Genomic and phenotypic analyses of diverse non-clinical Acinetobacter baumannii strains reveals strain-specific virulence and resistance capacity

Hamidian, Mohammad; Maharjan, Ram; Farrugia, Daniel N.; Delgado, Natasha N; Dinh, Hue; Short, Francesca L.; Kostoulias, Xenia; Peleg, Anton Y.; Paulsen, Ian T.; Cain, Amy K.

doi:10.1099/mgen.0.000765

Cited by 18 publications

(36 citation statements)

References 100 publications

(191 reference statements)

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“…We previously reported that the environmental A. baumannii strain E-072658 carries eight plasmids [29]. As also previously reported, E-072658 belongs to a novel sequence type (ST649) and it is not related to any other strains characterized to date (including all clinical and environmental strains).…”

Section: Resultsmentioning

confidence: 88%

“…baumannii strain E-072658 [28], recovered in recycled fibre pulp in a Finnish paper mill, and Hamidian et al . [29] were analysed in this study.…”

Section: Methodsmentioning

confidence: 99%

“…The antibiotic resistance profile against 23 antibiotics was previously determined [29] using the standard CDS (http://cdstest.net) disc diffusion method. Here, we measured the minimal inhibitory concentration (MIC) against colistin using the standard micro broth dilution method as previously described [30, 31] and interpreted according to the Clinical and Laboratory Standards Institute (CLSI) guidelines for Acinetobacter spp .…”

Section: Methodsmentioning

confidence: 99%

“…Sequences of eight novel plasmids previously reported in the genome sequence of A. baumannii strain E-072658 [28], recovered in recycled fibre pulp in a Finnish paper mill, and Hamidian et al [29] were analysed in this study.…”

Section: Bacterial Genome Sequencementioning

confidence: 99%

“…The antibiotic resistance profile against 23 antibiotics was previously determined [29] using the standard CDS (http://cdstest. net) disc diffusion method.…”

Section: Antibiotic Resistance Profilementioning

confidence: 99%

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The evolutionary tale of eight novel plasmids in a colistin-resistant environmental Acinetobacter baumannii isolate

Prity,

Tobin,

Maharajan

et al. 2023

Microbial Genomics

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Acinetobacter baumannii is an important opportunistic pathogen known for its high levels of resistance to many antibiotics, particularly those considered last resorts such as colistin and carbapenems. Plasmids of this organism are increasingly associated with the spread of clinically important antibiotic resistance genes. Although A. baumannii is a ubiquitous organism, to date, most of the focus has been on studying strains recovered from clinical samples ignoring those isolated in the environment (soil, water, food, etc.). Here, we analysed the genetic structures of eight novel plasmids carried by an environmental colistin-resistant A. baumannii (strain E-072658) recovered in a recycled fibre pulp in a paper mill in Finland. It was shown that E-072658 carries a new variant of the mcr-4 colistin resistance gene (mcr-4.7) in a novel Tn3-family transposon (called Tn6926) carried by a novel plasmid p8E072658. E-072658 is also resistant to sulphonamide compounds; consistent with this, the sul2 sulphonamide resistance gene was found in a pdif module. E-072658 also carries six additional plasmids with no antibiotic resistance genes, but they contained several pdif modules shared with plasmids carried by clinical strains. Detailed analysis of the genetic structure of all eight plasmids carried by E-072658 showed a complex evolutionary history revealing genetic exchange events within the genus Acinetobacter beyond the clinical or environmental origin of the strains. This work provides evidence that environmental strains might act as a source for some of the clinically significant antibiotic resistance genes.

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Section: Resultsmentioning

confidence: 88%

“…baumannii strain E-072658 [28], recovered in recycled fibre pulp in a Finnish paper mill, and Hamidian et al . [29] were analysed in this study.…”

Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

Section: Bacterial Genome Sequencementioning

confidence: 99%

“…The antibiotic resistance profile against 23 antibiotics was previously determined [29] using the standard CDS (http://cdstest. net) disc diffusion method.…”

Section: Antibiotic Resistance Profilementioning

confidence: 99%

See 3 more Smart Citations

The evolutionary tale of eight novel plasmids in a colistin-resistant environmental Acinetobacter baumannii isolate

Prity,

Tobin,

Maharajan

et al. 2023

Microbial Genomics

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Genomic features and virulence characteristics of a rare Burkholderia thailandensis strain causing human infection

et al. 2023

Journal of Medical Microbiology

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Introduction. Burkholderia thailandensis is a clinically rare opportunistic pathogen in the genus Burkholderia , and the genomic features and virulence characteristics of B. thailandensis strains that cause human infection remain unclear. Gap Statement. B. thailandensis strains with different virulence induce different host innate immune responses in vitro. Aim. This work aimed to understand the sequence diversity, phylogenetic relationship, and virulence of B. thailandensis BPM causing human infection. Methodology. The comparative molecular and genomic analyses, and mouse infection studies were applied to analyse the virulence and genomic features of B. thailandensis BPM originating from China. Results. The whole genome sequence analysis showed that the genomes of BPM and other avirulent B. thailandensis strains were broadly similar, comprising two highly syntenic chromosomes with comparable numbers of coding regions (CDs), protein family distributions, and horizontally acquired genomic islands. By examining species-specific genomic regions, we obtained molecular explanations for previously known differences in virulence and discovered the potential specific virulence-associated genes of BPM, which likely work together to confer the virulence of BPM. Significantly reduced LD50 and survival rates during mouse infection experiments were found in BPM compared to the avirulent B. thailandensis E264 (BtE264). Conclusion. Taken together, the results of this study provide basic information on the genomic features and virulence characteristics of the virulent B. thailandensis strain BPM, which is helpful for understanding its evolution as it relates to pathogenesis and environmental adaptability.

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Acinetobacter baumannii from grass: novel but non-resistant clones

et al. 2023

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Acinetobacter baumannii is one the most worrisome nosocomial pathogens, which has long been considered almost mainly as a hospital-associated bacterium. There have been some studies about animal and environmental isolates over the last decade. However, little effort has been made to determine if this pathogen dwells in the grass. Here, we aim to determine the evolutionary relationships and antibiotic resistance of clones of A. baumannii sampled from grass to the major human international clones and animal clones. Two hundred and forty genomes were considered in total from four different sources for this study. Our core and accessory genomic epidemiology analyses showed that grass isolates cluster in seven groups well differentiated from one another and from the major human and animal isolates. Furthermore, we found new sequence types under both multilocus sequence typing schemes: two under the Pasteur scheme and seven for the Oxford scheme. The grass isolates contained fewer antibiotic-resistance genes and were not resistant to the antibiotics tested. Our results demonstrate that these novel clones appear to have limited antibiotic resistance potential. Given our findings, we propose that genomic epidemiology and surveillance of A. baumannii should go beyond the hospital settings and consider the environment in an explicit One Health approach.

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Genomic and phenotypic analyses of diverse non-clinical Acinetobacter baumannii strains reveals strain-specific virulence and resistance capacity

Cited by 18 publications

References 100 publications

The evolutionary tale of eight novel plasmids in a colistin-resistant environmental Acinetobacter baumannii isolate

The evolutionary tale of eight novel plasmids in a colistin-resistant environmental Acinetobacter baumannii isolate

Genomic features and virulence characteristics of a rare Burkholderia thailandensis strain causing human infection

Acinetobacter baumannii from grass: novel but non-resistant clones

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