Development of novel tetra- and trinucleotide microsatellite markers for giant grouper Epinephelus lanceolatus using 454 pyrosequencing SCIE SCOPUS

Cited 7 time in WEB OF SCIENCE Cited 7 time in Scopus
Title
Development of novel tetra- and trinucleotide microsatellite markers for giant grouper Epinephelus lanceolatus using 454 pyrosequencing
Author(s)
Kim, Keun-Sik; Noh, Choong Hwan; Moon, Shin-Joo; Han, Seung-Hee; Bang, In-Chul
KIOST Author(s)
Noh, Choong Hwan(노충환)
Publication Year
2016-06
Abstract
Giant grouper (Epinephelus lanceolatus) is a commercially important species, but its wild population has recently been classified as vulnerable. This species has significant potential for use in aquaculture, though a greater understanding of population genetics is necessary for selective breeding programs to minimize kinship for genetically healthy individuals. High-throughput pyrosequencing of genomic DNA was used to identify and characterize novel tetra- and trinucleotide microsatellite markers in giant grouper from Sabah, Malaysia. In total, of 62,763 sequences containing simple sequence repeats (SSRs) were obtained, and 78 SSR loci were selected to possibly contain tetra- and trinucleotide repeats. Of these loci, 16 had tetra- and 8 had trinucleotide repeats, all of which exhibited polymorphisms within easily genotyped regions. A total of 143 alleles were identified with an average of 5.94 alleles per locus, with mean observed and expected heterozygosities of 0.648 and 0.620, respectively. Among of them, 15 microsatellite markers were identified without null alleles and with Hardy-Weinberg equilibrium. These alleles showed a combined non-exclusion probability of 0.01138. The probability of individual identification (P-ID) value combined with in descending order 12 microsatellite markers was 0.00008, which strongly suggests that the use of the microsatellite markers developed in this study in various combinations would result in a high resolution method for parentage analysis and individual identification. These markers could be used to establish a broodstock management program for giant grouper and to provide a foundation for genetic studies such as population structure, parentage analysis, and kinship selection.
ISSN
0301-4851
URI
https://sciwatch.kiost.ac.kr/handle/2020.kiost/2188
DOI
10.1007/s11033-016-3980-4
Bibliographic Citation
MOLECULAR BIOLOGY REPORTS, v.43, no.6, pp.541 - 548, 2016
Publisher
SPRINGER
Subject
CROSS-AMPLIFICATION; LOCI; TECHNOLOGIES; POPULATIONS; STRATEGIES; SOFTWARE; WINDOWS; SYSTEM; TESTS
Keywords
Epinephelus lanceolatus; Giant grouper; Pyrosequencing; Genetic diversity; Microsatellite; Kinship
Type
Article
Language
English
Document Type
Article
Publisher
SPRINGER
Related Researcher
Research Interests

Fish genetics and breeding,Living modified organism,Sbtropical mariculture,어류유전육종,어류형질전환,아열대어류양식

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