Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Sea Cucumber Apostichopus japonicus

Genetic linkage maps are critical and indispensable tools in a wide range of genetic and genomic research. With the advancement of genotyping-by-sequencing (GBS) methods, the construction of a high-density and high-resolution linkage maps has become achievable in marine organisms lacking sufficient...

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Published in:Scientific reports 2015-10, Vol.5 (1), p.14852-14852, Article 14852
Main Authors: Tian, Meilin, Li, Yangping, Jing, Jing, Mu, Chuang, Du, Huixia, Dou, Jinzhuang, Mao, Junxia, Li, Xue, Jiao, Wenqian, Wang, Yangfan, Hu, Xiaoli, Wang, Shi, Wang, Ruijia, Bao, Zhenmin
Format: Article
Language:English
Subjects:
45/22
631/208/207
631/208/721
631/208/8
Animals
Association analysis
Cancer
Cell proliferation
Chromosome Mapping
Deoxyribonucleic acid
DNA
Gene mapping
Genetic Linkage
Genomics - methods
Genotype
Genotyping
Humanities and Social Sciences
Marine organisms
Microsatellite Repeats
multidisciplinary
Polymorphism, Single Nucleotide - genetics
Quantitative Trait Loci
Retina
Retinoblastoma
Retinoblastoma-binding protein
Science
Sea Cucumbers - genetics
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Summary:Genetic linkage maps are critical and indispensable tools in a wide range of genetic and genomic research. With the advancement of genotyping-by-sequencing (GBS) methods, the construction of a high-density and high-resolution linkage maps has become achievable in marine organisms lacking sufficient genomic resources, such as echinoderms. In this study, high-density, high-resolution genetic map was constructed for a sea cucumber species, Apostichopus japonicus , utilizing the 2b-restriction site-associated DNA (2b-RAD) method. A total of 7839 markers were anchored to the linkage map with the map coverage of 99.57%, to our knowledge, this is the highest marker density among echinoderm species. QTL mapping and association analysis consistently captured one growth-related QTL located in a 5 cM region of linkage group (LG) 5. An annotated candidate gene, retinoblastoma-binding protein 5 ( RbBP5 ), which has been reported to be an important regulator of cell proliferation, was recognized in the QTL region. This linkage map represents a powerful tool for research involving both fine-scale QTL mapping and marker assisted selection (MAS) and will facilitate chromosome assignment and improve the whole-genome assembly of sea cucumber in the future.
ISSN:2045-2322
2045-2322
DOI:10.1038/srep14852