Department of Microbiology and Immunology, Faculty of Pharmacy, Suez Canal University, Ismailia, Egypt.
Biomedical Research Department, Armed Force College of Medicine, Cairo, Egypt.
PLoS One. 2022 Mar 23;17(3):e0265884. doi: 10.1371/journal.pone.0265884. eCollection 2022.
Klebsiella pneumoniae is considered a threat to public health especially due to multidrug resistance emergence. It is largely oligoclonal based on multi-locus sequence typing (MLST); in Egypt, ST 627 was recently detected. Despites the global dissemination of this ST, there is still paucity of information about it. Herein, we used 4 K. pneumoniae ST627 for whole genome sequencing utilizing an Illumina MiSeq platform. Genome sequences were examined for resistance and virulence determinants, capsular types, plasmids, insertion sequences, phage regions, and Clustered Regularly Interspaced Palindromic Repeats (CRISPR) regions using bioinformatic analysis. The molecular characterization revealed 15 and 65 antimicrobial resistance and virulence genes, respectively. Resistance genes such as tet(D), aph(3'')-Ib, aph(6)-Id, blaTEM-234, fosA, and fosA6; were mainly responsible for tetracycline, aminoglycoside, and fosfomycin resistance; respectively. The capsular typing revealed that the four strains are KL-24 and O1v1. One plasmid was found in all samples known as pC17KP0052-1 and another plasmid with accession no. NZ_CP032191.1 was found only in K90. IncFIB(K) and IncFII(K) are two replicons found in all samples, while ColRNAI replicon was found only in K90. Entero P88, Salmon SEN5, and Klebsi phiKO2 intact phage regions were identified. All samples harbored CRISPR arrays including CRISPR1 and CRISPR2. Our results shed light on critical tasks of mobile genetic elements in ST 627 in antibiotic resistance spreading.
肺炎克雷伯菌被认为是对公众健康的威胁，尤其是由于其出现了多药耐药性。它主要基于多位点序列分型（MLST）呈寡克隆性；最近在埃及检测到 ST627。尽管这种 ST 在全球范围内传播，但关于它的信息仍然很少。在此，我们使用 4 株肺炎克雷伯菌 ST627 进行全基因组测序，利用 Illumina MiSeq 平台。使用生物信息学分析检查基因组序列中的耐药性和毒力决定因素、荚膜型、质粒、插入序列、噬菌体区和成簇规则间隔短回文重复序列（CRISPR）区。分子特征分析显示分别有 15 个和 65 个抗微生物和毒力基因。tet(D)、aph(3'')-Ib、aph(6)-Id、blaTEM-234、fosA 和 fosA6 等耐药基因主要负责四环素、氨基糖苷类和磷霉素耐药；分别。荚膜分型显示这 4 株菌均为 KL-24 和 O1v1。在所有样本中发现了一种质粒，称为 pC17KP0052-1，另一种质粒， accession no. NZ_CP032191.1 仅在 K90 中发现。所有样本中都发现了 IncFIB(K)和 IncFII(K)两种复制子，而 ColRNAI 复制子仅在 K90 中发现。Entero P88、Salmon SEN5 和 Klebsi phiKO2 完整噬菌体区被鉴定。所有样本均携带 CRISPR 阵列，包括 CRISPR1 和 CRISPR2。我们的结果阐明了移动遗传元件在 ST627 抗生素耐药性传播中的关键任务。
