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Microorganisms
Special Issues
Microbial Pathogen Isolation and Resistance Gene Identification in Patients
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Microbial Pathogen Isolation and Resistance Gene Identification in Patients

A special issue of Microorganisms (ISSN 2076-2607). This special issue belongs to the section "Antimicrobial Agents and Resistance".

Deadline for manuscript submissions: closed (31 October 2021) | Viewed by 3212

Special Issue Editor

Dr. Branka Bedenic

E-Mail Website
Guest Editor
Department of Microbiology, School of Medicine, University of Zagreb, Šalata 2, Zagreb, Croatia
Interests: carbapenemases; extended-spectrum beta-lactamases; resistance; AmpC beta-lactamases; Klebsiella pneumoniae; Acinetobacter baumannii
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

In recent decades, we have been facing a dramatic increase in antibiotic resistance, particularly among Gram-negative bacteria with the emergence of extensively drug-resistant or pandrug-resistant isolates particularly among Enterobacteriaceae and Acinetobacter baumannii, with no therapeutic options left. This prompts the development of new diagnostic systems to enable rapid detection of resistance genes.

The scope of the Special Issue is the identification of resistance genes in major hospital pathogens, such as Klebsiella pneumoniae, Escherichia coli, Acinetobacter baumannii, Pseudomonas aeruginosa, methicillin-resistant Staphylococcus aureus, and vancomycin-resistant Enterococcus spp. New molecular and phenotypic methods in the identification of extended-spectrum beta-lactamases, plasmid-mediated AmpC beta-lactamases, and carbapenemases, as well as resistance determinants to colistin as last resort antibiotics in the treatment of infectons due to multidrug-resistant Gram-negative bacteria, will also be a topic of interest. Among Gram-positive bacteria, mechanisms of linezolid resistance will be in the focus of the Special Issue. Recent studies have shown that mechanically ventilated SARS-CoV-2 positive patients often have bacterial superinfections with multidrug or extensively drug-resistant bacteria which are associated with increased mortality and prolonged hospital stay. Papers on this current topic are also invited.

Subtopics:

Extended-spectrum beta-lactamases

Plasmid-mediated AmpC β-lactamases

Carbapenemases

Aminoglycoside resistance mechanisms

Fluoroquinolone resistance determinants

Carbapenem-resistant Enterobacteriaceae (CRE)

Carbapenem-resistant Acinetobacter baumannii (CRAB)

Carbapenem-resistant Pseudomonas aeruginosa

New resistance traits among Gram-positive bacteria

Identification of resistance mechanisms in anaerobic bacteria

Mycobacterium tuberculosis and resistance

New detection methods for ESCAPE pathogens

The role of whole genome sequencing and next-generation sequencing in detection of resistance genes

Effect of new identification systems on therapy and patient outcome

Dr. Branka Bedenic
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Microorganisms is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2700 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Published Papers (1 paper)

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Research

11 pages, 1358 KiB  
Article
First Genome Description of Providencia vermicola Isolate Bearing NDM-1 from Blood Culture
by David Lupande-Mwenebitu, Mariem Ben Khedher, Sami Khabthani, Lalaoui Rym, Marie-France Phoba, Larbi Zakaria Nabti, Octavie Lunguya-Metila, Alix Pantel, Jean-Philippe Lavigne, Jean-Marc Rolain and Seydina M. Diene
Microorganisms 2021, 9(8), 1751; https://0-doi-org.brum.beds.ac.uk/10.3390/microorganisms9081751 - 17 Aug 2021
Cited by 4 | Viewed by 2807
Abstract
In this paper, we describe the first complete genome sequence of Providencia vermicola species, a clinical multidrug-resistant strain harboring the New Delhi Metallo-β-lactamase-1 (NDM-1) gene, isolated at the Kinshasa University Teaching Hospital, in Democratic Republic of the Congo. Whole genome sequencing of an [...] Read more.
In this paper, we describe the first complete genome sequence of Providencia vermicola species, a clinical multidrug-resistant strain harboring the New Delhi Metallo-β-lactamase-1 (NDM-1) gene, isolated at the Kinshasa University Teaching Hospital, in Democratic Republic of the Congo. Whole genome sequencing of an imipenem-resistant clinical Gram-negative P. vermicola P8538 isolate was performed using MiSeq and Gridion, and then complete genome analysis, plasmid search, resistome analysis, and comparative genomics were performed. Genome assembly resulted in a circular chromosome sequence of 4,280,811-bp and 40.80% GC and a circular plasmid (pPV8538_NDM-1) of 151,684-bp and 51.93%GC, which was identified in an Escherichia coli P8540 strain isolated in the same hospital. Interestingly, comparative genomic analysis revealed multiple sequences acquisition within the P. vermicola P8538 chromosome, including three complete prophages, a siderophore biosynthesis NRPS cluster, a Type VI secretion system (T6SS), a urease gene cluster, and a complete Type-I-F CRISPR-Cas3 system. Β-lactamase genes, including blaCMY-6 and blaNDM-1, were found on the recombinant plasmid pPV8538_NDM-1, in addition to other antibiotic resistance genes such as rmtC, aac6’-Ib3, aacA4, catA1, sul1, aac6’-Ib-cr, tetA, and tetB. Genome comparison with Providencia species revealed 82.95% of average nucleotide identity (ANI), with P. stuartii species exhibiting 90.79% of proteome similarity. We report the first complete genome of P. vermicola species and for the first time the presence of the blaNDM-1 gene in this species. This work highlights the need to improve surveillance and clinical practices in DR Congo in order to reduce or prevent the spread of such resistance. Full article
(This article belongs to the Special Issue Microbial Pathogen Isolation and Resistance Gene Identification in Patients)
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