Table 3.

Statistics of DEGs and gene ontology enrichment from different treatments.

Comparison	Num. DEGsa	Regulation patternb	Num. DEGs	Enriched GO termsc	Description of biological process
P. indica-/Drought+ vs. P. indica-/Drought-	1337	Up-Up	523	3	response to stimulus; response to chemical stimulus; pathogenesis
		Up-Down	135	4	cellular macromolecule biosynthetic process; gene expression; translation
		Down-Down	341	0	N/A
		Down-Up	338	2	carbohydrate metabolic process; cellular carbohydrate metabolic process
P. indica-/Drought- vs. P. indica+/Drought-	464	Up-Up	113	2	microtubule-based process and movement
		Up-Down	95	0	N/A
		Down-Down	132	1	lipid metabolic process
		Down-Up	124	0	N/A
P. indica+/Drought+ vs. P. indica+/Drought-	2037	Up-Up	710	23	response to stress, stimulus, chemical stimulus, drug, oxidative stress, water; cellulose metabolic process; oxidation reduction; dicarboxylic acid, organic acid, carboxylic acid transport; cellular amino acid derivative metabolic process; cellular polysaccharide metabolic process; glucan metabolic process; steroid metabolic process; pathogenesis
		Up-Down	288	0	N/A
		Down-Down	669	0	N/A
		Down-Up	370	0	N/A

^aDEG means Genes differentially expressed at 6HAI and 12HAI, but no significant difference were observed at 0HAI between two treatments

^bRegulation patterns are termed as Up and Down, representing up-regulated and down-regulated versus treatment at certain timepoint respectively. Up(Down)- Up(Down) refers to 6-12 HAI, respectively.

^cGO terms were enriched by AgriGO.