High density linkage map construction and QTL mapping for runner production in allo-octoploid strawberry Fragaria × ananassa based on ddRAD-seq derived SNPs
Autor: | Jong-In Park, Denison Michael Immanuel Jesse, Cheol-Gyu Lee, Ill-Sup Nou, Hoy-Taek Kim, Sathishkumar Natarajan, Mohammad Rashed Hossain |
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Jazyk: | angličtina |
Rok vydání: | 2019 |
Předmět: |
0301 basic medicine
Candidate gene Genetic Linkage Quantitative Trait Loci lcsh:Medicine Single-nucleotide polymorphism Quantitative trait locus Biology Genome Fragaria Polymorphism Single Nucleotide DNA sequencing Article 03 medical and health sciences 0302 clinical medicine Genetic linkage lcsh:Science Crosses Genetic Genetics Multidisciplinary lcsh:R food and beverages 030104 developmental biology Genetic distance lcsh:Q 030217 neurology & neurosurgery Genome Plant |
Zdroj: | Scientific Reports, Vol 9, Iss 1, Pp 1-11 (2019) Scientific Reports |
ISSN: | 2045-2322 |
Popis: | Recent advances in high-throughput genome sequencing technologies are now making the genetic dissection of the complex genome of cultivated strawberry easier. We sequenced Maehyang (short-day cultivar) × Albion (day-neutral cultivar) crossing populations using double digest restriction-associated DNA (ddRAD) sequencing technique that yielded 978,968 reads, 80.2% of which were aligned to strawberry genome allowing the identification of 13,181 high quality single nucleotide polymorphisms (SNPs). Total 3051 SNPs showed Mendelian segregation in F1, of which 1268 were successfully mapped to 46 linkage groups (LG) spanning a total of 2581.57 cM with an average interval genetic distance of 2.22 cM. The LGs were assigned to the 28 chromosomes of Fragaria × ananassa as determined by positioning the sequence tags on F. vesca genome. In addition, seven QTLs namely, qRU-5D, qRU-3D1, qRU-1D2, qRU-4D, qRU-4C, qRU-5C and qRU-2D2 were identified for runner production with LOD value ranging from 3.5–7.24 that explained 22–38% of phenotypic variation. The key candidate genes having putative roles in meristem differentiation for runnering and flowering within these QTL regions were identified. These will enhance our understanding of the vegetative vs sexual reproductive behavior in strawberry and will aid in setting breeding targets for developing perpetual flowering and profuse runnering cultivar. |
Databáze: | OpenAIRE |
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