Dickeya oryzae sp. nov., isolated from the roots of rice

文献类型： 外文期刊

第一作者： Wang, Xing

作者： Wang, Xing;He, Shan-Wen;Guo, He-Bao;Thin, Kyu Kyu;Gao, Ju-Sjemg;Wang, Yao;Zhang, Xiao-Xia;He, Shan-Wen;Wang, Yao;Han, Ji-gang;Gao, Ju-Sjemg

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关键词： Dickeya; rice endophytic bacteria; polyphasic taxonomy; genome

期刊名称：INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY （ 影响因子：2.747； 五年影响因子：2.889 ）

ISSN： 1466-5026

年卷期： 2020 年 70 卷 7 期

页码：

收录情况： SCI

摘要： A novel Gram-stain-negative strain, designated ZYY5(T), was isolated from rice roots. Results of 16S rRNA gene analysis indicated that strain ZYY5(T) was a member of the genus Dickeya, with a highest similarity to Dickeya zeae DSM 18068(T) (98.5%). The major fatty acids were summed feature 3 (C-16:1 omega 7c and/or C-16:1 omega 6c), C-16:0 and summed feature 8 (C-18:1 omega 7c and/or C-18:1 omega 6c). Multi-locus sequence analysis using five concatenated genes (16S rRNA, atpD, infB, recA and gyrB) and phylogenomic analysis based on 2940 core gene sequences showed that strain ZYY5(T) formed a robust cluster with strains EC1, ZJU1202, DZ2Q, NCPPB 3531 and CSL RW192, while separated from the other strains of D. zeae. The orthologous average nucleotide identity (ANI) and digital DNA-DNAhybridization (dDDH) values among these six strains ranged from 96.8-99.9% and 73.7-99.8%, which supported that they were belonged to the same species. However, strain ZYY5T shared 58.4 of dDDH and 94.5% of ANI values with type strain D. zeae DSM 18068T, which were lower than the proposed species boundary cut-off for dDDH and ANI. The genomic analysis revealed that strain ZYY5(T) contained virulence-associated genes, which is same as the phylogenetic-related strains of the genus Dickeya. Based on the results of the polyphasic approaches, we propose that strain ZYY5(T) represents a novel species in the genus Dickeya, for which the name Dickeya oryzae sp. nov. (=JCM 33020 T=ACCC 61554 (T)) is proposed. Strains EC1, ZJU1202, DZ2Q, NCPPB 3531 and CSL RW192 should also be classified in the same genomospecies of D. oryzae same as ZYY5(T).

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