Critical evaluation of random mutagenesis by error-prone polymerase chain reaction protocols, Escherichia coli mutator strain, and hydroxylamine treatment

Tiina S Rasila, Maria I Pajunen, Harri Savilahti

    Research output: Contribution to journalArticleScientificpeer-review

    Abstract

    Random mutagenesis methods constitute a valuable protein modification toolbox with applications ranging from protein engineering to directed protein evolution studies. Although a variety of techniques are Currently available, the field is lacking Studies that would directly compare the performance parameters and operational range of different methods. In this study, we have scrutinized several of the most commonly used random mutagenesis techniques by critically evaluating popular error-prone polymerase chain reaction (PCR) protocols as well as hydroxylamine and a mutator Escherichia coli strain mutagenesis methods. Relative mutation frequencies were analyzed using a reporter plasmid that allowed direct comparison of the methods. Error-prone PCR methods yielded the highest mutation rates and the widest operational ranges, whereas the chemical and biological methods generated a low level of mutations and exhibited a narrow range of operation. The repertoire of transitions versus transversions varied among the methods, Suggesting the use of a combination of methods for high-diversity full-scale mutagenesis. Using the parameters defined in this Study, the evaluated mutagenesis methods can be used for controlled mutagenesis, where the intended average frequency of induced mutations can be adjusted to a desirable level. (C) 2009 Elsevier Inc. All rights reserved.
    Original languageEnglish
    JournalAnalytical Biochemistry
    Volume388
    Issue number1
    Pages (from-to)71-80
    Number of pages10
    ISSN0003-2697
    DOIs
    Publication statusPublished - 2009
    MoE publication typeA1 Journal article-refereed

    Cite this

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    title = "Critical evaluation of random mutagenesis by error-prone polymerase chain reaction protocols, Escherichia coli mutator strain, and hydroxylamine treatment",
    abstract = "Random mutagenesis methods constitute a valuable protein modification toolbox with applications ranging from protein engineering to directed protein evolution studies. Although a variety of techniques are Currently available, the field is lacking Studies that would directly compare the performance parameters and operational range of different methods. In this study, we have scrutinized several of the most commonly used random mutagenesis techniques by critically evaluating popular error-prone polymerase chain reaction (PCR) protocols as well as hydroxylamine and a mutator Escherichia coli strain mutagenesis methods. Relative mutation frequencies were analyzed using a reporter plasmid that allowed direct comparison of the methods. Error-prone PCR methods yielded the highest mutation rates and the widest operational ranges, whereas the chemical and biological methods generated a low level of mutations and exhibited a narrow range of operation. The repertoire of transitions versus transversions varied among the methods, Suggesting the use of a combination of methods for high-diversity full-scale mutagenesis. Using the parameters defined in this Study, the evaluated mutagenesis methods can be used for controlled mutagenesis, where the intended average frequency of induced mutations can be adjusted to a desirable level. (C) 2009 Elsevier Inc. All rights reserved.",
    author = "Rasila, {Tiina S} and Pajunen, {Maria I} and Harri Savilahti",
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    language = "English",
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    Critical evaluation of random mutagenesis by error-prone polymerase chain reaction protocols, Escherichia coli mutator strain, and hydroxylamine treatment. / Rasila, Tiina S; Pajunen, Maria I; Savilahti, Harri.

    In: Analytical Biochemistry, Vol. 388, No. 1, 2009, p. 71-80.

    Research output: Contribution to journalArticleScientificpeer-review

    TY - JOUR

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    AU - Rasila, Tiina S

    AU - Pajunen, Maria I

    AU - Savilahti, Harri

    PY - 2009

    Y1 - 2009

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    AB - Random mutagenesis methods constitute a valuable protein modification toolbox with applications ranging from protein engineering to directed protein evolution studies. Although a variety of techniques are Currently available, the field is lacking Studies that would directly compare the performance parameters and operational range of different methods. In this study, we have scrutinized several of the most commonly used random mutagenesis techniques by critically evaluating popular error-prone polymerase chain reaction (PCR) protocols as well as hydroxylamine and a mutator Escherichia coli strain mutagenesis methods. Relative mutation frequencies were analyzed using a reporter plasmid that allowed direct comparison of the methods. Error-prone PCR methods yielded the highest mutation rates and the widest operational ranges, whereas the chemical and biological methods generated a low level of mutations and exhibited a narrow range of operation. The repertoire of transitions versus transversions varied among the methods, Suggesting the use of a combination of methods for high-diversity full-scale mutagenesis. Using the parameters defined in this Study, the evaluated mutagenesis methods can be used for controlled mutagenesis, where the intended average frequency of induced mutations can be adjusted to a desirable level. (C) 2009 Elsevier Inc. All rights reserved.

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