Identification and analysis of circRNAs in the prefrontal cortices of wild boar and domestic pig

Abstract

Domestication caused significant differences in morphology and behavior between wild and domestic pigs. However, the regulatory role of circRNA in this event is unclear. Here, we analyzed circRNA expression patterns in the prefrontal cortices of wild boar and domestic pigs to determine the potential role of circRNAs in domestication. We identified a total of 11,375 circRNAs and found that 349 and 354 circRNAs were up-regulated in wild boar and Rongchang pig, respectively. Functional enrichment analysis showed that host genes of significantly highly-expressed circRNAs in wild boar were significantly enriched in neural synapse-related categories and the categories of ‘regulation of defense response (p = 0.028)’ and ‘neural retina development (p = 4.32 × 10−3)’. Host genes of significantly highly-expressed circRNAs in Rongchang pig were specifically involved in ‘chordate embryonic development (p = 2.38 × 10−4)’. Additionally, we constructed circRNA-miRNA-mRNA regulatory axes in wild boar and Rongchang pig and found more regulatory axes in wild boar that potentially regulate synaptic activities. We identified multiple circRNAs that may be related to domesticated characteristics, such as ssc_circ_6179 (ssc_circ_6179—ssc-miR-9847—HRH3, related to aggression) and ssc_circ_3027 (ssc_circ_3027—ssc-miR-4334-5p—HCRTR1, related to attention). This study provides a resource for further investigation of the molecular basis of pig domestication.