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1. Jingyuan Song, Linchun Shi, Dezhu Li, Yongzhen Sun, Yunyun Niu, Zhiduan Chen, Hongmei Luo, Xiaohui Pang, Zhiying Sun, Chang Liu, Aiping Lv, Youping Deng, Zachary Larson-Rabin, Mike Wilkinson, Shilin Chen. Extensive Pyrosequencing Reveals Frequent Intra-Genomic Variations of Internal Transcribed Spacer Regions of Nuclear Ribosomal DNA. PLoS ONE 2012, 7(8): e43971.
2. Xiaohui Pang*, Jingyuan Song*, Yingjie Zhu, Hongxi Xu, Linfang Huang, Shilin Chen. Applying plant DNA barcodes for Rosaceae species identification. Cladistics, 2011, 27: 165-170. (*These authors contributed equally to this work.)
3. Shilin Chen, Hui Yao, Jianping Han, Chang Liu, Jingyuan Song*, Linchun Shi, Yingjie Zhu, Xinye Ma, Ting Gao, Xiaohui Pang, Kun Luo, Ying Li, Xiwen Li, Xiaocheng Jia, Yulin Lin, Christine Leon. Validation of the ITS2 Region as a Novel DNA Barcode for Identifying Medicinal Plant Species. PLoS ONE, 2010, 5(1): e8613. (*Co-Corresponding author)
4. Jingyuan Song, Hui Yao, Ying Li, Xiwen Li, Yulin Lin, Chang Liu, Jianping Han, Caixiang Xie, Shilin Chen. Authentication of the family Polygonaceae in Chinese pharmacopoeia by DNA barcoding technique. Journal of Ethnopharmacology, 2009, 124(3): 434-439.
5. Jingyuan Song, Shanfa Lu, Zenn-Zong Chen, Rodrigo Lourenco, Vincent L. Chiang. Genetic transformation of Populus trichocarpa genotype Nisqually-1: A functional genomic tool for woody plants. Plant Cell Physiology, 2006, 47(11): 1582-1589.
6. Yao H*, Song Jingyuan*, Liu C*, Luo K, Han JP, Li Y, Pang XH, Xu HX, Zhu YJ, Xiao PG, Chen SL. Use of ITS2 Region as the Universal DNA Barcode for Plants and Animals. PLoS ONE, 2010, 5(10): e13102. (*These authors contributed equally to this work.)
7. Chen S, Xu J, Liu C, Zhu Y, Nelson DR, Zhou S, Li C, Wang L, Guo X, Sun Y, Luo H, Li Y, Song Jingyuan, Henrissat B, Levasseur A, Qian J, Li J, Luo X, Shi L, He L, Xiang L, Xu X, Niu Y, Li Q, Han MV, Yan H, Zhang J, Chen H, Lv A, Wang Z, Liu M, Schwartz DC, Sun C. Genome sequence of the model medicinal mushroom Ganoderma lucidum. Nat Commun. 2012, 3: 913.
8. Chinese Plant BOL Group, Li DL et al. Comparative analysis of a large dataset indicates that internal transcribed spacer (ITS) should be incorporated into the core barcode for seed plants. Proc Nat Acad Sci USA, 2011, 108: 19641–19646.
9. Ting Gao, Hui Yao, Jingyuan Song, Yingjie Zhu, Chang Liu and Shilin Chen. Evaluating the feasibility of using candidate DNA barcodes in discriminating species of the large Asteraceae family. BMC Evolutionary Biology 2010, 10:324.
10. Wu Q, Song Jingyuan, Sun Y, Suo F, Li C, Luo H, Liu Y, Li Y, Zhang X, Yao H, Li X, Hu S, Sun C. Transcript profiles of Panax quinquefolius from flower, leaf and root bring new insights into genes related to ginsenosides biosynthesis and transcriptional regulation. Physiologia Plantarum, 2010, 138(2): 134-149.
11. Schmidt M, Schwartzberg AM, Perera PN, Weber-Bargioni A, Carroll A, Sarkar P, Bosneaga E, Urban JJ, Jingyuan Song , Balakshin MY, Capanema EA, Auer M, Adams PD, Chiang VL, Schuck PJ. Label-free in situ imaging of lignification in the cell wall of low lignin transgenic Populus trichocarpa. Planta, 2009, 230(3): 589-597.
12.Ting Gao, Hui Yao, Jingyuan Song, Chang Liu, Yingjie Zhu, Xinye Ma, Xiaohui Pang, Hongxi Xu, Shilin Chen. Identification of medicinal plants in the family Fabaceae using a potential DNA barcode ITS2. Journal of Ethnopharmacology, 2010, 130(1): 116-121.
13. Xiaohui Pang, Jingyuan Song, Yingjie Zhu, Caixiang Xie, Shilin Chen. Using DNA barcoding to identify species within Euphorbiaceae. Planta Medica, 2010, 76: 1-3.
14. Chang Liu, Dong Liang, Ting Gao, Xiaohui Pang, Jingyuan Song, Hui Yao, Jianping Han, Zhihua Liu, Xiaojun Guan, Kun Jiang, Huan Li, Shilin Chen. PTIGS-IdIt, a system for species identification by DNA sequences of the psbA-trnH intergenic spacer region. BMC Bioinformatics 2011, 12(Suppl 13):S4.
15. Ying Li, Hong-Mei Luo, Chao Sun, Jing-Yuan Song, Yong-Zhen Sun, Qiong Wu, Ning Wang, Hui Yao, André Steinmetz, Shi-Lin Chen. EST analysis reveals putative genes involved in glycyrrhizin biosynthesis. BMC Genomics, 2010, 11(1): 268.
16. Jianjun Qi, Xianen Li, Jingyuan Song, A. Egrinya Eneji, Xiaojun Ma. Genetic Relationships among Rehmannia glutinosa Cultivars and Varieties. Planta Medica, 2008, 74: 1846-1852.
17. Chao Sun, Ying Li , Qiong Wu, Hong-Mei Luo, Yong-Zhen Sun, Jing-Yuan Song, Edmund M.K. Lui, Shi-Lin Chen. De novo sequencing and analysis of American ginseng root transcriptome using a GS FLX Titanium platform to discover putative genes involved in ginsenoside biosynthesis. BMC Genomics, 2010, 11(1): 262.
18. Hetian Lei，Jianjun Qi，Jingyuan Song, Dejun Yang, Yanzhi Wang, Yinling Zhang, Junshan Yang. Biosynthesis and bioactivity of trichosanthin in cultured crown gall tissues of Trichosanthes kirilowii Maximowicz. Plant Cell Reports. 2006, 25: 1205–1212.
19. Sun Y, Luo H, Li Y, Sun C, Song Jingyuan, Niu Y, Zhu Y, Dong L, Lv A, Tramontano E, Chen S. Pyrosequencing of the Camptotheca acuminata transcriptome Reveals Putative Genes Involved in Camptothecin Biosynthesis and Transport. BMC Genomics, 2011, 12(1): 533.
20. 罗焜, 陈士林, 陈科力, 宋经元, 姚辉, 马新业, 朱英杰, 庞晓慧. 基于芸香科的植物通用DNA条形码研究. 中国科学生命科学, 2010, 40(4): 342–351.
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