Characterization of Microsatellite Distribution in Siamese Fighting Fish Genome to Promote Conservation and Genetic Diversity
The Siamese fighting fish (<i>Betta splendens</i>) is a well-known ornamental fish and emerging model species for studying animal morphology, physiology, and behavior. A key concern of betta inbreeding is the decline in genetic diversity resulting from commercial breeding programs. There...
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| Format: | Article |
| Language: | English |
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MDPI AG
2022-09-01
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| Series: | Fishes |
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| Online Access: | https://www.mdpi.com/2410-3888/7/5/251 |
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| author | Pish Wattanadilokchatkun Thitipong Panthum Kitipong Jaisamut Syed Farhan Ahmad Sahabhop Dokkaew Narongrit Muangmai Prateep Duengkae Worapong Singchat Kornsorn Srikulnath |
| author_facet | Pish Wattanadilokchatkun Thitipong Panthum Kitipong Jaisamut Syed Farhan Ahmad Sahabhop Dokkaew Narongrit Muangmai Prateep Duengkae Worapong Singchat Kornsorn Srikulnath |
| author_sort | Pish Wattanadilokchatkun |
| collection | DOAJ |
| description | The Siamese fighting fish (<i>Betta splendens</i>) is a well-known ornamental fish and emerging model species for studying animal morphology, physiology, and behavior. A key concern of betta inbreeding is the decline in genetic diversity resulting from commercial breeding programs. Therefore, it is essential to develop markers for understanding the genetic bases of the domestication and phenotypic diversification of this species. We utilized the previously assembled genome of Siamese fighting fish to identify and characterize microsatellites and compare their genomic organization across different species. We annotated 812,134 microsatellite loci spanning 30.70 Mb, accounting for 6.57% of the Siamese fighting fish genome. We performed in silico polymorphism screening of microsatellites in the Siamese fighting fish and related species and present these sequences as candidate markers for cross-species amplification. In addition, we successfully validated two microsatellite loci using PCR-based assays in different species, which can promote further genetic characterization of diverse betta lineages. The set of polymorphic markers identified in this study may facilitate the assessment of genetic diversity and population structure and marker-assisted selection, among other applications. |
| first_indexed | 2024-03-09T20:13:56Z |
| format | Article |
| id | doaj.art-cbff3abacc26443fb847a45da9946c57 |
| institution | Directory Open Access Journal |
| issn | 2410-3888 |
| language | English |
| last_indexed | 2024-03-09T20:13:56Z |
| publishDate | 2022-09-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Fishes |
| spelling | doaj.art-cbff3abacc26443fb847a45da9946c572023-11-24T00:06:15ZengMDPI AGFishes2410-38882022-09-017525110.3390/fishes7050251Characterization of Microsatellite Distribution in Siamese Fighting Fish Genome to Promote Conservation and Genetic DiversityPish Wattanadilokchatkun0Thitipong Panthum1Kitipong Jaisamut2Syed Farhan Ahmad3Sahabhop Dokkaew4Narongrit Muangmai5Prateep Duengkae6Worapong Singchat7Kornsorn Srikulnath8Animal Genomics and Bioresource Research Unit (AGB Research Unit), Faculty of Science, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandAnimal Genomics and Bioresource Research Unit (AGB Research Unit), Faculty of Science, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandAnimal Genomics and Bioresource Research Unit (AGB Research Unit), Faculty of Science, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandAnimal Genomics and Bioresource Research Unit (AGB Research Unit), Faculty of Science, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandDepartment of Aquaculture, Faculty of Fisheries, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandAnimal Genomics and Bioresource Research Unit (AGB Research Unit), Faculty of Science, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandAnimal Genomics and Bioresource Research Unit (AGB Research Unit), Faculty of Science, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandAnimal Genomics and Bioresource Research Unit (AGB Research Unit), Faculty of Science, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandAnimal Genomics and Bioresource Research Unit (AGB Research Unit), Faculty of Science, Kasetsart University, 50 Ngamwongwan, Chatuchak, Bangkok 10900, ThailandThe Siamese fighting fish (<i>Betta splendens</i>) is a well-known ornamental fish and emerging model species for studying animal morphology, physiology, and behavior. A key concern of betta inbreeding is the decline in genetic diversity resulting from commercial breeding programs. Therefore, it is essential to develop markers for understanding the genetic bases of the domestication and phenotypic diversification of this species. We utilized the previously assembled genome of Siamese fighting fish to identify and characterize microsatellites and compare their genomic organization across different species. We annotated 812,134 microsatellite loci spanning 30.70 Mb, accounting for 6.57% of the Siamese fighting fish genome. We performed in silico polymorphism screening of microsatellites in the Siamese fighting fish and related species and present these sequences as candidate markers for cross-species amplification. In addition, we successfully validated two microsatellite loci using PCR-based assays in different species, which can promote further genetic characterization of diverse betta lineages. The set of polymorphic markers identified in this study may facilitate the assessment of genetic diversity and population structure and marker-assisted selection, among other applications.https://www.mdpi.com/2410-3888/7/5/251bettamicrosatellitegenomediversitysex chromosometransferability |
| spellingShingle | Pish Wattanadilokchatkun Thitipong Panthum Kitipong Jaisamut Syed Farhan Ahmad Sahabhop Dokkaew Narongrit Muangmai Prateep Duengkae Worapong Singchat Kornsorn Srikulnath Characterization of Microsatellite Distribution in Siamese Fighting Fish Genome to Promote Conservation and Genetic Diversity Fishes betta microsatellite genome diversity sex chromosome transferability |
| title | Characterization of Microsatellite Distribution in Siamese Fighting Fish Genome to Promote Conservation and Genetic Diversity |
| title_full | Characterization of Microsatellite Distribution in Siamese Fighting Fish Genome to Promote Conservation and Genetic Diversity |
| title_fullStr | Characterization of Microsatellite Distribution in Siamese Fighting Fish Genome to Promote Conservation and Genetic Diversity |
| title_full_unstemmed | Characterization of Microsatellite Distribution in Siamese Fighting Fish Genome to Promote Conservation and Genetic Diversity |
| title_short | Characterization of Microsatellite Distribution in Siamese Fighting Fish Genome to Promote Conservation and Genetic Diversity |
| title_sort | characterization of microsatellite distribution in siamese fighting fish genome to promote conservation and genetic diversity |
| topic | betta microsatellite genome diversity sex chromosome transferability |
| url | https://www.mdpi.com/2410-3888/7/5/251 |
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