DISTRIBUTION OF RESISTANCE GENES ACROSS THE PAN-GENOME OF ACINETOBACTER BAUMANNII

Joyce de Souza; Helisson Faoro

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Trabalho

Título do Trabalho

DISTRIBUTION OF RESISTANCE GENES ACROSS THE PAN-GENOME OF ACINETOBACTER BAUMANNII

Autores

Joyce de Souza
Helisson Faoro

Modalidade

Resumo (poster)

Área temática

DNA e Genômica

Data de Publicação

11/12/2024

País da Publicação

Brasil

Idioma da Publicação

Português

Página do Trabalho

https://www.even3.com.br/anais/epbioinfo2024/988422-distribution-of-resistance-genes-across-the-pan-genome-of-acinetobacter-baumannii

ISBN

978-65-272-1024-5

Palavras-Chave

Acinetobacter baumannii, Pan-genome, Core-genome, Resistome

Resumo

Introduction: Acinetobacter baumannii is prevalent on various biotic and abiotic surfaces, including soil, water, and living organisms. Its presence extends to hospital environments, where it poses a significant risk, causing a series of infections, such as urinary tract, bloodstream, and pneumonia, often resulting in high mortality rates. A. baumannii has a remarkable ability to acquire new genetic determinants, such as those related to antibiotic resistance and virulence. Its open pan-genome further emphasizes the urgent need for research and the development of novel treatment strategies. Objective: To identify the resistome of A. baumannii, we performed a comprehensive pan-genome analysis of clinical isolates. Methodology: All public genomes of A. baumannii isolated from the human host were retrieved from the BV-BRC and NCBI Pathogens Detection databases. After eliminating redundancies between the two databases, assembly quality and metadata availability filters were applied. Genomes with an N50 less than 10,000, 2,000 or more contigs, and a genome size outside the range 3.5 to 5 Mb were excluded from the analysis. Genome integrity (>98%), contamination (<5%), and ambiguous bases (<1%) were assessed using CheckM v1.2.3. Species confirmation was achieved by calculating the average nucleotide identity (ANI) between the genomes and the A. baumannii type strain ATCC19606 using the fastANI v1.33. All genomes were reannotated using the prokka v1.14.6 program. The pan-genome and its partitions were constructed using PPanGGolin v2.1.2. Functional annotation of the core genome was performed using the eggNOG-mapper. Resistance genes were identified with Abricate v1.0.1, using the CARD database. Results and Discussion: We analyzed 10,755 clinical genomes of A. baumannii. These isolates have on average 3,766 genes. The pan-genome of the species is composed of 37,386 gene families. We identified that the core genome, genes shared by 95% or more of the isolates, comprises 2,774 gene families. Functional annotation of the core genome revealed that these genes are mostly related to metabolic and general cellular processes (72.98%) and proteins with unknown function (27.02%). The shell genome, found at intermediate frequencies (2-95%), comprises 3,216 gene families, while the cloud genome, consisting of low-frequency gene families (less than 2%), contains 31,396 gene families. We identified that the resistome of A. baumannii constitutes 0.32% of the pan-genome. The core resistome includes 15 resistance genes, which comprise the regulatory proteins AdeL and AdeN, the efflux pump systems AdeFGH, AdeIJK, AbeM, AbeS, AbaF, AbaQ, and AmvA, as well as the beta-lactamases OXA-115 and ADC-30. Additionally, the shell genome contains 32 resistance genes, while the cloud genome includes 74 resistance genes, which primarily confer resistance through mechanisms such as antibiotic inactivation, antibiotic efflux, and target-based. Conclusion: The pan-genome analysis in this study provided valuable insights into the A. baumannii resistome. These findings are essential for understanding the genetic basis of antimicrobial resistance in this critical pathogen, indicating potential therapeutic targets and underscoring the urgent need for research and development strategies to combat A. baumannii infections.

Título do Evento: Escola Paranaense de Bioinformática
Cidade do Evento: Londrina
Título dos Anais do Evento: Anais da Escola Paranaense de Bioinformática
Nome da Editora: Even3
Meio de Divulgação: Meio Digital

Como citar

SOUZA, Joyce de; FAORO, Helisson. DISTRIBUTION OF RESISTANCE GENES ACROSS THE PAN-GENOME OF ACINETOBACTER BAUMANNII.. In: Anais da Escola Paranaense de Bioinformática. Anais...Londrina(PR) UEL, 2024. Disponível em: https//www.even3.com.br/anais/epbioinfo2024/988422-DISTRIBUTION-OF-RESISTANCE-GENES-ACROSS-THE-PAN-GENOME-OF-ACINETOBACTER-BAUMANNII. Acesso em: 16/07/2025