Multiplex &lt;b&gt;&lt;i&gt;gyrB&lt;/i&gt;&lt;/b&gt; PCR Assay for Identification of &lt;b&gt;&lt;i&gt;Acinetobacter baumannii&lt;/i&gt;&lt;/b&gt; Is Validated by Whole Genome Sequence-Based Assays

Albert, M. John; Hashem, G. Al; Rotimi, Vincent O.

doi:10.1159/000526402

Cited by 3 publications

(1 citation statement)

References 22 publications

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“…Isolation of A. baumannii from swabs was performed by enrichment culture and growth on selective agar. Isolates were confirmed using API 20 NE and an A. baumannii -specific multiplex PCR assay based on gyrB gene ( 19 , 20 ).…”

Section: Methodsmentioning

confidence: 99%

The whole-genome molecular epidemiology of sequential isolates of Acinetobacter baumannii colonizing the rectum of patients in an adult intensive care unit of a tertiary hospital

Bulach,

Carter,

et al. 2023

Microbiol Spectr

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Acinetobacter baumannii is a nosocomial multidrug-resistant pathogen that specifically colonizes and infects patients in intensive care units (ICUs). Genome plasticity of A. baumannii may contribute to the rapid development of A. baumannii resistance during patient treatment. There is little clarity on the dynamics of colonization of A. baumannii in humans. We studied 269 serial isolates of A. baumannii colonizing the rectum of 32 adult patients in an ICU; 5 to 16 isolates were obtained from each patient over a period of weeks to months. The isolates were sequenced using the Illumina platform. Multi-locus sequence typing revealed genetic diversity with 13 sequence types (STs); the dominant ST2 accounted for 202 of the 269 isolates and was isolated from each patient. A core genome comparison of isolates was used to elucidate a detailed understanding of the relationship among isolates within an ST and the genomic relationship among STs. One to three STs were observed in the isolates from each patient. Instances of unchanged colonization, sequential lineage colonization, and colonization with multiple lineages of A. baumannii were seen. The number of resistance genes carried by the isolates varied from 2 to 17. The predominant genes corresponded to those encoding resistance to β-lactam and aminoglycoside antibiotics. Generally, there was a strong correlation between ST and a particular antimicrobial resistance gene profile. This study makes an important baseline contribution to information that will help us understand the role of A. baumannii colonization in the development of opportunistic infections in ICU patients. IMPORTANCE Acinetobacter baumannii is a multidrug-resistant nosocomial pathogen that colonizes and infects debilitated patients in the ICU. There is very little information on the genomic characteristics of colonizing strains. This information is important to understand the evolution of lineages of A. baumannii that develop resistance while patients receive antibiotic treatment in the ICU. Our study demonstrated different patterns of colonization of the rectum of ICU patients with different STs of A. baumannii while one ST colonized all patients. Some STs carried more antibiotic resistance genes compared to others. However, there was a correlation between ST and a particular resistance gene profile. Our results further elucidate the dynamics of enteric colonization of this opportunistic pathogen.

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Section: Methodsmentioning

confidence: 99%

The whole-genome molecular epidemiology of sequential isolates of Acinetobacter baumannii colonizing the rectum of patients in an adult intensive care unit of a tertiary hospital

Bulach,

Carter,

et al. 2023

Microbiol Spectr

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Identification of genus Deinococcus strains by PCR detection using the gyrB gene and its extension to Bacteria domain

Yoon,

Lee,

Noh

et al. 2024

Journal of Microbiological Methods

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Comparative pangenomic analysis of Campylobacter fetus isolated from Spanish bulls and other mammalian species

Pena-Fernández,

Ocejo,

van der Graaf-van Bloois

et al. 2024

Sci Rep

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Campylobacter fetus comprises two closely related mammal-associated subspecies: Campylobacter fetus subsp. fetus (Cff) and Campylobacter fetus subsp. venerealis (Cfv). The latter causes bovine genital campylobacteriosis, a sexually-transmitted disease endemic in Spain that results in significant economic losses in the cattle industry. Here, 33 C. fetus Spanish isolates were whole-genome sequenced and compared with 62 publicly available C. fetus genomes from other countries. Genome-based taxonomic identification revealed high concordance with in silico PCR, confirming Spanish isolates as Cff (n = 4), Cfv (n = 9) and Cfv biovar intermedius (Cfvi, n = 20). MLST analysis assigned the Spanish isolates to 6 STs, including three novel: ST-76 and ST-77 for Cfv and ST-78 for Cff. Core genome SNP phylogenetic analysis of the 95 genomes identified multiple clusters, revealing associations at subspecies and biovar level between genomes with the same ST and separating the Cfvi genomes from Spain and other countries. A genome-wide association study identified pqqL as a Cfv-specific gene and a potential candidate for more accurate identification methods. Functionality analysis revealed variations in the accessory genome of C. fetus subspecies and biovars that deserve further studies. These results provide valuable information about the regional variants of C. fetus present in Spain and the genetic diversity and predicted functionality of the different subspecies.

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Multiplex <b><i>gyrB</i></b> PCR Assay for Identification of <b><i>Acinetobacter baumannii</i></b> Is Validated by Whole Genome Sequence-Based Assays

Cited by 3 publications

References 22 publications

The whole-genome molecular epidemiology of sequential isolates of Acinetobacter baumannii colonizing the rectum of patients in an adult intensive care unit of a tertiary hospital

The whole-genome molecular epidemiology of sequential isolates of Acinetobacter baumannii colonizing the rectum of patients in an adult intensive care unit of a tertiary hospital

Identification of genus Deinococcus strains by PCR detection using the gyrB gene and its extension to Bacteria domain

Comparative pangenomic analysis of Campylobacter fetus isolated from Spanish bulls and other mammalian species

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