Table 2. Predicted olive cDNA targets for known olive miRNAs.

	Functional Annotation
miRNA	RNA_seq_ID	NCBI_ID	Gene ontology (GO)	KEGG pathway
miR156	comp75091_c0_seq1	GO:0045551	cinnamyl-alcohol dehydrogenase activity	Biosynthesis of secondary metabolites
		GO:0050896	response to stimulus	Phenylpropanoid biosynthesis
		GO:0052747	sinapyl alcohol dehydrogenase activity	Metabolic pathways
	comp75090_c0_seq1	GO:0045551	cinnamyl-alcohol dehydrogenase activity	Metabolic pathways
		GO:0050896	response to stimulus	Phenylpropanoid biosynthesis
		GO:0052747	sinapyl alcohol dehydrogenase activity	Biosynthesis of secondary metabolites
	comp42353_c0_seq1
miR159	comp19510_c0_seq1	GO:0004174	electron-transferring-flavoprotein dehydrogenase activity
		GO:0006082	organic acid metabolic process
		GO:0006520	cellular amino acid metabolic process
		GO:0006552	leucine catabolic process
		GO:0009063	cellular amino acid catabolic process
		GO:0016054	organic acid catabolic process
		GO:0016649	oxidoreductase activity, acting on the CH-NH group of donors, quinone or similar compound as acceptor
		GO:0019752	carboxylic acid metabolic process
		GO:0043436	oxoacid metabolic process
		GO:0044248	cellular catabolic process
		GO:0044282	small molecule catabolic process
		GO:0044712	single-organism catabolic process
		GO:0046395	carboxylic acid catabolic process
		GO:0050896	response to stimulus
		GO:1901565	organonitrogen compound catabolic process
	comp13723_c0_seq1
	comp33358_c0_seq1	GO:0004174	electron-transferring-flavoprotein dehydrogenase activity
		GO:0006082	organic acid metabolic process
		GO:0006520	cellular amino acid metabolic process
		GO:0006552	leucine catabolic process
		GO:0009063	cellular amino acid catabolic process
		GO:0016054	organic acid catabolic process
		GO:0016649	oxidoreductase activity, acting on the CH-NH group of donors, quinone or similar compound as acceptor
		GO:0019752	carboxylic acid metabolic process
		GO:0043436	oxoacid metabolic process
		GO:0044248	cellular catabolic process
		GO:0044282	small molecule catabolic process
		GO:0044712	single-organism catabolic process
		GO:0046395	carboxylic acid catabolic process
		GO:0050896	response to stimulus
		GO:1901565	organonitrogen compound catabolic process
	comp46826_c0_seq1
	comp68814_c0_seq1	GO:0006950	response to stress
		GO:0050896	response to stimulus
miR166	comp97992_c0_seq1	GO:0005576	extracellular region	Sphingolipid metabolism
		GO:0005618	cell wall	Glycosphingolipid biosynthesis—globo series
		GO:0030312	external encapsulating structure	Galactose metabolism
		GO:0044248	cellular catabolic process	Glycerolipid metabolism
		GO:0044712	single-organism catabolic process
		GO:0048046	Apoplast
		GO:1901565	organonitrogen compound catabolic process
	comp56340_c0_seq1	GO:0005730	Nucleolus	Spliceosome
		GO:0006950	response to stress
		GO:0050896	response to stimulus
	comp62505_c0_seq1	GO:0008283	cell proliferation
		GO:0008284	positive regulation of cell proliferation
		GO:0050896	response to stimulus
miR168	comp9440_c0_seq1	GO:0006950	response to stress	Base excision repair
		GO:0050896	response to stimulus	Purine metabolism
				Pyrimidine metabolism
				Homologous recombination
				Metabolic pathways
				DNA replication
				Nucleotide excision repair
	comp55643_c0_seq1			Alanine, aspartate and glutamate metabolism
	comp60984_c0_seq1	GO:0006950	response to stress
		GO:0008283	cell proliferation
		GO:0008284	positive regulation of cell proliferation
		GO:0031538	negative regulation of anthocyanin metabolic process
		GO:0033588	Elongator holoenzyme complex
		GO:0050896	response to stimulus
	comp9240_c0_seq1
	comp17765_c0_seq1	GO:0006950	response to stress
		GO:0008283	cell proliferation
		GO:0008284	positive regulation of cell proliferation
		GO:0031538	negative regulation of anthocyanin metabolic process
		GO:0033588	Elongator holoenzyme complex
		GO:0050896	response to stimulus
	comp55642_c0_seq1			Alanine, aspartate and glutamate metabolism
miR172	comp32954_c0_seq1	GO:0009856	Pollination	Spliceosome
		GO:0044703	multi-organism reproductive process
		GO:0044706	multi-multicellular organism process
miR3630	comp701_c0_seq1
miR390	comp82582_c0_seq1	GO:0015935	small ribosomal subunit	Ribosome
		GO:0022627	cytosolic small ribosomal subunit
miR396	comp19066_c0_seq1
	comp89993_c0_seq1
	comp67855_c0_seq1
	comp77260_c0_seq1
	comp54983_c0_seq1
	comp45923_c0_seq1
miR482	comp6983_c0_seq1	GO:0006082	organic acid metabolic process	Vitamin B6 metabolism
		GO:0006520	cellular amino acid metabolic process
		GO:0006950	response to stress
		GO:0019752	carboxylic acid metabolic process
		GO:0043436	oxoacid metabolic process
		GO:0050896	response to stimulus
miR5083	comp95403_c0_seq1
miR5538	comp67128_c0_seq1
miR6300	comp43487_c0_seq1
miR845	comp32983_c0_seq1
miR894	comp32058_c0_seq1	GO:0006950	response to stress
		GO:0044248	cellular catabolic process