Sciences
Genetic elements are foundational in synthetic biology serving as vital building blocks. They
enable programming host cells for efficient production of valuable chemicals and …

Generic eukaryotic core promoter prediction using structural features of DNA

T Abeel, Y Saeys, E Bonnet, P Rouzé… - Genome …, 2008 - genome.cshlp.org
Despite many recent efforts, in silico identification of promoter regions is still in its infancy.
However, the accurate identification and delineation of promoter regions is important for …

Diversity, expansion, and evolutionary novelty of plant DNA-binding transcription factor families

MD Lehti-Shiu, N Panchy, P Wang, S Uygun… - Biochimica et Biophysica …, 2017 - Elsevier
Plant transcription factors (TFs) that interact with specific sequences via DNA-binding
domains are crucial for regulating transcriptional initiation and are fundamental to plant …

Towards a molecular dynamics consensus view of B-DNA flexibility

A Perez, F Lankas, FJ Luque… - Nucleic acids research, 2008 - academic.oup.com
We present a systematic study of B-DNA flexibility in aqueous solution using long-scale
molecular dynamics simulations with the two more recent versions of nucleic acids force …