title: Large-scale detection and application of expressed sequence tag single nucleotide polymorphisms in Nicotiana.
abstract: Single nucleotide polymorphisms (SNPs) are widespread in the Nicotiana genome. Using an alignment and variation detection method, we developed 20,607,973 SNPs, based on the expressed sequence tag sequences of 10 Nicotiana species. The replacement rate was much higher than the transversion rate in the SNPs, and SNPs widely exist in the Nicotiana. In vitro verification indicated that all of the SNPs were high quality and accurate. Evolutionary relationships between 15 varieties were investigated by polymerase chain reaction with a special primer; the specific 302 locus of these sequence results clearly indicated the origin of Zhongyan 100. A database of Nicotiana SNPs (NSNP) was developed to store and search for SNPs in Nicotiana. NSNP is a tool for researchers to develop SNP markers of sequence data.
authors.affiliation: College of Agriculture, Shandong Agricultural University, Taian, China.
authors.forename: Y
authors.initials: Y
authors.lastname: Wang
authors.affiliation: College of Plant Protection, Shandong Agricultural University, Taian, China.
authors.forename: D
authors.initials: D
authors.lastname: Zhou
authors.affiliation: College of Plant Protection, Shandong Agricultural University, Taian, China.
authors.forename: S
authors.initials: S
authors.lastname: Wang
authors.affiliation: Agricultural Big-Data Research Center and College of Plant Protection, Shandong Agricultural University, Taian, China lyang@sdau.edu.cn.
authors.forename: L
authors.initials: L
authors.lastname: Yang
mesh_terms: D001483:Base Sequence; D030541:Databases, Genetic; D019143:Evolution, Molecular; D020224:Expressed Sequence Tags / Q000378:metabolism*; D023281:Genomics / Q000379:methods*; D008969:Molecular Sequence Data; D010802:Phylogeny; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D012015:Reference Standards; D015203:Reproducibility of Results; D016415:Sequence Alignment; D014026:Nicotiana / Q000235:genetics*