Table 2.

The biological process categories of Gene Ontology (GO) annotation of core salt-responsive genes in roots under salt stress. The GO enrichment analysis of core salt-responsive genes was implemented by the GOseq R packages, and GO terms with p < 0.001 were adopted in this study. Red terms represent common terms of shoots and roots.

Gene_Ontology_term	Cluter_frequency	p-Value
hyperosmotic salinity response (GO:0042538);	8.39%	0
response to cold (GO:0009409);	13.12%	0
response to cadmium ion (GO:0046686);	13.12%	0
response to salt stress (GO:0009651);	15.05%	0
response to oxidative stress (GO:0006979);	7.74%	0
response to nitrate (GO:0010167);	7.10%	2.164E-10
defense response to fungus (GO:0050832);	10.97%	5.793E-10
response to desiccation (GO:0009269);	4.30%	8.921E-10
nitrate transport (GO:0015706);	7.10%	1.275E-09
salicylic acid mediated signaling pathway (GO:0009863);	5.16%	2.674E-08
response to water deprivation (GO:0009414);	10.54%	3.62E-08
root hair elongation (GO:0048767);	6.88%	4.066E-08
response to abscisic acid (GO:0009737);	10.98%	4.342E-07
lateral root morphogenesis (GO:0010102);	2.80%	7.002E-07
oxidation-reduction process (GO:0055114);	12.69%	2.418E-06
response to auxin (GO:0009733);	7.31%	5.595E-06
defense response to nematode (GO:0002215);	1.94%	6.042E-06
oligopeptide transport (GO:0006857);	3.87%	2.173E-05
response to cyclopentenone (GO:0010583);	3.87%	2.421E-05
response to wounding (GO:0009611);	8.60%	2.649E-05
lipid transport (GO:0006869);	2.79%	0.0002419
plant-type cell wall organization (GO:0009664);	5.38%	0.0002581
transition metal ion transport (GO:0000041);	3.44%	0.0003009
selenate transport (GO:0080160);	1.075%	0.0005686
lignin biosynthetic process (GO:0009809);	3.23%	0.000737

Note: A total of 465 core salt-responsive genes in roots were enriched on GO terms. Cluter_frequency = enriched gene numbers of each term/465.