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dc.creatorNayfa, M.en_US
dc.creatorJones, D.B.en_US
dc.creatorBenzie, J.en_US
dc.creatorJerry, D.en_US
dc.creatorZenger, K.R.en_US
dc.identifier.citationNayfa, M. G. et al. (2020). Comparing genomic signatures of selection between the Abbassa Strain and eight wild populations of Nile tilapia (Oreochromis niloticus) in Egypt. Frontiers in Genetics, accepted 31 August.en_US
dc.description.abstractDomestication to captive rearing conditions, along with targeted selective breeding have genetic consequences that vary from those in wild environments. Nile tilapia (Oreochromis niloticus) is one of the most translocated and farmed aquaculture species globally, farmed throughout Asia, North and South America, and its African native range. In Egypt, a breeding program established the Abbassa Strain of Nile tilapia (AS) in 2002 based on local broodstock sourced from the Nile River. The AS has been intensively selected for growth and has gone through genetic bottlenecks which have likely shifted levels and composition of genetic diversity within the strain. Consequently, there are questions on the possible genetic impact AS escapees may have on endemic populations of Nile tilapia. However, to date there have been no genetic studies comparing genetic changes in the domesticated AS to local wild populations. This study used 9,827 genome-wide SNPs to investigate population genetic structure and signatures of selection in the AS (generations 9-11) and eight wild Nile tilapia populations from Egypt. SNP analyses identified two major genetic clusters (captive and wild populations), with wild populations showing evidence of isolation-by-distance among the Nile Delta and upstream riverine populations. Between genetic clusters, approximately 6.9% of SNPs were identified as outliers with outliers identified on all 22 O. niloticus chromosomes. A lack of localized outlier clustering on the genome suggests that no genes of major effect were presently detected. The AS has retained high levels of genetic diversity (Ho_All = 0.21±0.01; He_All= 0.23±0.01) when compared to wild populations (Ho_All = 0.18±0.01; He_All= 0.17±0.01) after 11 years of domestication and selective breeding. Additionally, 565 SNPs were unique within the AS line. While these private SNPs may be due to domestication signals or founder effects, it is suspected that introgression with blue tilapia (O. aureus) has occurred. This study highlights the importance of understanding the effects of domestication in addition to wild population structure to inform future management and dissemination decisions. Furthermore, by conducting a baseline genetic study of wild populations prior to the dissemination of a domestic line, the effects of aquaculture on these populations can be monitored over time.en_US
dc.publisherFrontiers Media S.A.en_US
dc.sourceFrontiers in Genetics;(2020)en_US
dc.subjectnatural populationen_US
dc.titleComparing genomic signatures of selection between the Abbassa Strain and eight wild populations of Nile tilapia (Oreochromis niloticus) in Egypten_US
dc.typeJournal Articleen_US
cg.contributor.funderInternational Fund for Agricultural Developmenten_US
cg.contributor.project(IFAD) Improving the Technological Foundations for Sustainable Aquacultureen_US
cg.coverage.regionNorthern Africaen_US
cg.subject.agrovocfarm managementen_US
cg.subject.agrovocpopulation structureen_US
cg.subject.agrovocpopulation geneticsen_US
cg.subject.agrovocoutlier analysisen_US
cg.contributor.affiliationJames Cook Universityen_US
cg.identifier.statusOpen accessen_US
cg.identifier.ISIindexedISI indexeden_US
cg.contribution.worldfishauthorBenzie, J.en_US
cg.description.themeSustainable aquacultureen_US
cg.creator.idJohn Benzie: 0000-0001-9599-8683en_US

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