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Please use this identifier to cite or link to this item: http://hdl.handle.net/1993/8130

Title: Exploring the rns gene landscape in ophiostomatoid fungi and related taxa: Molecular characterization of mobile genetic elements and biochemical characterization of intron-encoded homing endonucleases.
Authors: Abdel-Fattah, Mohamed Hafez
Supervisor: Hausner, Georg(Microbiology)
Examining Committee: Court, Deborah (Microbiology) Oresnik Ivan (Microbiology) Piercey-Normore, Michele (Biological Sciences) Hintz, William (University of Victoria, Canada).
Graduation Date: October 2012
Keywords: Mitochondrial genome
Mobile introns
Homing endonucleases
mt. SSU rRNA gene
Twintron
reverse transcriptase
Issue Date: 2011
2011
2012
Publisher: ELSEVIER
World Academy of Science, Engineering and Technology
ELSEVIER
Citation: Fungal Biology, 115: 1122-1137
World Academy of Science, Engineering and Technology, 59: 1767-1775
Fungal Biology, 116: 98-111
Abstract: The mitochondrial small-subunit ribosomal RNA (mt. SSU rRNA = rns) gene appears to be a reservoir for a number of group I and II introns along with the intron- encoded proteins (IEPs) such as homing endonucleases (HEases) and reverse transcriptases. The key objective for this thesis was to examine the rns gene among different groups of ophiostomatoid fungi for the presence of introns and IEPs. Overall the distribution of the introns does not appear to follow evolutionary lineages suggesting the possibility of rare horizontal gains and frequent loses. Some of the novel findings of this work were the discovery of a twintron complex inserted at position S1247 within the rns gene, here a group IIA1 intron invaded the ORF embedded within a group IC2 intron. Another new element was discovered within strains of Ophiostoma minus where a group II introns has inserted at the rns position S379; the mS379 intron represents the first mitochondrial group II intron that has an RT-ORF encoded outside Domain IV and it is the first intron reported to at position S379. The rns gene of O. minus WIN(M)371 was found to be interrupted with a group IC2 intron at position mS569 and a group IIB1 intron at position mS952 and they both encode double motif LAGLIDADG HEases referred as I-OmiI and I-OmiII respectively. These IEPs were examined in more detail to evaluate if these proteins represent functional HEases. To express I-OmiI and I-OmiII in Escherichia. coli, a codon-optimized versions of I-OmiI and I-OmiII sequences were synthesized based on differences between the fungal mitochondrial and bacterial genetic code. The optimized I-OmiI and I-OmiII sequences were cloned in the pET200/D TOPO expression vector system and transformed into E. coli BL21 (DE3). These two proteins were biochemically characterized and the results showed that: both I-OmiI and I-OmiII are functional HEases. Detailed data for I-OmiII showed that this endonuclease cleaves the target site two nucleotides upstream of the intron insertion site generating 4 nucleotide 3’overhangs.
URI: http://hdl.handle.net/1993/8130
Appears in Collection(s):FGS - Electronic Theses & Dissertations (Public)
Manitoba Heritage Theses

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