Extensive Pyrosequencing Reveals Frequent Intra-Genomic Variations of Internal Transcribed Spacer Regions of Nuclear Ribosomal DNA
作者： Jingyuan Song , Linchun Shi , Dezhu Li , Yongzhen Sun , Yunyun Niu
DOI: 10.1371/JOURNAL.PONE.0043971
关键词:
摘要: Background Internal transcribed spacer of nuclear ribosomal DNA (nrDNA) is already one of the most popular phylogenetic and DNA barcoding markers. However, the existence of its multiple copies has complicated such usage and a detailed characterization of intra-genomic variations is critical to address such concerns. Methodology/Principal Findings In this study, we used sequence-tagged pyrosequencing and genome-wide analyses to characterize intra-genomic variations of internal transcribed spacer 2 (ITS2) regions from …
harvard.edu
core.ac.uk
sci-hub.se 参考文章(79)
, Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature. ,vol. 408, pp. 796- 815 ,(2000) , 10.1038/35048692
Phylogenetic relationship in the genus Panax: inferred from chloroplast trnK gene and nuclear 18S rRNA gene sequences. Planta Medica. ,vol. 69, pp. 647- 653 ,(2003) , 10.1055/S-2003-41117
M. Nei, EVOLUTION:Molecular Origin of Species Science. ,vol. 282, pp. 1428- 1429 ,(1998) , 10.1126/SCIENCE.282.5393.1428
Ting Gao, Hui Yao, Jingyuan Song, Yingjie Zhu, Chang Liu, Shilin Chen, Evaluating the feasibility of using candidate DNA barcodes in discriminating species of the large Asteraceae family BMC Evolutionary Biology. ,vol. 10, pp. 324- 324 ,(2010) , 10.1186/1471-2148-10-324
X. Pang, H. Luo, C. Sun, Assessing the potential of candidate DNA barcodes for identifying non‐flowering seed plants Plant Biology. ,vol. 14, pp. 839- 844 ,(2012) , 10.1111/J.1438-8677.2011.00554.X
R Appels, E A Kellogg, Intraspecific and interspecific variation in 5S RNA genes are decoupled in diploid wheat relatives. Genetics. ,vol. 140, pp. 325- 343 ,(1995) , 10.1093/GENETICS/140.1.325
Eva Hřibová, Jana Čížková, Pavla Christelová, Stefan Taudien, Edmond de Langhe, Jaroslav Doležel, The ITS1-5.8S-ITS2 sequence region in the Musaceae: structure, diversity and use in molecular phylogeny. PLOS ONE. ,vol. 6, ,(2011) , 10.1371/JOURNAL.PONE.0017863
Matthias Wolf, Marco Achtziger, Jörg Schultz, Thomas Dandekar, Tobias Müller, Homology modeling revealed more than 20,000 rRNA internal transcribed spacer 2 (ITS2) secondary structures RNA. ,vol. 11, pp. 1616- 1623 ,(2005) , 10.1261/RNA.2144205
De-Zhu LI, Jian-Quan LIU, Zhi-Duan CHEN, Hong WANG, Xue-Jun GE, Shi-Liang ZHOU, Lian-Ming GAO, Cheng-Xin FU, Shi-Lin CHEN, Plant DNA barcoding in China Journal of Systematics and Evolution. ,vol. 49, pp. 165- 168 ,(2011) , 10.1111/J.1759-6831.2011.00137.X
Joachim M De Schrijver, Kim De Leeneer, Steve Lefever, Nick Sabbe, Filip Pattyn, Filip Van Nieuwerburgh, Paul Coucke, Dieter Deforce, Jo Vandesompele, Sofie Bekaert, Jan Hellemans, Wim Van Criekinge, Analysing 454 amplicon resequencing experiments using the modular and database oriented Variant Identification Pipeline. BMC Bioinformatics. ,vol. 11, pp. 269- 269 ,(2010) , 10.1186/1471-2105-11-269