Muzaleva, A. | bioRxiv Science

bioRxiv2024

Lipidomics and colistin resistance in non-human isolates of Acinetobacter seifertii

Acinetobacter baumannii is most well known for its role as a human pathogen and as a member of the Acinetobacter calcoaceticus-baumannii (ACB) complex. However, lesser characterised members of the ACB complex, have also been implicated in hospital-acquired infections. Once mainly considered opportunistic pathogens, many A. baumannii and non-baumannii strains are being isolated from agricultural, water and food sources. The surveillance and tracking of Acinetobacter spp. have been recently suggested to be part of the One Health consortium, to understand and prevent the spread of antimicrobial resistance. Here, we isolated four Acinetobacter strains from tank milk in Bogor, Indonesia and using ANI and dDDH techniques have identified them as Acinetobacter seifertii. MLST methods assigned these A. seifertii strains to a novel Sequence Types (ST), highlighting the diversity not only within the ACB complex but also in non-human Acinetobacter spp. These four A. seifertii strains are colistin-resistant and while they do not harbour any known mechanism of colistin resistance, they do share amino acid substitutions in regulatory proteins, AdeS, PmrAB, H-NS, and the membrane associated proteins, LpxACD, MlaD, PldA, LpsB and EptA that may contribute to this phenotype. Furthermore, down-regulation of the RND efflux pump AdeAB, may also be a key factor in colistin resistance in these non-human A. seifertii strains. Lipidomics revealed an acyl-homoserine lactone (AHL) molecule, and lyso-phosphatidylethanolamine (lyso-PE) in significant abundance compared to colistin-sensitive A. baumannii ATCC17978 revealing lipidomic differences between species. Finally, these four tank milk A. seifertii strains are avirulent in an insect model of virulence. It is possible that A. seifertii strains are intrinsically resistant to colistin and require further study. By investigating these less understood Acinetobacter spp. from non-human sources, our study supports the One Health approach to combatting antibiotic resistance.

microbiology↗

bioRxiv2023

Phylogenomic and phenotypic analyses highlight the diversity of antibiotic resistance and virulence in both human and non-human Acinetobacter baumannii

Acinetobacter baumannii is a Gram-negative opportunistic pathogen causing infections of the immunocompromised. With a high incidence of muti-drug resistance, carbapenem-resistant A. baumannii is as a priority 1 pathogen designated by the WHO. The current literature has expertly characterized clinical isolates of A. baumannii. As the challenge of these infections has recently been classified as a One Health issue, we set out to explore the diversity of isolates from human and non-clinical sources such as agricultural surface water, urban streams, various effluents from wastewater-treatment plants and tank milk; and, importantly, these isolates came from a wide geographic distribution. Phylogenomic analysis considering almost 200 isolates showed that our diverse set is well-differentiated from the main international clones of A. baumannii. We discovered novel sequence types in both hospital and non-clinical settings, and five strains that overexpress the RND efflux pump adeIJK without changes in susceptibility. Further, we detected a blaADC-79 in a non-human isolate despite its sensitivity to all antibiotics. There was no significant differentiation between the virulence profiles of clinical and non-clinical isolates in the Galleria mellonella insect model of virulence suggesting that virulence is neither dependent on geographic origin nor isolation source. Detection of antibiotic resistance and virulence genes in non-human strains suggests that these isolates may act as a genetic reservoir for clinical strains. This endorses the notion that in order to combat multi-drug resistant infection caused by A. baumannii, a One Health approach is required, and a deeper understanding of non-clinical strains must be achieved. ImportanceThe global crisis of antibiotic resistance is a silent one. More and more bacteria are becoming resistant to all antibiotics available for treatment, leaving no options remaining. This includes Acinetobacter baumannii. This Gram-negative opportunistic pathogen shows a high frequency of multi-drug resistance, and many strains are resistant to last-resort drugs carbapenem and colistin. Research has focused on strains of clinical origin, but there is a knowledge gap regarding virulence traits, particularly, how A. baumannii become the notorious pathogen of today. Antibiotic resistance and virulence genes have been detected in strains from animals, and environmental locations such as grass and soil. As such, A. baumannii is a One Health concern which includes the health of humans, animals and the environment. Thus, in order to truly combat the antibiotic resistance crisis, we need to understand antibiotic resistance and virulence gene reservoirs of this pathogen under the One Health continuum. RepositoriesNCBI GenBank Accession numbers: Bioproject PRJNA819071, Biosamples SAMN26898552 - SAMN26898587.

microbiology↗