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Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota
TLDR
Methodology is described to characterize and compare soil- and root-inhabiting bacterial communities, which reveals not only a function for metabolically active plant cells but also for inert cell-wall features in the selection of soil bacteria for host colonization. Expand
RNA-mediated chromatin-based silencing in plants.
TLDR
Plants have evolved an elaborate transcriptional machinery dedicated to eliciting sequence-specific, chromatin-based gene silencing, which is used extensively in plants to direct the establishment, spread, and removal of DNA cytosine methylation throughout their genomes. Expand
Atypical RNA polymerase subunits required for RNA-directed DNA methylation
TLDR
It is reported here that DRD2 and DRD3 correspond to the second-largest subunit and largest subunit, respectively, of a fourth class of DNA-dependent RNA polymerase (polymerase IV) that is unique to plants. Expand
Endogenous targets of RNA‐directed DNA methylation and Pol IV in Arabidopsis
TLDR
It is proposed that DRD1 and Pol IVb establish a basal level of silencing that can potentially be reversed in euchromatin, and further reinforced in heterochromatin by other proteins that induce more stable modifications. Expand
Arabidopsis thaliana transcription factors bZIP19 and bZIP23 regulate the adaptation to zinc deficiency
TLDR
It is shown that the bzip19 bzip23 double mutant is hypersensitive to zinc deficiency, a significant step forward to unravel the molecular mechanism of zinc homeostasis in plants, allowing the improvement of zinc bio-fortification to alleviate human nutrition problems and phytoremediation strategies to clean contaminated soils. Expand
The genomic landscape of meiotic crossovers and gene conversions in Arabidopsis thaliana
TLDR
Overall, recombination preferentially targeted non-methylated nucleosome-free regions at gene promoters, which showed significant enrichment of two sequence motifs, and GC detection through short reads has previously been confounded by genomic rearrangements. Expand
High-throughput polymorphism detection and genotyping in Brassica napus using next-generation RAD sequencing
TLDR
The results of this study suggest that RAD sequencing is not only a simple and cost-effective method for high-density polymorphism detection but also an alternative to SNP genotyping from transcriptome sequencing or SNP arrays, even for species with complex genomes such as B. napus. Expand
Targets of RNA-directed DNA methylation.
TLDR
RNA-directed DNA methylation contributes substantially to epigenetic regulation of the plant genome and can be removed by enzymatic demethylation, providing plants with a versatile system that facilitates epigenetic plasticity. Expand
A structural-maintenance-of-chromosomes hinge domain–containing protein is required for RNA-directed DNA methylation
TLDR
This finding implicates a putative chromosome architectural protein that can potentially link nucleic acids in facilitating an RNAi-mediated epigenetic modification involving secondary siRNAs and spreading of DNA methylation. Expand
Effects of Aneuploidy on Genome Structure, Expression, and Interphase Organization in Arabidopsis thaliana
TLDR
The analysis reveals the complex genomic changes that can occur in aneuploids and underscores the importance of using multiple experimental approaches to investigate how chromosome numerical changes condition abnormal phenotypes and progressive genome instability. Expand
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