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Comparative skin transcriptome of two Oujiang color common carp (Cyprinus carpio var. color) varieties

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Abstract

Body color variation has long been a hot research topic in evolutionary and functional biology. Oujiang color common carp (Cyprinus carpio var. color) is a well-known economical and ornamental fish. Three main types of pigments and four distinct color patterns are typical characters of Oujiang color common carp, which makes it an excellent fish model to study body coloration. In this study, skin transcriptome assembly and comparisons were conducted in two Oujiang color common carp varieties: whole red and whole white. Transcriptome comparison revealed that more differentially expressed energy metabolism genes were upregulated in whole white compared to whole red. The results indicated that energy metabolism genes might be strongly associated with environmental adaption and growth performance and likely affect the red and white color formation in Oujiang color common carp. Our study provided direct guidance for the aquaculture industrials of Oujiang color common carp and presented valuable genetic resources for body color research in fish.

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Acknowledgments

We would like to thank the Holland Computing Center (HCC) at the University of Nebraska for computational support and technical assistance.

Funding

This work was supported by the National Natural Science Foundation of China (31372521, 31772840), Guangxi Innovative Development Project (AA17204095-7), Leading Agricultural Talents in Shanghai Project (D-8004-16-0217), the Shanghai Science and Technology Project (15391900800), and Innovation Project of Shanghai Ocean University Graduate Education (A1-0209-15-0903-2).

Author information

Author notes

  1. Jinxing Du and Xiaowen Chen contributed equally to this work.

Authors and Affiliations

  1. Key Laboratory of Genetic Resources for Freshwater Aquaculture and Fisheries, Shanghai Ocean University, Shanghai, China

    Jinxing Du, Xiaowen Chen, Jun Wang, Honglin Chen, Wucheng Yue & Chenghui Wang

  2. National Demonstration Center for Experimental Fisheries Science Education, Shanghai Ocean University, Shanghai, 201306, China

    Xiaowen Chen, Jun Wang & Chenghui Wang

  3. Shanghai Engineering Research Center of Aquaculture, Shanghai, 201306, China

    Jun Wang, Wucheng Yue & Chenghui Wang

  4. Department of Biology, University of Nebraska at Omaha, Omaha, NE, 68135, USA

    Guoqing Lu

  5. Key Laboratory of Freshwater Fisheries Germplasm Resources, Ministry of Agriculture, Shanghai Ocean University, Shanghai, 201306, China

    Chenghui Wang

Authors
  1. Jinxing Du
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  2. Xiaowen Chen
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  4. Honglin Chen
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Corresponding author

Correspondence to Chenghui Wang.

Ethics declarations

All experiments in this study were performed under the guidance of ethical regulation from the Institutional Animal Care and Use Committee (IACUS) of Shanghai Ocean University (Shanghai, China).

Additional information

Data archiving

Sequencing reads are available at NCBI SRA database (SRR6853720, SRR6853721).

Electronic supplementary material

Supplementary Figure S1–S4

(DOCX 1066 kb)

Supplementary Table S1

Primer sequences, amplicon sizes, qPCR efficiency, and coefficient of determination of standard curves for each gene. (DOCX 18 kb)

Supplementary Table S2

GO enrichment analysis for specifically expressed genes in WR (XLSX 14 kb)

Supplementary Table S3

GO enrichment analysis for specifically expressed genes in WW (XLSX 17 kb)

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Du, J., Chen, X., Wang, J. et al. Comparative skin transcriptome of two Oujiang color common carp (Cyprinus carpio var. color) varieties. Fish Physiol Biochem 45, 177–185 (2019). https://doi.org/10.1007/s10695-018-0551-8

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  • DOI: https://doi.org/10.1007/s10695-018-0551-8

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