Welcome to Chinese Agricultural Science Bulletin,

Chinese Agricultural Science Bulletin ›› 2021, Vol. 37 ›› Issue (15): 106-111.doi: 10.11924/j.issn.1000-6850.casb2020-0372

Special Issue: 生物技术

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DNA Barcodes Study of Echinochloa

Yuan Guohui(), Tian Zhihui, Li Tao, Qian Zhenguan, Shen Guohui()   

  1. Eco-Environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai 201403
  • Received:2020-08-18 Revised:2020-11-16 Online:2021-05-25 Published:2021-05-18
  • Contact: Shen Guohui E-mail:yuanguohui@saas.sh.cn;ghshen65@163.com

Abstract:

To evaluate the effectiveness of DNA barcodes in the identification of the genus Echinochloa, two candidate DNA barcodes from nuclear genome (ITS, ETS) and three candidate DNA barcodes from chloroplast genome (psbA, trnL-F, matK) were analyzed. The study amplified and sequenced the five candidate DNA barcodes from four Echinochloa species (E. crus-galli var. mitis, E. crus-galli var. crus-galli, E. caudate and E. crus-galli var. praticola), and analyzed the characteristics of each DNA barcode. The results show that matK has the highest proportion of variable sites (3.6%), and ETS has the lowest (1.7%); psbA has the largest interspecific distance, while matK has the largest intraspecific distance. The neighbor-joining (NJ) tree shows that all five candidate DNA barcodes have the ability to identify E. caudata, and their support rates are all higher than 80%. Furthermore, ITS could distinguish E. crus-galli var. praticola from E. crus-galli var. mitis and E. crus-galli var. crus-galli species. Therefore, it is recommended to use ITS as the potential DNA barcode for identifying Echinochloa.

Key words: Echinochloa spp., field weed, DNA barcodes, molecular identification, ITS, ETS, psbA, trnL-F, matK

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