Fig. 1

The congruency between quantitative trait loci and ASD-risk genes highlights potential genetic hubs for gene regulation. Linkage map constructed from 115 F2 hybrid progeny of a cross between a single surface fish female and a single male Pachón cavefish. The map includes 699 markers assembled into 25 linkage groups that collectively span 1835.5 cM. Colored bars represent approximate position of QTL for eye size, chemical (amino acid) sensing ability, taste bud number, VAB level, and the number of mechanosensory superficial neuromast at the eye orbit (EO SN) as indicated [74, 109]. Lens: lens size, Mel: melanophore number, Teeth: teeth number, Eye: eye size, Tbud: taste bud number, ONL: thickness in the outer nuclear layer of retina [110]. Each linkage group is annotated with genomic marker (right side) and anchored ASD-risk genes (left side). Blue characters in genomic markers are the ones that share the same genomic scaffold as the ASD-risk genes on the left side. Red characters in ASD-genes are the ones that show the signatures of divergence shown in Additional file 7. Other genes (at the left) are successfully anchored Category 1 and 2 SFARI Genes (Additional file 9, also Additional file 1)