Dunlap Christopher A, Kim Soo-Jin, Kwon Soon-Wo, Rooney Alejandro P
Agricultural Research Service, United States Department of Agriculture, Crop Bioprotection Research Unit, National Center for Agricultural Utilization Research, Peoria, IL, USA.
Rural Development Administration, Korean Agriculture Culture Collection (KACC), National Institute of Agricultural Science, Wanju-gun, Jeollabuk-do, Republic of Korea.
Int J Syst Evol Microbiol. 2016 Mar;66(3):1212-1217. doi: 10.1099/ijsem.0.000858. Epub 2015 Dec 24.
was previously reported to be a later heterotypic synonym of , based primarily on DNA-DNA relatedness values. We have sequenced a draft genome of NRRL B-41580. Comparative genomics and DNA-DNA relatedness calculations show that it is not a synonym of It was instead synonymous with '' is a recently described species that was isolated as an endophyte of rice (). The strain was demonstrated to have plant-pathogen antagonist activity in greenhouse assays, and the 16S rRNA gene was reported to have 99.7 % sequence similarity with and , which are both known for their plant pathogen antagonism. To better understand the phylogenetics of these closely related strains, we sequenced the genome of '. ' KACC 18228. Comparative genomic analysis showed only minor differences between this strain and the genomes of NRRL B-41580, KACC 13015 and subsp. FZB42. The pairwise DNA-DNA hybridization values calculated in comparisons between the strains were all greater than 84 %, which is well above the standard species threshold of 70 %. The results of morphological, physiological, chemotaxonomic and phylogenetic analyses indicate that the strains share phenotype and genotype coherence. Therefore, we propose that KACC 13015, subsp. FZB42, and ' KACC 18228 should be reclassified as later heterotypic synonyms of NRRL B-41580, since the valid publication date of precedes the other three strains.
先前报道称,主要基于DNA-DNA相关性值,它是[物种名称2]的晚出异名。我们已对NRRL B-41580的基因组草图进行了测序。比较基因组学和DNA-DNA相关性计算表明,它不是[物种名称2]的异名。相反,它与[物种名称3]同义。“[物种名称3]”是最近描述的一个物种,作为水稻的内生菌被分离出来([相关说明])。该菌株在温室试验中被证明具有植物病原菌拮抗活性,据报道其16S rRNA基因与[物种名称4]和[物种名称5]的序列相似性为99.7%,这两个物种均以其植物病原菌拮抗作用而闻名。为了更好地了解这些密切相关菌株的系统发育,我们对“[物种名称3]”KACC 18228的基因组进行了测序。比较基因组分析表明,该菌株与NRRL B-41580、KACC 13015和[物种名称6]亚种FZB42的基因组之间仅存在微小差异。在菌株间比较中计算的成对DNA-DNA杂交值均大于84%,远高于70%的标准物种阈值。形态学、生理学、化学分类学和系统发育分析结果表明,这些菌株具有表型和基因型一致性。因此,我们建议将KACC 13015、[物种名称6]亚种FZB42和“[物种名称3]”KACC 18228重新分类为NRRL B-41580的晚出异名,因为[物种名称1]的有效发表日期早于其他三个菌株。