The Tangle Model for Site-specific Recombination: A Computer Interface and the TnpI-IRS Recombination System
نویسندگان
چکیده
The tangle method was first introduced by Ernst and Sumners in 1990. Since then the field has seen many advances which have been reviewed in [18,24] and more recently in a soon to appear review by Darcy. Rather than providing an in-depth review we here focus on the tools developed and used by our group. In particular we introduce TangleSolve, a computer implementation of the tangle method. We also present a novel visualization approach where we propose that solutions be classified modulo rigid spatial motions. We illustrate our recent work with the TnpI-IRS site-specific recombination system. Mathematical Subject Classification 2000: 92-02, 92-04, 57M25, 57M10
منابع مشابه
Control of directionality in the DNA strand-exchange reaction catalysed by the tyrosine recombinase TnpI
In DNA site-specific recombination catalysed by tyrosine recombinases, two pairs of DNA strands are sequentially exchanged between separate duplexes and the mechanisms that confer directionality to this theoretically reversible reaction remain unclear. The tyrosine recombinase TnpI acts at the internal resolution site (IRS) of the transposon Tn4430 to resolve intermolecular transposition produc...
متن کاملUtilization of Site-Specific Recombination in Biopharmaceutical Production
Mammalian expression systems, due to their capacity in post-translational modification, are preferred systems for biopharmaceutical protein production. Several recombinant protein systems have been introduced to the market, most of which are under clinical development. In spite of significant improvements such as cell line engineering, introducing novel expression methods, gene silencing and pr...
متن کاملTnpI recombinase: identification of sites within Tn5401 required for TnpI binding and site-specific recombination.
The Bacillus thuringiensis class II transposon Tn5401 encodes a recombinase protein, TnpI, that mediates the resolution of cointegrate molecules generated as intermediates during Tn5401 transposition by the TnpA transposase. This recombination event requires a specific target site, or internal resolution site, at which TnpI binds and catalyzes the exchange of DNA strands. Gel mobility shift ass...
متن کاملTangleSolve: topological analysis of site-specific recombination
UNLABELLED TangleSolve is a program for analysing site-specific recombination using the tangle model. The program offers an easy-to-use graphical user interface and a visualization tool. Biologists working in topological enzymology can use this program to compute and visualize site-specific recombination mechanisms that accommodate their experimental data. TangleSolve can also prove useful as a...
متن کاملIdentification of a Specific Pseudo attP Site for Phage PhiC31 Integrase in Bovine Genome
Background: PhiC31 integrase system provides a new platform in various felid of research, mainly in gene therapy and creation of transgenic animals. This system enables integration of exogenous DNA into preferred locations in mammalian genomes, which results in robust, long-term expression of the integrated transgene. Objectives: Identification of a novel pseudo attP site. Materials and Methods...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
عنوان ژورنال:
دوره شماره
صفحات -
تاریخ انتشار 2007