ArticleBMC plant biology2016
Repeat Composition of CenH3-chromatin and H3K9me2-marked heterochromatin in Sugar Beet (Beta vulgaris).
Article in BMC plant biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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19 citing papers in PubMed.
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- Methylcytosine oxidation derivatives are preferentially associated with repetitive chromatin and mark active rDNA inFrontiers in plant science · 2026Article
- Mapping-based genome size estimation.BMC genomics · 2025Article
- BeetRepeats: reference sequences for genome and polymorphism annotation in sugar beet and wild relatives.BMC research notes · 2024Article
- Plant kinetochore complex: composition, function, and regulation.Frontiers in plant science · 2024Review
- Review
- A contiguous de novo genome assembly of sugar beet EL10 (Beta vulgaris L.).DNA research : an international journal for rapid publication of reports on genes and genomes · 2023Article
- The Centromere Histone Is Conserved and Associated with Tandem Repeats Sharing a Conserved 19-bp Box in the Holocentromere of Meloidogyne Nematodes.Molecular biology and evolution · 2021Article
- Characterization of the GRAS gene family reveals their contribution to the high adaptability of wheat.PeerJ · 2021Article
- The Genomics of Plant Satellite DNA.Progress in molecular and subcellular biology · 2021Review
- An optimised chromatin immunoprecipitation (ChIP) method for starchy leaves of Nicotiana benthamiana to study histone modifications of an allotetraploid plant.Molecular biology reports · 2020Article
- Extraordinary Sequence Diversity and Promiscuity of Centromeric Satellites in the Legume Tribe Fabeae.Molecular biology and evolution · 2020Article
- Sequence Composition Underlying Centromeric and Heterochromatic Genome Compartments of the Pacific OysterGenes · 2020Article
- Review
- Genome-Wide Analysis of Transposable Elements and Satellite DNAs inFrontiers in plant science · 2020Article
- FunctionalFrontiers in plant science · 2020Article
- Fluorescence in situ hybridization in plants: recent developments and future applications.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2019Review
- Review
- Isolation and characterization of centromeric repetitive DNA sequences in Saccharum spontaneum.Scientific reports · 2017Article
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7 authors.
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No grant is acknowledged in the PubMed record.
Abstract
backgroundSugar beet (Beta vulgaris) is an important crop of temperate climate zones, which provides nearly 30 % of the world's annual sugar needs. From the total genome size of 758 Mb, only 567 Mb were incorporated in the recently published genome sequence, due to the fact that regions with high repetitive DNA contents (e.g. satellite DNAs) are only partially included. Therefore, to fill these gaps and to gain information about the repeat composition of centromeres and heterochromatic regions, we performed chromatin immunoprecipitation followed by sequencing (ChIP-Seq) using antibodies against the centromere-specific histone H3 variant of sugar beet (CenH3) and the heterochromatic mark of dimethylated lysine 9 of histone H3 (H3K9me2).
resultsChIP-Seq analysis revealed that active centromeres containing CenH3 consist of the satellite pBV and the Ty3-gypsy retrotransposon Beetle7, while heterochromatin marked by H3K9me2 exhibits heterogeneity in repeat composition. H3K9me2 was mainly associated with the satellite family pEV, the Ty1-copia retrotransposon family Cotzilla and the DNA transposon superfamily of the En/Spm type. In members of the section Beta within the genus Beta, immunostaining using the CenH3 antibody was successful, indicating that orthologous CenH3 proteins are present in closely related species within this section.
conclusionsThe identification of repetitive genome portions by ChIP-Seq experiments complemented the sugar beet reference sequence by providing insights into the repeat composition of poorly characterized CenH3-chromatin and H3K9me2-heterochromatin. Therefore, our work provides the basis for future research and application concerning the sugar beet centromere and repeat-rich heterochromatic regions characterized by the presence of H3K9me2.
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