Details

Autor(en) / Beteiligte

• Ciezarek, A.
• Ford, Antonia G.P.
• Etherington, Graham J.
• Kasozi, Nasser
• Malinsky, Milan
• Mehta, Tarang K.
• Penso-Dolfin, Luca
• Ngatunga, Benjamin P.
• Shechonge, Asilatu
• Tamatamah, Rashid
• Haerty, Wilfried
• Di Palma, Federica
• Genner, Martin J.
• Turner, George F.

Titel

Whole genome resequencing data enables a targeted SNP panel for conservation and aquaculture of Oreochromis cichlid fishes

Ist Teil von

• Aquaculture, 2022-02, Vol.548, p.737637-737637, Article 737637

Ort / Verlag

Netherlands: Elsevier B.V

Erscheinungsjahr

2022

Quelle

Alma/SFX Local Collection

Beschreibungen/Notizen

• Cichlid fish of the genus Oreochromis form the basis of the global tilapia aquaculture and fisheries industries. Broodstocks for aquaculture are often collected from wild populations, which in Africa may be from locations containing multiple Oreochromis species. However, many species are difficult to distinguish morphologically, hampering efforts to maintain good quality farmed strains. Additionally, non-native farmed tilapia populations are known to be widely distributed across Africa and to hybridize with native Oreochromis species, which themselves are important for capture fisheries. The morphological identification of these hybrids is particularly unreliable. Here, we describe the development of a single nucleotide polymorphism (SNP) genotyping panel from whole-genome resequencing data that enables targeted species identification in Tanzania. We demonstrate that an optimized panel of 96 genome-wide SNPs based on FST outliers performs comparably to whole genome resequencing in distinguishing species and identifying hybrids. We also show this panel outperforms microsatellite-based and phenotype-based classification methods. Case studies indicate several locations where introduced aquaculture species have become established in the wild, threatening native Oreochromis species. The novel SNP markers identified here represent an important resource for assessing broodstock purity in hatcheries and helping to conserve unique endemic biodiversity. •We present a novel panel of 96 SNPs, which can be used to accurately distinguish species and hybrids of Oreochromis tilapias.•This SNP panel performs comparably to full-genome data, and is more reliable than microsatellite or morphological assignment.•This will enable assessment of broodstock for aquaculture, as well as hybridisation between invasive and native tilapia.