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sp. nov.,该种的一个新种,从种植玉米的土壤中分离得到。

sp. nov., a novel addition to the genus, isolated from the soil of a cultivated maize field.

机构信息

South Dakota State University, Biology and Microbiology Department, Brookings SD 57007, USA.

出版信息

Int J Syst Evol Microbiol. 2021 Jan;71(1). doi: 10.1099/ijsem.0.004599. Epub 2020 Dec 3.

Abstract

A Gram-negative, rod-shaped bacterium, strain DN04, was isolated from the soil of a maize field in North Carolina, USA. Based on the 16S rRNA gene sequence, the most similar species are Sac-22, DCY83, and Sac-41 with a 97.8, 97.6, or 96.9 % sequence similarity, respectively. We compared the biochemical phenotype of DN04 to Sac-22 and 115 and other reference strains from different genera within the Oxalobacteraceae and while the biochemical profile of DN04 is most similar to Sac-22 and other and strains, there are also distinct differences. DN04 can for example utilize turanose, N-acetyl-d-glucosamine, inosine, and l-pyroglutamic acid. The four fatty acids found in the highest percentages were C iso (24.6 %), C isoG (19.4 %), C iso3-OH (16.8 %), and summed feature 3 (C ⍵7c and/or C ⍵6c) (12.5 %). We also applied whole genome sequencing to determine if DN04 is a novel species. The most similar AAI (average amino acid identity) score was 70.8 % ( NZ CP038026), and the most similar ANI (average nucleotide identity) score was 84.8 % ( KCTC 22382), which indicates that DN04 is a novel species. The genome-to-genome-distance calculation (GGDC) revealed a DDH of 28.3 % to KCTC 22382, which is much lower than the new species threshold. Based on the morphological, phenotypic, and genomic differences, we propose sp. nov. as a novel species within the genus (type strain DN04=NRRL B-65552=LMG 31736).

摘要

一株革兰氏阴性、杆状细菌,菌株 DN04,从美国北卡罗来纳州一个玉米地的土壤中分离得到。基于 16S rRNA 基因序列,最相似的物种是 Sac-22、DCY83 和 Sac-41,序列相似度分别为 97.8%、97.6%和 96.9%。我们将 DN04 的生化表型与 Sac-22 和 115 以及 Oxalobacteraceae 科内不同属的其他参考菌株进行了比较,尽管 DN04 的生化特征与 Sac-22 和其他菌株最为相似,但也存在明显的差异。例如,DN04 可以利用棉子糖、N-乙酰-d-葡萄糖胺、肌苷和 l-焦谷氨酸。发现的四种脂肪酸含量最高的分别是 C iso(24.6%)、C isoG(19.4%)、C iso3-OH(16.8%)和特征脂肪酸 3(C ⍵7c 和/或 C ⍵6c)(12.5%)。我们还应用全基因组测序来确定 DN04 是否为新物种。最相似的 AAI(平均氨基酸同一性)评分是 70.8%(NZ_CP038026),最相似的 ANI(平均核苷酸同一性)评分是 84.8%(KCTC 22382),这表明 DN04 是一个新物种。基因组到基因组距离计算(GGDC)显示与 KCTC 22382 的 DDH 为 28.3%,远低于新物种的阈值。基于形态、表型和基因组差异,我们提议将其作为属内的一个新种(模式菌株 DN04=NRRL B-65552=LMG 31736)。

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