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    • Thesis (Master of Science in Biotechnology)
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    •   BracU IR
    • School of Data and Sciences (SDS)
    • Department of Mathematics and Natural Sciences (MNS)
    • Master of Science in Biotechnology
    • Thesis (Master of Science in Biotechnology)
    • View Item
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    A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses

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    07276001.pdf (22.74Mb)
    Date
    2009
    Publisher
    BRAC University
    Author
    Khan, Md. Moazzem Hossain
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    URI
    http://hdl.handle.net/10361/1644
    Abstract
    Lysogenic bacteriophages, are considered as a major player for the introduction of foreign genes into bacterial strains. At the time of introduction foreign genes do not fit well into the translation system of the recipient host bacterium as they tend to retain the characteristics of the donor bacteriophages from which it has been transferred. Consequently foreign genes are poorly transcribed at the early phase of their evolution within the host bacterium. This is largely due to the difference in the codon usage pattern between the horizontally transferred genes and the host bacterium. In this study we present detail analyses of various parameters of the codon usages such as codon adaptation index (CAI), mean difference (MD) of the relative adaptiveness, synonymous substitution rate (SSR) of six different phage encoded toxin genes (cholera toxin, shiga toxin, diphtheria toxin, neurotoxin C1, enterotoxin type A and cytotoxin) and proposed conceptual relationship between the evolutionary time of acquisition of the foreign genes and the selected set of parameters of the codon usage. On the basis of the observed data we hypothesize that CAI, MD and SSR of the phage encoded toxin genes are correlated with the evolutionary time of their acquisition and developed a novel approach based on the analyses of these parameters, that can be used to predict the evolutionary time of their acquisition by the corresponding host bacterium.
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    Description
    This thesis is submitted in a partial fulfillment of the requirement for the Degree of Masters in Biotechnology .
     
    Cataloged from PDF version of thesis report.
     
    Includes bibliographical references (page 87-96).
    Department
    Department of Mathematical and Natural Science, BRAC University
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    • Thesis (Master of Science in Biotechnology)

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