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Comparative analyses of DNA repeats and identification of a novel Fesreba centromeric element in fescues and ryegrasses
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SYSNO ASEP 0531603 Document Type J - Journal Article R&D Document Type Journal Article Subsidiary J Článek ve WOS Title Comparative analyses of DNA repeats and identification of a novel Fesreba centromeric element in fescues and ryegrasses Author(s) Zwyrtková, Jana (UEB-Q) ORCID
Němečková, Alžběta (UEB-Q) ORCID
Čížková, Jana (UEB-Q) RID, ORCID
Holušová, Kateřina (UEB-Q) ORCID
Kapustová, Veronika (UEB-Q) ORCID
Svačina, Radim (UEB-Q) ORCID
Kopecký, David (UEB-Q) RID, ORCID
Till, B. J. (IT)
Doležel, Jaroslav (UEB-Q) RID, ORCID
Hřibová, Eva (UEB-Q) RID, ORCIDNumber of authors 10 Article number 280 Source Title BMC Plant Biology. - : BioMed Central - ISSN 1471-2229
Roč. 20, č. 1 (2020)Number of pages 15 s. Language eng - English Country GB - United Kingdom Keywords Centromere organization ; Festuca ; Illumina sequencing ; Lolium ; Repetitive DNA Subject RIV EB - Genetics ; Molecular Biology OECD category Biochemistry and molecular biology R&D Projects EF16_019/0000827 GA MŠMT - Ministry of Education, Youth and Sports (MEYS) Method of publishing Open access Institutional support UEB-Q - RVO:61389030 UT WOS 000542955600002 EID SCOPUS 85086691346 DOI 10.1186/s12870-020-02495-0 Annotation Background: Cultivated grasses are an important source of food for domestic animals worldwide. Increased knowledge of their genomes can speed up the development of new cultivars with better quality and greater resistance to biotic and abiotic stresses. The most widely grown grasses are tetraploid ryegrass species (Lolium) and diploid and hexaploid fescue species (Festuca). In this work, we characterized repetitive DNA sequences and their contribution to genome size in five fescue and two ryegrass species as well as one fescue and two ryegrass cultivars. Results: Partial genome sequences produced by Illumina sequencing technology were used for genome-wide comparative analyses with the RepeatExplorer pipeline. Retrotransposons were the most abundant repeat type in all seven grass species. The Athila element of the Ty3/gypsy family showed the most striking differences in copy number between fescues and ryegrasses. The sequence data enabled the assembly of the long terminal repeat (LTR) element Fesreba, which is highly enriched in centromeric and (peri)centromeric regions in all species. A combination of fluorescence in situ hybridization (FISH) with a probe specific to the Fesreba element and immunostaining with centromeric histone H3 (CENH3) antibody showed their co-localization and indicated a possible role of Fesreba in centromere function. Conclusions: Comparative repeatome analyses in a set of fescues and ryegrasses provided new insights into their genome organization and divergence, including the assembly of the LTR element Fesreba. A new LTR element Fesreba was identified and found in abundance in centromeric regions of the fescues and ryegrasses. It may play a role in the function of their centromeres. Workplace Institute of Experimental Botany Contact David Klier, knihovna@ueb.cas.cz, Tel.: 220 390 469 Year of Publishing 2021 Electronic address http://doi.org/10.1186/s12870-020-02495-0
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