Genotyping-by-Sequencing Reveals the Impact of Restocking on Wild Common Carp Populations of the Southern Caspian Basin
Understanding the population structure and level of genetic diversity of wild populations is fundamental for appropriate stock management and species conservation. The common carp (Cyprinus carpio) is one of the most important bony fish throughout the Southern coastline of the Caspian Sea, but captu...
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2022-04-01
|
| Series: | Frontiers in Ecology and Evolution |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fevo.2022.872176/full |
| _version_ | 1818011084303368192 |
|---|---|
| author | Omid Jafari Mehrshad Zeinalabedini Diego Robledo Jorge M. O. Fernandes Ali-Akbar Hedayati Babak Arefnezhad |
| author_facet | Omid Jafari Mehrshad Zeinalabedini Diego Robledo Jorge M. O. Fernandes Ali-Akbar Hedayati Babak Arefnezhad |
| author_sort | Omid Jafari |
| collection | DOAJ |
| description | Understanding the population structure and level of genetic diversity of wild populations is fundamental for appropriate stock management and species conservation. The common carp (Cyprinus carpio) is one of the most important bony fish throughout the Southern coastline of the Caspian Sea, but captures of this species have seen a dramatic reduction during the last decade. As a consequence, a restocking program has been put in place to maintain C. carpio populations, but its impact is not clear. In the present study, the population structure and genetic diversity of C. carpio in the Southern Caspian basin was determined using 17,828 single-nucleotide polymorphism (SNP) markers. A total of 117 individuals collected from four different locations in the southern Caspian basin and a farm were genotyped by genotyping-by-sequencing. The overall Fst obtained was 0.04, indicating a low level of differentiation between populations, and most genetic diversity was attributed to within population variation (97%). The low Fst values suggest that frequent migration events between different locations occur, and three migration events were inferred in the present study. However, each population still showed a distinct genetic profile, which allowed distinguishing the origin of the fish. This indicates that the ongoing restocking program is maintaining the differences between populations to some extent. Nonetheless, high inbreeding and low heterozygosity were detected in all populations, suggesting that additional conservation efforts are required to protect C. carpio populations in the Southern coast of the Caspian Sea. |
| first_indexed | 2024-04-14T06:02:52Z |
| format | Article |
| id | doaj.art-98ab294668ad439989804acf28ad641d |
| institution | Directory Open Access Journal |
| issn | 2296-701X |
| language | English |
| last_indexed | 2024-04-14T06:02:52Z |
| publishDate | 2022-04-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Ecology and Evolution |
| spelling | doaj.art-98ab294668ad439989804acf28ad641d2022-12-22T02:08:41ZengFrontiers Media S.A.Frontiers in Ecology and Evolution2296-701X2022-04-011010.3389/fevo.2022.872176872176Genotyping-by-Sequencing Reveals the Impact of Restocking on Wild Common Carp Populations of the Southern Caspian BasinOmid Jafari0Mehrshad Zeinalabedini1Diego Robledo2Jorge M. O. Fernandes3Ali-Akbar Hedayati4Babak Arefnezhad5International Sturgeon Research Institute, Iranian Fisheries Science Research Institute, Agricultural Research, Education and Extension Organization, Rasht, IranDepartment of Genomics, Agricultural Biotechnology Research Institute of Iran (ABRII), Karaj, IranThe Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh, Midlothian, United KingdomFaculty of Biosciences and Aquaculture, Nord University, Bodø, NorwayDepartment of Fisheries, Faculty of Fisheries and Environmental Sciences, Gorgan University of Agricultural Sciences and Natural Resources, Gorgan, IranOMICS Research Group (Media Teb Gene Co. Ltd.), Tehran, IranUnderstanding the population structure and level of genetic diversity of wild populations is fundamental for appropriate stock management and species conservation. The common carp (Cyprinus carpio) is one of the most important bony fish throughout the Southern coastline of the Caspian Sea, but captures of this species have seen a dramatic reduction during the last decade. As a consequence, a restocking program has been put in place to maintain C. carpio populations, but its impact is not clear. In the present study, the population structure and genetic diversity of C. carpio in the Southern Caspian basin was determined using 17,828 single-nucleotide polymorphism (SNP) markers. A total of 117 individuals collected from four different locations in the southern Caspian basin and a farm were genotyped by genotyping-by-sequencing. The overall Fst obtained was 0.04, indicating a low level of differentiation between populations, and most genetic diversity was attributed to within population variation (97%). The low Fst values suggest that frequent migration events between different locations occur, and three migration events were inferred in the present study. However, each population still showed a distinct genetic profile, which allowed distinguishing the origin of the fish. This indicates that the ongoing restocking program is maintaining the differences between populations to some extent. Nonetheless, high inbreeding and low heterozygosity were detected in all populations, suggesting that additional conservation efforts are required to protect C. carpio populations in the Southern coast of the Caspian Sea.https://www.frontiersin.org/articles/10.3389/fevo.2022.872176/fullCyprinus carpiogenomic population structureconservationSNPs (single-nucleotide polymorphism)genotyping-by-sequencing (GBS) |
| spellingShingle | Omid Jafari Mehrshad Zeinalabedini Diego Robledo Jorge M. O. Fernandes Ali-Akbar Hedayati Babak Arefnezhad Genotyping-by-Sequencing Reveals the Impact of Restocking on Wild Common Carp Populations of the Southern Caspian Basin Frontiers in Ecology and Evolution Cyprinus carpio genomic population structure conservation SNPs (single-nucleotide polymorphism) genotyping-by-sequencing (GBS) |
| title | Genotyping-by-Sequencing Reveals the Impact of Restocking on Wild Common Carp Populations of the Southern Caspian Basin |
| title_full | Genotyping-by-Sequencing Reveals the Impact of Restocking on Wild Common Carp Populations of the Southern Caspian Basin |
| title_fullStr | Genotyping-by-Sequencing Reveals the Impact of Restocking on Wild Common Carp Populations of the Southern Caspian Basin |
| title_full_unstemmed | Genotyping-by-Sequencing Reveals the Impact of Restocking on Wild Common Carp Populations of the Southern Caspian Basin |
| title_short | Genotyping-by-Sequencing Reveals the Impact of Restocking on Wild Common Carp Populations of the Southern Caspian Basin |
| title_sort | genotyping by sequencing reveals the impact of restocking on wild common carp populations of the southern caspian basin |
| topic | Cyprinus carpio genomic population structure conservation SNPs (single-nucleotide polymorphism) genotyping-by-sequencing (GBS) |
| url | https://www.frontiersin.org/articles/10.3389/fevo.2022.872176/full |
| work_keys_str_mv | AT omidjafari genotypingbysequencingrevealstheimpactofrestockingonwildcommoncarppopulationsofthesoutherncaspianbasin AT mehrshadzeinalabedini genotypingbysequencingrevealstheimpactofrestockingonwildcommoncarppopulationsofthesoutherncaspianbasin AT diegorobledo genotypingbysequencingrevealstheimpactofrestockingonwildcommoncarppopulationsofthesoutherncaspianbasin AT jorgemofernandes genotypingbysequencingrevealstheimpactofrestockingonwildcommoncarppopulationsofthesoutherncaspianbasin AT aliakbarhedayati genotypingbysequencingrevealstheimpactofrestockingonwildcommoncarppopulationsofthesoutherncaspianbasin AT babakarefnezhad genotypingbysequencingrevealstheimpactofrestockingonwildcommoncarppopulationsofthesoutherncaspianbasin |