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A High-throughput Genomic Tool： Diversity Array Technology Complementary for Rice Genotyping

Journal of Integrative Plant Biology 2006年第9期48卷 1069-1076页

作者： Yong Xie Kenneth McNally Cheng-Yun Li Hei Leung You-Yong Zhu National Center for Agro-biodiversity Yunnan Agricultural University Kunming 650201 China Genetic Resources Center International Rice Research Institute DAPO P.O. Box 7777 Metro Manila Philippines Entomology and Plant Pathology Division International Rice Research Institute DAPO P.O. Box 7777 Metro Manila Philippines

Diversity array technology （DART^TM） was a genotyping tool characterized gel-independent and high throughput. The main purpose of present study is to validate DArT for rice （Oryza sativa L.）genotyping in a high throughput manner. Technically, the main objective was to generate a rice general purpose gene pool, and optimize this genomic tool in order to evaluate rice germplasm genetic diversity. To achieve this, firstly, a generalpurpose DArT array was developed. Ten representatives from 24 varieties were hybridized with the general-purpose array to determine the informativeness of the clones printed on the array. The informative 1 152 clones were re-arrayed on a slide and used to fingerprint 17 of 24 germplasms. Hybridizing targets prepared from the germplasm to be assayed to the DNA array gave DNA fingerprints of germplasms. Raw data were normalized and transformed into binary data, which were then analyzed by using NTSYSpc （Numerical taxonomy system for cluster and ordination analysis, v. 2.02j） software package. The graphically displayed dendrogram derived from the array experimental data was matched with simple sequence repeats genotyping outline and varieties＇ pedigree deviation of the different varieties. Considering DArT is a sequence-independent genotyping approach, it will be applied in studies of the genetic diversity and the gene mapping of diverse of organisms, especially for those crops with less-developed molecular markers.

关键词： amplified fragment length polymorphisms diversity array technology genome complexity reduction microarray rice genotyping

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Use of the Metabolomics Approach to Characterize Chinese Medicinal Material Huangqi

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Molecular Plant 2012年第2期5卷 376-386页

作者： Li-Xin Duan Tian-Lu Chen Ming Li Min Chen Ye-Qing Zhou Guang-Hong Cui Ai-Hua Zhao Wei Jia Lu-Qi Huang Xiaoquan Qi The Key Laboratory of Plant Molecular Physiology Institute of BotanyChinese Academy of Sciences20 Nanxincun Xiangshan RoadBeijing 100093China Shanghai Center for Systems Biomedicine(Ministry of Education Key Laboratory of Systems Biomedicine) Shanghai Jiao Tong University800 Dongchuan RoadShanghai 200240China Institute of Chinese Materia Medica Chinese Academy of Chinese Medical Sciences16 Nanxiao RoadBeijing 100700China School of Pharmacy Shanghai Jiao Tong University800 Dongchuan RoadShanghai 200240China

Integration of the genetic and metabolic fingerprinting can provide a new approach to differentiate similar Traditional Chinese Medical （TCM） materials. Two leguminous plants, Mojia Huangqi and Menggu Huangqi, are important medical herbs and share great similarities in morphology, chemical constituent, and genomic DNA sequence. The taxonomy of Mojia Huangqi and Menggu Huangqi has been debated for more than 50 years and discrimination of TCM materials directly affects the pharmacological and clinical effects. AFLP based genetic fingerprinting and GC-TOF/MS-based meta- bolic fingerprinting were used to successfully discriminate the two species. The results of AFLP supported the opinion that Menggu Huangqi was a variant of Mojia Huangqi. The metabolic fingerprinting showed growth locations have greater impacts on the metabolite composition and quantity than the genotypes （cultivated versus wild） in Menggu Huangqi. The difference of some soluble sugars, fatty acids, proline, and polyamine reflected plant adaptation to different growth environments. Using multivariate and univariate statistical analysis, three AFLP markers and eight metabolites were identified as candidate DNA and metabolic markers to distinguish the two herb materials. The correlation network between AFLP markers and metabolites revealed a complex correlation network, which indicated the special metabolic pathways and the regulation networks of Huangqi.

关键词： Astragalus membranaceus metabolic fingerprinting amplified fragment length polymorphisms gas chromatography time-of-flight mass spectrometry.

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