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Chimeras Linked to Tandem Repeats and Transposable Elements in Tetraploid Hybrid Fish

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Abstract

The formation of the allotetraploid hybrid lineage (4nAT) encompasses both distant hybridization and polyploidization processes. The allotetraploid offspring have two sets of sub-genomes inherited from both parental species, and therefore, it is important to explore its genetic structure. Herein, we construct a bacterial artificial chromosome library of allotetraploids, and then sequence and analyze the full-length sequences of 19 bacterial artificial chromosomes. Sixty-eight DNA chimeras are identified, which are divided into four models according to the distribution of the genomic DNA derived from the parents. Among the 68 genetic chimeras, 44 (64.71%) are linked to tandem repeats (TRs) and 23 (33.82%) are linked to transposable elements (TEs). The chimeras linked to TRs are related to slipped-strand mispairing and double-strand break repair while the chimeras linked to TEs benefit from the intervention of recombinases. In addition, TRs and TEs can also result in insertions/deletions of DNA segments. We conclude that DNA chimeras accompanied by TRs and TEs coordinate a balance between the sub-genomes derived from the parents. It is the first report on the relationship between formation of the DNA chimeras and TRs and TEs in the polyploid animals.

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Acknowledgments

This work was supported by the National Natural Science Foundation of China (grants 30930071, 91331105, 31360514, 31430088, and 31210103918), 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 the National High Technology Research and Development Program of China (Grant No. 2011AA100403).

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  1. Lihai Ye, Ni Jiao, Xiaojun Tang, and Yiyi Chen contributed equally to this work.

Authors and Affiliations

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

    Lihai Ye, Ni Jiao, Xiaojun Tang, Yiyi Chen, Xiaolan Ye, Li Ren, Fangzhou Hu, Shi Wang, Ming Wen, Chun Zhang, Min Tao & Shaojun Liu

  2. College of Life Sciences, Hunan Normal University, Changsha, 410081, People’s Republic of China

    Lihai Ye, Ni Jiao, Xiaojun Tang, Yiyi Chen, Xiaolan Ye, Li Ren, Fangzhou Hu, Shi Wang, Ming Wen, Chun Zhang, Min Tao & Shaojun Liu

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  1. Lihai Ye
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Ye, L., Jiao, N., Tang, X. et al. Chimeras Linked to Tandem Repeats and Transposable Elements in Tetraploid Hybrid Fish. Mar Biotechnol 19, 401–409 (2017). https://doi.org/10.1007/s10126-017-9764-6

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  • DOI: https://doi.org/10.1007/s10126-017-9764-6

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