Please use this identifier to cite or link to this item: http://hdl.handle.net/11452/26542
Title: SNP discovery by GBS in olive and the construction of a high-density genetic linkage map
Authors: Tangu, Nesrin Aktepe
Öz, Ayşe Tülin
Uludağ Üniversitesi/Ziraat Fakültesi/Bahçe Bitkileri Bölümü.
Uludağ Üniversitesi/Fen-Edebiyat Fakültesi/Moleküler Biyoloji ve Genetik Bölümü.
0000-0001-7586-3108
İpek, Ahmet
Yılmaz, Kübra
Sıkıcı, Pelin
Bayraktar, Murat
İpek, Meryem
Gülen, Hatice
AAH-3233-2021
AFW-5375-2022
6603912487
57194530243
57140804800
57140106700
16031208900
6603211102
Keywords: Biochemistry & molecular biology
Genetics & heredity
GBS
Genetic mapping
Olea europaea L.
Olive
SNP discovery
Markers
Cultivars
Genome
Populations
Diversity
Germplasm
Sequences
Aflp
Issue Date: Jun-2016
Publisher: Springer
Citation: İpek, A. vd. (2016). "SNP discovery by GBS in olive and the construction of a high-density genetic linkage map". Biochemical Genetics, 54(3), 313-325.
Abstract: Genetic linkage maps are valuable tools for genetic, genomic, and crop breeding studies. Several genetic linkage maps were constructed for the olive (Olea europaea L.) genome, mainly using amplified fragment length polymorphisms (AFLPs) and simple sequence repeat (SSR) markers. However, AFLPs and SSR markers were not enough to develop a high-density olive linkage map. Genotyping-by-sequencing (GBS), a recently developed single-nucleotide polymorphism (SNP) identification methodology based on next-generation sequencing (NGS) technologies, has been demonstrated to be useful for the identification of a high number of SNP markers and the construction of high-density genetic linkage maps. In the present study, we identified a total of 10,941 SNPs from a cross between the olive cultivars 'Gemlik' and 'Edincik Su' using GBS and de novo SNP discovery implemented in the computer program "Stacks." A high-density genetic linkage map for the olive genome was constructed using 121 cross-pollinated full-sib F1 progeny and 5643 markers (21 SSRs, 203 AFLPs, and 5736 SNPs). This linkage map was composed of 25 linkage groups, covering 3049 cM of the olive genome, and the mean distance between the flanking markers was 0.53 cM. To the best of our knowledge, this map is the most saturated genetic linkage map in olive to date. We demonstrated that GBS is a valuable tool for the identification of thousands of SNPs for the construction of a saturated genetic linkage map in olive. The high-density genetic map developed in this study is a useful tool for locating quantitative trait loci and other economically important traits in the olive genome.
URI: https://doi.org/10.1007/s10528-016-9721-5
https://link.springer.com/article/10.1007/s10528-016-9721-5
http://hdl.handle.net/11452/26542
ISSN: 0006-2928
1573-4927
Appears in Collections:Scopus
Web of Science

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