Journal
GENES
Volume 11, Issue 10, Pages -Publisher
MDPI
DOI: 10.3390/genes11101202
Keywords
R2 non-LTR retrotransposons; protein domain organization; recombination; mobile element activity; ribosomal RNA gene cluster; 5′ -truncated copies; population structure
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Funding
- Vavilov Institute of General Genetics Russian Academy of Sciences
- Presidium of the Russian Academy of Sciences, Program Biodiversity of natural systems and biological resources of Russia
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The structural and functional organization of the ribosomal RNA gene cluster and the full-length R2 non-LTR retrotransposon (integrated into a specific site of 28S ribosomal RNA genes) of the German cockroach, Blattella germanica, is described. A partial sequence of the R2 retrotransposon of the cockroach Rhyparobia maderae is also analyzed. The analysis of previously published next-generation sequencing data from the B. germanica genome reveals a new type of retrotransposon closely related to R2 retrotransposons but with a random distribution in the genome. Phylogenetic analysis reveals that these newly described retrotransposons form a separate clade. It is shown that proteins corresponding to the open reading frames of newly described retrotransposons exhibit unequal structural domains. Within these retrotransposons, a recombination event is described. New mechanism of transposition activity is discussed. The essential structural features of R2 retrotransposons are conserved in cockroaches and are typical of previously described R2 retrotransposons. However, the investigation of the number and frequency of 5 '-truncated R2 retrotransposon insertion variants in eight B. germanica populations suggests recent mobile element activity. It is shown that the pattern of 5 '-truncated R2 retrotransposon copies can be an informative molecular genetic marker for revealing genetic distances between insect populations.
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