Transcriptomic profiling of wheat near-isogenic lines reveals candidate genes on chromosome 3A for pre-harvest sprouting resistance

Table 2 Candidate genes and their expression profiles as revealed by RNA-seq

Gene ID	DEG at time point	Physical location	Gene annotation	Pathway	Expression details^a
*TraesCS3A01G461400*	15, 25, 35 DPA	697,281,350 − 697,284,916	Fork head transcription factor 1	Purine metabolism	Up regulated (log2 = 5.70)
*TraesCS3A01G462000*	15, 25, 35 DPA	697,471,602 −697,474,693	B3 domain-containing transcription factor	Aminoacyl-tRNA biosynthesis	Up regulated (log2 = 1.43)
*TraesCS3A01G466700*	15, 25, 35 DPA	700,562,650 −700,564,244	Hydroxyethylthiazole kinase	Thiamine metabolism	Down regulated (log2 = 5.19)
*TraesCS3A01G459200*	15, 25 DPA	695,744,627 - 695,745,649	Leucine-rich repeat receptor-like protein kinase family protein	Fatty acid biosynthesis; starch and sucrose metabolism; phenylpropanoid biosynthesis; biosynthesis of secondary metabolites	Up regulated (log2=2.14)
TraesCS3A01G245000	25, 35 DPA	458,679,119 − 458,682,490	Receptor kinase	Plant hormone signal transduction	Down regulated (log2 =4.00)
TraesCS3A01G225100	15 DPA	421,719,543 − 421,722,510	S-type anion channel	MAPK signalling pathway - plant	Up regulated (log2 =1.74)

Genes in bold fell into the QTL (QPhs.ccsu-3A.1) marker interval of Xwmc153 and Xgwm155, with a physical position within 484,402,604–702,961,948 bp
DPA Days post-anthesis, Upregulated Genes expressed higher in resistant isolines, Downregulated Genes expressed higher in susceptible isolines, log2 Mean log2 ratio fold-change of the DEG in both NIL pairs
^aThe upregulation and downregulation of DEGs is based on comparisons of resistant to susceptible isolines

ISSN: 1471-2229