Name: Genetic elucidation of interconnected antibiotic pathways mediating maize innate immunity

Link to publication: https://www.nature.com/articles/s41477-020-00787-9

NCBI bioproject ID: PRJNA577898


Category: RNA-Seq, stress

Description:
Zea mays Var. B73 seeds were germinated in MetroMix 200 (Sun Gro Horticulture Distribution, Inc.) supplemented with 14-14-14 Osmocote (Scotts Miracle-Gro) and 
grown in a greenhouse with a 12-h photoperiod, minimum of 300 μmol m−2 s−1 of photosynthetically active radiation supplied by supplemental lighting, 70% relative humidity, 
and temperature cycle of 24 °C/28 °C (night/day). Incisions were made at the center of 35-day-old plants spanning through the upper nodes, internodes and the most basal portion of unexpanded leaves. 
Elicited samples were treated with Heat-killed F. venenatum (commercially obtained) hyphae in the slit (incision innoculated with heat killed Fursarium hyphae).
While untreated slit plants were used as control (samples described as 'Damage') or incision with no innoculation. 

Total RNA was isolated using the NucleoSpin RNA Plant Kit (Takara Bio) following the manufacturer's protocols. 
RNA-seq reads were mapped by MaizeGDB to Zm-B73-REFERENCE-NAM-5.0. using STAR. Bigwig files were generated using bedtools genomecov -split -scale 1.0 
followed by kentUtils bedGraphToBigWig.