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Background  The novel mutant allele  hsi2-4  was isolated in a genetic screen to identify Arabidopsis mutants with constitutively elevated expression of a  glutathione S-transferase F8::luciferase  ( GSTF8::LUC ) reporter gene in Arabidopsis. The  hsi2-4  mutant harbors a point mutation that affects the plant homeodomain (PHD)-like domain in HIGH-LEVEL EXPRESSION OF SUGAR-INDUCIBLE GENE2 (HSI2)/VIVIPAROUS1/ABI3-LIKE1 (VAL1). In  hsi2-4  seedlings, expression of this  LUC  transgene and certain endogenous seed-maturation genes is constitutively enhanced. The parental reporter line (WT  LUC  ) that was used for mutagenesis harbors two independent transgene loci,  Kan   R   and  Kan   S  . Both loci express luciferase whereas only the  Kan   R   locus confers resistance to kanamycin.    Results  Here we show that both transgene loci harbor multiple tandem insertions at single sites. Luciferase expression from these sites is regulated by the HSI2 PHD-like domain, which is required for the deposition of repressive histone methylation marks (H3K27me3) at both  Kan   R   and  Kan   S   loci. Expression of  LUC  and  Neomycin Phosphotransferase II  transgenes is associated with dynamic changes in H3K27me3 levels, and the activation marks H3K4me3 and H3K36me3 but does not appear to involve repressive H3K9me2 marks, DNA methylation or histone deacetylation. However,  hsi2-2  and  hsi2-4  mutants are partially resistant to growth inhibition associated with exposure to the DNA methylation inhibitor 5-aza-2′-deoxycytidine. HSI2 is also required for the repression of a subset of regulatory and structural seed maturation genes in vegetative tissues and H3K27me3 marks associated with most of these genes are also HSI2-dependent.    Conclusions  These data implicate HSI2 PHD-like domain in the regulation of gene expression involving histone modifications and DNA methylation-mediated epigenetic mechanisms.    Electronic supplementary material  The online version of this article (doi:10.1186/s12870-014-0293-4) contains supplementary material, which is available to authorized users.

bmc plant biology

HSI2/VAL1 PHD-like domain promotes H3K27 trimethylation to repress the expression of seed maturation genes and complex transgenes in Arabidopsis seedlings