SEVA 4.0: an update of the Standard European Vector Architecture database for advanced analysis and programming of bacterial phenotypes

E Martínez-García, S Fraile, E Algar… - Nucleic Acids …, 2023 - academic.oup.com
Abstract The SEVA platform (https://seva-plasmids. com) was launched one decade ago,
both as a database (DB) and as a physical repository of plasmid vectors for genetic analysis …

Fundamentals and exceptions of the LysR-type transcriptional regulators

W Demeester, B De Paepe, M De Mey - ACS Synthetic Biology, 2024 - ACS Publications
LysR-type transcriptional regulators (LTTRs) are emerging as a promising group of
macromolecules for the field of biosensors. As the largest family of bacterial transcription …

SEVA 3.0: an update of the Standard European Vector Architecture for enabling portability of genetic constructs among diverse bacterial hosts

E Martínez-García, A Goni-Moreno… - Nucleic acids …, 2020 - academic.oup.com
Abstract The Standard European Vector Architecture 3.0 database (SEVA-DB 3.0,
http://seva. cnb. csic. es) is the update of the platform launched in 2013 both as a web-based …

Delaying production with prokaryotic inducible expression systems

J De Baets, B De Paepe, M De Mey - Microbial Cell Factories, 2024 - Springer
Background Engineering bacteria with the purpose of optimizing the production of
interesting molecules often leads to a decrease in growth due to metabolic burden or …

The Synthetic Biology Open Language (SBOL) version 3: simplified data exchange for bioengineering

JA McLaughlin, J Beal, G Mısırlı, R Grünberg… - … in Bioengineering and …, 2020 - frontiersin.org
The Synthetic Biology Open Language (SBOL) is a community-developed data standard that
allows knowledge about biological designs to be captured using a machine-tractable …

Controlling spatiotemporal pattern formation in a concentration gradient with a synthetic toggle switch

I Barbier, R Perez‐Carrasco… - Molecular systems biology, 2020 - embopress.org
The formation of spatiotemporal patterns of gene expression is frequently guided by
gradients of diffusible signaling molecules. The toggle switch subnetwork, composed of two …

Addressable and adaptable intercellular communication via DNA messaging

JP Marken, RM Murray - Nature Communications, 2023 - nature.com
Engineered consortia are a major research focus for synthetic biologists because they can
implement sophisticated behaviors inaccessible to single-strain systems. However, this …

GOLDBAR: A Framework for Combinatorial Biological Design

N Roehner, J Roberts, A Lapets, D Gould… - ACS Synthetic …, 2024 - ACS Publications
With the rise of new DNA part libraries and technologies for assembling DNA, synthetic
biologists are increasingly constructing and screening combinatorial libraries to optimize …

Cheetah: a computational toolkit for cybergenetic control

E Pedone, I De Cesare, CG Zamora-Chimal… - ACS Synthetic …, 2021 - ACS Publications
Advances in microscopy, microfluidics, and optogenetics enable single-cell monitoring and
environmental regulation and offer the means to control cellular phenotypes. The …

Synthetic biology knowledge system

J Mante, Y Hao, J Jett, U Joshi, K Keating… - ACS synthetic …, 2021 - ACS Publications
The Synthetic Biology Knowledge System (SBKS) is an instance of the SynBioHub
repository that includes text and data information that has been mined from papers …