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Research Article: Analysis of genetic diversity and population structure in a domesticated Asian seabass (Lates calcarifer) population from Iran using microsatellite markers
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S. Nazemroaya *1   , A.S. Sadr2 , M. Torfi Moozanzadeh3 , M. Youneszadeh Feshalami4 , H. Houshmand4 , M. Ahahangarzadeh4 , M. Zabayeh Najafabadi3 , M. Hafezieh5 , M. Mirbakhsh5 , M. Golshan5 , M. Sharifian5 , K. Khosraviani6 |
1- South of Iran Aquaculture Research Institute, Iranian Fisheries Science Research Institute (IFSRI), Agricultural Research, Education and Extension Organization (AREEO), Ahvaz, Iran , samira.nazemroaya@gmail.com
2- South of Iran Aquaculture Research Institute, Iranian Fisheries Science Research Institute (IFSRI), Agricultural Research, Education and Extension Organization (AREEO), Ahvaz, Iran & Centre for Evolution and Cancer, Division of Molecular Pathology, The Institute of Cancer Research, Sutton, United Kingdom
3- Bandar-e-Imam Khomeini Marine Fish Research station, South of Iran Aquaculture Research Institute, Iranian Fisheries Science Research Institute (IFSRI), Agricultural Research, Education and Extension Organization (AREEO), Ahvaz, Iran
4- South of Iran Aquaculture Research Institute, Iranian Fisheries Science Research Institute (IFSRI), Agricultural Research, Education and Extension Organization (AREEO), Ahvaz, Iran
5- Iranian Fisheries Science Research Institute (IFSRI), Agricultural Research, Education and Extension Organization (AREEO), Tehran, Iran
6- Department of Fisheries, College of Natural Resources and Marine Science, Tarbiat Modares University, Noor, Iran. |
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Abstract: (20 Views) |
| This study aimed to assess the population structure and genetic diversity of captive Lates calcarifer. The investigation included three cultured cohorts initially imported in 2016, 2018, and 2019 (hereafter termed 96, 98, and 99, respectively) as fry to a Marine Fish Research Station (MFRS) at 12 gene loci. The results indicated that all microsatellite markers were polymorphic in all populations. Across three cohorts, the average allele number was 18.5 per locus with nearly half (49%) of 65 unique alleles detected in cohort 99. The average observed alleles (Na), allele richness (Ne), and Shannon Information index (I) in the whole population were 6.25, 4.22, and 1.54, respectively. The mean observed heterozygosity (Ho) in all three cohorts was obtained as 0.733, which accorded with expected heterozygosity (He). The highest and lowest observed alleles were detected in 99 and 96, respectively. The highest mean Na (7.5), Ne (5.02), and Shannon index (1.72), and lowest mean Na (5.33), Ne (3.67), and I (1.39) were observed in cohorts 99 and 96, respectively. Stock 98 represented the Na, Ne, and I as 5.92, 3.97, and 1.5, respectively. The maximum and minimum Ho belonged to 98 (0.787) and 96 (0.675) cohorts, respectively. The fixation index (F) was low in three cohorts and even showed a negative value in 98 (-0.069). Wright's F-statistics, including FIS, FIT, and FST, estimations were evaluated as -0.01, 0.05, and 0.06, illustrating the non-inbreeding coefficient within the population and overall population and the low coefficient of co-ancestry, respectively. Chi-square tests revealed that all 12 markers conformed to Hardy-Weinberg equilibrium (HWE) in the 98 cohorts. In contrast, cohorts 96 and 99 deviated meaningfully from HWE in one locus (Lca098) and two loci (Lca130 and Lca137) (p<0.01), respectively. Nei's standard genetic distance and Pairwise FST distance between the three cohorts showed the lowest and highest genetic distance between pair cohorts 96-98 and 96-99, respectively. Analysis of molecular variance determined that between-population component of genetic variance (3%) was firmly lower than the within-population component (97%), resulting in meaningful genetic differentiation between populations (FST = 0.033) (p<0.01). Based on the population genetic structure analysis, under the admixture model, the most negligible probability is associated with K=2 in seabass cohorts, meaning two significant distinct genetic structures. We found that these populations in the MFRS may create a base population, a prerequisite for further selective inbreeding programs. |
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| Keywords: Genetic variation, Genetic differentiation, Founder population, Lates calcarifer |
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Full-Text [PDF 535 kb]
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Type of Study: Orginal research papers |
Subject:
Genetics
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