Draft genome sequences of clinical mastitis-associated Enterococcus faecalis and Enterococcus faecium carrying multiple antimicrobial resistance genes isolated from dairy cows

IF 3.7 3区医学 Q2 INFECTIOUS DISEASES Journal of global antimicrobial resistance Pub Date : 2024-05-23 DOI:10.1016/j.jgar.2024.05.011

Mohammad H. Rahman , Mohamed E. El Zowalaty , Linda Falgenhauer , Mohammad Ferdousur Rahman Khan , Jahangir Alam , Najmun Nahar Popy , Md. Bahanur Rahman

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Abstract

Objectives

The emergence of antimicrobial-resistant and mastitis-associated Enterococcus faecalis and Enterococcus faecium is of great concern due to the huge economic losses associated with enterococcal infections. Here we report the draft genome sequences of E. faecalis and E. faecium strains that were isolated from raw milk samples obtained from mastitis-infected cows in Bangladesh.

Methods

The two strains were isolated, identified, and genomic DNA was sequenced using the Illumina NextSeq 550 platform. The assembled contigs were analysed for virulence, antimicrobial resistance genes, and multilocus sequence type. The genomes were compared to previously reported E. faecalis and E. faecium genomes to generate core genome phylogenetic trees.

Results

E. faecalis strain BR-MHR218Efa and E. faecium strain BR-MHR268Efe belonged to multilocus sequence types ST-190 and ST-22, respectively, both of which appear to represent relatively rare sequence types. BR-MHR268Efe harboured only one antibiotic resistance gene encoding resistance towards macrolides (lsa(A)), while BR-MHR218Efa harboured ten different antibiotic resistance genes encoding resistance to aminoglycosides (ant[6]-Ia, aph(3′)-III), sulphonamides (aac(6′)-II), lincosamides (lnu(B)), macrolides (erm(B)), MLSB antibiotics (msr(C)), tetracyclines (tet(M), tet(L)), trimethoprim (dfrG), and pleuromutilin-lincosamide-streptogramin A (lsa(E)). Virulence gene composition was different between the two isolates. BR-MHR218Efa harboured only two virulence genes involved in adherence (acm and scm). BR-MHR268Efe harboured eight complete virulence operons including three operons involved in adherence (Ace, Ebp pili, and EfaA), two operons involved in biofilm formation (BopD and Fsr), and three exoenzymes (gelatinase, hyaluronidase, SprE).

Conclusions

The genome sequences of the strains BR-MHR268Efe and BR-MHR218Efa will serve as a reference point for molecular epidemiological studies of mastitis-associated E. faecalis and E. faecium. Additionally, the findings will help understand the complex antimicrobial-resistance in livestock-assoiated Enterococci.

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从奶牛中分离出的携带多种抗菌药耐药性基因的临床乳腺炎相关粪肠球菌和粪肠球菌的基因组序列草案

目的由于肠球菌感染造成的巨大经济损失，抗菌性乳腺炎相关肠球菌和粪肠球菌的出现引起了人们的极大关注。在此，我们报告了从孟加拉国受乳腺炎感染的奶牛的生奶样本中分离出的粪肠球菌和粪肠球菌菌株的基因组序列草案。方法利用 Illumina NextSeq 550 平台对这两种菌株进行分离、鉴定和基因组 DNA 测序。对组装的等位基因进行毒力、抗菌药耐药性基因和多焦点序列类型分析。结果E. faecalis菌株BR-MHR218Efa和E. faecium菌株BR-MHR268Efe分别属于ST-190和ST-22多焦点序列类型，这两种类型似乎代表了相对罕见的序列类型。BR-MHR268Efe 菌株只含有一个抗生素耐药基因，编码对大环内酯类（la(A)）的耐药性，而 BR-MHR218Efa 菌株含有十个不同的抗生素耐药基因，编码对氨基糖苷类（ant[6]-Ia、Aph(3′)-III）、磺胺类（aac(6′)-II）、林可酰胺类（lnu(B)）、大环内酯类（erm(B)）、MLSB 抗生素（msr(C)）、四环素类（tet(M)、tet(L)）、三甲氧苄啶（dfrG）和胸腺嘧啶-林可酰胺-链霉亲和素 A（lsa(E)）。两种分离物的毒性基因组成不同。BR-MHR218Efa 只携带两个参与粘附的毒力基因（acm 和 scm）。而 BR-MHR268Efe 则携带有 8 个完整的毒力操作子，包括 3 个参与粘附的操作子（Ace、Ebp pili 和 EfaA）、2 个参与生物膜形成的操作子（BopD 和 Fsr）以及 3 个外酶（明胶酶、透明质酸酶和 SprE）。结论 BR-MHR268Efe 和 BR-MHR218Efa 菌株的基因组序列将作为乳腺炎相关粪肠球菌和粪肠球菌分子流行病学研究的参考点。此外，研究结果还有助于了解家畜粪便肠球菌复杂的抗菌性。

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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.