Circulomics

ALT Organization of the nuclear genome of GK-767D12 with a focus on translocations, inversions and T-DNA structures. A-E: For a description of the figure elements see legend to Fig. 1. B: Results from a read coverage depth analysis are depicted that revealed a large duplication compared to the TAIR9 Col-0 reference sequence. We used read coverage depth data to decide for the selection of the zygosity of the insertions and rearrangements displayed for Chr2 in the ideograms in panel A. https://rdcu.be/ctEkg

ALT We sequenced the genomes of 14 Arabidopsis thaliana GABI-Kat T-DNA insertion lines (Col-0 background), which eluded flanking sequence tag-based attempts to fully characterize their insertion alleles, with Oxford Nanopore Technologies (ONT) long reads. Detailed information about each line, e.g. their T-DNA insertion site(s), have been described by Pucker et al. (BMC Genomics (2021) 22:599; https://doi.org/10.1186/s12864-021-07877-8). The DNA that has been sequenced is derived from a mixtures of tissues as expected for DNA extracted from young plantlets. For 11 of the datasets from these lines, we called 5mC methylation patterns with the tool Megalodon v.2.2.9 provided by ONT (https://github.com/nanoporetech/megalodon/). Results of this analysis are available per line as individual VCF files. We are sharing unfiltered output files to grant full control over the down-stream analysis steps and to accelerate the research in epigenomics. Details: https://doi.org/10.4119/unibi/2956654.