Genomic and functional characterization of fecal sample strains of Proteus cibarius carrying two floR antibiotic resistance genes and a multiresistance plasmid-encoded cfr gene

Zhu, Tingyuan; Liu, Suzhen; Ying, Yuanyuan; Xu, Lei; Liu, Yabo; Jin, Jianfeng; Ying, Jun; Lü, Jing; Lin, Xiangmin; Li, Kewei; Xu, Teng; Bao, Qiyu; Li, Peizhen

doi:10.1016/j.cimid.2020.101427

Cited by 12 publications

(6 citation statements)

References 46 publications

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“…In other words, the presence of specific bacterial strains was not associated with specific outcomes of healing, but rather the duration of wound healing. This can also be explained by the fact that the previously mentioned bacterial genera belong to multidrug-resistant groups of bacteria, significantly complicating therapies across medical specializations, not just in the treatment of chronic wounds [26,27]. Aerobic or facultative pathogens, such as Staphylococcus, are commonly isolated from infected and clinically non-infected wounds.…”

Section: Discussionmentioning

confidence: 99%

Risk Factors for Non-Healing Wounds—A Single-Centre Study

Wolny,

Štěpánek,

Horáková

et al. 2024

JCM

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Background: Chronic wounds present a significant clinical, social, and economic challenge. This study aimed to objectify the risk factors of healing outcomes and the duration of chronic wounds from various etiologies. Methods: Patients treated for non-healing wounds at the surgical outpatient clinic of the Olomouc Military Hospital were involved. Data from patients treated between 8/2021 and 9/2023 were selected. Patients were mostly treated as outpatients, with microbiological follow-up indicated in cases of advanced signs of inflammation. Results: There were 149 patients who met our selection criteria (the mean age was 64.4 years). Predominant causes of wounds involved diabetes (30.9%), post-trauma (25.5%), pressure ulcers (14.8%), surgical site infections (14.8%), and vascular ulcers (14.1%). Patient outcomes included wound resolution in 77.2% of patients (with a mean healing time of 110.9 days), amputation in 14.1%, and wound-related death in 8.7% of patients. Non-healing cases (amputation/death) were predicted by several local factors including an initial depth greater than 1 cm, wound secretion, inflammatory base, and a maximum wound size. Systemic factors included most strongly clinically manifested atherosclerosis and its risk factors. Of the 110 swabs performed, 103 identified at least 1 bacterial genus. The dominant risk factor for a prolonged healing duration was bacterial infection. Wounds contaminated by Proteus or Pseudomonas had prolonged healing times of 87 days (p = 0.02) and 72 days (p = 0.045), respectively. Conclusions: The early identification of local and systemic risk factors contributes to the successful resolution of chronic wounds and a reduced duration of healing.

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Section: Discussionmentioning

confidence: 99%

Risk Factors for Non-Healing Wounds—A Single-Centre Study

Wolny,

Štěpánek,

Horáková

et al. 2024

JCM

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“…Marques and co-workers in their study performed WGS with 17 Helicobacter pylori clinical isolates from pediatric patients and reported single and combined mutations located in the 23S rRNA gene (A2142C and A2143G), which are associated with resistance to the antibiotic clarithromycin [ 78 ]. In addition, WGS was used by Zhu et al [ 79 ] to study the possible horizontal transfer of florfenicol resistance (floR) gene-related sequences in Proteus strains; this study showed that the Proteus cibarius G11 strain harbored two copies of the floR gene, one on the chromosome and the other on a plasmid (pG11-152). In another plasmid (pG11-51), the presence of the chloramphenicol-florfenicol resistance (cfr) gene was observed, flanked by two IS26.…”

Section: Identification Of Amr Genes/determinants By Wgsmentioning

confidence: 99%

Whole Genome Sequencing: Applications in Clinical Bacteriology

Mustafa

2024

Med Princ Pract

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The success in determining the whole genome sequence of a bacterial pathogen was first achieved in 1995 by determining the complete nucleotide sequence of Haemophilus influenzae Rd using the chain-termination method established by Sanger et al. in 1977 and automated by Hood et al. in 1987. However, this technology was laborious, costly, and time-consuming to obtain whole genome sequences. Since 2004, high-throughput next-generation sequencing technologies have been developed, which are highly efficient, require less time, and are cost-effective to perform whole genome sequencing (WGS) of all organisms, including bacterial pathogens. In recent years, the data obtained using WGS technologies coupled with bioinformatics analyses of the sequenced genomes have been projected to revolutionize clinical bacteriology practices. The WGS technologies have been used in the identification of bacterial species, strains, and genotypes from cultured organisms and directly from clinical specimens. WGS has also helped in determining resistance to antibiotics by the detection of antimicrobial resistance genes and point mutations. Furthermore, WGS data have helped in the epidemiological tracking and surveillance of pathogenic bacteria in healthcare settings as well as in communities. This review focuses on the above-mentioned applications of WGS in clinical bacteriology.

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“…The source and regional distribution of 351 strains are shown in Supplementary Table S1. We have investigated the resistance profile of animal-derived Gram-negative strains in previous studies (Wu et al, 2019;10.3389/fmicb.2022.811692 Frontiers in Microbiology 05 frontiersin.org Li et al, 2020;Liu et al, 2020;Zhu et al, 2020). In this study, we mainly focused on the resistance characteristics of Enterococcus in the animals.…”

Section: Antibiotic Resistance and Resistance Gene Detection Of The I...mentioning

confidence: 99%

Molecular characterization of florfenicol and oxazolidinone resistance in Enterococcus isolates from animals in China

Gao

Feng

et al. 2022

Front. Microbiol.

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Florfenicol is widely used for the treatment of bacterial infections in domestic animals. The aim of this study was to analyze the molecular mechanisms of florfenicol and oxazolidinone resistance in Enterococcus isolates from anal feces of domestic animals. The minimum inhibitory concentration (MIC) levels were determined by the agar dilution method. Polymerase chain reaction (PCR) was performed to analyze the distribution of the resistance genes. Whole-genome sequencing and comparative plasmid analysis was conducted to analyze the resistance gene environment. A total of 351 non-duplicated enteric strains were obtained. Among these isolates, 22 Enterococcus isolates, including 19 Enterococcus. faecium and 3 Enterococcus. faecalis, were further studied. 31 florfenicol resistance genes (13 fexA, 3 fexB, 12 optrA, and 3 poxtA genes) were identified in 15 of the 19 E. faecium isolates, and no florfenicol or oxazolidinone resistance genes were identified in 3 E. faecalis isolates. Whole-genome sequencing of E. faecium P47, which had all four florfenicol and oxazolidinone resistance genes and high MIC levels for both florfenicol (256 mg/L) and linezolid (8 mg/L), revealed that it contained a chromosome and 3 plasmids (pP47-27, pP47-61, and pP47-180). The four florfenicol and oxazolidinone resistance genes were all related to the insertion sequences IS1216 and located on two smaller plasmids. The genes fexB and poxtA encoded in pP47-27, while fexA and optrA encoded in the conjugative plasmid pP47-61. Comparative analysis of homologous plasmids revealed that the sequences with high identities were plasmid sequences from various Enterococcus species except for the Tn6349 sequence from a Staphylococcus aureus chromosome (MH746818.1). The current study revealed that florfenicol and oxazolidinone resistance genes (fexA, fexB, poxtA, and optrA) were widely distributed in Enterococcus isolates from animal in China. The mobile genetic elements, including the insertion sequences and conjugative plasmid, played an important role in the horizontal transfer of florfenicol and oxazolidinone resistance.

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Genomic and functional characterization of fecal sample strains of Proteus cibarius carrying two floR antibiotic resistance genes and a multiresistance plasmid-encoded cfr gene

Cited by 12 publications

References 46 publications

Risk Factors for Non-Healing Wounds—A Single-Centre Study

Risk Factors for Non-Healing Wounds—A Single-Centre Study

Whole Genome Sequencing: Applications in Clinical Bacteriology

Molecular characterization of florfenicol and oxazolidinone resistance in Enterococcus isolates from animals in China

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