Record Details

Genetic differentiation following recent domestication events: A study of farmed Nile tilapia (Oreochromis niloticus) populations

CGSpace

View Archive Info
 
 
Field Value
 
Title Genetic differentiation following recent domestication events: A study of farmed Nile tilapia (Oreochromis niloticus) populations
 
Creator Barria, Agustin
Penaloza, Carolina
Papadopoulou, Athina
Mahmuddin, Mahirah
Benzie, John A.H.
Houston, Ross
Wiener, Pamela
 
Subject aquaculture
nile tilapia
Fish
gift
population genomics
snp array
poolseq
 
Description Nile tilapia (Oreochromis niloticus) is among the most farmed finfish worldwide, distributed across different environmental conditions. Its wide distribution has mainly been facilitated by several breeding programs and widespread dissemination of genetically improved strains. In the first Nile tilapia study exploiting a whole-genome pooled sequencing (Poolseq) approach, we identified the genetic structure and signatures of selection in diverse, farmed Nile tilapia populations, with a particular focus on the GIFT strain, developed in the 1980s, and currently managed by WorldFish (GIFTw). We also investigated important farmed strains from The Philippines and Africa. Using both SNP array data and Poolseq SNPs, we characterized the population structure of these samples. We observed the greatest separation between the Asian and African populations and greater admixture in the Asian populations than in the African ones. We also established that the SNP array data were able to successfully resolve relationships between these diverse Nile tilapia populations. The Poolseq data identified genomic regions with high levels of differentiation (FST) between GIFTw and the other populations. Gene ontology terms associated with mesoderm development were significantly enriched in the genes located in these regions. A region on chromosome Oni06 was genetically differentiated in pairwise comparisons between GIFTw and all other populations. This region contains genes associated with muscle-related traits and overlaps with a previously published QTL for fillet yield, suggesting that these traits may have been direct targets for selection on GIFT. A nearby region was also identified using XP-EHH to detect genomic differentiation using the SNP array data. Genomic regions with high or extended homozygosity within each population were also identified. This study provides putative genomic landmarks associated with the recent domestication process in several Nile tilapia populations, which could help to inform their genetic management and improvement.
 
Date 2023-06
2023-07-06T16:07:33Z
2023-07-06T16:07:33Z
 
Type Journal Article
 
Identifier Agustin Barria, Carolina Penaloza, Athina Papadopoulou, Mahirah Mahmuddin, John Benzie, Ross Houston, Pamela Wiener. (22/6/2023). Genetic differentiation following recent domestication events: A study of farmed Nile tilapia (Oreochromis niloticus) populations. Evolutionary Applications, 16 (6), pp. 1220-1235.
1752-4563
https://hdl.handle.net/10568/131025
https://doi.org/10.1111/eva.13560
 
Language en
 
Rights CC-BY-4.0
Open Access
 
Format 1220-1235
application/pdf
 
Publisher Wiley Open Access
 
Source Evolutionary Applications