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A new SNP-based vision of the genetics of sex determination in European sea bass (Dicentrarchus labrax).

Palaiokostas C, Bekaert M, Taggart JB, Gharbi K, McAndrew BJ, Chatain B, Penman DJ, Vandeputte M - Genet. Sel. Evol. (2015)

Bottom Line: Indications for putative sex-determining QTL (quantitative trait loci) that were significant at the genome-wide threshold were detected on linkage groups 6, 11 and 18 to 21, although a genome-wide association study (GWAS) did not identify individual significant SNPs at a genome-wide threshold.A preliminary genomic prediction approach that tested the efficiency of SNP-based selection for female sea bass showed a slight advantage compared to traditional pedigree-based selection.However, when the same models were tested on the same animals for selection for greater length, a clear advantage of the SNP-based selection was observed.

View Article: PubMed Central - PubMed

Affiliation: Institute of Aquaculture, School of Natural Sciences, University of Stirling, Stirling, FK9 4LA, Scotland, UK. christos.palaiokostas@roslin.ed.ac.uk.

ABSTRACT

Background: European sea bass (Dicentrarchus labrax) is one of the most important farmed species in Mediterranean aquaculture. The observed sexual growth and maturity dimorphism in favour of females adds value towards deciphering the sex determination system of this species. Current knowledge indicates the existence of a polygenic sex determining determination system that interacts with temperature. This was explored by restriction-site associated DNA (RAD) marker analysis in a test panel of 175 offspring that originated from a factorial cross between two dams and four sires from a single full-sib family.

Results: The first high-density single nucleotide polymorphism (SNP) based linkage map for sea bass was constructed, consisting of 6706 SNPs on 24 linkage groups. Indications for putative sex-determining QTL (quantitative trait loci) that were significant at the genome-wide threshold were detected on linkage groups 6, 11 and 18 to 21, although a genome-wide association study (GWAS) did not identify individual significant SNPs at a genome-wide threshold. A preliminary genomic prediction approach that tested the efficiency of SNP-based selection for female sea bass showed a slight advantage compared to traditional pedigree-based selection. However, when the same models were tested on the same animals for selection for greater length, a clear advantage of the SNP-based selection was observed.

Conclusions: Overall, the results of this study provide additional support to the polygenic sex determination hypothesis in sea bass. In addition, identification of sex-ratio QTL may provide new opportunities for sex-ratio control in sea bass.

No MeSH data available.


Related in: MedlinePlus

Sea bass linkage map. Heatmap on the right side provides scale of colour coding for the size of SNP clusters
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Fig1: Sea bass linkage map. Heatmap on the right side provides scale of colour coding for the size of SNP clusters

Mentions: The constructed linkage map consisted of 6706 SNPs that were grouped in 24 linkage groups, in accordance with the number of chromosomes in the D. labrax karyotype, with a total length of 4816 cM (Fig. 1; Table 2). Each linkage group corresponded to a different chromosome, as confirmed by comparison with the sea bass genome sequence [47]. In addition, the linkage map included 852 SNPs that were located in unanchored contigs of the sea bass genome (see Additional file 2: Table S2).Fig. 1


A new SNP-based vision of the genetics of sex determination in European sea bass (Dicentrarchus labrax).

Palaiokostas C, Bekaert M, Taggart JB, Gharbi K, McAndrew BJ, Chatain B, Penman DJ, Vandeputte M - Genet. Sel. Evol. (2015)

Sea bass linkage map. Heatmap on the right side provides scale of colour coding for the size of SNP clusters
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

License 1 - License 2
Show All Figures
getmorefigures.php?uid=PMC4558911&req=5

Fig1: Sea bass linkage map. Heatmap on the right side provides scale of colour coding for the size of SNP clusters
Mentions: The constructed linkage map consisted of 6706 SNPs that were grouped in 24 linkage groups, in accordance with the number of chromosomes in the D. labrax karyotype, with a total length of 4816 cM (Fig. 1; Table 2). Each linkage group corresponded to a different chromosome, as confirmed by comparison with the sea bass genome sequence [47]. In addition, the linkage map included 852 SNPs that were located in unanchored contigs of the sea bass genome (see Additional file 2: Table S2).Fig. 1

Bottom Line: Indications for putative sex-determining QTL (quantitative trait loci) that were significant at the genome-wide threshold were detected on linkage groups 6, 11 and 18 to 21, although a genome-wide association study (GWAS) did not identify individual significant SNPs at a genome-wide threshold.A preliminary genomic prediction approach that tested the efficiency of SNP-based selection for female sea bass showed a slight advantage compared to traditional pedigree-based selection.However, when the same models were tested on the same animals for selection for greater length, a clear advantage of the SNP-based selection was observed.

View Article: PubMed Central - PubMed

Affiliation: Institute of Aquaculture, School of Natural Sciences, University of Stirling, Stirling, FK9 4LA, Scotland, UK. christos.palaiokostas@roslin.ed.ac.uk.

ABSTRACT

Background: European sea bass (Dicentrarchus labrax) is one of the most important farmed species in Mediterranean aquaculture. The observed sexual growth and maturity dimorphism in favour of females adds value towards deciphering the sex determination system of this species. Current knowledge indicates the existence of a polygenic sex determining determination system that interacts with temperature. This was explored by restriction-site associated DNA (RAD) marker analysis in a test panel of 175 offspring that originated from a factorial cross between two dams and four sires from a single full-sib family.

Results: The first high-density single nucleotide polymorphism (SNP) based linkage map for sea bass was constructed, consisting of 6706 SNPs on 24 linkage groups. Indications for putative sex-determining QTL (quantitative trait loci) that were significant at the genome-wide threshold were detected on linkage groups 6, 11 and 18 to 21, although a genome-wide association study (GWAS) did not identify individual significant SNPs at a genome-wide threshold. A preliminary genomic prediction approach that tested the efficiency of SNP-based selection for female sea bass showed a slight advantage compared to traditional pedigree-based selection. However, when the same models were tested on the same animals for selection for greater length, a clear advantage of the SNP-based selection was observed.

Conclusions: Overall, the results of this study provide additional support to the polygenic sex determination hypothesis in sea bass. In addition, identification of sex-ratio QTL may provide new opportunities for sex-ratio control in sea bass.

No MeSH data available.


Related in: MedlinePlus