Departamento de Análises Clínicas, Toxicológicas e Bromatológicas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo, Av. do Café S/N, Monte Alegre, 14040-903, Ribeirão Preto, São Paulo, Brazil.
Departamento de Análises Clínicas, Toxicológicas e Bromatológicas, Faculdade de Ciências Farmacêuticas de Ribeirão Preto, Universidade de São Paulo, Av. do Café S/N, Monte Alegre, 14040-903, Ribeirão Preto, São Paulo, Brazil.
J Glob Antimicrob Resist. 2019 Mar;16:181-182. doi: 10.1016/j.jgar.2019.01.026. Epub 2019 Jan 24.
The aim of this study was to report the draft genome sequence of a multidrug-resistant (MDR) Escherichia coli isolate obtained from a jaboticaba (Plinia cauliflora) culture soil in Brazil.
The whole genome of E. coli strain S376 was sequenced on an Illumina MiSeq platform and was assembled using SPAdes v.3.9. All data analyses were performed using tools from the Center for Genomic Epidemiology and Geneious v.11.1.5 software. The genome was annotated using the NCBI Prokaryotic Genome Annotation Pipeline (PGAP) v.3.2.
A total of 4854 protein-coding sequences were identified, with a GC content of 50.4%. Resistome analysis showed acquired antimicrobial resistance genes to β-lactams (bla), tetracyclines [tetA and tet(34)], aminoglycosides (aadA1), trimethoprim (dfrA1) and macrolides (mphA). Mutations in the quinolone resistance-determining region (QRDR) of GyrA, ParC and ParE were detected. Three plasmid incompatibility groups were detected [IncFII (allele 24), IncFIB (allele 1) and ColRNAl]. In silico analysis showed the tetA and mphA are located inside the IncF plasmid. This isolate was classified as ST906 (singleton), serotype O156:H23-fimH61, commensal phylogroup B1 and presented various virulence genes, including iroN, ipfA, cma, gad and iss.
This is the first report of a draft genome sequence of a MDR E. coli ST906 serotype O156:H23-fimH61 obtained from a Brazilian soil. This draft genome sequence can be used to compare MDR E. coli isolated from different sources and to better understand the spread of this clone worldwide.
本研究旨在报告从巴西 jaboticaba（Plinia cauliflora）栽培土壤中分离得到的一株多药耐药（MDR）大肠杆菌分离株的基因组草案序列。
使用 Illumina MiSeq 平台对大肠杆菌 S376 株的全基因组进行测序，并使用 SPAdes v.3.9 进行组装。所有数据分析均使用来自基因中心的工具和 Geneious v.11.1.5 软件进行。使用 NCBI 原核基因组注释管道（PGAP）v.3.2 对基因组进行注释。
共鉴定出 4854 个编码蛋白的序列，GC 含量为 50.4%。耐药组分析显示，该菌获得了对β-内酰胺类（bla）、四环素类[tetA 和 tet(34)]、氨基糖苷类（aadA1）、甲氧苄啶（dfrA1）和大环内酯类（mphA）的抗生素耐药基因。在喹诺酮类药物耐药决定区（QRDR）中检测到 GyrA、ParC 和 ParE 的突变。检测到三种不相容质粒群[IncFII（等位基因 24）、IncFIB（等位基因 1）和 ColRNAl]。计算机分析显示 tetA 和 mphA 位于 IncF 质粒内。该分离株被分类为 ST906（单峰）、血清型 O156:H23-fimH61、共生型 B1 组，具有多种毒力基因，包括 iroN、ipfA、cma、gad 和 iss。
这是首次报道从巴西土壤中分离得到的 MDR 大肠杆菌 ST906 血清型 O156:H23-fimH61 的基因组草案序列。该基因组草案序列可用于比较来自不同来源的 MDR 大肠杆菌，并更好地了解该克隆在全球的传播。
