#Youtube snapgene infusion cloning software
#Youtube snapgene infusion cloning simulator

#Youtube snapgene infusion cloning software

In recent years, standalone or online software programs that provide better support for the design and construction of commonly used methods became available. Cloning design required use of two or more of these tools copy-paste was used to build new sequences, and word files, lab notes, lists of images and sequencing data files were used to manage and track the experiments. These included: the early versions of Vector NTI ( Lu and Moriyama, 2004), DNAman ( lynnon, 1995) or ApE ( Davis, 2006), and Clone Manager (Software), which could be used for importing sequences and checking DNA maps NEBcutter ( New England Biolabs) for analyzing restriction sites Primer Premier ( PremierBiosoft) for designing primers GeneDesign 3.0 ( Richardson et al., 2010), Gene Designer ( Villalobos et al., 2006), OPTIMIZER ( Puigbo et al., 2007), DNAWorks ( Hoover and Lubkowski, 2002) or Gene2Oligo ( Rouillard et al., 2004) for optimizing gene codons for synthesis and BioEdit ( Hall, 1999 ) for viewing and confirming sequencing data. In the late 1990s and early 2000s, some software programs for displaying plasmid vector maps and performing individual tasks became available. Early design and management was done manually based on sequence text – a painstaking, low-throughput process. The technology for designing and managing molecular cloning experiments has undergone significant evolution in the last 30 years. Moreover, synthetic pathway optimization often relies heavily on screening a range of different combinations ( Jang et al., 2012, Kirby and Keasling, 2008, Steen et al., 2008), requiring adjustments to the workflow in high-throughput systems.

In addition to classical cloning, workflows may include homologous recombination ( Court et al., 2002), lambda Red recombination ( Datsenko and Wanner, 2000, Sabri et al., 2013, Stringer et al., 2012), landing-pad integration ( Kuhlman and Cox, 2010), site-specific recombination ( Haldimann and Wanner, 2001, Shi et al., 2013), ΦC31 assembly ( Colloms et al., 2014), CLIVA assembly ( Zou et al., 2013), in vivo CRISPR digestion ( Jiang et al., 2013), etc.

With the development of synthetic biology and metabolic engineering, DNA manipulations have become increasingly more complex. In addition to standard functions, it has a number of features that are either unique, or are not found in combination in any one software package: (1) it has a novel interactive flow-chart user interface for complex multi-step processes, allowing an integrated overview of the whole project (2) it can perform a user-defined workflow of cloning steps in a single execution of the software (3) it can handle multiple types of genetic recombineering, a technique that is rapidly replacing classical cloning for many applications (4) it includes experimental information to conveniently guide wet lab work and (5) it can store results and comments to allow the tracking and management of the whole project in one platform.

#Youtube snapgene infusion cloning simulator

Molecular Cloning Designer Simulator (MCDS) is a powerful new all-in-one cloning and genetic engineering design, simulation and management software platform developed for complex synthetic biology and metabolic engineering projects.