TABLE 3.

Results of analyses of variance (ANOVA) comparing the proportions of shared responses (Jaccard index) among environmental factors (sulphidic vs. cave environments), organs (gills, liver, brain), expression direction (up vs. downregulated) and level of organismal organization (transcript, gene, gene function)

Term	df	F	p	${\mathrm{\eta }}_{\mathrm{p}}^2$
Expression direction	1	0.3	.619	.016
Environmental factor	1	450.4	<.001	.966
Level of organization	2	152.7	<.001	.950
Organ	2	24.4	<.001	.753
Expression direction × Environmental factor	1	2.0	.178	.111
Expression direction × Level of organization	2	0.7	.489	.086
Expression direction × Organ	2	2.3	.128	.227
Environmental factor × Level of organization	2	27.7	<.001	.776
Environmental factor × Organ	2	15.2	<.001	.655
Level of organization × Organ	4	0.5	.711	.118

The amount of shared responses increased with level of organization, but shared responses were higher for sulphidic than for cave populations (Figure 4a). In addition, the amount of shared responses also varied between sulphidic and cave populations in an organ-specific manner (Figure 4b). Effect sizes were estimated with partial eta-squared ( ${\mathrm{\eta }}_{\mathrm{p}}^2$), and significant effects (p < .05) are highlighted in bold font.