Isolation and characterization of 20 polymorphic microsatellites loci for Xenocypris davidi based on high-throughput seq
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Isolation and characterization of 20 polymorphic microsatellites loci for Xenocypris davidi based on high‑throughput sequencing Aihuan Guo1 · Julin Yuan1 · Qingping Lian1 · Ming Li2 · Zhimin Gu1 Received: 9 May 2020 / Accepted: 9 September 2020 © Springer Nature B.V. 2020
Abstract Xenocypris davidi is one of the most economically important freshwater fish in China. However, few molecular markers have been reported for this species, impeding in-depth population genetic, dispersal, and gene flow studies. In the present study, a batch of novel polymorphic microsatellites from the genome of X. davidi were isolated and characterized using highthroughput sequencing. A total of 20 microsatellite markers were isolated. Analysis of 33 individuals revealed an average of 7.35 alleles per locus, ranging from 3 to 18. The observed and expected heterozygosities ranged from 0.3 to 1 and from 0.426 to 0.93, respectively. Only one tested locus significantly deviated from Hardy–Weinberg equilibrium. 18 microsatellite loci were highly polymorphic (PIC > 0.5). These newly isolated microsatellite markers would be useful to study the population genetics and stock management of X. davidi. Keywords Xenocypris davidi · Polymorphic · Genetic diversity · Simple sequence repeat (SSR) markers · Primer development · Cyprinidae
Introduction Xenocypris davidi (Bleeker, 1871) is a member of Xenocypris, belonging to Cypriniformes, Cyprinidae. It is an economically important, freshwater fish species that is widely distributed in rivers, lakes, and reservoirs in China [1, 2]. In recent decades, owing to the construction of dams, overfishing, habitat degradation, pollution of water, and other human Accession codes Sequences containing the microsatellite loci were deposited in GenBank under Accession Numbers MK888833–MK888852. * Julin Yuan [email protected] * Zhimin Gu [email protected] 1
Agriculture Ministry Key Laboratory of Healthy Freshwater Aquaculture, Key Laboratory of Freshwater Aquaculture Genetic and Breeding of Zhejiang Province, Zhejiang Research Center of East China Sea Fishery Research Institute, Zhejiang Institute of Freshwater Fisheries, 999th South Hangchangqiao Road, Wuxing District, Huzhou 313000, China
Jinhua Fisheries Technology Extension Station, Jinhua 321000, China
2
disturbances, the number and biomass of some X. davidi local populations declined sharply [3]. To restore fisheries and improve water quality, X. davidi has been stocked in natural waters since the 1980s [3]. For instance, 1.45 × 109 artificially propagated fry were stocked in the natural waters of Zhejiang Province in 2017. Xiao et al. [4] suggested that understanding the population genetic structure is an important prerequisite to effective conservation and stock management of a species. Therefore, it is necessary to evaluate the population genetic structure, dispersal and gene flow of X. davidi, especially the enhancement populations. At present, there are few genomic resources and molecular markers available for X. david
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