Authentication of an endangered herb Changium smyrnioides from different producing areas based on rDNA ITS sequences and allele-specific PCR

Archives of Pharmacal Research
Xiaoqin SunYueyu Hang

Abstract

The rDNA ITS region of 18 samples of Changium smyrnioides from 7 areas and of 2 samples of Chuanminshen violaceum were sequenced and analyzed. The amplified ITS region of the samples, including a partial sequence of ITS1 and complete sequences of 5.8S and ITS2, had a total length of 555 bp. After complete alignment, there were 49 variable sites, of which 45 were informative, when gaps were treated as missing data. Samples of C. smyrnioides from different locations could be identified exactly based on the variable sites. The maximum parsimony (MP) and neighbor joining (NJ) tree constructed from the ITS sequences based on Kumar's two-parameter model showed that the genetic distances of the C. smyrnioides samples from different locations were not always related to their geographical distances. A specific primer set for Allele-specific PCR authentication of C. violaceum from Jurong of Jiangsu was designed based on the SNP in the ITS sequence alignment. C. violaceum from the major genuine producing area in Jurong of Jiangsu could be identified exactly and quickly by Allele-specific PCR.

References

Aug 24, 2000·Journal of Agricultural and Food Chemistry·J J MihalovJ C Pierce
Jun 27, 2002·Forensic Science International : Synergy·Jon H WettonAdrian C Spriggs
Jul 21, 2004·Briefings in Bioinformatics·Sudhir KumarMasatoshi Nei
Feb 8, 2006·Biological & Pharmaceutical Bulletin·Mao ShibaMasaki Aburada
Sep 7, 2007·Chinese Medicine·Pui Ying YipHoi Shan Kwan

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Citations

Mar 23, 2013·Genome Génome / Conseil National De Recherches Canada·Guojie XuJuan Liu
Jul 11, 2019·Mitochondrial DNA. Part B, Resources·Feixia Hou, Jihai Gao

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