Abstract
Pikeperch (Sander lucioperca) has emerged as a high value species to the aquaculture industry. However, its farming techniques are at an early stage and its production is often performed without a selective breeding program, potentially leading to high levels of inbreeding. In this study, we identified and characterized autozygosity based on genome-wide runs of homozygosity (ROH) on a sample of parental and offspring individuals, determined effective population size (N e ), and assessed relatedness among parental individuals. A mean of 2,235 ± 526 and 1,841 ± 363 ROH segments per individual, resulting in a mean inbreeding coefficient of 0.33 ± 0.06 and 0.25 ± 0.06 were estimated for the progeny and parents, respectively. N e was about 12 until four generations ago and at most 106 for 63 generations in the past, with varying genetic relatedness amongst the parents. This study shows the importance of genomic information when family relationships are unknown and the need of selective breeding programs for reproductive management decisions in the aquaculture industry.
Highlights
Pikeperch (Sander lucioperca) is one of the five species of the genus Sander from the Percidae family
We assessed genome-wide autozygosity in parents and progeny of a pikeperch population based on an ultra-high density single nucleotide polymorphism (SNP) panel
Considering progeny and parents, our results showed that the majority of autozygosity is associated with ancestors over 16 generations ago (Rk ≥ 32)
Summary
Pikeperch (Sander lucioperca) is one of the five species of the genus Sander from the Percidae family. It is a fresh and brackish water fish with a native distribution in Eastern Europe and Western Asia, inhabiting the drainages basins of the Caspian, Baltic, Black, Aral, North, and Aegean Sea basins (Kottelat and Freyhof, 2007; Kestemont et al, 2015) and has been introduced to other countries from Europe, Asia, and North America. In the early 20th century, the production of pikeperch as restocking material for open waters began, being produced as monoculture or polyculture with carp. Pikeperch farming techniques are at an early stage in Europe, its growing consumer demand has placed it as a candidate for aquaculture diversification, initiating over the last decades research projects to accelerate its production in intensive inland aquaculture systems
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