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Population Genomic Analyses of Wild and Farmed Striped Catfish Pangasianodon Hypophthalmus in the Lower Mekong River793.62 kB
Published VersionCC BY V4.0, Open Access
Journal article
Population Genomic Analyses of Wild and Farmed Striped Catfish Pangasianodon Hypophthalmus in the Lower Mekong River
Journal of Marine Science and Engineering, Vol.8(6), pp.1-15
2020
Abstract
The striped catfish Pangasianodon hypophthalmus is an important freshwater fish cultured in many countries where the collection of wild brooders is still widely practiced. Global farming development of this species makes use of significant natural resources that pose challenges for the genetic diversity of striped catfish. Hence, this study aims to conduct a systematic genetic diversity assessment of wild and farmed catfish stocks collected from four major pangasius-farming countries, using a new genotyping by sequencing platform known as DArT-seq technology. Our population genomic analyses using 7263 single-nucleotide polymorphisms (SNPs) after high-quality-control showed that there were two distinct populations of striped catfish in the lower Mekong river: (i) wild catfish from Thailand and (ii) catfish from Cambodia and Vietnam. The genetic diversity was greatest (0.363) in the wild stock from Thailand, but it was lower in farmed and wild stocks in other countries (0.049 to 0.088). The wild stocks were more genetically diverse than the farmed animals (0.103 vs. 0.064). The inbreeding coefficient ranged from 0.004 and 0.109, with the lowest value (−0.499) in the wild animals from Thailand. Molecular inference methods revealed high degree of historical effective population size (1043.9–1258.4), but there was considerable decline in the contemporary estimates in all populations (10.8 to 73.6). Our additional analyses calculating divergent times and migration patterns showed that the wild catfish from Thailand stand out as separate lineages, while those from Cambodia and Vietnam are genetically identical. Our results also indicated that the cultured stock in Bangladesh originated from the lower part of the Mekong river. These findings have significant practical implications in the context of genetic selection and conservation of striped catfish in the region. Collectively, they will contribute to the sustainable development of the striped catfish sector in these countries.
Details
- Title
- Population Genomic Analyses of Wild and Farmed Striped Catfish Pangasianodon Hypophthalmus in the Lower Mekong River
- Authors
- Nguyen Thanh Vu (Author) - University of the Sunshine Coast, Queensland, School of Science and Engineering - LegacyTran Thi Thuy Ha (Author) - Research Institute for Aquaculture No1Vo Thi Bich Thuy (Author) - Vietnam Academy of Science and TechnologyVu Thi Trang (Author) - Research Institute for Aquaculture No1Nguyen Hong Nguyen (Author) - University of the Sunshine Coast, Queensland, School of Science and Engineering - Legacy
- Publication details
- Journal of Marine Science and Engineering, Vol.8(6), pp.1-15
- Publisher
- MDPI AG
- Date published
- 2020
- DOI
- 10.3390/jmse8060471
- ISSN
- 2077-1312
- Copyright note
- © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).
- Organisation Unit
- Faculty of Science, Health, Education and Engineering; School of Science and Engineering - Legacy; Faculty of Arts, Business and Law; School of Science, Technology and Engineering; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99482304402621
- Output Type
- Journal article
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- Collaboration types
- Domestic collaboration
- International collaboration
- Web Of Science research areas
- Engineering, Marine
- Engineering, Ocean
- Oceanography