Different evolutionary modifications as a guide to rewire two-component systems.

Bioinform Biol Insights

Dept of Bioinformatics, Biocenter, Am Hubland, University of Würzburg, D-97074 Würzburg, Germany.

Published: August 2012

Two-component systems (TCS) are short signalling pathways generally occurring in prokaryotes. They frequently regulate prokaryotic stimulus responses and thus are also of interest for engineering in biotechnology and synthetic biology. The aim of this study is to better understand and describe rewiring of TCS while investigating different evolutionary scenarios. Based on large-scale screens of TCS in different organisms, this study gives detailed data, concrete alignments, and structure analysis on three general modification scenarios, where TCS were rewired for new responses and functions: (i) exchanges in the sequence within single TCS domains, (ii) exchange of whole TCS domains; (iii) addition of new components modulating TCS function. As a result, the replacement of stimulus and promotor cassettes to rewire TCS is well defined exploiting the alignments given here. The diverged TCS examples are non-trivial and the design is challenging. Designed connector proteins may also be useful to modify TCS in selected cases.

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3348925PMC
http://dx.doi.org/10.4137/BBI.S9356DOI Listing

Publication Analysis

Top Keywords

tcs
10
two-component systems
8
tcs domains
8
evolutionary modifications
4
modifications guide
4
guide rewire
4
rewire two-component
4
systems two-component
4
systems tcs
4
tcs short
4

Similar Publications

Variants of uncertain significance (VUS) represent variants that lack sufficient evidence to be confidently associated with a disease, thus posing a challenge in the interpretation of genetic testing results. Here we report an improved method for predicting the VUS of Arylsulfatase A (ARSA) gene as part of the Critical Assessment of Genome Interpretation challenge (CAGI6). Our method uses a transfer learning approach that leverages a pre-trained protein language model to predict the impact of mutations on the activity of the ARSA enzyme, whose deficiency is known to cause a rare genetic disorder, metachromatic leukodystrophy.

View Article and Find Full Text PDF

Unlabelled: has numerous two-component signaling systems (TCSs), many of which regulate the complex social behaviors of this soil bacterium. A subset of TCSs consists of NtrC-like response regulators (RRs) and their cognate histidine sensor kinases (SKs). We have previously demonstrated that a multi-component, phosphorelay TCS named NmpRSTU plays a role in social motility.

View Article and Find Full Text PDF

Unveiling triclosan biodegradation: Novel metabolic pathways, genomic insights, and global environmental adaptability of Pseudomonas sp. strain W03.

J Hazard Mater

January 2025

Marine Synthetic Ecology Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Marine Science, Sun Yat-sen University, Zhuhai 519080, China. Electronic address:

The polychlorinated aromatic antimicrobial agent triclosan (TCS) is widely used to indiscriminately and rapidly kill microorganisms. The global use of TCS has led to widespread environmental contamination, posing significant threats to ecosystem and human health. Here we reported a newly isolated Pseudomonas sp.

View Article and Find Full Text PDF

Vision transformer-based multimodal fusion network for classification of tumor malignancy on breast ultrasound: A retrospective multicenter study.

Int J Med Inform

January 2025

School of Computer Science and Engineering, Hubei Key Laboratory of Intelligent Robot, Wuhan Institute of Technology, Wuhan, PR China. Electronic address:

Background: In the context of routine breast cancer diagnosis, the precise discrimination between benign and malignant breast masses holds utmost significance. Notably, few prior investigations have concurrently explored the integration of imaging histology features, deep learning characteristics, and clinical parameters. The primary objective of this retrospective study was to pioneer a multimodal feature fusion model tailored for the prediction of breast tumor malignancy, harnessing the potential of ultrasound images.

View Article and Find Full Text PDF

The potential health risks posed by the coexistence of nanoplastics (NPs) and triclosan (TCS) have garnered significant attention. However, the effects and underlying mechanisms of NPs and TCS on key functional proteins at the molecular level remain poorly understood. This study reports the effect of polystyrene nanoplastics (PSNPs) on the binding of TCS to human serum albumin (HSA) using multispectral methods and molecular simulation systems.

View Article and Find Full Text PDF

Want AI Summaries of new PubMed Abstracts delivered to your In-box?

Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!