2015
DOI: 10.1111/tpj.12963
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Chromatin state analysis of the barley epigenome reveals a higher‐order structure defined by H3K27me1 and H3K27me3 abundance

Abstract: SummaryCombinations of histones carrying different covalent modifications are a major component of epigenetic variation. We have mapped nine modified histones in the barley seedling epigenome by chromatin immunoprecipitation next‐generation sequencing (ChIP‐seq). The chromosomal distributions of the modifications group them into four different classes, and members of a given class also tend to coincide at the local DNA level, suggesting that global distribution patterns reflect local epigenetic environments. W… Show more

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Cited by 52 publications
(44 citation statements)
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“…As an example, in mouse, methylation leads to DNA conformation which prevents transposons from adopting a permissive chromatin structure for meiotic recombination (Zamudio et al 2015). Finally, in barley, pericentromeric regions with low recombination rates bear LTR retrotransposons that carry the epigenetic landmarks H3K9me2 and H3K27me1 which establish a constitutive heterochromatic state (Baker et al 2015). These results support the hypothesis that COs do not occur, or only very rarely, in chromosomal regions where chromatin is condensed and poorly accessible to the recombination mechanism.…”
Section: Retrotransposons Associate With Reduced Recombination Ratesupporting
confidence: 61%
See 1 more Smart Citation
“…As an example, in mouse, methylation leads to DNA conformation which prevents transposons from adopting a permissive chromatin structure for meiotic recombination (Zamudio et al 2015). Finally, in barley, pericentromeric regions with low recombination rates bear LTR retrotransposons that carry the epigenetic landmarks H3K9me2 and H3K27me1 which establish a constitutive heterochromatic state (Baker et al 2015). These results support the hypothesis that COs do not occur, or only very rarely, in chromosomal regions where chromatin is condensed and poorly accessible to the recombination mechanism.…”
Section: Retrotransposons Associate With Reduced Recombination Ratesupporting
confidence: 61%
“…CO distribution is largely modified in Arabidopsis met1 and ddm1 mutants, which show an increase of proximal recombination events and a simultaneous decrease in pericentromeric and distal regions (Colome-Tatche et al 2012;Melamed-Bessudo and Levy 2012;Mirouze et al 2012;Yelina et al 2012). Since H3K4me3 and H2A.Z landmarks are important for promotion of gene transcription (Liu et al 2009;Yelina et al 2012;Choi et al 2013) and are associated with high recombination rates in Arabidopsis (Yelina et al 2012) as well as in barley (Aliyeva-Schnorr et al 2015;Baker et al 2015), this suggests that both recombination and DNA-transposon insertion benefit from low compaction of DNA to occur within the genome. …”
Section: Retrotransposons Associate With Reduced Recombination Ratementioning
confidence: 99%
“…Whether our observations reflect an earlier role for MLH3 in plants in general or specifically in barley, they are consistent with the known spatiotemporal difference between barley and Arabidopsis in early meiosis. In barley, the distal and interstitial chromosomal regions exhibit temporal differentiation in recombination initiation that corresponds to the relative timing of replication and the differentiation of the genome by chromatin modifications (Higgins et al, 2012;Baker et al, 2015). This temporal separation of events along the chromosomes is in contrast to Arabidopsis where the formation of chromosome axes is very rapid and recombination initiation appears essentially synchronous throughout the chromosomes (Higgins et al, 2012).…”
Section: Researchmentioning
confidence: 99%
“…This is clearly distinct from K27me3, which is highly coincident with repressed chromatin in C. elegans (LIU et al 2011b). In plants, K27me1 is mainly linked to heterochromatin (BAKER et al 2015;JACOB et al 2009;ROUDIER et al 2011), which implies a primary role in silent chromatin. Thus, K27me1 has been linked to either gene activity or silencing depending upon developmental stage and species assayed.…”
Section: Introductionmentioning
confidence: 86%