RNA-seq-9d-SIM-2
Leaf explants from Helianthus eggertii line Eg1-3 were inoculated on SIM for 0, 3, 6, and 9 days in triplicate for each time point. Total RNA was extracted using GeneJet Plant Total RNA kit (Thermo Fisher Scientific) with on-column DNase treatment (Millipore-Sigma) for removal of DNA contamination. Total RNA was quantified on NanoDrop Lite (Thermo Fisher Scientific), and the RNA integrity was verified on 1% agarose gel. Multiplexed cDNA libraries were produced and sequenced as previously described (Costa 2020, doi: 10.17504/protocols.io.bkypkxvn). For the regeneration time series expression, sequences were called using MinKNOW v1.1.10 package, and demultiplexed and adaptor trimmed using python qcat program (https://github.com/nanoporetech/qcat)
SUB14788829
barcode11