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Development and characterization of 56 SNP markers in Misgurnus anguillicaudatus

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Abstract

The dojo loach Misgurnus anguillicaudatus is an endemic freshwater species in Asia. The effective conservation and molecular-aided selection of M. anguillicaudatus were limited without sufficient molecular markers. In this study, 112 novel single nucleotide polymorphism (SNP) markers were screened based on 2b-RAD sequencing database, and 56 SNPs of them were developed and characterized by genotyping 40 individuals using SNaPshot method. The observed heterozygosity (Ho) ranged from 0.025 to 0.675, while the expected heterozygosity (He) varied from 0.025 to 0.500. The minor allele frequency (MAF) ranged from 0.013 to 0.500. Among these SNPs, 18 loci were found to deviate significantly from the Hardy–Weinberg equilibrium after Bonferroni correction (P < 0.05). The first set of SNP markers developed from M. anguillicaudatus will provide valuable information in further population genetic analysis and natural resource conservation.

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Data Availability

The data used to support the findings of this study are available from the article and its supplementary information.

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Funding

This research was funded by China Agriculture Research System of MOF and MARA (CARS-46) and the National Key R&D Program of China (No. 2018YFD0901201). We thank Yaosen Qian who provided loach tissue samples for this research.

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Authors and Affiliations

  1. College of Fisheries, Guangdong Ocean University, Zhanjiang, 524025, People’s Republic of China

    Guiyun Huang & Gang Chen

  2. Key Laboratory of Tropical & Subtropical Fishery Resource Application & Cultivation, Pearl River Fisheries Research Institute of CAFS, Xingyu Road No.1, Guangzhou, 510380, People’s Republic of China

    Guiyun Huang, Fengying Gao, Zhigang Liu, Jianmeng Cao & Maixin Lu

Authors
  1. Guiyun Huang
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  2. Fengying Gao
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  3. Zhigang Liu
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  4. Jianmeng Cao
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  5. Gang Chen
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  6. Maixin Lu
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Contributions

Conceived and designed the experiments: GC ML. Performed the experiments, analyzed the genetic data: GH. Contributed reagents/materials/analysis tools: FG ZL JC. Wrote the paper: GH ML. All authors read, revised, and approved the manuscript.

Corresponding authors

Correspondence to Gang Chen or Maixin Lu.

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Conflicts of interest

The authors declare no competing financial interests.

Ethical approval

All experimental procedures for loach handling were approved by the Animal Care and Ethics Committee of the Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences.

Consent to Participate

This study was conducted at Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences. The institution and all authors agreed to participate in this research.

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The Author confirms: that the work described has not been published before; that it is not under consideration for publication elsewhere; that its publication has been approved by all co-authors if any; that its publication has been approved explicitly by the responsible authorities at the institution where the work is carried out. The authors agree to publication in the journal Conservation Genetics Resources.

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Huang, G., Gao, F., Liu, Z. et al. Development and characterization of 56 SNP markers in Misgurnus anguillicaudatus. Conservation Genet Resour 14, 1–10 (2022). https://doi.org/10.1007/s12686-021-01231-6

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  • DOI: https://doi.org/10.1007/s12686-021-01231-6

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