Detection of SNPs based on transcriptome sequencing in Norway spruce (Picea abies (L.) Karst)

被引：11
|
作者：
Heer, Katrin [1 ,2 ]
Ullrich, Kristian K. [3 ]
Liepelt, Sascha [1 ]
Rensing, Stefan A. [3 ]
Zhou, Jiabin [2 ,4 ]
Ziegenhagen, Birgit [1 ]
Opgenoorth, Lars [2 ]
机构：
[1] Univ Marburg, Conservat Biol, Karl von Frisch Str 8, D-35043 Marburg, Germany
[2] Univ Marburg, Dept Ecol, Anim Ecol, Fac Biol, Karl von Frisch Str 8, D-35043 Marburg, Germany
[3] Univ Marburg, Plant Cell Biol, Karl von Frisch Str 8, D-35043 Marburg, Germany
[4] Lanzhou Univ, Coll Life Sci, Mol Ecol Grp, State Key Lab Grassland Agroecosyst, Lanzhou 730000, Peoples R China
来源：
CONSERVATION GENETICS RESOURCES | 2016年 / 8卷 / 02期
关键词：
RNA-seq; Single nucleotide polymorphism; Norway spruce; Genotyping; RNA-SEQ; GENOME; DISCOVERY; ALIGNMENT; HISTORY;
D O I：
10.1007/s12686-016-0520-4
中图分类号：
X176 [生物多样性保护];
学科分类号：
090705 ;
摘要：
A novel set of SNPs was derived from transcriptome data of ten Norway spruce (Picea abies) trees from the Bavarian Forest National Park in Germany (BaFoNP). SNPs were identified by mapping against a de-novo transcriptome assembly and against pre-mRNAs of predicted genes of the reference genome assembly. This resulted in 111,849 and 366,577 SNPs, respectively. Out of these, 311 were either randomly selected or chosen because of their pronounced divergence between sampling sites and genotyped in 218 trees with an Illumina Infinium HD iSelect BeadChip.
引用
收藏
页码：105 / 107
页数：3
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