Abstract：Abstract Microsatellite marker (SSR) was an effective method of analysis of genetic diversity of fish. The genetic variation in Epinephelus lanceolatus (♂), E. moara (♀) and their hybrid progenies Yunlong grouper were studied by using 27 pairs of microsatellite primers from the relative species of Epinephelus. Polymorphism was detected in Yunlong grouper by using 25 of 27 SSR markers. The genetic diversities of 3 grouper species were analyzed by calculating the effective allele number(Ne), observed heterozygosity`(Ho), expected heterozygosity(He), Shannon index(I), genetic similarity Nei's genetic distance, polymorphism information content (PIC), Overall inbreeding coefficient (Fit), inbreeding coefficient in population(Fis), genetic differentiation coefficient (Fst). The results showed that the average Ne were most in E. moara (2.8926), followed by Yunlong grouper (2.8010), and the smallest in E. lanceolatus (2.0564). The average Ho of E. moara, E. lanceolatus and Yunlong grouper were 0.604 6, 0.566 1 and 0.501 0, the average polymorphic information content were 0.577 8, 0.544 6 and 0.342 0. The inbreeding coefficient of the 3 populations was 0.150 8, and the genetic differentiation coefficient among populations was 0.067 7, which indicated that 6.77% of the genetic variation was from intergroup, and 93.23% of the genetic variation came from the differences among individuals in the population. The genetic differentiation coefficient was -0.072 2 among the 3 grouper species, and the intergroup population gene flow (Nm) was 2.396 3. The cluster analysis diagram constructed by using the UPGMA method showed that the hybrid Yunlong grouper and the female E. moara first clustered together. The results could provide the genetic basis for the formation of heterosis traits of Yunlong grouper and the identification of hybrid germplasm at the molecular level.
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