Literature DB >> 24395353

BioBrick assembly standards and techniques and associated software tools.

Gunvor Røkke1, Eirin Korvald, Jarle Pahr, Ove Oyås, Rahmi Lale.   

Abstract

The BioBrick idea was developed to introduce the engineering principles of abstraction and standardization into synthetic biology. BioBricks are DNA sequences that serve a defined biological function and can be readily assembled with any other BioBrick parts to create new BioBricks with novel properties. In order to achieve this, several assembly standards can be used. Which assembly standards a BioBrick is compatible with, depends on the prefix and suffix sequences surrounding the part. In this chapter, five of the most common assembly standards will be described, as well as some of the most used assembly techniques, cloning procedures, and a presentation of the available software tools that can be used for deciding on the best method for assembling of different BioBricks, and searching for BioBrick parts in the Registry of Standard Biological Parts database.

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Year:  2014        PMID: 24395353     DOI: 10.1007/978-1-62703-764-8_1

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  14 in total

1.  iBrick: a new standard for iterative assembly of biological parts with homing endonucleases.

Authors:  Jia-Kun Liu; Wei-Hua Chen; Shuang-Xi Ren; Guo-Ping Zhao; Jin Wang
Journal:  PLoS One       Date:  2014-10-20       Impact factor: 3.240

Review 2.  Developments in the tools and methodologies of synthetic biology.

Authors:  Richard Kelwick; James T MacDonald; Alexander J Webb; Paul Freemont
Journal:  Front Bioeng Biotechnol       Date:  2014-11-26

3.  One primer to rule them all: universal primer that adds BBa_B0034 ribosomal binding site to any coding standard 10 BioBrick.

Authors:  Anton V Bryksin; Haylee N Bachman; Spencer W Cooper; Tilak Balavijayan; Rachael M Blackstone; Haoli Du; Jackson P Jenkins; Casey L Haynes; Jessica L Siemer; Vincent F Fiore; Thomas H Barker
Journal:  ACS Synth Biol       Date:  2014-12-19       Impact factor: 5.110

4.  Methanol regulated yeast promoters: production vehicles and toolbox for synthetic biology.

Authors:  Brigitte Gasser; Matthias G Steiger; Diethard Mattanovich
Journal:  Microb Cell Fact       Date:  2015-12-02       Impact factor: 5.328

5.  Genome Partitioner: A web tool for multi-level partitioning of large-scale DNA constructs for synthetic biology applications.

Authors:  Matthias Christen; Luca Del Medico; Heinz Christen; Beat Christen
Journal:  PLoS One       Date:  2017-05-22       Impact factor: 3.240

Review 6.  Chasing bacterial chassis for metabolic engineering: a perspective review from classical to non-traditional microorganisms.

Authors:  Patricia Calero; Pablo I Nikel
Journal:  Microb Biotechnol       Date:  2018-06-21       Impact factor: 5.813

7.  Single-Input Regulatory Cascade for in vivo Removal of the Solubility Tag in Fusion Recombinant Proteins Produced by Escherichia coli.

Authors:  Filipe S R Silva; Sara P O Santos; Roberto Meyer; Neuza M Alcantara-Neves; Carina S Pinheiro; Luis G C Pacheco
Journal:  Front Bioeng Biotechnol       Date:  2019-08-20

8.  YeastFab: the design and construction of standard biological parts for metabolic engineering in Saccharomyces cerevisiae.

Authors:  Yakun Guo; Junkai Dong; Tong Zhou; Jamie Auxillos; Tianyi Li; Weimin Zhang; Lihui Wang; Yue Shen; Yisha Luo; Yijing Zheng; Jiwei Lin; Guo-Qiang Chen; Qingyu Wu; Yizhi Cai; Junbiao Dai
Journal:  Nucleic Acids Res       Date:  2015-05-08       Impact factor: 16.971

Review 9.  Fluorescent Reporter Libraries as Useful Tools for Optimizing Microbial Cell Factories: A Review of the Current Methods and Applications.

Authors:  Frank Delvigne; Hélène Pêcheux; Cédric Tarayre
Journal:  Front Bioeng Biotechnol       Date:  2015-09-28

Review 10.  The art of vector engineering: towards the construction of next-generation genetic tools.

Authors:  Luísa Czamanski Nora; Cauã Antunes Westmann; Leonardo Martins-Santana; Luana de Fátima Alves; Lummy Maria Oliveira Monteiro; María-Eugenia Guazzaroni; Rafael Silva-Rocha
Journal:  Microb Biotechnol       Date:  2018-09-26       Impact factor: 5.813

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