The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation

Zakrzewski F, Schubert V, Viehöver P, Minoche AE, Dohm JC, Himmelbauer H, Weisshaar B, Schmidt T (2014)
The Plant Journal 78(6): 937-950.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
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Zakrzewski, Falk; Schubert, Veit; Viehöver, PriscaUniBi; Minoche, André E.; Dohm, Juliane C.; Himmelbauer, Heinz; Weisshaar, BerndUniBi ; Schmidt, Thomas
Abstract / Bemerkung
Methylation of DNA is important for the epigenetic silencing of repetitive DNA in plant genomes. Knowledge about the cytosine methylation status of satellite DNAs, a major class of repetitive DNA, is scarce. One reason for this is that arrays of tandemly arranged sequences are usually collapsed in next-generation sequencing assemblies. We applied strategies to overcome this limitation and quantified the level of cytosine methylation and its pattern in three satellite families of sugar beet (Beta vulgaris) which differ in their abundance, chromosomal localization and monomer size. We visualized methylation levels along pachytene chromosomes with respect to small satellite loci at maximum resolution using chromosome-wide fluorescent in situ hybridization complemented with immunostaining and super-resolution microscopy. Only reduced methylation of many satellite arrays was obtained. To investigate methylation at the nucleotide level we performed bisulfite sequencing of 1569 satellite sequences. We found that the level of methylation of cytosine strongly depends on the sequence context: cytosines in the CHH motif show lower methylation (44-52%), while CG and CHG motifs are more strongly methylated. This affects the overall methylation of satellite sequences because CHH occurs frequently while CG and CHG are rare or even absent in the satellite arrays investigated. Evidently, CHH is the major target for modulation of the cytosine methylation level of adjacent monomers within individual arrays and contributes to their epigenetic function. This strongly indicates that asymmetric cytosine methylation plays a role in the epigenetic modification of satellite repeats in plant genomes. 2014 The Authors The Plant Journal 2014 John Wiley & Sons Ltd.
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Zakrzewski F, Schubert V, Viehöver P, et al. The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation. The Plant Journal. 2014;78(6):937-950.
Zakrzewski, F., Schubert, V., Viehöver, P., Minoche, A. E., Dohm, J. C., Himmelbauer, H., Weisshaar, B., et al. (2014). The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation. The Plant Journal, 78(6), 937-950. doi:10.1111/tpj.12519
Zakrzewski, F., Schubert, V., Viehöver, P., Minoche, A. E., Dohm, J. C., Himmelbauer, H., Weisshaar, B., and Schmidt, T. (2014). The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation. The Plant Journal 78, 937-950.
Zakrzewski, F., et al., 2014. The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation. The Plant Journal, 78(6), p 937-950.
F. Zakrzewski, et al., “The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation”, The Plant Journal, vol. 78, 2014, pp. 937-950.
Zakrzewski, F., Schubert, V., Viehöver, P., Minoche, A.E., Dohm, J.C., Himmelbauer, H., Weisshaar, B., Schmidt, T.: The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation. The Plant Journal. 78, 937-950 (2014).
Zakrzewski, Falk, Schubert, Veit, Viehöver, Prisca, Minoche, André E., Dohm, Juliane C., Himmelbauer, Heinz, Weisshaar, Bernd, and Schmidt, Thomas. “The CHH motif in sugar beet satellite DNA: a modulator for cytosine methylation”. The Plant Journal 78.6 (2014): 937-950.

4 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

DNA methylation of retrotransposons, DNA transposons and genes in sugar beet (Beta vulgaris L.).
Zakrzewski F, Schmidt M, Van Lijsebettens M, Schmidt T., Plant J 90(6), 2017
PMID: 28257158
Diversification, evolution and methylation of short interspersed nuclear element families in sugar beet and related Amaranthaceae species.
Schwichtenberg K, Wenke T, Zakrzewski F, Seibt KM, Minoche A, Dohm JC, Weisshaar B, Himmelbauer H, Schmidt T., Plant J 85(2), 2016
PMID: 26676716
Repeat Composition of CenH3-chromatin and H3K9me2-marked heterochromatin in Sugar Beet (Beta vulgaris).
Kowar T, Zakrzewski F, Macas J, Kobližková A, Viehoever P, Weisshaar B, Schmidt T., BMC Plant Biol 16(1), 2016
PMID: 27230558

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