Marine Biotechnology

, Volume 19, Issue 3, pp 277–286 | Cite as

Identification of Sex-determining Loci in Pacific White Shrimp Litopeneaus vannamei Using Linkage and Association Analysis

  • Yang Yu
  • Xiaojun Zhang
  • Jianbo Yuan
  • Quanchao Wang
  • Shihao Li
  • Hao Huang
  • Fuhua LiEmail author
  • Jianhai XiangEmail author
Original Article


The Pacific white shrimp Litopenaeus vannamei is a predominant aquaculture shrimp species in the world. Like other animals, the L. vannamei exhibited sexual dimorphism in growth trait. Mapping of the sex-determining locus will be very helpful to clarify the sex determination system and further benefit the shrimp aquaculture industry towards the production of mono-sex stocks. Based on the data used for high-density linkage map construction, linkage-mapping analysis was conducted. The sex determination region was mapped in linkage group (LG) 18. A large region from 0 to 21.205 cM in LG18 showed significant association with sex. However, none of the markers in this region showed complete association with sex in the other populations. So an association analysis was designed using the female parent, pool of female progenies, male parent, and pool of male progenies. Markers were de novo developed and those showing significant differences between female and male pools were identified. Among them, three sex-associated markers including one fully associated marker were identified. Integration of linkage and association analysis showed that the sex determination region was fine-mapped in a small region along LG18. The identified sex-associated marker can be used for the sex detection of this species at genetic level. The fine-mapped sex-determining region will contribute to the mapping of sex-determining gene and help to clarify sex determination system for L. vannamei.


Linkage mapping Association mapping Sex determination loci Pacific white shrimp 


Compliance with Ethical Standards


This work is supported by National Natural Science Foundation of China (Grant Nos. 31502161 and 31302171, the Joint NSFC-ISF Research Program (31461143007), China Agriculture Research System-47 (CARS-47), and the Scientific and Technological Innovation Project Financially Supported by Qingdao National Laboratory for Marine Science and Technology (No. 2015ASKJ02).

Conflict of Interest

The authors declare that they have no competing interests.

Supplementary material

10126_2017_9749_Fig5_ESM.gif (127 kb)
Supplementary Fig. S1

Demonstration of sequence difference of Marker24863 between female and male individuals in the mapping family. (GIF 127 kb)

10126_2017_9749_MOESM5_ESM.tiff (991 kb)
High-resolution image (TIFF 991 kb)
10126_2017_9749_Fig6_ESM.gif (144 kb)
Supplementary Fig. S2

Demonstration of sequence difference of Marker24577 between female and male individuals in the mapping family. (GIF 144 kb)

10126_2017_9749_MOESM6_ESM.tiff (1.1 mb)
High-resolution image (TIFF 1080 kb)
10126_2017_9749_Fig7_ESM.gif (177 kb)
Supplementary Fig. S3

Demonstration of sequence difference of Marker19299 between female and male individuals in the mapping family. (GIF 176 kb)

10126_2017_9749_MOESM7_ESM.tiff (1.2 mb)
High-resolution image (TIFF 1243 kb)
10126_2017_9749_MOESM1_ESM.xlsx (10 kb)
Supplementary Table S1 Association analysis of candidate sex markers with phenotypic sex trait using R/SNPassoc in the mapping family. (XLSX 10 kb)
10126_2017_9749_MOESM2_ESM.xlsx (10 kb)
Supplementary Table S2 Marker name and sequences of candidate sex-associated polymorphic SLAF markers. (XLSX 9 kb)
10126_2017_9749_MOESM3_ESM.xlsx (10 kb)
Supplementary Table S3 Marker name and sequences of candidate sex-associated non-polymorphic SLAF markers. (XLSX 10 kb)
10126_2017_9749_MOESM4_ESM.xlsx (10 kb)
Supplementary Table S4 Primer sequences for amplifying the sex-linked markers identified by association analysis. (XLSX 9 kb)


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Copyright information

© Springer Science+Business Media New York 2017

Authors and Affiliations

  • Yang Yu
    • 1
  • Xiaojun Zhang
    • 1
  • Jianbo Yuan
    • 1
  • Quanchao Wang
    • 1
    • 2
  • Shihao Li
    • 1
  • Hao Huang
    • 3
  • Fuhua Li
    • 1
    • 4
    Email author
  • Jianhai Xiang
    • 1
    • 4
    Email author
  1. 1.Key Laboratory of Experimental Marine Biology, Institute of OceanologyChinese Academy of SciencesQingdaoChina
  2. 2.University of Chinese Academy of SciencesBeijingChina
  3. 3.Hainan Guangtai Ocean Breeding Co., Ltd.WenchangChina
  4. 4.Laboratory for Marine Biology and BiotechnologyQingdao National Laboratory for Marine Science and TechnologyQingdaoChina

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