Genome of Superficieibacter maynardsmithii, a novel, antibiotic susceptible representative of Enterobacteriaceae.
Genome of Superficieibacter maynardsmithii, a novel, antibiotic susceptible representative of Enterobacteriaceae.
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DOI：
10.1093/g3journal/jkab019
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发表时间：
2021-02-09
期刊：
影响因子：
--
通讯作者：
Sassera D
中科院分区：
文献类型：
--
作者：
Batisti Biffignandi G;Gibbon MJ;Corbella M;Thorpe HA;Merla C;Castelli M;Kallonen T;Pegrum K;Brisse S;Corander J;Marone P;Feil EJ;Sassera D
在帕维亚（意大利）的全市微生物筛查项目中，从自动柜员机表面分离出的一种细菌菌株被归类为克雷伯菌属。通过 MALDI-TOF 光谱法检测，并通过表型测试表明对大多数抗菌药物类别敏感。经过Illumina基因组测序和后续组装，获得了高质量的基因组草案（大小 = 5,051,593 bp，N50 = 615,571 bp，最大contig = 1,328,029 bp，N_contig = 17，GC含量 = 51.58%，覆盖度 = 141.42），证实不存在抗菌素耐药基因，但该菌株与所有克雷伯菌属高度分化，与其他肠杆菌科细菌更相关。柠檬酸杆菌属、沙门氏菌属和“超级细菌属”的 16S rRNA 同一性值较高。基于直系同源的系统发育分析表明，与肠杆菌科其他成员不同的分支中的“Superficieibacter electus”存在姐妹群关系。为了评估新基因组是否代表“Superficiebacter”新物种，对 78 种肠杆菌科细菌的数据集进行了平均核苷酸同一性 (ANI) 和 Hadamard 分析。新基因组显示与 S. electus 的 ANI 为 87.51%，与该家族其他成员之间的同一性值进行比较，清楚地表明该基因组代表了“Superficieibacter”属中的一个新物种。我们建议将新物种命名为“Superficieibacter maynardsmithii”。
During a citywide microbiological screening project in Pavia (Italy) a bacterial strain isolated from the surface of an Automated Teller Machine was classified as a Klebsiella sp. by MALDI-TOF spectrometry, and shown to be susceptible to the most antimicrobial classes by phenotypic testing. After Illumina genome sequencing and subsequent assembly, a high-quality draft genome was obtained (size = 5,051,593 bp, N50 = 615,571 bp, largest contig = 1,328,029 bp, N_contig = 17, GC content = 51.58%, coverage = 141.42), absence of antimicrobial resistance genes was confirmed, but the strain resulted to be highly divergent from all Klebsiella, and more related to other Enterobacteriaceae. The higher values of 16S rRNA identity were with members of the genera Citrobacter, Salmonella, and “Superficieibacter.” An ortholog-based phylogenomic analysis indicated a sister group relationship with “Superficieibacter electus,” in a distinct clade from other members of the Enterobacteriaceae family. In order to evaluate whether the novel genome represents a new species of “Superficiebacter,” average nucleotide identity (ANI) and Hadamard analysis were performed on a dataset of 78 Enterobacteriaceae. The novel genome showed an ANI of 87.51% with S. electus, which compared on identity values between other members of the family, clearly indicates that the genome represents a new species within the genus “Superficieibacter.” We propose for the new species the name “Superficieibacter maynardsmithii.”
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