Accepted Manuscript Clonal spread of carbapenem-resistant Acinetobacter baumannii in neonatal intensive care unit Wirlaine Glauce Maciel, Kesia Esther da Silva, Julio Croda, Rodrigo Cayô, Ana Carolina Ramos, Romário Oliveira de Sales, Gleyce Hellen de Almeida de Souza, José Victor Bortolotto Bampi, Leticia Cristina Limiere, Junior César Casagrande, Ana Cristina Gales, Simone Simionatto PII:
S0195-6701(17)30581-9
DOI:
10.1016/j.jhin.2017.10.015
Reference:
YJHIN 5260
To appear in:
Journal of Hospital Infection
Received Date: 12 July 2017 Accepted Date: 20 October 2017
Please cite this article as: Maciel WG, da Silva KE, Croda J, Cayô R, Ramos AC, de Sales RO, de Souza GHdA, Bortolotto Bampi JV, Limiere LC, Casagrande JC, Gales AC, Simionatto S, Clonal spread of carbapenem-resistant Acinetobacter baumannii in neonatal intensive care unit, Journal of Hospital Infection (2017), doi: 10.1016/j.jhin.2017.10.015. This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.
ACCEPTED MANUSCRIPT 1
Clonal spread of carbapenem-resistant Acinetobacter baumannii in neonatal
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intensive care unit
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Wirlaine Glauce Maciela§, Kesia Esther da Silvaa§, Julio Crodaa,b,c, Rodrigo Cayôd, Ana
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Carolina Ramosd, Romário Oliveira de Salesa, Gleyce Hellen de Almeida de Souzaa, José
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Victor Bortolotto Bampia, Leticia Cristina Limierec, Junior César Casagrandec, Ana
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Cristina Galesd, Simone Simionattoa*.
§
Both authors have equally contributed to this work.
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a
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Dourados - UFGD, Dourados, Mato Grosso do Sul, Brazil.
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b
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c
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Dourados, Mato Grosso do Sul, Brazil.
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d
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Universidade Federal de São Paulo - UNIFESP, São Paulo - SP, Brazil.
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Fundação Osvaldo Cruz - FIOCRUZ, Campo Grande,Mato Grosso do Sul,Brazil.
Hospital Universitário de Dourados, Universidade Federal da Grande Dourados - UFGD,
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Laboratório ALERTA, Disciplina de Infectologia, Departamento de Medicina,
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Laboratório de Pesquisa em Ciências da Saúde, Universidade Federal da Grande
Running title: Carbapenem-resistant A. baumannii in newborns.
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*Corresponding author Address: Laboratório de Pesquisa em Ciências da
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Saúde/Universidade Federal da Grande Dourados. Rodovia Dourados -Itahum, km 12,
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Cidade Universitária, 79804970, Dourados, Mato Grosso do Sul, Brasil. Phone: +55 67
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3410-2225;
Mobile:
+55
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[email protected].
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99958-5355.
E-mail
address:
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Abbreviations: NICU, neonatal intensive care units; CRAB, carbapenem-resistant A.
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baumannii; NIU, neonatal intermediate unit; PCR, polymerase chain reaction; ST,
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sequence typing; MLST, multilocus sequence typing.
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ACCEPTED MANUSCRIPT SUMMARY
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Acinetobacter baumannii has been frequently associated with colonization and/or
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infection in neonatal intensive care units (NICU). In this study, we describe a clonal
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spread of carbapenem-resistant A. baumannii (CRAB) isolates in a NICU. A total of 21
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CRAB isolates were collected from premature newborns. Only polymyxin B was active
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against such isolates. Nineteen CRAB isolates were clonally related (cluster C that
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belonged to worldwide-disseminated ST1). All newborns had peripheral access and
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previously received β-lactams therapy. The implementation of strict infection control
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measures was of fundamental importance to eradicate the clonal type in the hospital.
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Keywords: Colonization, multi-drug resistant, carbapenem, NICU.
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ACCEPTED MANUSCRIPT INTRODUCTION
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Acinetobacter baumannii is an opportunistic pathogen responsible for serious hospital
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infections associated with high mortality and morbidity rates. The global emergence of
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carbapenem-resistant A. baumannii (CRAB) has also become a major concern among
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neonatal and paediatrics intensive care units (ICUs). Prematurity and low birth weight,
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are considered the main risk factors for colonization and/or infection by CRAB. In
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addition, the newborn’s innate defence mechanisms are immature to respond against
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therapeutic interventions such as the use of invasive devices, antimicrobial broad-
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spectrum therapy and vaccines, thus these factors may favour the acquisition of CRAB.1
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A. baumannii has developed several carbapenem resistance mechanisms, including low
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permeability of the outer membrane, alteration of antibiotic binding sites,
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overexpression of efflux pumps and production of carbapenemases. Metallo-β-
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lactamases and carbapenem-hydrolysing class D β-lactamases are the main
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mechanisms of resistance to carbapenems in A. baumannii. Most genes encoding
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carbapenemases are generally inserted on composite transposons and/or integrons
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carried by conjugative plasmids, which have facilitated the spread of these resistance
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determinants.2 Carbapenem-resistant A. baumannii is typically associated with health
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care–associated infections, leading to significantly higher morbidity, increased
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mortality rates, longer hospitalization and excess health care costs.1,2 This study
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describes the molecular epidemiology and risk factors associated with colonization of
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CRAB in a neonatal intensive care units (NICU) and the control measures implemented
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to contain the clonal spread.
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ACCEPTED MANUSCRIPT METHODS
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Case-control study
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A case-control study was conducted in the NICU and neonatal intermediate unit (NIU)
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of a public teaching hospital located in the city of Dourados, MatoGrosso do Sul, a
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Middle-West Brazilian state, between September 2013 and September 2015. The
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facility provides 187 beds distributed among infirmaries, maternal and infant area and
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the UTIs adult, paediatric, neonatal and Intermediate Care Units (ICU). Newborns
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colonized with CRAB formed were selected as the cases and newborns colonized with
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carbapenem-susceptible A. baumannii were selected as controls. For each case, one
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control was selected during the same study period.
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Bacterial isolates
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The CRAB isolates were recovered from rectal swabs and catheter tip cultures of 21
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newborns. Colonization was defined as the isolation of a microorganism without
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clinical manifestations of infection.3 The study was conducted with the approval of the
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Research Ethics Committee from the Universidade Federal da Grande Dourados
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(process number, 877.292/2014).
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Bacterial identification, susceptibility testing and phenotypic assays
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Bacterial species identification was initially performed using the Vitek2® automated
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system (bioMérieux, Hazelwood, MO) and confirmed by Matrix-Assisted Laser
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Desorption Ionization-Time of Flight Mass Spectrometry (MALDI-TOF MS) using the
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Microflex LT mass spectrometer and Biotyper 3.3 software (Bruker Daltonics, Bremen,
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Germany), based on the manufacturer’s recommendation.4 Antimicrobial susceptibility 5
ACCEPTED MANUSCRIPT profile was determined using theVitek2® automated system (bioMérieux, Hazelwood,
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MO) and interpreted based on the Clinical and Laboratory Standards Institute
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guidelines, except for tigecycline that uses the breakpoints of European Committee on
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Antimicrobial Susceptibility Testing. Screening for the production of carbapenemases
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was performed by ertapenem hydrolysis assay using MALDI-TOF MS, as previously
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published.4
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Polymerase Chain Reaction amplification
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The presence of β-lactamase encoding genes (blaIMP-like, blaNDM-like, blaVIM-like, blaKPC-
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like, blaOXA-23-like, blaOXA-24/40-like, blaOXA-48-like, blaOXA-51-like, blaOXA-58-like, blaOXA-143-
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like) was evaluated using polymerase chain reaction (PCR) followed by DNA sequencing
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using specific primers, as previously described.5 The ISAba1 upstream blaOXA-23-like and
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blaOXA-51-like genes were also subsequently evaluated using the PCR.
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Molecular typing
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Genetic relationship was determined by pulsed-field gel electrophoresis (PFGE) using
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the ApaI restriction enzyme.6 The restriction fragments were separated on a 1% (w/v)
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agarose gel in 0.5% tris-borate-EDTA buffer in a CHEF-DR II electrophoresis system (Bio-
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Rad Laboratories, Richmond, CA, USA) for 19 h at 14°C, using a pulse ramp rate
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changing from 5 s to 60 s, at 6 V/cm. The restriction patterns were analyzed using the
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BioNumerics software v. 3.0 (Applied Maths, Sint-Martens-Latem, Belgium). Percentage
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similarity between the fingerprints was scored using the Dice coefficient. Sequence
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Typing (ST) was characterized by multilocus sequence typing (MLST) based on the
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Institut Pasteur scheme.5 Analyses of the allele sequences and ST were performed
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through the A. baumannii MLST website (http://pubmlst.org/abaumannii/).
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Statistical analysis
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All clinical data were recorded into a Research Electronic Data Capture (Redcap)
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database and SAS v.9.2 (SAS Institute, Cary, NC, USA), and analyzed using univariate
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and multivariate models. Dichotomized and categorical data were analyzed using the
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chi-square test or Fisher’s exact test. For continuous variables, the t-test or analyses of
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variance (ANOVA) were used. Bivariate analyses were performed to verify the
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associations between dependent and independent variables, and those reaching the
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pre-specified level of significance (P < 0.05) were included in the multivariable analysis.
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ACCEPTED MANUSCRIPT RESULTS
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A total of 21 CRAB were isolated from rectal swabs and catheter tip cultures of
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newborns hospitalized at the NICU and NIU. The patient’s age ranged from 2 to 13
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days. There was no difference in age between cases and controls, median age 1 day
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(IQR 1-1). The length of hospitalization varied from 6 to 61 days. All newborns were
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considered premature (<37 weeks) and 15 of them had low birth weight (<2,500g)
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(Table 1). In this study, newborns colonized by CRAB were exposed to previous use of
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extended-spectrum penicillins (100%), cephalosporins (66.7%), and aminoglycosides
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(80.9%).
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In the univariate analysis, CRAB colonization was associated with respiratory
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syndromes (Respiratory Distress Syndrome, Transient Tachypnea), prematurity,
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peripheral venous access and previous exposure to antibiotics, especially
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cephalosporins (Supplementary Table I). A strong relationship between those variables
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was observed, because all newborns were premature, had peripheral access, and
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received β-lactams. Thus, no statistical significant results were observed in the
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multivariate analysis (data not shown). During hospitalization, four patients, who were
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colonized by CRAB, subsequently developed the infection by this pathogen and all of
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them showed clinical improvement after receiving antimicrobial therapy (Table I).
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However, 19.1% (n=4) and 4.7% (n=1) of cases and controls died during the
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hospitalization, respectively. The cause of death in cases could not be attributed to
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CRAB and might be related to unfavourable clinical conditions, such as gastroschisis,
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neonatal anoxia, respiratory complications, congenital syphilis and heart diseases.
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All CRAB isolates showed MIC50s, ≥ 8 mg/L-1for both imipenem and meropenem. They
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were
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piperacillin/tazobactam (MIC50; ≥ 128 mg/L-1), ceftazidime (MIC50; ≥ 32 mg/L-1),
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ceftriaxone (MIC50; ≥ 32 mg/L-1), cefepime (MIC50; ≥ 16 mg/L-1), gentamicin (MIC50; ≥ 16
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mg/L-1), amikacin (n=7/33.3%; MIC50; ≥ 32 mg/L-1), ciprofloxacin (MIC50; ≥ 4 mg/L-1),
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and tigecycline (n=16/76.2%; MIC50; ≥ 8 mg/L-1). However, all CRAB isolates were
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susceptible to colistin (MIC50;≤ 2 mg/L-1) and to a lesser extent, amikacin (n=11/52.4%;
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MIC50;≤ 16 mg/L-1). All strains were phenotypically identified as carbapenemase
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producers by the MALDI-TOF MS and carried ISAba1+blaOXA-23 and ISAba1+blaOXA-51-like
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genes.
resistant
to
ampicillin/sulbactam
(MIC50;
≥
16
mg/L-1),
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PFGE analysis identified that 90.5% of CRAB isolates (n=19) were identical (100%
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similarity) belonging to the designated cluster C, which was found in both ICUs (Figure
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1). MLST typing showed that the majority of CRAB colonizing the premature newborns
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in both neonatal ICUs belonged to ST1, which has been associated with the
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international clone.
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The infection control measures implemented, included surveillance cultures from all
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neonates hospitalized for more than 48 hours in other wards or health institutions.
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Individual use of medical equipment; isolation of patients colonized/infected by CRAB;
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environmental cleaning of all surfaces including walls, floors, ceilings, windows,
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furniture and medical equipment were intensified. Also, regular instruction meetings
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were performed at the hospital wards. After implementing these measures, a
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considerably reduction in the incidence of CRAB was observed (Supplementary Fig 1). 9
ACCEPTED MANUSCRIPT DISCUSSION
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The present study observed that the CRAB colonization was associated with respiratory
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syndromes, prematurity, peripheral access and previous exposure to antibiotics,
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especially cephalosporins. These results are similar to previous reports that show prior
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antimicrobial exposure contributed to the dissemination of carbapenem-resistant
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Gram-negative bacilli in hospitalized patients.6 Prior studies also demonstrated
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associations between carbapenem-resistance and length of exposure to central venous
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catheters and assisted ventilation.7 To analyze the mechanisms of antimicrobial
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resistance, phenotypic and molecular assays of CRAB isolates were performed. The
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presence of ISAba1 upstream blaOXA-23 was responsible for the resistance to
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carbapenems observed among the CRAB strains evaluated in the present study.2
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PFGE identified a predominant clonal type found in both ICUs. Newborns hospitalized
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at the NICU were usually transferred to NIU when their clinical conditions significantly
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improved to continue treatment. Thus, transfer of patients, indirect contact through
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the hands of health care workers, and/or contaminated medical equipment might have
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been responsible for the dissemination of the CRAB clone from one unit to another.
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However, we failed to identify the common source of CRAB acquisition. MLST typing
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showed that the majority of CRAB isolates belonged to ST1. In Latin America, OXA-23-
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producing A. baumannii strains have been mainly related to ST1,8 ST259 and ST798,
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with the last one being the most frequently found ST among Brazilian CRAB.
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Interestingly, in our study, only two CRAB isolates belonged to ST79 and ST25, which
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were both found in the NICU. The presence of ST25 previously reported in Bolivia9,
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which borders the state of Mato Grosso do Sul, may explain the entry of this emerging
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ST group in our state for the first time.
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Carbapenem-resistant A. baumannii constitutes a potential source of transmission to
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other patients and increased the risk of subsequent infection1,3,6. Our study showed
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that following the initial detection of the CRAB, infection control measures have been
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implemented and considerably reduction in the incidence of CRAB was observed
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(Supplementary Fig 1).The main limitation of this study was the lack of relevant data
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regarding systematic surveillance in the past, which made it difficult to determine if
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there was an outbreak. Therefore, these results highlight the importance of the active
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search for CRAB in newborns and importance of infection control measures to avoid
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colonization and to prevent transmission of clones among patients.
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ACCEPTED MANUSCRIPT Acknowledgements
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Conflict of interest statement
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None declared.
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Financial support
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This work was partially supported by the National Council for Science and
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Technological Development (CNPq; grants 480949/2013-1) and by the Fundação de
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Apoio ao Desenvolvimento do Ensino, Ciência e Tecnologia do Estado do Mato Grosso
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do Sul (FUNDECT; grants 0212/12 and 0077/12). We are also grateful to the
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Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) for providing
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grants to W.G.M., K.E.S., A.C.R. and R.C. (PNPD 20131991), and to CNPq for providing
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grant to A.C.G (Process number: 305535/2014-5).
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al. Risk factors and lethality of laboratory-confirmed bloodstream infection
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2. Howard A, O’Donoghue M, Feeney A, Sleator RD. Acinetobacter baumannii an emerging opportunistic pathogen. Virulence 2012; 3:243-250.
3. Jung JY, Park MS, Kim SE, Park BH, Son JY, Kim EY, et al. Risk factors for multi-
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drug resistant Acinetobacter baumannii bacteremia in patients with
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4. Carvalhaes CG, Cayô R, Assis DM, Martins ER, Juliano L, Juliano MA, et al.
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Detection of SPM-1-producing Pseudomonas aeruginosa and class D β-
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Chromatography-Mass Spectrometry and Matrix-Assisted Laser Desorption
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5. Cardoso JP, Cayô R, Girardello R, Gales AC. Diversity of mechanisms conferring
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Acinetobacter baumannii in a newborn intensive care unit in Turkey. J Hosp
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7. Zarrilli R, Di Popolo A, Bagattini M , Giannouli M, Martino D, Barchitta M, et al.
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Clonal spread and patient risk factors for acquisition of extensively drug-
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2016; 4:70-71.
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9. Chagas TP, Carvalho KR, de Oliveira Santos IC, Carvalho-Assef AP.C
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haracterization of carbapenem-resistant Acinetobacter baumannii in Brazil
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Diagn Microbiol Infect Dis 2014; 79:468-472.
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ACCEPTED MANUSCRIPT Figure 1. Dendrogram displaying the genetic relatedness of 21 CRAB isolated from newborns
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hospitalized in NICU and NIU. The 19 isolates containing 100% similarity were grouped under
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the cluster C belonged to ST1.
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Table 1. Clinical characteristics of the babies colonized by CRAB isolates.
5 6 7 8* 9 10 11* 12 13 14 15
Treatment (dosage and days of therapy)
Outcome
OC
C
AMI(18mg), CEP(50mg), PNC(25mg)/13
Recovery
OC
N
AMI(18mg), PNC(25mg)/11
Recovery
OC
N
CAR(20mg), CEP(50mg), PNC(25mg)/20
Death
OC
N
AMI(15mg), PNC(25000UI)/1
Death
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Type birth
09/17/2013 09/23/2013
NICU
21
09/14/2013 09/23/2013
NIU
54
09/23/2013 09/30/2013
NICU
41
10/13/2013 10/21/2013
NICU
12
NICU
28
OC
C
AMI(15mg), PNC(25mg)/10
Recovery
NIU
17
OC
N
CAR(40mg), CEP(50mg), PNC(25mg)/13
Recovery
NICU
26
OC
N
AMI(18mg), PNC(25mg)/9
Recovery
10/13/2013 10/21/2013 11/09/2013 11/11/2013 11/07/2013 11/12/2013
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4*
Length Hospital Place prior to of hospital unit Admission stay (days)
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Date of isolation
11/07/2013 11/12/2013
NICU
19
OC
C
AMI(18mg), CEP(50mg), PNC(25mg)/12
Recovery
11/09/2013 11/12/2013
NIU
6
AH
N
AMI(18mg), PNC(25mg)/5
Recovery
11/09/2013 11/12/2013
NIU
7
OC
N
AMI(18mg), PNC(25mg)/8
Recovery
11/13/2013 11/19/2013
NICU
61
OC
C
11/15/2013 11/19/2013
NICU
59
OC
C
11/15/2013 11/19/2013
NICU
59
OC
C
12/04/2013 12/16/2013
NICU
16
AH
C
CEP(50mg), PNC(25mg)/10
Recovery
01/04/2014 01/07/2014
NIU
9
OC
C
CEP(50mg), PNC(25mg)/9
Recovery
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Date of admission
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Gestational Birth Clinical age (weeks), Weight isolates sex (g) Rectal 35, M 1,850 Swab Rectal 32, F 1,082 Swab Rectal 34, M 1,608 Swab Rectal 27, F 1,036 Swab Catheter 32, F 1,780 tip Rectal 31, F 1,664 Swab Rectal 31, F 1,470 Swab Rectal 31, M 1,790 Swab Rectal 35, M 2,630 Swab Rectal 33, M 2,608 Swab Rectal 31, F 698 Swab Rectal 29, F 1,294 Swab Rectal 29, M 1,320 Swab Catheter 36, M 3,192 tip Rectal 36, F 3,120 Swab
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Patient identification
AMI(18mg), CAR(20mg), CEP(50mg), PNC(25mg)/18 AMI(18mg), CAR(20mg), CEP(50mg), PNC(25mg)/15 AMI(18mg), CEP(50mg), PNC(25mg)/11
Recovery Death Recovery
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1,650
17
32, M
1,830
18
33, M
1,990
19
30, M
1,180
20
34, F
964
21
32, M
1,724
Rectal Swab Rectal Swab Rectal Swab Catheter tip Rectal Swab Rectal Swab
01/06/2014 01/11/2014
NIU
26
OC
C
AMI(18mg), PNC(25mg)/7
Death
01/08/2014 01/15/2014
NIU
23
AH
N
CEP(50mg), PNC(25mg)/8
Recovery
01/06/2014 01/16/2014
NICU
49
01/29/2014 02/04/2014
NIU
52
01/25/2014 02/05/2014
NIU
47
04/20/2014 04/26/2014
NIU
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31, F
OC
C
AH
N
OC
C
OC
N
SC
16
AMI(18mg), CAR(20mg), CEP(50mg), PNC(25mg)/21 AMI(18mg), CEP(50mg), PNC(25mg)/19 AMI(18mg), CAR(20mg), CEP(50mg), PNC(25mg)/18 AMI(18mg), CEP(50mg), PNC(25mg)/8
Recovery Recovery Recovery Recovery
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*Patients who developed infection during hospitalization.Abbreviations:F, female; M, male; NICU, Neonatal Intensive Care Unit; NIU, Neonatal Intermediate Unit. OC, Obstetric Centre; AH, Another Hospital; C, Cesarean; N, Normal. AMI, Aminoglycoside; CAR, Carbapenems; CEP,
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Cephalosporins; PNC, Penicillin.
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