Searching Pair Points of Triplet Periodicity Phase Shifts in the Genes of 17 Bacterial Genomes
Valentina M. Pugacheva, Alexander E. Korotkov, Eugene V. Korotkov
Bioengineering Centre of RAS, Russian Academy of Sciences, Moscow 117312, Russia
This paper presents developed mathematical method for searching pair phase shifts of triplet periodicity. Such phase shifts could be a potential frameshifts in genes resulting the insertions of quite long DNA fragments. We developed software and checked if there are pair phase shifts of triplet periodicity in genes of 17 bacteria genomes. The results shows that there is about 1 percent of bacteria genes having pair phase shift of triplet periodicity in these 17 genoms. This paper also describes developed method for visualization of pair phase shifts of triplet periodicity and gives an examples of such shifts. Research results were partially confirmed by the search for aminoacids sequences similarities that had been made by alternative reading frames. The connection between pair phase shifts of triplet periodicity and frameshift in genes is disscussed.
triplet periodicity, reading frame, frameshifts, phase.
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Received 11.05.2012, Published 07.08.2012
Valentina M. Pugacheva, Alexander E. Korotkov, Eugene V. Korotkov, “Searching Pair Points of Triplet Periodicity Phase Shifts in the Genes of 17 Bacterial Genomes”, Mat. Biolog. Bioinform., 7:2 (2012), 461–475
Citation in format AMSBIB
\by Valentina~M.~Pugacheva, Alexander~E.~Korotkov, Eugene~V.~Korotkov
\paper Searching Pair Points of Triplet Periodicity Phase Shifts in the Genes of 17 Bacterial Genomes
\jour Mat. Biolog. Bioinform.
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