Genomic diversity and molecular epidemiology of a multidrug-resistant Pseudomonas aeruginosa DMC30b isolated from a hospitalized burn patient in Bangladesh

Hoque, M. Nazmul; Jahan, M. Ishrat; Hossain, Mohammad Anwar; Sultana, Munawar

doi:10.1016/j.jgar.2022.08.023

Cited by 14 publications

(31 citation statements)

References 67 publications

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“…This identified P. aeruginosa, A. aromaticum EbN1 and 21 other common animal and plant pathogens as more likely to have PPIs with ≥1 of these bla OXA-48-positive plasmids, particularly with the pKP112 and pOXA-48 isoforms, suggesting those plasmids could become common in these species. Consistent with these predictions, bla OXA-48-positive human clinical isolates from Bangladesh [88] and Sudan [89] have been found in P. aeruginosa , even though previous in vitro experiments suggested incompatibility [34]. This is concerning because bla OXA-48 is the most common AMR gene in CPE and is prevalent in Pseudomonas based on carbapenemase gene rates in England from 2020-22 [15].…”

Section: Discussionmentioning

confidence: 79%

Informing plasmid compatibility with bacterial hosts using protein-protein interaction data

Downing

Lee

Archbold

et al. 2022

Preprint

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The compatibility of plasmids in a new host cell is of broad significance, largely due to these plasmids' role in spreading antimicrobial resistance (AMR) and virulence factor genes. Such horizontal gene transfer can transform the host cell phenotypes, but only if the plasmid genes can be replicated, expressed and work synergistically in the new host cell. In vitro screening to evaluate this is laborious and can be informed by efficient computational analyses of plasmid-host compatibility through rates of protein-protein interactions (PPIs) between plasmid and host cell proteins. We identified instances of large excesses of such PPIs in eight plasmids of public health concern, including pOXA-48, using the PPI data of samples representative of most known bacteria (n=4,363). This identified 23 species with high rates of PPIs with four blaOXA-48-positive plasmids, such as Pseudomonas aeruginosa. This approach also identified 48 species with high compatibility with four plasmids common in Escherichia coli infections. We found a strong association of one plasmid with the fimbrial adhesin operon pil, which could enhance host cell adhesion in water environments. Our work on eight plasmids demonstrated that an excess rate of PPIs could be a sign of host-plasmid compatibility, which is important for AMR control because plasmids like pOXA-48 can jump between species with apparent ease. This compatibility could also be a sign of long-term co-evolution and therefore compensation by the host cell, implying the plasmids could be retained even in the absence of antibiotic pressure.

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Section: Discussionmentioning

confidence: 79%

Informing plasmid compatibility with bacterial hosts using protein-protein interaction data

Downing

Lee

Archbold

et al. 2022

Preprint

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“…The strain SRS4 had gene sequences for membrane fusion proteins TriA and TriB but the efflux protein TriC was missing. The presence of Major Facilitator Superfamily efflux pump gene cmlA9 (chloramphenicol), Small Multidrug Resistance family efflux pump gene qacEΔ1 (quaternary ammonium compound) and tetA and tetD (Tetracycline) in both SRS1 and SRS4, strengthens their multidrug phenotypes (Subedi et al, 2018;Hoque et al, 2022). In summary, the presence of ARGs in SRS1 and SRS4 confer their resistance to broad-spectrum antimicrobial drugs, including β-lactams, fluoroquinolones, and aminoglycosides.…”

Section: Resultsmentioning

confidence: 96%

Genomic Analysis to Elucidate the Antibiotic Resistance Mechanism of Extremely Drug-Resistant Pseudomonas Aeruginosa Strains Isolated From Bangladesh

Zahra

Jabeen

Uddin

et al. 2022

Bioresearch Communications

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Multidrug-resistant P. aeruginosa has potential to cause nosocomial infections. In this study, whole-genome sequencing was performed of two extremely drug-resistant novel strains SRS1 and SRS4 isolated from Bangladesh. The size of draft genome of SRS1 is 6.8 Mbp, and 7.0 Mbp for SRS4. In silico analysis predicted that the genome of SRS1 has 82 and SRS4 has 75 antibiotic-resistant genes (ARGs). Antibiogram results revealed that both SRS1 and SRS4 were resistant to multiple members of the antibiotic groups of β−lactam, quinolones, and aminoglycosides families. In addition, the genomes of both SRS1 and SRS4 were predicted to have multiple mobile elements like prophages and plasmids. Comparative genome analysis with wildtype PAO1 and another drug-resistant P. aeruginosa strain JNQH-PA57 revealed that SRS1 and SRS4 contain more antibiotic resistance genes like AAC (6´)-II, ANT (2´´)-Ia, ANT (3´´)-IIa, OXA-395, PME-1, qacEΔ1, tet(A), tet(D), VEB-9 than PAO1 and JNQH-PA57. This study shows the importance of the genomic study to understand the distribution of ARGs in Bangladeshi P. aeruginosa strains to demonstrate the mechanisms responsible for multi drug resistance. Bioresearch Commu. 9(1): 1208-1214, 2023 (January)

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“…Therefore, complete genome sequences of representative strong, moderate, and weak bio lm former isolates (27b, 20c and 30b) were analyzed to nd any sequence variation in bio lm related genes that may have contributed to bio lm formation. Analysis of antibiotic resistant genes and gene cassettes of 27b from its CGS was previously reported by Jahan [24] and genomic diversity and molecular epidemiology of 30b was reported by Hoque [25]. We analyzed the sequences of 88 proteins and regulatory RNA related to these bio lm forming pathways in isolates 27b, 20c, and 30b by comparing them with the reference genome of P. aeruginosa PAO1.…”

Section: Discussionmentioning

confidence: 97%

Genomic Variability Correlates with Biofilm Phenotypes in Multidrug Resistant Clinical Isolates of Pseudomonas aeruginosa

Islam

Saha

et al. 2022

Preprint

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The multifactorial nature of Pseudomonas aeruginosa biofilm development and genomic variabilities implicates its resistance to conventional antimicrobials and virulence. Therefore, genetic determinants need to be extensively studied to block the early steps of biofilm or already formed biofilms. In this study, a total of 20 multidrug resistant (MDR) clinical P. aeruginosa isolates were evaluated for their biofilm forming abilities and related genes. Of the isolates tested, all of them showed surface attachment tendencies in nutrient limiting conditions, and classified as strong (SBF=45%), moderate (MBF=30%) and weak (WBF=25%) biofilm formers. Complete genome sequencing of representative strong (DMC-27b), moderate (DMC-20c) and weak biofilm former (DMC-30b) isolates was performed. Analysis of biofilm related genes in the sequenced genomes revealed that,80 of the 88 biofilm related genes possess 98–100% sequence identity to the reference PA01 strain. Complete and partial sequence data of LecB proteins from tested isolates indicate that isolates containing PA14-like LecB sequences produced strong biofilms. All of the 7 pel operon protein coding genes in weak biofilm former isolate 30b showed significant nucleotide sequence variation with other tested isolates, and their corresponding proteins are 99% identical with the pel operon proteins of PA7. Bioinformatics analyses identified divergent sequence and structural features that separate PA7 like pel operon proteins from reference PAO1 like pel operon. Congo red and pellicle forming assays revealed that the sequence and structure variations may have interfered with the Pel production pathway and resulted in impaired Pel production in isolate 30b that has a PA7 like pel operon. Expression analysis also showed that both PelB and LecB proteins were about 5 to 6 folds upregulated after 24 hours in SBF 27b in comparison with WBF 30b. Our findings indicate significant genomic divergence in biofilm related genes of P. aeruginosa strains that affect their biofilm phenotypes.

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Genomic diversity and molecular epidemiology of a multidrug-resistant Pseudomonas aeruginosa DMC30b isolated from a hospitalized burn patient in Bangladesh

Cited by 14 publications

References 67 publications

Informing plasmid compatibility with bacterial hosts using protein-protein interaction data

Informing plasmid compatibility with bacterial hosts using protein-protein interaction data

Genomic Analysis to Elucidate the Antibiotic Resistance Mechanism of Extremely Drug-Resistant Pseudomonas Aeruginosa Strains Isolated From Bangladesh

Genomic Variability Correlates with Biofilm Phenotypes in Multidrug Resistant Clinical Isolates of Pseudomonas aeruginosa

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