Transcriptomic analysis of cave, surface, and hybrid samples of the isopod Asellus aquaticus and identification of chromosomal location of candidate genes for cave phenotype evolution

Table 2 Light interacting toolkit genes that are differentially expressed using both transcriptomes

Mid-stage comparison	Bias	Light interacting gene category
NP_001139379.1dopamine N-acetyltransferase isoform 2	Surface	Melanin Synthesis
NP_001306193.1protein scarlet	Surface	Ommochrome Synthesis
XP_015838749.1 xanthine dehydrogenase isoform X1	Surface	Pterin Synthesis
XP_008193416.1 ferrochelatase, mitochondrial	Surface	Heme Synthesis
XP_008192140.1 protein ovo isoform X2*	Surface	Retinal Determination Network
XP_015834662.1 dachshund homolog 1 isoform X3*	Surface	Retinal Determination Network
NP_001164084.1arrestin 2	Surface	Phototransduction
XP_015837229.1 transient receptor potential cation channel trpm isoform X16	Surface	Phototransduction
XP_008200484.2 retinal guanylyl cyclase 2 isoform X2	Surface	Phototransduction

Late-stage comparison	Bias	Light interacting gene category
NP_001139379.1dopamine N-acetyltransferase isoform 2⁺*	Surface	Melanin Synthesis
XP_015838749.1 xanthine dehydrogenase isoform X1*	Surface	Pterin Synthesis
NP_001155991.1rhodopsin 1/6-like	Surface	Phototransduction
XP_015837026.1 transient receptor potential channel pyrexia*	Cave	Phototransduction
XP_008198237.1 guanine nucleotide-binding protein subunit alpha homolog	Cave	Phototransduction

^*Indicates Tribolium IDs that were expressed and present in multiple copies in at least one transcriptome at a given time point. Categories shown are those in the light interacting toolkit [14]. Bias can be surface (surface samples showed higher mRNA levels of the gene than the cave samples) or cave (cave samples showed higher mRNA levels of the gene than the surface samples). ⁺Indicates two paralogs of the gene were found to have surface-biased expression

ISSN: 2041-9139