High-density genetic linkage mapping in turbot (Scophthalmus maximus L.) based on SNP markers and major sex- and growth-related regions detection

PloS One
Weiji WangJie Kong

Abstract

This paper describes the development of a high density consensus genetic linkage map of a turbot (Scophthalmus maximus L.) family composed of 149 mapping individuals using Single Nucleotide Polymorphisms (SNP) developed using the restriction-site associated DNA (RAD) sequencing technique with the restriction enzyme, PstI. A total of 6,647 SNPs were assigned to 22 linkage groups, which is equal to the number of chromosome pairs in turbot. For the first time, the average marker interval reached 0.3958 cM, which is equal to approximately 0.1203 Mb of the turbot genome. The observed 99.34% genome coverage indicates that the linkage map was genome-wide. A total of 220 Quantitative Traits Locus (QTLs) associated with two body length traits, two body weight traits in different growth periods and sex determination were detected with an LOD > 5.0 in 12 linkage groups (LGs), which explained the corresponding phenotypic variance (R2), ranging from 14.4-100%. Among them, 175 overlapped with linked SNPs, and the remaining 45 were located in regions between contiguous SNPs. According to the QTLs related to growth trait distribution and the changing of LGs during different growth periods, the growth traits are likely controlled by multi-SNPs ...Continue Reading

References

Jan 5, 2002·Genome Génome / Conseil National De Recherches Canada·N CuñadoJ L Santos
May 13, 1983·Science·S KirkpatrickM P Vecchi
Dec 13, 2007·Genetics·Carmen BouzaPaulino Martínez
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Mar 3, 2012·G3 : Genes - Genomes - Genetics·Julian M CatchenJohn H Postlethwait

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Citations

Jun 28, 2019·Sexual Development : Genetics, Molecular Biology, Evolution, Endocrinology, Embryology, and Pathology of Sex Determination and Differentiation·Catherine A WilsonRajiva Raman
Sep 18, 2018·Reviews in Aquaculture·Diego RobledoRoss Houston
Mar 14, 2020·Scientific Data·Xi-Wen XuSong-Lin Chen

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Datasets Mentioned

BETA
SRP050882
XM008300855.1
XM006797868.1

Methods Mentioned

BETA
RAD-Seq
electrophoresis
PCR
genotyping

Software Mentioned

Genomic Assistant Selection ( GAS
ustacks
JoinMap4
MapQTL
MAS
perl
JoinMap

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