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Screening of SSR markers associated with scale cover pattern and mapped to a genetic linkage map of common carp (Cyprinus carpio L.)

Journal of Applied Genetics volume 56, pages 261–269 (2015)Cite this article

Abstract

Fish scale is an attractive model in bone physiology research and is also a crucial character for breeding new varieties. Thus, it is important to identify loci in the genome associated with scale formation. In this study, 290 microsatellite markers in common carp (Cyprinus carpio L.) were selected and tested for their segregation in a full-sib mapping panel containing 96 individuals (population 1). Association analysis identified seven simple sequence repeats (SSRs) (HLJ2509, HLJ3227, HLJ3675, HLJ3766, HLJ3863, FGFR1, FGFR7) that showed significant correlation with scale cover pattern in population 1. When the seven SSRs were investigated in two other populations, seven and five SSRs were significantly correlated with scale cover pattern in population 2 (116 individuals) and population 3 (57 individuals), respectively. The exceptions were FGFR1 and HLJ3227. A genetic linkage map was constructed using the 290 SSRs and 241 SSRs were mapped into 47 linkage groups (LGs), with 2–15 markers per LG. The map spanned 2,241.7 cM, with LG sizes that varied from 1.1 to 124.9 cM. All seven markers associated with scale cover mapped into LG3. We considered that a gene cluster that affected the scale cover pattern possibly existed in LG3. By aligning the seven markers with the zebrafish (Danio rerio) genome, we identified six candidate genes (atoh1a, ptch1, bmp1a, fgfr1a, fgf17, wnt5a) that may be associated with scale formation. We propose that the seven markers could be used with marker-assisted selection to breed a new variety of common carp, and the six candidate genes could help in understanding the scale cover mechanism.

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Acknowledgments

This study was supported by grants from the National High Technology Research and Development Program of China (no. 2011AA100402-5), the China Ministry of Agriculture “948” Program (no. 2011-G12), and the Special Scientific Research Funds for Central Non-profit Institutes, Chinese Academy of Fishery Sciences (no. 2014A05CG01).

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Authors and Affiliations

  1. Heilongjiang Fisheries Research Institute, Chinese Academy of Fisheries Sciences, No. 232 Hesong Road, Daoli District, Harbin, 150070, Heilongjiang, China

    Tongqian Xiao, Cuiyun Lu, Yulan Xu, Chao Li, Xianhu Zheng, Dingchen Cao, Lei Cheng & Xiaowen Sun

  2. College of Fisheries and Life Science, Dalian Ocean University, District Shahekou, Dalian, 116023, China

    Tongqian Xiao

  3. Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Harbin, 150040, China

    Cuiyun Lu

  4. Department of Zoology, College of Science, King Saud University, Riyadh, 11451, Saudi Arabia

    Shahid Mahboob

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  1. Tongqian Xiao
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  2. Cuiyun Lu
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  3. Yulan Xu
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  4. Chao Li
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  5. Xianhu Zheng
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  6. Dingchen Cao
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  7. Lei Cheng
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  8. Shahid Mahboob
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  9. Xiaowen Sun
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Correspondence to Xiaowen Sun.

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Tongqian Xiao and Cuiyun Lu contributed equally to this work.

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Xiao, T., Lu, C., Xu, Y. et al. Screening of SSR markers associated with scale cover pattern and mapped to a genetic linkage map of common carp (Cyprinus carpio L.). J Appl Genetics 56, 261–269 (2015). https://doi.org/10.1007/s13353-014-0250-9

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  • DOI: https://doi.org/10.1007/s13353-014-0250-9

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