Different ploidy-level hybrids derived from female common carp × male topmouth culter

Abstract

Distant hybridization is an effective strategy for creating polyploids in fish genetic breeding. In this study, the cross of common carp (Cyprinus carpio, 2n = 100, COC, ♀) and topmouth culter (Culter alburnus, 2n = 48, TC, ♂), which belonged to different subfamilies, was conducted and obtained surviving hybrid offspring (CT hybrids). Based on the measurement of DNA content and chromosomal numbers, three ploidy levels of CT hybrids were identified: diploid hybrids (2n = 74, 2nCT), triploid hybrids (3n = 124, 3nCT), and tetraploid hybrids (4n = 148, 4nCT). Analyses of countable traits and measurable traits indicated a significant similarity between CT hybrids and COC in comparison to TC. The genetic variation analysis of 5S rDNA and HoxD10a gene in CT hybrids revealed the retention of all COC genotypes and the partial elimination of TC genotypes, as well as the generation of novel variant genotypes (derived from TC genotypes) and recombinant genotypes (derived from parental genotypes), which suggested that in CT hybrids, the paternal subgenome exhibited greater instability than the maternal subgenome. In addition, the droplet digital PCR (ddPCR) method, combining allele-specific probes targeting the EPHX2 gene, was employed for the first time to investigate the genome composition of hybrids. The results showed that the ratios of COC-allele number to TC-allele number were approximately 1 in 2nCT, 2 in 3nCT, and 1.5 in 4nCT, respectively, which confirmed the hybridization origins for each type and effectively distinguished between the three CT hybrids. The obtainment of CT hybrids harbors potential benefits and application in aquaculture and provides an ideal model for understanding the influence of hybridization and polyploidization on the genomic composition of fish species.