A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses
This thesis is submitted in a partial fulfillment of the requirement for the Degree of Masters in Biotechnology .
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BRAC University
2012
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| Acesso em linha: | http://hdl.handle.net/10361/1644 |
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10361-16442019-09-30T04:21:40Z A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses Khan, Md. Moazzem Hossain Hossain, Dr. Md. Anwar Department of Mathematical and Natural Science, BRAC University 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). 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. Md. Moazzem Hossain Khan M. Biotechnology 2012-03-04T10:15:29Z 2012-03-04T10:15:29Z 2009 2009 Thesis ID 07276001 http://hdl.handle.net/10361/1644 en BRAC University thesis are protected by copyright. They may be viewed from this source for any purpose, but reproduction or distribution in any format is prohibited without written permission 96 pages application/pdf BRAC University |
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Brac University |
| collection |
Institutional Repository |
| language |
English |
| description |
This thesis is submitted in a partial fulfillment of the requirement for the Degree of Masters in Biotechnology
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| author2 |
Hossain, Dr. Md. Anwar |
| author_facet |
Hossain, Dr. Md. Anwar Khan, Md. Moazzem Hossain |
| format |
Thesis |
| author |
Khan, Md. Moazzem Hossain |
| spellingShingle |
Khan, Md. Moazzem Hossain A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses |
| author_sort |
Khan, Md. Moazzem Hossain |
| title |
A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses |
| title_short |
A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses |
| title_full |
A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses |
| title_fullStr |
A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses |
| title_full_unstemmed |
A novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses |
| title_sort |
novel approach for predicting the evolutionary origin of acquisition of foreign genes in bacteria: application of codon usage analyses |
| publisher |
BRAC University |
| publishDate |
2012 |
| url |
http://hdl.handle.net/10361/1644 |
| work_keys_str_mv |
AT khanmdmoazzemhossain anovelapproachforpredictingtheevolutionaryoriginofacquisitionofforeigngenesinbacteriaapplicationofcodonusageanalyses AT khanmdmoazzemhossain novelapproachforpredictingtheevolutionaryoriginofacquisitionofforeigngenesinbacteriaapplicationofcodonusageanalyses |
| _version_ |
1814308820489338880 |