Draft genome of the multidrug-resistant Citrobacter freundii strain CAPA023 isolated from Arapaima gigas in Peru: Is it a reservoir of resistance and virulence genes?

IF 3.7 3区医学 Q2 INFECTIOUS DISEASES

Journal of global antimicrobial resistance Pub Date : 2025-03-11 DOI:10.1016/j.jgar.2025.03.005

Enrique Garcia-Candela , Aaron Mondragón-Martínez , Manuel Noceda-Rodríguez , Fernando Mesias Valle , Milagros Cabrera-Soregui , Veronica Valverde-Vera , Maria Benito-García , Romina Romayna-Ríos , Miriam Verástegui-Tello , Saurabh Dubey , Hetron M. Munang'andu , Jefferson Yunis-Aguinaga

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引用次数: 0

Abstract

Objectives

The purpose of this study was to analyze the genome of the multidrug-resistant Citrobacter freundii strain CAPA023, which was obtained from diseased Arapaima gigas fry. The study focused on determining mobile genetic elements and genetic factors that contribute to antibiotic resistance and pathogenicity.

Methods

Genomic DNA was sequenced using Illumina NovaSeq (2 × 150 bp) and assembled de novo using Shovill v1.1.0. Resistance genes, virulence factors, plasmids, and mobile elements were identified using ResFinder, CARD, PlasmidFinder, MobileFinder, PathogenFinder, and VFDB.

Results

The 5,059,550 bp draft genome (60 contigs, 51.5% GC) revealed resistance genes for various antibiotic classes, efflux pumps, IncFIB(K) and Col440I plasmids, insertion sequences, and multiple virulence genes.

Conclusion

Considering that this bacterium was found in diseased fish, it is possible that C. freundii plays an important role in the spread of virulence factors and antibiotic resistance in aquaculture environments. This highlights the importance of genomic surveillance in Amazonian aquaculture.

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从秘鲁巨虾中分离的多重耐药弗氏柠檬酸杆菌菌株CAPA023的基因组草图：它是耐药和毒力基因的储存库吗？

目的：分析多药耐药弗氏柠檬酸杆菌（Citrobacter freundii）菌株CAPA023的基因组，该菌株来自患病的巨噬鱼（Arapaima gigas）鱼苗。该研究的重点是确定有助于抗生素耐药性和致病性的移动遗传元件和遗传因素。方法：使用Illumina NovaSeq（2 × 150 bp）测序基因组DNA，使用Shovill v1.1.0重新组装。使用ResFinder、CARD、PlasmidFinder、MobileFinder、PathogenFinder和VFDB对抗性基因、毒力因子、质粒和移动元件进行鉴定。结果：5059,550 bp的草图基因组（60 contigs, 51.5% GC）显示了各种抗生素类的耐药基因、外排泵、IncFIB(K)和Col440I质粒、插入序列和多个毒力基因。结论：考虑到该菌存在于病鱼中，弗氏弓形虫可能在水产养殖环境中毒力因子的传播和抗生素耐药性中发挥了重要作用。这突出了基因组监测在亚马逊水产养殖中的重要性。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Journal of global antimicrobial resistance INFECTIOUS DISEASES-PHARMACOLOGY & PHARMACY

CiteScore

8.70

自引率

2.20%

发文量

285

审稿时长

34 weeks

期刊介绍： The Journal of Global Antimicrobial Resistance (JGAR) is a quarterly online journal run by an international Editorial Board that focuses on the global spread of antibiotic-resistant microbes. JGAR is a dedicated journal for all professionals working in research, health care, the environment and animal infection control, aiming to track the resistance threat worldwide and provides a single voice devoted to antimicrobial resistance (AMR). Featuring peer-reviewed and up to date research articles, reviews, short notes and hot topics JGAR covers the key topics related to antibacterial, antiviral, antifungal and antiparasitic resistance.