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. 2021 Apr 1;22(1):230.
doi: 10.1186/s12864-021-07550-0.

A high-density genetic map construction and sex-related loci identification in Chinese Giant salamander

Qiaomu Hu #  1 , Yang Liu #  2 , Xiaolin Liao  3 , Haifeng Tian  4 , Xiangshan Ji  5 , Jiajie Zhu  6 , Hanbing Xiao  4
Affiliations

A high-density genetic map construction and sex-related loci identification in Chinese Giant salamander

Qiaomu Hu et al. BMC Genomics. .

Abstract

Background: The Chinese giant salamander Andrias davidianus is an important amphibian species in China because of its increasing economic value, protection status and special evolutionary position from aquatic to terrestrial animal. Its large genome presents challenges to genetic research. Genetic linkage mapping is an important tool for genome assembly and determination of phenotype-related loci.

Results: In this study, we constructed a high-density genetic linkage map using ddRAD sequencing technology to obtain SNP genotyping data of members from an full-sib family which sex had been determined. A total of 10,896 markers were grouped and oriented into 30 linkage groups, representing 30 chromosomes of A. davidianus. The genetic length of LGs ranged from 17.61 cM (LG30) to 280.81 cM (LG1), with a mean inter-locus distance ranging from 0.11(LG3) to 0.48 cM (LG26). The total genetic map length was 2643.10 cM with an average inter-locus distance of 0.24 cM. Three sex-related loci and four sex-related markers were found on LG6 and LG23, respectively.

Conclusion: We constructed the first High-density genetic linkage map and identified three sex-related loci in the Chinese giant salamander. Current results are expected to be a useful tool for future genomic studies aiming at the marker-assisted breeding of the species.

Keywords: Chinese giant salamander; High-density linkage map; SNP; Sex-related loci mapping; ddRAD.

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Conflict of interest statement

The authors declare that they have no competing interests.

Figures

Fig. 1
Fig. 1
Integrated genetic linkage maps of Andreas davidianus comprising 10,896 markers assigned to 30 linkage groups (LG1–LG30). Genetic distances in Kosambi centiMorgans are listed on the left side of the linkage groups, and markers are listed on the right side of the linkage groups
Fig. 2
Fig. 2
Sex-related loci of Andreas davidianus. The black horizontal line represents a linkage group-wise logarithm of odds significance threshold of 3.0
See this image and copyright information in PMC

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