DNA barcoding of Oryza: conventional, specific, and super barcodes

• DOI: 10.1007/s11103-020-01054-3
• Publication Date: 2020-09-03T08:03:33Z
• Authors: Wen Zhang; Yuzhe Sun; Jia Liu; Chao Xu; Xinhui Zou; Xun Chen; Yanlei Liu; Ping Wu; Xueying Yang; Shiliang Zhou
• Keywords: DNA Barcoding; Oryza; Phylogenomics; Oryza rufipogon; Nuclear gene

We applied the phylogenomics to clarify concept of rice species, aid in identification and use germplasms, support biodiversity. Rice (genus Oryza) is one most important crops world, supporting half world's population. Breeding high-yielding quality cultivars relies on genetic resources from both cultivated wild which are collected maintained seed banks. Unfortunately, numerous seeds mislabeled due taxonomic issues or misidentifications. Here, we 58 complete chloroplast genomes two hypervariable nuclear genes determine species identity seeds. Twenty-one Oryza were identified. Conspecific relationships determined between O. glaberrima barthii, glumipatula longistaminata, grandiglumis alta, meyeriana granulata, minuta malampuzhaensis, nivara sativa subsp. indica, japonica rufipogon. D L genome types not found H type was extinct. Importantly, evaluated performance four conventional plant DNA barcodes (matK, rbcL, psbA-trnH, ITS), six rice-specific (psaJ-rpl33, trnC-rpoB, rps16-trnQ, rpl22-rps19, trnK-matK, ndhC-trnV), (NP78 R22), a super barcode. The latter reliable marker. revealed that 17% 53 accessions banks field collections mislabeled. These results expected