Phylostratigraphic analyses of bacterium Bacillus subtilis

Lenuzzi, Maša (2014) Phylostratigraphic analyses of bacterium Bacillus subtilis. Diploma thesis, Faculty of Science > Department of Biology.

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Abstract

Bacterial phylogeny has been highly controversial subject from the first description of bacteria in 17th. century, and it seems that generally accepted solution is not yet within reach. There are many issues related to bacterial phylogeny, of which most important are horizontal gene transfer and fast mutation rate in bacterial genomes. For these reasons it is hard to construct a robust phylogenetic tree of bacteria. Genomic phylostratigraphy is a method for tracking evolutionary context of species. Until now, phylostratigraphic maps have been made solely in eukaryotes. In this thesis first phylostratigraphic map of a bacterium, namely Bacilus subtilis subsp. subtilis str. 168 strain, was obtained. Results showed clear distribution of genes through phylostrata, pointing to significance of vertical gene transfer in bacterial evolution. The robustness of the map was additionally tested on reduced protein databases obtained by clustering of original protein database of Eukarya, Archaea and Bacteria. Results obtained by using phylostratigraphic analyses on reduced protein databases resulted in nearly identical phylostratigraphic maps.

Item Type: Thesis (Diploma thesis)
Keywords: phylostratigraphy, phylogeny, CD-HIT, bioinformatic databases
Supervisor: Domazet-Lošo, Tomislav
Co-supervisor: Leljak-Levanić, Dunja
Date: 2014
Number of Pages: 31
Subjects: NATURAL SCIENCES > Biology
Divisions: Faculty of Science > Department of Biology
Depositing User: Silvana Šehić
Date Deposited: 24 Nov 2014 13:07
Last Modified: 24 Nov 2014 13:07
URI: http://digre.pmf.unizg.hr/id/eprint/3351

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