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The chimeric genes in the hybrid lineage of Carassius auratus cuvieri (♀)×Carassius auratus red var. (♂)

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Abstract

Hybridization can combine the genomes of different strains or species, which leads to changes of genotype and phenotype in the hybrids. In this study, we aimed to investigate the genetic variations of hybrids (WR-F1 and WR-F2) derived from the intraspecific hybridization of white crucian carp (Carassius auratus cuvieri, WCC, ♀) and red crucian carp (Carassius auratus red var., RCC, ♂). Here, we compared the orthologous genes in the liver transcriptomes of hybrids with those of WCC and RCC, and classified the orthologous genes into eight gene patterns within three categories (chimera, mutant, and biparental origin genes). The results revealed 19.04%, 4.17% chimeric genes and 6.90%, 5.05% mutations of orthologous genes in WR-F1 and WR-F2 respectively. Seventeen of twenty-three characterized genes (77%) were confirmed to be the chimeras at the genomic DNA level. The GO classification discovered that some chimeric and mutant genes were related to metabolic process, immune system and developmental process in WR-F1. Our results provide the new evidence that hybridization can combine the parental genomes, leading to changes in the genotype of the resultant hybrids. This is the first report on the formation of chimeric genes from fish intraspecific hybridization, which is potentially interesting from the context of both evolution and the genetic breeding of fish.

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Acknowledgements

This work was supported by National Natural Science Foundation of China (31210103918, 31430088, 91631305), the earmarked fund for China Agriculture Research System (CARS-45), the Cooperative Innovation Center of Engineering and New Products for Developmental Biology of Hunan Province (20134486), the Construction Project of Key Discipline of Hunan Province and China and Natural Science Foundation of Hunan Province (14JJ2062).

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Authors and Affiliations

  1. State Key Laboratory of Developmental Biology of Freshwater Fish, Hunan Normal University, Changsha, 410081, China

    Qingfeng Liu, Yanhua Qi, Qiuli Liang, Xiujuan Xu, Fangzhou Hu, Jing Wang, Jun Xiao, Shi Wang, Wuhui Li, Min Tao, Qinbo Qin, Rurong Zhao, Zhanzhou Yao & Shaojun Liu

  2. College of Life Sciences, Hunan Normal University, Changsha, 410081, China

    Qingfeng Liu, Yanhua Qi, Qiuli Liang, Xiujuan Xu, Fangzhou Hu, Jing Wang, Jun Xiao, Shi Wang, Wuhui Li, Min Tao, Qinbo Qin, Rurong Zhao, Zhanzhou Yao & Shaojun Liu

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  1. Qingfeng Liu
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Liu, Q., Qi, Y., Liang, Q. et al. The chimeric genes in the hybrid lineage of Carassius auratus cuvieri (♀)×Carassius auratus red var. (♂). Sci. China Life Sci. 61, 1079–1089 (2018). https://doi.org/10.1007/s11427-017-9306-7

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