Draft Genome Sequence of a Multidrug-Resistant Pseudomonas aeruginosa Strain Isolated from a Patient with a Urinary Tract Infection in Khartoum, Sudan

Hussain, Mohamed A.; Suliman, Malik; Ahmed, Ayman H.; Altayb, Hisham N.; Elneima, Elamin

doi:10.1128/genomea.00203-17

Cited by 11 publications

(16 citation statements)

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“…The study showed that 74 of the isolates were resistant to carbenicillin [31]. While a new study conducted in Sudan found a multidrugresistant (MDR) P. aeruginosa isolate from urine of patient with a urinary tract infection was highly resistant to many antibiotics including ciprofloxacin, gentamicin, ceftazidime, piperacillin, and meropenem [32].…”

Section: Discussionmentioning

confidence: 99%

Molecular characterization of Pseudomonas aeruginosa isolates from various clinical specimens in Khartoum/Sudan: Antimicrobial resistance and virulence genes

Babour

Mohamed

Shehabi

2020

int. arab. j antimicrob. agents

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Background: Pseudomonas aeruginosa is a pathogenic organism responsible for frequent wound and nosocomial infections worldwide. Its infections are difficult to control since the organism is known to rapidly develop antibiotic resistance and becomes multidrug-resistant (MDR) during treatment of patients. Aim of the study: This study was intended to investigate the occurrence of certain important types of (ESBL) and (MBL) enzymes in association with important specific virulence factors associated with P. aeruginosa clinical isolates from Khartoum, Sudan. Methods: This study investigated 70 P. aeruginosa isolates which were collected from patients admitted to four major hospitals in Khartoum (Fedail, Ribat, Ibn Sina and Soba hospitals). These isolates were recovered from 40 wound swabs (57.1%), 27 urine samples (38.6%), and 3 pleural fluid samples (4.3%) of patients. Higher numbers of isolates were recovered from males 42 (60%) than in females 28 (40%). All P. aeruginosa isolates were first confirmed by conventional biochemical and second using molecular PCR tests. PCR methods were also used for detecting the presence of the virulence genes ToxA, AlgD, LasB, exoS, exoU, CTX, GES-1, and genes of VIM, IMP, KPC, CTX, VEB-1 and SHV-1. Results: Antimicrobial susceptibility testing of P. aeruginosa isolates showed a high resistance to azetronam 49 (70%), followed by ceftazidime 32 (45.7%), 16 ciprofloxacin (22.9%), gentamicin 13 (18.6 %), piperacillin-tazobactam 11 (15.7%), amikacin 9 (12.9 %), and imipenem 6 (8.6%) showed the least resistance. All isolates were positive for algD and lasB (100%), followed by toxA (90%), exoS (34.3), exoU (24.3%), respectively. The rates of detected ESBL genes blaTEM, blaCTX-m, blaSHV-1,GES-1, were 3.3%, 6.6%, 10%, 3.3%,10%, respectively, but all isolates were negative for bla-KPC and bla- VIM and IMP . The percentages of pigment production were 61.4% for pyocyanin, 37.1% for pyoverdin and 1.4% for pyorubin. Conclusion: The study demonstrated high rates of antimicrobial resistance markers to most commonly used antibiotics in treatment of P. aeruginosa infections. The majority of the isolates from urine and wound samples carried at least three potential virulence factor genes of algD, lasB and toxA and without any significant relation to their antimicrobial resistance markers.

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Section: Discussionmentioning

confidence: 99%

Molecular characterization of Pseudomonas aeruginosa isolates from various clinical specimens in Khartoum/Sudan: Antimicrobial resistance and virulence genes

Babour

Mohamed

Shehabi

2020

int. arab. j antimicrob. agents

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“…This was further confirmed following the genomic analysis of the resistance genes (Table 2). Several published studies on P. aeruginosa genome characterization have highlighted the prevalence of blaPAO and blaOXA50 which are classified as β-lactamases resistance genes [44,45]; and this does not make a difference in the P. aeruginosa strains under study. In the study conducted by Girlich and colleagues [32], it was confirmed that insertion of blaOXA-50 into a P. aeruginosa host, decreases susceptibility to ampicillin, ticarcillin, moxalactam and meropenem.…”

Section: Antibiotic Resistancementioning

confidence: 99%

“…Apart from the rmtB gene, aminoglycosides modifying enzymes (AMEs) were found within UY1PASBAL and UY1PSABAL2 genomes, and it was exclusively aminoglycoses phosphotransferases (APHs) that mostly confer resistance to amikacin and isepamicin [49]. The aph(3')-IIb variant found in both UY1PASBAL and UY1PSABAL2 genome has been observed among MDR P. aeruginosa from several studies [44,45,50].…”

Section: Plos Onementioning

confidence: 99%

Whole-genome sequence of multi-drug resistant Pseudomonas aeruginosa strains UY1PSABAL and UY1PSABAL2 isolated from human broncho-alveolar lavage, Yaoundé, Cameroon

et al. 2020

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Pseudomonas aeruginosa has been implicated in a wide range of post-operation wound and lung infections. A wide range of acquired resistance and virulence markers indicate surviving strategy of P. aeruginosa. Complete-genome analysis has been identified as efficient approach towards understanding the pathogenicity of this organism. This study was designed to sequence the entire genome of P. aeruginosa UY1PSABAL and UY1PSABAL2; determine drug-resistance profiles and virulence factors of the isolates; assess factors that contribute toward stability of the genomes; and thereafter determine evolutionary relationships between the strains and other isolates from similar sources. The genomes of the MDR P. aeruginosa UY1PSABAL and UY1PSABAL2 were sequenced on the Illumina Miseq platform. The raw sequenced reads were assessed for quality using FastQC v.0.11.5 and filtered for low quality reads and adapter regions using Trimmomatic v.0.36. The de novo genome assembly was made with SPAdes v.3.13 and annotated using Prokka v.2.1.1 annotation pipeline; Rapid Annotation using Subsytems Technology (RAST) server v.2.0; and PATRIC annotation tool v.3.6.2. Antimicrobial resistance genes and virulence determinants were searched through the functional annotation data generated from Prokka, RAST and PATRIC annotation pipelines; In addition to ResFinder and Comprehensive Antibiotic Resistance Database (CARD) which were employed to determine resistance genes. The PHAge Search Tool Enhanced Release (PHASTER) web server was used for the rapid identification and annotation of prophage sequences within bacterial genome. Predictive secondary metabolites were identified with AntiSMASH v.5.0. Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) and cas genes regions were also investigated with the CRISPRone and CRISPRFinder server. The genome sizes of 7.0 and 6.4 Mb were

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“…Pseudomonas aeruginosa is an opportunistic Gram-negative, rod-shaped bacterium that is frequently implicated in community-acquired and nosocomial infections [1]. It has a natural resistance to different classes of antimicrobial agents, along with the ability to acquire resistance to all other treatment choices [2].…”

Section: Introductionmentioning

confidence: 99%

Antibiogram of Pseudomonas Aeruginosa Isolates from Patients with Diabetic Septic Wounds Attending Two Public Hospitals in Khartoum, Sudan.

Omer¹,

Mustafa²,

Mohamed³

2020

Preprint

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Objectives: Treating infections caused by Pseudomonas aeruginosa is challenging. In addition to its intrinsic ability to develop resistance to multiple classes of antibiotics, it also produces Extended Spectrum β lactamases (ESBL). This study aimed to determine the antimicrobial susceptibility pattern and to determine the ESBL status among the P. aeruginosa isolates from patients at two public military hospitals in Khartoum, Sudan.Results: A total of 34 isolates of P. aeruginosa obtained from patients with diabetic septic foot wounds were tested for their antibiotic sensitivity patterns. Resistance occurred most commonly to Ceftazidime (35%), followed by Ciprofloxacin (20.6%) and Piperacillin (14.7%). We found that 17.6% of the P. aeruginosa isolates were ESBL producers and all of these isolates were sensitive to Meropenem. The chi-squared test showed a significant association between the ESBL status and antimicrobial resistance to Amikacin, Ceftazidime, and Piperacillin. The independent T-test showed a significant association between the ESBL status and resistance to Cefepime. The presence of drug-resistant P. aeruginosa poses a serious health problem. This study suggests sparing the Carbapenems for the ESBL producing P. aeruginosa in our setting. Our findings highlight the need for effective surveillance and antibiogram-guided antibiotic prescription.

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Draft Genome Sequence of a Multidrug-Resistant Pseudomonas aeruginosa Strain Isolated from a Patient with a Urinary Tract Infection in Khartoum, Sudan

Abstract: Pseudomonas aeruginosa infection is difficult to treat due to the presence of antibiotic resistance determinants. Here, we report the genome sequence of a multidrug-resistant P. aeruginosa strain isolated from a patient with a urinary tract infection in 2015.

Cited by 11 publications

References 4 publications

Molecular characterization of Pseudomonas aeruginosa isolates from various clinical specimens in Khartoum/Sudan: Antimicrobial resistance and virulence genes

Molecular characterization of Pseudomonas aeruginosa isolates from various clinical specimens in Khartoum/Sudan: Antimicrobial resistance and virulence genes

Whole-genome sequence of multi-drug resistant Pseudomonas aeruginosa strains UY1PSABAL and UY1PSABAL2 isolated from human broncho-alveolar lavage, Yaoundé, Cameroon

Antibiogram of Pseudomonas Aeruginosa Isolates from Patients with Diabetic Septic Wounds Attending Two Public Hospitals in Khartoum, Sudan.

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