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Acta Oceanologica Sinica

, Volume 38, Issue 8, pp 41–47 | Cite as

Identification of SNP markers correlated with the tolerance of low-salinity challenge in swimming crab (Portunus trituberculatus)

  • Yanyan Feng
  • Dening Zhang
  • Jianjian Lv
  • Baoquan Gao
  • Jian LiEmail author
  • Ping Liu
Article

Abstract

Water salinity condition is an important factor for artificial propagation of the swimming crab (Portunus trituberculatus). Low salinity (LS)-resistant strains are preferred by crab industries. Single nucleotide polymorphism (SNP), the third generation of molecular markers, can be utilized in the breeding of LS-resistant species of P. trituberculatus. Our earlier study identified 615 genes differentially expressed in low-salinity stress compared to the controls. Although thousands of SNP loci have been found, it is hard to identify a SNP marker in correlation with a desired trait. In this study, time-of-flight mass spectrometry (TOF-MS), as an efficient method to select SNPs for the tolerance of LS challenge, was utilized for SNP typing. Fifty gene segments were amplified based on comparative transcriptomics in our earlier study, a total of 18 511 bp DNA fragments were amplified, and eighty-five SNP markers were found. The frequency of the SNPs was estimated to be 0.46 per 100 base pairs of DNA sequences. The rate of the conversion mutation was 81%, while the transversion mutation was 19%. The mutation rate of the G/T (C/A), A/T and G/C was 26%, 12% and 7%, respectively. Eight SNP markers were found to significantly correlate with the adaption of low salinity. Of the eight SNP markers, three linked-SNPs were found in the cuticle proportion gene, and another three SNPs were found in three new genes, and the rest two were found in aquaporin gene and chloride channel gene. The development of these SNP markers found in our study could be primarily used for breeding LS-resistant strains of P. trituberculatus.

Key words

Portunus trituberculatus low salinity time-of-flight mass spectrometry single nucleotide polymorphism SNP 

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Notes

Acknowledgements

We were grateful to all the laboratory members for experimental material preparation and technical assistance.

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Copyright information

© Chinese Society for Oceanography and Springer-Verlag GmbH Germany, part of Springer Nature 2019

Authors and Affiliations

  • Yanyan Feng
    • 1
  • Dening Zhang
    • 1
  • Jianjian Lv
    • 1
  • Baoquan Gao
    • 1
  • Jian Li
    • 1
    Email author
  • Ping Liu
    • 1
  1. 1.Key Laboratory of Sustainable Development of Marine Fisheries of Ministry of Agriculture, Yellow Sea Fisheries Research InstituteChinese Academy of Fishery SciencesQingdaoChina

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