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Detekce variability rDNA u rostlin
Menšíková, Simona
The ITS1-5,8S-ITS2 sequence region of ribosomal DNA represents one of the most popular molecular marker in phylogenetics. However, detailed analyses of 5,8S rDNA are scarce and most of them deal with the complete region including the internal transcribed spacers ITS. In this thesis, 5,8S rDNA sequences were subjected to bioinformatic analysis to compare the variability of ribosomal genes in monocot and eudicot plants. The analyzed sequence data of the regions ITS1-5,8S rDNA-ITS2 were obtained by an experimental approach from isolated DNA and by searching in nucleic acid databases. The variability was assessed in total 114 sequences for each group. Multiple sequence alignments were used to identify conserved regions and to quantify gene mutations. Higher heterogeneity was detected in the 5,8S rDNA sequences of the eudicot group, but no statistically significant difference in the representation of variable sites (15,2 % and 19,3 %) or in the total number of mutations was confirmed. Manual pseudogene detection, based on plant conserved 5,8S rDNA motifs search, sequence length, content of GC and in silico secondary structure prediction, revealed a total of 12 potentially non-functional copies of the 5,8S rDNA gene.
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