RT Journal Article
T1 Development of whole-genome multiplex assays and construction of an integrated genetic map using SSR markers in Senegalese sole
A1 Guerrero-Cózar, Israel
A1 Perez-Garcia, Cathaysa
A1 Benzekri, Hicham
A1 Sánchez, J.J.
A1 Seoane, Pedro
A1 Cruz, Fernando
A1 Gut, Marta
A1 Zamorano, Maria Jesus
A1 Claros, M. Gonzalo
A1 Manchado, Manuel
K1 Chromosome Mapping
K1 Female
K1 Flatfishes
K1 Genetic variation
K1 Genome
K1 Multiplex polymerase chain reaction
K1 Pedigree
K1 Synteny
K1 Mapeo cromosómico
K1 Femenino
K1 Peces planos
K1 Variación genética
K1 Genoma
K1 Reacción en cadena de la polimerasa multiplex
K1 Linaje
K1 Sintenía
AB The Senegalese sole (Solea senegalensis) is an economically important flatfish species. In this study, a genome draft was analyzed to identify microsatellite (SSR) markers for whole-genome genotyping. A subset of 224 contigs containing SSRs were preselected and validated by using a de novo female hybrid assembly. Overall, the SSR density in the genome was 886.7 markers per megabase of genomic sequences and the dinucleotide motif was the most abundant (52.4%). In silico comparison identified a set of 108 SSRs (with di-, tetra- or pentanucleotide motifs) widely distributed in the genome and suitable for primer design. A total of 106 markers were structured in thirteen multiplex PCR assays (with up to 10-plex) and the amplification conditions were optimized with a high-quality score. Main genetic diversity statistics and genotyping reliability were assessed. A subset of 40 high polymorphic markers were selected to optimize four supermultiplex PCRs (with up to 11-plex) for pedigree analysis. Theoretical exclusion probabilities and real parentage allocation tests using parent-offspring information confirmed their robustness and effectiveness for parental assignment. These new SSR markers were combined with previously published SSRs (in total 229 makers) to construct a new and improved integrated genetic map containing 21 linkage groups that matched with the expected number of chromosomes. Synteny analysis with respect to C. semilaevis provided new clues on chromosome evolution in flatfish and the formation of metacentric and submetacentric chromosomes in Senegalese sole.
PB Springer Nature
YR 2020
FD 2020-12-14
LK http://hdl.handle.net/10668/3584
UL http://hdl.handle.net/10668/3584
LA en
NO Guerrero-Cózar I, Perez-Garcia C, Benzekri H, Sánchez JJ, Seoane P, Cruz F, et al. Development of whole-genome multiplex assays and construction of an integrated genetic map using SSR markers in Senegalese sole. Sci Rep. 2020 Dec 14;10(1):21905
DS RISalud
RD Apr 8, 2025