Sibship assignment to the founders of a Bangladeshi Catla catla breeding population

Loading...
Thumbnail Image
Files
s12711-019-0454-x.pdf(1.6 MB)
Published version
12711_2019_454_MOESM1_ESM.pdf(311.54 KB)
Published version
12711_2019_454_MOESM2_ESM.pdf(270.16 KB)
Published version
Date
2019-04-29
Authors
Hamilton, Matthew G.
Mekkawy, Wagdy
Benzie, John A. H.
Journal Title
Journal ISSN
Volume Title
Publisher
BMC part of Springer Nature
Research Projects
Organizational Units
Journal Issue
Abstract
Catla catla (Hamilton) fertilised spawn was collected from the Halda, Jamuna and Padma rivers in Bangladesh from which approximately 900 individuals were retained as ‘candidate founders’ of a breeding population. These fish were fin-clipped and genotyped using the DArTseq platform to obtain, 3048 single nucleotide polymorphisms (SNPs) and 4726 silicoDArT markers. Using SNP data, individuals that shared no putative parents were identified using the program COLONY, i.e. 140, 47 and 23 from the Halda, Jamuna and Padma rivers, respectively. Allele frequencies from these individuals were considered as representative of those of the river populations, and genomic relationship matrices were generated. Then, half-sibling and full-sibling relationships between individuals were assigned manually based on the genomic relationship matrices. Many putative half-sibling and full-sibling relationships were found between individuals from the Halda and Jamuna rivers, which suggests that catla sampled from rivers as spawn are not necessarily representative of river populations. This has implications for the interpretation of past population genetics studies, the sampling strategies to be adopted in future studies and the management of broodstock sourced as river spawn in commercial hatcheries. Using data from individuals that shared no putative parents, overall multi-locus pairwise estimates of Wright’s fixation index (FST) were low (≤ 0.013) and the optimum number of clusters using unsupervised K-means clustering was equal to 1, which indicates little genetic divergence among the SNPs included in our study within and among river populations.
Description
Keywords
Bangladesh , Catla catla (Hamilton) , Breeding population
Citation
Hamilton, M.G., Mekkawy, W. and Benzie, J.A., 2019. Sibship assignment to the founders of a Bangladeshi Catla catla breeding population. Genetics Selection Evolution, 51(1), (17). DOI:10.1186/s12711-019-0454-x