Literature DB >> 31855299

A python script to design site-directed mutagenesis primers.

Chuyun Bi1,2, Xiaofang Huang1,2, Dan Tang3, Yuanyuan Shi2, Lixiang Zhou4, Yunzhuo Hu5, Xuanyang Chen1,2, Shiqian Qi3, Shiqiang Lin1,4.   

Abstract

Primer design is essential to conduct whole plasmid site-directed mutagenesis for protein study. Traditionally, primers of mutagenesis are designed manually that is time-consuming and fallible. Here, we present a Python script for searching primers by presetting parameters of nucleotide composition and percentage of guanine-cytosine (GC content). The running results showed that the script is able to search primers with mutations of target residue automatically. This script may facilitate primer design for whole plasmid site-directed mutagenesis and aid protein mutant construction.
© 2019 The Protein Society.

Entities:  

Keywords:  primer design; python script; site-directed mutagenesis

Mesh:

Substances:

Year:  2019        PMID: 31855299      PMCID: PMC7096704          DOI: 10.1002/pro.3806

Source DB:  PubMed          Journal:  Protein Sci        ISSN: 0961-8368            Impact factor:   6.725


  7 in total

1.  Enhancements and modifications of primer design program Primer3.

Authors:  Triinu Koressaar; Maido Remm
Journal:  Bioinformatics       Date:  2007-03-22       Impact factor: 6.937

2.  A rapid and efficient method for site-directed mutagenesis using one-step overlap extension PCR.

Authors:  A Urban; S Neukirchen; K E Jaeger
Journal:  Nucleic Acids Res       Date:  1997-06-01       Impact factor: 16.971

3.  An efficient approach for site-directed mutagenesis using central overlapping primers.

Authors:  Huiping Wang; Nan Zhou; Feng Ding; Zhaofang Li; Ruichuan Chen; Aidong Han; Runzhong Liu
Journal:  Anal Biochem       Date:  2011-07-18       Impact factor: 3.365

4.  A python script to design site-directed mutagenesis primers.

Authors:  Chuyun Bi; Xiaofang Huang; Dan Tang; Yuanyuan Shi; Lixiang Zhou; Yunzhuo Hu; Xuanyang Chen; Shiqian Qi; Shiqiang Lin
Journal:  Protein Sci       Date:  2019-12-27       Impact factor: 6.725

5.  Biopython: freely available Python tools for computational molecular biology and bioinformatics.

Authors:  Peter J A Cock; Tiago Antao; Jeffrey T Chang; Brad A Chapman; Cymon J Cox; Andrew Dalke; Iddo Friedberg; Thomas Hamelryck; Frank Kauff; Bartek Wilczynski; Michiel J L de Hoon
Journal:  Bioinformatics       Date:  2009-03-20       Impact factor: 6.937

6.  Site-directed mutagenesis of double-stranded DNA by the polymerase chain reaction.

Authors:  M P Weiner; G L Costa; W Schoettlin; J Cline; E Mathur; J C Bauer
Journal:  Gene       Date:  1994-12-30       Impact factor: 3.688

7.  Primer3--new capabilities and interfaces.

Authors:  Andreas Untergasser; Ioana Cutcutache; Triinu Koressaar; Jian Ye; Brant C Faircloth; Maido Remm; Steven G Rozen
Journal:  Nucleic Acids Res       Date:  2012-06-22       Impact factor: 16.971

  7 in total
  3 in total

1.  A Python script to merge Sanger sequences.

Authors:  Cen Chen; Bingguo Lu; Xiaofang Huang; Chuyun Bi; Lili Zhao; Yunzhuo Hu; Xuanyang Chen; Shiqiang Lin; Kai Huang
Journal:  PeerJ       Date:  2021-04-27       Impact factor: 2.984

2.  A python script to design site-directed mutagenesis primers.

Authors:  Chuyun Bi; Xiaofang Huang; Dan Tang; Yuanyuan Shi; Lixiang Zhou; Yunzhuo Hu; Xuanyang Chen; Shiqian Qi; Shiqiang Lin
Journal:  Protein Sci       Date:  2019-12-27       Impact factor: 6.725

3.  Tethered peptide activation mechanism of the adhesion GPCRs ADGRG2 and ADGRG4.

Authors:  Peng Xiao; Shengchao Guo; Xin Wen; Qing-Tao He; Hui Lin; Shen-Ming Huang; Lu Gou; Chao Zhang; Zhao Yang; Ya-Ni Zhong; Chuan-Cheng Yang; Yu Li; Zheng Gong; Xiao-Na Tao; Zhi-Shuai Yang; Yan Lu; Shao-Long Li; Jun-Yan He; Chuanxin Wang; Lei Zhang; Liangliang Kong; Jin-Peng Sun; Xiao Yu
Journal:  Nature       Date:  2022-04-13       Impact factor: 69.504

  3 in total

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