Molecular markers for identifying a new selected variety of Pacific white shrimp Litopenaeus vannamei

• Published in: Chinese journal of oceanology and limnology 2015-01, Vol.33 (1), p.1-10
• Main Author: 于洋 张晓军 刘敬文 李富花 黄皓 李义军 刘小林 相建海
• Format: Article
• Language: English
• Subjects: Analysis; Aquaculture; Bayesian analysis; Biology; Crustaceans; Decapoda; Disease resistance; Earth and Environmental Science; Earth Sciences; genetic markers; Genotype & phenotype; Genotyping; Growth rate; Haplotypes; Litopenaeus vannamei; Marine; microsatellite repeats; Microsatellites; Mitochondria; New variety; Oceanography; Probability theory; selection methods; Selective breeding; shrimp; Shrimps; Stocks; Taxonomy; 凡纳滨对虾; 分子标记; 南美白对虾; 微卫星位点; 控制区序列; 标记鉴定; 线粒体控制区; 选择品种
• ISSN: 0254-4059; 2096-5508; 1993-5005; 2523-3521
• DOI: 10.1007/s00343-014-3232-1

Selective breeding of the Pacific white shrimp Litopenaeus vannamei during the last decade has produced new varieties exhibiting high growth rates and disease resistance. However, the identification of new varieties of shrimps from their phenotypic characters is difficult. This study introduces a new approach for identifying varieties of shrimps using molecular markers of microsatellites and mitochondrial control region sequences. The method was employed to identify a new selected variety, Kehai No. 1 （KH-1）, from three representative stocks （control group）： Zhengda; Tongwei; and a stock collected from Fujian Province, which is now cultured in mainland China. By pooled genotyping of KH-1 and the control group, five microsatellites showing differences between KH-1 and the control group were screened out. Individual genotyping data confirmed the results from pooled genotyping. The genotyping data for the five microsatellites were applied to the assignment analysis of the KH-1 group and the control group using the partial Bayesian assignment method in GENECLASS2. By sequencing the mitochondrial control regions of individuals from the KH-1 and control group, four haplotypes were observed in the KH-1 group, whereas 14 haplotypes were obtained in the control group. By combining the microsatellite assignment analysis with mitochondrial control region analysis, the average accuracy of identification of individuals in the KH-1 group and control group reached 89%. The five selected microsatellite loci and mitochondrial control region sequences were highly polymorphic and could be used to distinguish new selected varieties ofL. vannamei from other populations cultured in China.