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The expansion of heterochromatin blocks in rye reflects the co-amplification of tandem repeats and adjacent transposable elements
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SYSNO ASEP 0461669 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title The expansion of heterochromatin blocks in rye reflects the co-amplification of tandem repeats and adjacent transposable elements Author(s) Evtushenko, E.V. (RU)
Levitsky, V.G. (RU)
Elisafenko, E.A. (RU)
Gunbin, K.V. (RU)
Belousov, A.I. (RU)
Šafář, Jan (UEB-Q) RID, ORCID
Doležel, Jaroslav (UEB-Q) RID, ORCID
Vershinin, A.V. (RU)Source Title BMC Genomics. - : BioMed Central - ISSN 1471-2164
Roč. 17, MAY 4 (2016), s. 337Number of pages 16 s. Language eng - English Country US - United States Keywords Tandem repeats ; Transposable elements ; Subtelomeric heterochromatin Subject RIV EB - Genetics ; Molecular Biology R&D Projects LO1204 GA MŠMT - Ministry of Education, Youth and Sports (MEYS) Institutional support UEB-Q - RVO:61389030 UT WOS 000375979900001 DOI 10.1186/s12864-016-2667-5 Annotation Background: A prominent and distinctive feature of the rye (Secale cereale) chromosomes is the presence of massive blocks of subtelomeric heterochromatin, the size of which is correlated with the copy number of tandem arrays. The rapidity with which these regions have formed over the period of speciation remains unexplained.
Results: Using a BAC library created from the short arm telosome of rye chromosome 1R we uncovered numerous arrays of the pSc200 and pSc250 tandem repeat families which are concentrated in subtelomeric heterochromatin and identified the adjacent DNA sequences. The arrays show significant heterogeneity in monomer organization. 454 reads were used to gain a representation of the expansion of these tandem repeats across the whole rye genome. The presence of multiple, relatively short monomer arrays, coupled with the mainly star-like topology of the monomer phylogenetic trees, was taken as indicative of a rapid expansion of the pSc200 and pSc250 arrays. The evolution of subtelomeric heterochromatin appears to have included a significant contribution of illegitimate recombination. The composition of transposable elements (TEs) within the regions flanking the pSc200 and pSc250 arrays differed markedly from that in the genome a whole. Solo-LTRs were strongly enriched, suggestive of a history of active ectopic exchange. Several DNA motifs were over-represented within the LTR sequences.
Conclusion: The large blocks of subtelomeric heterochromatin have arisen from the combined activity of TEs and the expansion of the tandem repeats. The expansion was likely based on a highly complex network of recombination mechanisms.Workplace Institute of Experimental Botany Contact David Klier, knihovna@ueb.cas.cz, Tel.: 220 390 469 Year of Publishing 2017
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