Abstract
The expanding knowledge of the variety of synthetic genetic elements has
enabled the construction of new and more efficient genetic circuits and
yielded novel insights into molecular mechanisms. However, context
dependence, in which interactions between proximal (cis) or
distal (trans) elements affect the behaviour of these elements,
can reduce their general applicability or predictability. Genetic
insulators, which mitigate unintended context-dependent
cis-interactions, have been used to address this issue. One of
the most commonly used genetic insulators is a self-splicing ribozyme
called RiboJ, which can be used to decouple upstream 5’ UTR in mRNA from
downstream sequences (e.g., open reading frames). Despite its general
use as an insulator, there has been no systematic study quantifying the
efficiency of RiboJ splicing or whether this autocatalytic activity is
robust to trans- and cis-genetic context. Here, we
determine the robustness of RiboJ splicing in the genetic context of six
widely divergent E. coli strains. We also check for possible
cis-effects by assessing two SNP versions close to the catalytic
site of RiboJ. We show that mRNA molecules containing RiboJ are rapidly
spliced even during rapid exponential growth and high levels of gene
expression, with a mean efficiency of 98%. We also show that neither
the cis- nor trans-genetic context has a significant
impact on RiboJ activity, suggesting this element is robust to both
cis- and trans-genetic changes.