<scp>PCR</scp> Assay Based on the <i>gyr</i>B Gene for Rapid Identification of <i>Acinetobacter baumannii‐calcoaceticus</i> Complex at Specie Level

Teixeira, Aline Borges; Barin, Juliana; Hermes, Djuli Milene; Barth, Afonso Luís; Martins, Andreza Francisco

doi:10.1002/jcla.22046

Cited by 11 publications

(8 citation statements)

References 20 publications

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“…2002), gyrB (Yamamoto et al. 1999; Teixeira et al. 2017) and, lately, whole genome sequencing (WGS) along with average nucleotide identity (ANI) methodology have been applied (Nemec et al.…”

Section: Introductionmentioning

confidence: 99%

Phylogenomics Reveals Clear Cases of Misclassification and Genus-Wide Phylogenetic Markers for Acinetobacter

Mateo-Estrada

Graña-Miraglia

López-Leal

et al. 2019

Genome Biology and Evolution

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The Gram-negative Acinetobacter genus has several species of clear medical relevance. Many fully sequenced genomes belonging to the genus have been published in recent years; however, there has not been a recent attempt to infer the evolutionary history of Acinetobacter with that vast amount of information. Here, through a phylogenomic approach, we established the most up-to-date view of the evolutionary relationships within this genus and highlighted several cases of poor classification, especially for the very closely related species within the Acinetobacter calcoaceticus–Acinetobacter baumannii complex (Acb complex). Furthermore, we determined appropriate phylogenetic markers for this genus and showed that concatenation of the top 13 gives a very decent reflection of the evolutionary relationships for the genus Acinetobacter. The intersection between our top markers and previously defined universal markers is very small. In general, our study shows that, although there seems to be hardly any universal markers, bespoke phylogenomic approaches can be used to infer the phylogeny of different bacterial genera. We expect that ad hoc phylogenomic approaches will be the standard in the years to come and will provide enough information to resolve intricate evolutionary relationships like those observed in the Acb complex.

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Section: Introductionmentioning

confidence: 99%

Phylogenomics Reveals Clear Cases of Misclassification and Genus-Wide Phylogenetic Markers for Acinetobacter

Mateo-Estrada

Graña-Miraglia

López-Leal

et al. 2019

Genome Biology and Evolution

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“…The identification of species was made by standard phenotypic tests including API 20 NE (bioMe’rieux, Marcy l’Etoile, France). Compared with PCR assays, phenotypic methods have limitation in distinguish AB from other species of the AB complex, such as A. pittii, A. nosocomialis and A. seifertii 16 . Thus, AB in this article refer to the AB complex.…”

Section: Methodsmentioning

confidence: 99%

Characteristics and Outcomes of Acinetobacter baumannii Infections in Patients with HIV: A Matched Case-Control Study

Yang

Tang

et al. 2018

Sci Rep

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Acinetobacter baumannii (AB) infection is an increasing global threaten to hospitalized patients, especially those with impaired immune function. Still, few studies addressed the disease burdens and outcomes of AB infection in HIV patients. We aimed to describe characteristics and outcomes of AB infections in patients with HIV, measure the impact of AB infection on 28-day mortality in HIV patients, as well as assess the predictors of 28-day survival among HIV patients with AB pneumonia. A retrospective study with HIV/AB co-infected patients was conducted at Shanghai Public Health Clinical Center (SPHCC), China. Patients with AB pneumonia were further analyzed for predictors of mortality, as well as an additional 1:1 case-control study to determine the fatality of AB pneumonia compared with pneumonia of other pathogens. We found the incidence of AB infection was 17.4 cases per 100 person-years among all hospitalized HIV patients. Hospital mortality rate was 37.5% (21/56). There was a higher 28-day mortality rate in HIV patients with pneumonia due to AB than other pathogens (34% vs 16%, P = 0.03). APACHE II score was independently associated with 28-day survival by multivariate logistic regression (P = 0.031). Our findings indicate that AB infection is incident and can be fatal in HIV seropositive population. AB infection is an independent risk factor of mortality in patients with HIV and pneumonia. A lower APACHE II score on admission predicts a higher 28-day survival rate among HIV/AB co-infected patients.

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“…In these genera, new species have been described in recent years, and their identification is considered to be of medical relevance. For example, in the genus Acinetobacter , some species comprising the Acinetobacter-calcoaceticus-baumannii -complex (ACB) have been described only recently [ 29 ], but isolates belonging to these species were encountered prior to the valid description of the respective species, including A. pittii as “DNA group 3”, A. nosocomialis as “DNA group 13TU”, or A. seifertii as “close to DNA group 13TU” [ 30 ].…”

Section: Are Databases Of Sufficient Size and Quality?mentioning

confidence: 99%

Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry in Clinical Microbiology: What Are the Current Issues?

et al. 2017

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Matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS) has revolutionized the identification of microbial species in clinical microbiology laboratories. MALDI-TOF-MS has swiftly become the new gold-standard method owing to its key advantages of simplicity and robustness. However, as with all new methods, adoption of the MALDI-TOF MS approach is still not widespread. Optimal sample preparation has not yet been achieved for several applications, and there are continuing discussions on the need for improved database quality and the inclusion of additional microbial species. New applications such as in the field of antimicrobial susceptibility testing have been proposed but not yet translated to the level of ease and reproducibility that one should expect in routine diagnostic systems. Finally, during routine identification testing, unexpected results are regularly obtained, and the best methods for transmitting these results into clinical care are still evolving. We here discuss the success of MALDI-TOF MS in clinical microbiology and highlight fields of application that are still amenable to improvement.

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PCR Assay Based on the gyrB Gene for Rapid Identification of Acinetobacter baumannii‐calcoaceticus Complex at Specie Level

Abstract: These findings evidenced that the multiplex PCR of the gyrB is a feasible and simple method to identify isolates of the ABC at the species level.

Cited by 11 publications

References 20 publications

Phylogenomics Reveals Clear Cases of Misclassification and Genus-Wide Phylogenetic Markers for Acinetobacter

Phylogenomics Reveals Clear Cases of Misclassification and Genus-Wide Phylogenetic Markers for Acinetobacter

Characteristics and Outcomes of Acinetobacter baumannii Infections in Patients with HIV: A Matched Case-Control Study

Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry in Clinical Microbiology: What Are the Current Issues?

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