Chromosome-scale assembly with Hi-C data
Hi-C libraries were constructed from approximately 2 g of fresh leaves following Miele et al . (2009), which included chromatin extraction and digestion and DNA ligation, purification and fragmentation. Then, these libraries were submitted for sequencing using the Illumina HiSeq X Ten platform (Illumina, CA, USA). The generated clean Hi-C data were mapped to the draft genome using BWA v. 0.7.1753 (Li & Durbin, 2009). The uniquely mapped Hi-C data were retained, clustered, ordered and placed onto the 20 pseudochromosomes using LACHESIS (Burton et al., 2013). A heat map of the interaction matrix of all pseudochromosomes was plotted with a resolution of 100 kb.