Abstract Antibiotic-resistant Escherichia coli is a common occurrence in food, clinical, community and environmental settings worldwide. The resistome, mobilome, virulome phylogenomics of 20 multidrug resistant (MDR) clinical E. isolates collected 2013 from Pretoria, South Africa, were characterised. all extended-spectrum β-lactamase producers, harbouring CTX-M (n = 16; 80%), TEM-1B 10; 50%) OXA 12, 60%) β-lactamases alongside genes mediating resistance to fluoroquinolones, aminoglycosides,...

Abstract Studies evaluating the new GeneXpert Ultra with other rapid diagnostic assays are limited, particularly in different geographical settings. The performance of Ultra, G4, Line probe (LPA) and auramine smear microscopy detecting TB pulmonary extra-pulmonary samples were thus evaluated. Remnants (n = 205 samples) 125 80 specimens from suspects prospectively collected. Each sample was divided for diagnosis using microscopy, MTB/RIF assays, LPA; these all comparatively evaluated, MGIT...

Abstract Antibiotic-resistant Klebsiella pneumoniae is increasingly being implicated in invasive infections worldwide with high mortalities. Forty-two multidrug resistant (MDR) K. isolates were collected over a 4-month period. Antimicrobial susceptibility was determined using Microscan. The evolutionary epidemiology, resistome, virulome and mobilome of the characterised whole-genome sequencing bioinformatics analysis. All contained bla CTX-M gene, whilst 41/42(97%) TEM , 36/42(86%) OXA...

Extended-spectrum-β-lactamase (ESBL)-producing Enterobacteriaceae are critical-priority pathogens that cause substantial fatalities. With the emergence of mobile mcr genes mediating resistance to colistin in Enterobacteriaceae, clinicians now left with few therapeutic options. Eleven clinical strains cephems and/or were genomically analyzed determine their resistomes, mobilomes, and evolutionary relationships global strains. The phylogenomics mcr-9.1-bearing genomes further analyzed. Ten...

Background An outbreak of multidrug-resistant Klebsiella pneumoniae, Escherichia coli, and Enterobacter cloacae infections in a neonatal ward within tertiary hospital South Africa resulted the mortality 10 patients six months. In this work, genomic epidemiology molecular factors mediating were investigated. Methods Bacterial cultures obtained from clinical samples collected infected neonates underwent phenotypic analyses to determine their species, sensitivity antibiotics, production...

Purpose This study examined the patterns and frequency of genetic changes responsible for resistance to first-line (rifampicin isoniazid), fluoroquinolones, second-line injectable drugs in drug-resistant Mycobacterium tuberculosis (MTB) isolated from culture-positive pulmonary (PTB) symptomatic attendees spiritual holy water sites (HWSs) Amhara region. Patients methods From June 2019 March 2020, a cross-sectional was carried out. A total 122 MTB isolates PTB-suspected HWSs region were...

The incidence of multidrug-resistant tuberculosis (MDR-TB) is increasing and the emergence extensively drug-resistant (XDR-TB) a major challenge. Controlling resistance, reducing transmission improving treatment outcomes in MDR/XDR-TB patients reliant on susceptibility testing. Susceptibility testing using phenotypic methods labour intensive time-consuming. Alternative methods, such as molecular assays are easier to perform have rapid turn-around time. World Health Organization (WHO) has...

ABSTRACT The technical limitations of common tests used for detecting pyrazinamide (PZA) resistance in Mycobacterium tuberculosis isolates pose challenges comprehensive and accurate descriptions drug patients with multidrug-resistant (MDR-TB). In this study, a 606-bp fragment (comprising the pncA coding region plus promoter) was sequenced using Ion Torrent next-generation sequencing (NGS) to detect associated PZA mutations 88 recultured MDR-TB from an archived series collected 2001. These...

Abstract Whole‐genome sequence analysis was performed on a multidrug‐resistant Providencia rettgeri PR002 clinical strain isolated from the urine of hospitalized patient in Pretoria, South Africa, 2013. The resistome, mobilome, pathogenicity island(s), as well virulence and heavy‐metal resistance genes isolate, were characterized using whole‐genome sequencing bioinformatic analysis. had genome assembly size 4,832,624 bp with GC content 40.7%, an A/C 2 plasmid replicase gene, four...

The genetic diversity of

ABSTRACT Modern advances in genomics provide an opportunity to reinterpret historical bacterial culture collections. In this study, genotypic antibiotic resistance profiles of Mycobacterium tuberculosis isolates from a 20-year-old multidrug-resistant (MDR-TB) collection South Africa are described. DNA samples extracted the phenotypically MDR-TB ( n = 240) were assayed by Hain line probe assay (LPA) for confirmation and Illumina Miseq whole-genome sequencing (WGS) characterization mutations...

Morganella morganii is an opportunistic bacterial pathogen of the Enterobacteriaceae family that occasionally isolated from clinical (animal and human) specimens with varying resistance profiles. Detailed genomic analyses drug-resistant M. strains are relatively limited, particularly in Africa, which also due to their low isolation rates settings. Here we report on two multidrug-resistant isolates urine hospitalized patients South Africa who presented urinary tract infections 2013. The...

Advances in molecular tools that assess genes harboring drug resistance mutations have greatly improved the detection and treatment of drug-resistant tuberculosis (DR-TB). This study was conducted to determine frequency type are responsible for rifampicin (RIF), isoniazid (INH), fluoroquinolones (FLQs) second-line injectable drugs (SLIDs) Mycobacterium (MTB) isolates obtained from culture-positive pulmonary (TB) patients central, southeastern eastern Ethiopia.In total, 224 stored MTB TB...

Ethiopia is a high-tuberculosis (TB) burden country with 157 new cases per 100,000 people, 23,800 TB-related deaths in 2020. In Ethiopia, TB patients have different healthcare-seeking behaviors. They frequently visit spiritual places, such as holy water sites (HWSs), to seek treatment for their illness spiritually. This study examined the prevalence of pulmonary (PTB) and drug susceptibility profiles Mycobacterium tuberculosis (MTB) isolates among HWS attendees Northwest Ethiopia. A...

The population structure of Mycobacterium tuberculosis complex (MTBC) in Ethiopia is diverse but dominated by Euro-American (Lineage 4) and East-African-Indian 3) lineages. objective this study was to describe the genetic diversity MTBC isolates Central, Eastern Southeastern Ethiopia.A total 223 culture obtained from patients referred Adama Harar TB reference laboratories were spoligotyped. Demographic clinical characteristics collected.Six major lineages: 4), 3), East Asian 2), Indo-Oceanic...

Abstract Background Extended-spectrum β-lactamase (ESBL)-producing Enterobacteriaceae are critical-priority pathogens that cause substantial fatalities. With the emergence of mobile mcr genes mediating resistance to colistin in Enterobacteriaceae, clinicians now left with little therapeutic options. Methods Eleven clinical strains cephems and/or were genomically analysed determine their resistome, mobilome, and evolutionary relationship global strains. The phylogenomics mcr-9.1- bearing...

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Abstract Background There is a general dearth of information on extrapulmonary tuberculosis (EPTB). Here, we investigated Mycobacterium ( Mtb ) drug resistance and transmission patterns in EPTB patients treated the Tshwane metropolitan area, South Africa. Methods Consecutive culture-positive non-pulmonary samples from unique underwent mycobacterial genotyping were assigned to phylogenetic lineages clusters based spoligotypes. MTBDR plus assay was used search mutations for isoniazid rifampin...