Detection of SNPs based on DNA specific-locus amplified fragment sequencing in Chinese fir (Cunninghamia lanceolata (Lamb.) Hook)

2018-11-23 本站

题目：Detection of SNPs based on DNA specific-locus amplified fragment sequencing in Chinese fir (Cunninghamia lanceolata (Lamb.) Hook)

期刊：Dendrobiology

作者：Katrin Heer1,2 ，Kristian K Ullrich3，Sascha Liepelt1，Stefan A. Rensing3，Jiabin Zhou2,4，Birgit Ziegenhagen1，Lars Opgenoorth2

单位：1.Conservation Biology, Philipps-Universita¨t Marburg, Karl-von-Frisch-Strasse 8, 35043 Marburg, Germany；2.Department of Ecology, Animal Ecology, Faculty of Biology,Philipps-Universita¨t Marburg, Karl-von-Frisch-Strasse 8,35043 Marburg, Germany；3.Plant Cell Biology, Philipps-Universita¨t Marburg, Karl-von-Frisch-Strasse 8, 35043 Marburg, Germany；4.Molecular Ecology Group, State Key Laboratory ofGrassland Agro-Ecosystem, College of Life Science,Lanzhou University, Lanzhou 730000, China                            

摘要：  A novel set of SNPs was derived from tran-scriptome data of ten Norway spruce (Picea abies) treesfrom the Bavarian Forest National Park in Ger-many (BaFoNP). SNPs were identified by mapping againsta de-novo transcriptome assembly and against pre-mRNAsof predicted genes of the reference genome assembly.Thisresulted in 111,849 and 366,577 SNPs, respectively. Out ofthese, 311 were either randomly selected or chosen becauseof their pronounced divergence between sampling sites andgenotyped in 218 trees with an Illumina Infinium HDiSelect BeadChip.

关键词：RNA-seq，Single nucleotide polymorphism，Norway spruce，Genotyping