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Identifier

000454108

Title

Population genomic analysis on the greater amberjack (Seriola dumerili) in the Mediterranean and Eastern Atlantic, based on single nucleotide polymorphism (SNP) markers

Alternative Title

Γονιδιωματική ανάλυση πληθυσμών μαγιάτικου (Seriola dumerili) στη Μεσόγειο και τον ανατολικό Ατλαντικό με τη χρήση μονονουκλεοτιδικών πολυμορφισμών από δεδομένα αλληλούχισης DNA

Author

Κατιρτζόγλου, Αικατερίνη Α.

Thesis advisor

Τσιγγενόπουλος, Κωνσταντίνος

Reviewer

Μανουσάκη, Τερέζα
Μυλωνάς, Κωνσταντίνος

Abstract

The greater amberjack, Seriola dumerili (Risso, 1810), is an oceanodromous, pelagic species that belongs to the Carangidae family. It has attracted considerable economic interest since the 1990s, because it possesses traits that distinguish it as a promising candidate in aquaculture, such as good-quality fillet and high growth rate. However, the challenges of its successful rearing combined with the need for development of management practices, underline the importance of research into the genetic diversity of wild and farmed stocks. Single Nucleotide Polymorphisms (SNPs) are the most utilized markers in population genetics research due to their abundance in the genome and their easier detection due to the rapid development of sequencing technologies. In the present study, a bioinformatic analysis of DNA sequencing data, after digestion with two restriction enzymes (double digest restriction-site associated DNA sequencing, ddRADseq) of 254 individuals from nine greater amberjack populations was conducted, with the aim of finding single nucleotide polymorphisms. Then, population analyses of the genetic structure of the species in the Mediterranean and the Eastern Atlantic were performed. The pipeline yielded 1,051 SNPs, and two structure scenarios were identified. The first suggests that the species forms two genetically distinct groups, one in the Mediterranean and one in the Atlantic, which is consistent with previous findings, and the second scenario indicates the existence of an admixture zone between the two stocks. Fifteen candidate outlier loci were identified in the dataset, one of which is positioned in a genomic region that is potentially involved in temperature acclimation. This work enriches our knowledge on the genetic diversity of wild populations of the greater amberjack in the Mediterranean and the Eastern Atlantic, and attempts to investigate signs of local adaptation towards a better understanding of the species’ distribution patterns.

Language

English

Subject

Outliers

SNPs

Sequencing

Structure

ddRAD

Δομή

Πληθυσμοί

Issue date

2023-03-24