Abstract:
Genomes representing Rickettsiaceae family were analyzed using formal order analysis (FOA) of information chain in order to develop a new approach for the classification of prokaryotes. Average remoteness — the numerical characteristic of order was used to compare the genomes. FOA allows one to directly take into account arrangement of nucleotides in each sequence. The obtained results clarified the previously known classification. In addition Rickettsia felis group was discovered between the ancestral group and spotted fever group (SFG) and R. akari group located between the SFG and genus Orientia. Software used for the analysis of nucleotide sequences with FOA is freely available at http://foarlab.org.
Key words:
Rickettsia, classification, taxonomy, genome, formal order analysis, FOA, average remoteness, inter-nucleotide distance.
Received 03.08.2016, Published 05.12.2016
Document Type:
Article
UDC:
004.942
Language: Russian
Citation:
S. N. Shpynov, A. S. Gumenyuk, N. N. Pozdnichenko, “Application of the numerical characteristic of formal order analysis of the prokaryotic genomes for reclassification within the genus Rickettsia”, Mat. Biolog. Bioinform., 11:2 (2016), 336–350
\Bibitem{ShpGumPoz16}
\by S.~N.~Shpynov, A.~S.~Gumenyuk, N.~N.~Pozdnichenko
\paper Application of the numerical characteristic of formal order analysis of the prokaryotic genomes for reclassification within the genus \emph{Rickettsia}
\jour Mat. Biolog. Bioinform.
\yr 2016
\vol 11
\issue 2
\pages 336--350
\mathnet{http://mi.mathnet.ru/mbb275}
\crossref{https://doi.org/10.17537/2016.11.336}
Linking options:
https://www.mathnet.ru/eng/mbb275
https://www.mathnet.ru/eng/mbb/v11/i2/p336
This publication is cited in the following 3 articles:
S.N. Shpynov, P.-E. Fournier, N.N. Pozdnichenko, A.S. Gumenuk, A.A. Skiba, “New approaches in the systematics of rickettsiae”, New Microbes and New Infections, 23 (2018), 93
S.N. Shpynov, I.V. Tarasevich, A.A. Skiba, N.N. Pozdnichenko, A.S. Gumenuk, “Comparison of genomes of Coxiella burnetii strains using formal order analysis”, New Microbes and New Infections, 23 (2018), 86
S. N. Shpynov, N. N. Pozdnichenko, A. S. Gumenyuk, A. A. Skiba, “GENOMOSYSTEMATICS OF RICKETTSIAE”, Russian Journal of Infection and Immunity, 8:2 (2018), 107
Citation in format AMSBIB
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