Total mRNA sequence dataset from Pectobacterium atrosepticum colonising potato or radish roots
Total mRNA sequence dataset from Pectobacterium atrosepticum colonising potato or radish roots
Plants were removed from the media and the roots aseptically removed from the leafy part.  Roots were rinsed in sterile distilled water before flash freezing in liquid nitrogen. Uninoculated plant controls were sampled in parallel.  Before nucleic acid extraction, root tissue was ground in liquid nitrogen. Radish (Raphanus sativus L. var. oleiformis Pers. cv.  Bento) seeds were surface sterilised in 2% calcium hypochlorite solution (10ml) before germination on distilled water agar (0.5% w/v) in the dark for 5-7 days, at ~20C.  Potato (Solanum tuberosum var. Estima) microplants (Gentech Propagation, UK) were cut at the internode, transplanted onto Murashige and Skoog (MS; Merck) + 20% (w/v) sucrose (MS20) agar and incubated for 14 days to establish new microplants.  Seedlings, or microplants, were transplanted into 175ml pots (Greiner, UK) containing autoclaved perlite and sterile 0.5 x MS liquid medium.  Seedlings were grown 16 h light/ 8h dark photoperiod for a further seven (potato) or 21 days (radish) at ~20C before Pectobacterium atrosepticum SCRI1039 inoculation.  Treatments ended after 14 days.  Each biological sample pooled the roots from three radish or two potato plants. Total RNA was extracted using Macharey-Nagel Nucleospin RNA Plant kit, following manufacturers guidelines with RAP buffer.  Samples were treated with Turbo DNase-free kit (Invitrogen, AM1906) to remove gDNA carryover.  RNA quality was checked with Agilent Bioanalyzer 2100 following supplierÂ´s instructions Library construction was completed by Novogene.150bp paired end Illumina library