SNP Discovery by GBS in Olive and the Construction of a High-Density Genetic Linkage Map

Biochemical Genetics
Ahmet İpekHatice Gülen

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 ...Continue Reading

References

Feb 5, 2000·Nature Biotechnology·M Schuelke
May 16, 2002·The Journal of Heredity·R E Voorrips
May 16, 2003·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·R la RosaL Baldoni
Apr 3, 2004·Genome Génome / Conseil National De Recherches Canada·Shu-Biao WuMargaret Sedgley
Dec 8, 2009·Science·Michael A GoreEdward S Buckler
Mar 23, 2010·Nutrition, Metabolism, and Cardiovascular Diseases : NMCD·J López-MirandaN Yiannakouris
May 17, 2011·PloS One·Robert J ElshireSharon E Mitchell
Mar 3, 2012·G3 : Genes - Genomes - Genetics·Julian M CatchenJohn H Postlethwait
Aug 7, 2013·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Jennifer SpindelSusan McCouch
Sep 28, 2013·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Paola BarbaBruce Reisch
Nov 12, 2013·Biochemical Genetics·Shang-Guo FengHui-Zhong Wang

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Citations

May 4, 2017·Breeding Science·Yuki Monden, Makoto Tahara
Oct 25, 2016·Food & Function·Maria Inês DiasIsabel C F R Ferreira
May 7, 2019·Frontiers in Plant Science·Carlos De OllasVicent Arbona
Mar 11, 2017·Natural Product Research·Leyla KarakayaAyşe Nalbantsoy
Dec 12, 2019·Scientific Reports·Hilal Betul KayaJean-Luc Jannink
Sep 8, 2017·Physiology and Molecular Biology of Plants : an International Journal of Functional Plant Biology·Cobra TofighiFarhad Rejali
Nov 12, 2019·Frontiers in Plant Science·Rubina JibranToshi M Foster
Jan 3, 2018·Annals of Botany·Guillaume BesnardAmandine Cornille

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