Tag: promoter

Difficult to disentangle the effects of promoter and ribosome binding site on gene expression level just with a Ribo-seq dataset

December 10, 2023

Most Ribo-seq datasets would correlate a gene with an expression level. Thus, there may be a possibility of using such dataset to find correlations between promoter and an expression level. However, this approach faces the challenge of inability to disentangle the effects of ribosome binding site (translation), and promoter (transcription) on the gene expression level … More Difficult to disentangle the effects of promoter and ribosome binding site on gene expression level just with a Ribo-seq dataset

CRISPR-Cas9 mediated promoter knock-in activates silent biosynthetic gene clusters

April 2, 2021

Even in bacterial species categorized as prolific producers of secondary metabolites, many biosynthetic gene clusters remain silent under standard laboratory cultivation conditions. Hence, to help improve the types of secondary metabolites that could be produced, activation of silent biosynthetic gene clusters has emerged as an important challenge in biotechnology. To this end, many approaches have … More CRISPR-Cas9 mediated promoter knock-in activates silent biosynthetic gene clusters

Strong terminators are needed to help increase gene expression in heterologous gene expression on plasmids

February 3, 2021

Gene expression based on genes inserted in plasmids rely on the presence of promoters and terminators for controlling the transcription process. While the role of promoters in heterologous gene expression is frequently emphasised, that of terminators is less well understood. Specifically, strong promoters are commonly needed to help improve the gene expression efficiency yielding a … More Strong terminators are needed to help increase gene expression in heterologous gene expression on plasmids

Promoter sequence is less well defined than gene sequence

November 16, 2020

With the advent of genome sequencing and the generation of large datasets, automated algorithms have been used to annotate whole genome sequences for coding sequences (genes). Such algorithms require identifiers to locate specific genes, which in the simplest case for coding sequence is the AUG start codon. On the other hand, promoters that control the … More Promoter sequence is less well defined than gene sequence

Organizing genes on an operon allows different enzymes in the same pathway to be expressed at the same relative level

November 2, 2020

In bacterial cells, many metabolic and biosynthetic pathways have their constituent genes organized as an operon. In this arrangement, a single promoter controls the expression of all downstream genes of an operon. Such an arrangement offers many advantages, for example, in allowing a particular pathway to be regulated by the same inducer or repressor, which … More Organizing genes on an operon allows different enzymes in the same pathway to be expressed at the same relative level

Longer promoter sequences are endowed with capabilities to respond to more signals

August 10, 2020

Promoters are gene regulatory elements that control the expression of genes. By providing conserved binding motifs for RNA polymerase, promoters provide a platform for the stable binding of the macromolecular complex with DNA; thereby, ensuring high transcription initiation. But, besides the core consensus motifs, promoters also contain other regulatory elements that confer capabilities to respond … More Longer promoter sequences are endowed with capabilities to respond to more signals

Trend in moving away from IPTG inducer for expressing recombinant proteins in fermentation

January 17, 2020

Genes heterologously expressed in recombinant hosts are typically under the control of an inducible promoter, where the inducer used in usually IPTG or arabinose. However, due to high cost and concerns over the compatibility of IPTG inducer to product quality requirement, there has been a trend in moving away from using IPTG as inducer for … More Trend in moving away from IPTG inducer for expressing recombinant proteins in fermentation

Much of a yeast promoter may be redundant

December 14, 2019

Promoters in yeast are typically longer than those in bacterial species. Hence, in synthetic biology applications, plasmids constructed for use in yeast would contain long stretches of promoter together with the target gene. Given that each gene in yeast requires a dedicated promoter unlike the case in bacterial species where a single promoter could help … More Much of a yeast promoter may be redundant

Differential transcriptional start sites modulate gene expression

September 5, 2018

Adjacent to the promoter lies the transcriptional start sites of genes that define the starting point of the mRNA transcript. However, there are genes with multiple transcriptional start sites that define slightly different variants of the same mRNA transcript. Such variants of the same mRNA transcript typically have different 5’ untranslated region that may impact … More Differential transcriptional start sites modulate gene expression