Professional Documents
Culture Documents
000254
1
Correspondence Laboratório de Pesquisa em Ci^
encias da Saúde, Universidade Federal da Grande Dourados -
Simone Simionatto UFGD, Dourados, Mato Grasso do Sul, Brazil
simonesimionatto@ufgd.edu.br 2
Hospital Universit
ario de Dourados, Universidade Federal da Grande Dourados - UFGD,
Dourados, Mato Grasso do Sul, Brazil
3
Laboratório ALERTA, Disciplina de Infectologia, Departamento de Medicina, Universidade Federal
de S~ao Paulo - UNIFESP, S~
ao Paulo, Brazil
4
Fundaç~ao Osvaldo Cruz, Campo Grande, Mato Grasso do Sul, Brazil
This study describes the molecular characteristics and risk factors associated with carbapenem-
resistant Klebsiella pneumoniae strains. Risk factors associated with KPC-producing K.
pneumoniae strains were investigated in this case-control study from May 2011 to May 2013.
Bacterial identification was performed by matrix-assisted laser desorption/ionization-time-of-flight
mass spectrometry (MALDI-TOF MS). Antimicrobial susceptibility was determined by broth
microdilution. Carbapenemase production was assessed by both modified Hodge test (MHT)
and ertapenem hydrolysis using MALDI-TOF MS. The presence of b-lactamase-encoding genes
was evaluated by PCR and DNA sequencing. Alterations in genes encoding K. pneumoniae
outer membrane proteins were analysed by PCR and DNA sequencing as well as SDS-PAGE.
Genetic relatedness among strains was determined by pulsed-field gel electrophoresis. This
study included 94 patients. Longer hospitalisation, mechanical ventilation, catheters, and previous
surgery were associated with KPC-producing K. pneumoniae. Sixty-eight strains showed
resistance to carbapenems. Carbapenemase production was detected by MHT in 67 K.
pneumoniae strains and by MALDI-TOF MS in 57. The presence of the blaKPC-2 gene was
identified in 57 strains. The blaKPC-2 gene was not found in 11 carbapenem-resistant K.
pneumoniae; instead, the blaCTX–M-1-like, blaCTX–M-2-like, blaCTX-M-8 like, blaCTX-M-14-like and
blaSHV-like genes associated with OmpK35 and OmpK36 alterations were observed. Thirty-three
KPC-producing K. pneumoniae strains were clonally related, and patients infected with these
Received 11 December 2015 strains had a higher mortality rate (78.78 %). Our results show that KPC-producing K.
Accepted 21 March 2016 pneumoniae was associated with several healthcare-related risk factors, including recent surgery.
2011; Hoenigl et al., 2012). Carbapenemases, including Bacterial strains. The carbapenem-resistant K. pneumoniae isolates
enzymes of Ambler classes A Klebsiella pneumonia carbape- during the study period were obtained from 47 patients. Patients’
nemase (KPC), Guiana extended espectrum (GES) and identification and demographic data were recorded. Colonization
was defined as the isolation of strains without clinical manifestation
Serratia marescens enzyme types (SME), B (metallo-b-lacta-
of infection. Clinical infection was defined by medical diagnosis
mases) Imipenemase (IMP), Verona imipenemase (VIM) according to clinical criteria (sepsis, fever, changes in frequency or
and New Delhi metallo-b-lactamase types (NDM), and D colour of secretions, or new radiological findings) associated with
Oxacilinase-48 (OXA-48) can hydrolyse almost all the decision to initiate antibiotic therapy, as well as isolation of
b-lactams. In addition, the rates of carbapenem resistance one strain of KPC-producing K. pneumoniae (Casadevall & Pirofisk,
among K. pneumoniae have dramatically increased 2000). This study was conducted with the approval of the Research
(Queenan & Bush, 2007). The most frequently encountered Ethics Committee from the Universidade Federal da Grande Doura-
carbapenemase is KPC (Leung et al., 2012). KPC occurs dos (no. 039439/2012).
most commonly in K. pneumoniae, but its production has
Bacterial identification, susceptibility testing and phenotypic
also been reported in other Enterobacteriaceae species
assays. Bacterial species were identified using the VITEK 2 automated
(Casadevall & Pirofisk, 2000; Silva et al., 2015). Several out- system (bioMerieux), and confirmed by matrix-assisted laser desorp-
breaks of KPC-producing bacteria have occurred. These tion/ionization-time-of-flight mass spectrometry (MALDI-TOF MS)
outbreaks can be explained by the fact that the KPC-encod- using a Microflex LT spectrometer (Bruker Daltonics), as previously
ing gene generally resides on transposons, which are carried described (Fehlberg et al., 2014). The MICs of antimicrobials were deter-
by conjugative plasmids, increasing its potential to spread mined by broth microdilution according to guidelines from the Clinical
(Gupta et al., 2011) and making this enzyme an interna- and Laboratory Standards Institute (CLSI) (CLSI, 2013). Preliminary
tional clinical and public health concern (Leung et al., screening for the presence of carbapenemases was performed by the
2012). modified Hodge test (MHT) according to CLSI guidelines (CLSI, 2014).
Positive results obtained with the MHT were confirmed by ertapenem
Although many studies have reported on the drug resis- hydrolysis using MALDI-TOF MS, as previously described (Carvalhaes
tance profile of K. pneumoniae worldwide (Gupta et al., et al., 2013).
2011; Souli et al., 2012; Carvalhaes et al., 2013), there is
PCR amplification and sequencing of b-lactamase encoding
limited information regarding the epidemiology of this
genes. The presence of b-lactamase genes (blaTEM-like, blaSHV-like,
species in Mid-Eastern Brazil. A case-control and molec- blaCTX-M-1-like, blaCTX–M-2-like, blaCTX-M-8-like, blaCTX-M-14-like, blaGES-
ular study was performed in a public hospital to identify like, blaKPC-like, blaSME-like, blaNDM-like, blaIMP-like, blaSPM-like, blaVIM-
the risk factors associated with carbapenem-resistant like, blaSIM-like, blaGIM-like, blaNDM-like and blaOXA-48-like) was evaluated
K. pneumoniae strains. Understanding the risk factors by PCR followed by sequencing using specific primers, as previously
associated with these strains in healthcare facilities may described (Fehlberg et al., 2014). The DNA sequences and their
be important for targeting interventions and reducing derived protein sequences were analysed using the Lasergene Soft-
hospital transmission. ware Package (DNASTAR) and compared with the sequences
deposited in GenBank.
the multivariable analysis. Logistic regression analysis was used to esti- and blaSHV-like. Eight blaCTX-M-2-positive strains also car-
mate the crude and adjusted odds ratios. ried blaCTX-M-8-like, blaCTX-M-14-like and blaSHV-like genes.
The presence of blaGES-like, blaSME-like, blaNDM-like, blaVIM-
like, blaSIM-1, blaGIM-1 and blaOXA-48-like genes was not
RESULTS
detected.
Patients of the study and outbreak description Carbapenem hydrolysis and genes that encode carbapene-
The patients were hospitalized in different hospital wards, mases were not detected in 11 K. pneumoniae strains. In
and their ages ranged from 2 to 80 years. Prior to isola- these strains, blaCTX and blaSHV genes were identified, and
tion of carbapenem-resistant K. pneumoniae, all patients alterations in the OmpK35 and OmpK36 proteins were
had received antimicrobial regimens, which included investigated. According to the SDS–PAGE results, 11 K.
penicillins, third- or fourth-generation cephalosporins, pneumoniae strains presented two bands, probably corre-
quinolones, aminoglycosides, carbapenems and polymyx- sponding to OmpA and one of the main porins (either
ins. A total of 68 carbapenem-resistant K. pneumoniae OmpK35 or OmpK36), suggesting that they have lost at
strains were recovered from 47 patients between 2 and least one of the main porins. PCR analysis of OMP-encod-
40 days following admission, and of these, 36 had a his- ing genes showed altered amplicons of at least one main
tory of previous hospitalization in our facilities or in OMP-encoding gene, including a lack of amplification
other hospitals. The remaining patients had no history of (ten isolates) or enhanced amplicon size (one isolate),
previous hospitalization and were admitted to the inten- which suggests the presence of an insertion element. PCR
sive care unit (ICU) directly from the emergency room. amplification of the blaCTX, blaSHV, ompk35 and ompk36
Of the strains that were identified, 65 % (n = 44) of genes is shown in Table 2.
these were isolated from the ICU and 35 % (n = 24) For PFGE analysis, 10 out of 57 KPC-producing
were isolated from other hospital wards. Furthermore, K. pneumoniae strains collected from the same patients on
51 % (n = 35) of the identified strains were obtained the same days and anatomical sites were excluded. PFGE
from urine culture, 19 % (n = 13) from swabs, 15 % (n analysis of the remaining 47 KPC-producing K. pneumoniae
= 10) from tracheal aspirates, 9 % (n = 6) from blood strains identified 33 (70.21 %) with more than 88.80 % sim-
culture and 6 % (n = 4) from surgical wounds. ilarity, as shown in the dendrogram (Fig. 1, cluster A). Of
The case control study was performed with 94 patients (47 these 33 isolates, 24 (72.72 %) were obtained from urine
cases and 47 controls) and there were no significant differ- cultures, and 29 (82.35 %) were isolated from ICU patients.
ences (P>0.05) among cases and controls with regard to Analysis of the data revealed that patients infected or colo-
baseline demographics. In the multivariable analysis, KPC- nized with this predominant clonal strain had a higher mor-
producing K. pneumoniae strains were associated with long- tality rate (78.78 %; P0.01) than patients infected with
term hospitalization, use of mechanical ventilation, central other strains. Ten KPC-producing K. pneumoniae strains,
venous and urinary catheters, and previous surgery which were isolated from the same patients and collected
(Table 1). The analysis of data on patient outcomes revealed on different days and from different sites of infection, were
that KPC-producing K. pneumoniae patients had a higher not included in PFGE analysis.
mortality rate than patients infected with carbapenem-sus-
ceptible K. pneumoniae (47.2 and 19.3 %, respectively; P =
0.01). DISCUSSION
Due to the wide use of antibiotics, the number of carbape-
Susceptibility testing nem-resistant K. pneumoniae strains is increasing. The
global emergence and spread of carbapenemase genes
Carbapenem-resistant K. pneumoniae strains showed
among K. pneumoniae strains is a severe challenge for public
resistance to the antibiotics tested by broth microdilu-
health (Queenan & Bush, 2007; Monteiro et al., 2009; Souli
tion as follows: meropenem (MIC50, >8 mg l–1), imipe-
et al., 2012). During the 24-month study period, 47 patients
nem (MIC50, >16 mg l–1) and ertapenem (MIC50, >32
were infected or colonized by carbapenem-resistant K.
mg l–1). Carbapenemase production was detected by
pneumoniae strains in our hospital. The proportion of KPC-
MHT in 67 strains; however, carbapenem hydrolysis was
positive cases with carbapenem-resistant K. pneumoniae
detected by MALDI-TOF MS in only 57 of the 67
strains was very high (83.82 %). Furthermore, the presence
strains (85.0 %).
of KPC was associated with higher morbidity and mortality
rates.
Molecular testing and PFGE
In our study, most KPC-2 positive isolates (57 %) were
PCR amplification and sequencing showed that the bla recovered from patients hospitalised in the ICU. Those
KPC-2 gene was present in 57 carbapenem-resistant strains. patients had several co-morbidities and were subjected to
The blaKPC-2 gene was not detected in 11strains. However, aggressive medical interventions, including broad-spec-
the presence of other genes was observed, including bla trum antibiotics. These results are in agreement with pre-
CTX–M-1-like, blaCTX–M-2-like, blaCTX-M-8 like, blaCTX-M-14-like viously reported findings that showed that prior
http://jmm.microbiologyresearch.org 549
Risk factor Case patients (n = 47) Control patients (n = 47) Univariable analysis Multivariable analysis
antimicrobial exposure in hospitalised patients, especially Assessment of the factors that predict carbapenem resis-
severely ill patients, is the main force driving the spread of tance by multivariable analysis demonstrated that long-
carbapenem-resistant organisms (Hernandez-Alles et al., term hospitalization, mechanical ventilation, central venous
1999; Hoenigl et al., 2012; Patel et al., 2008; Souli et al., and urinary catheters, and previous surgery were associated
2012). with KPC-producing K. pneumoniae. These risk factors
P, Positive; N, negative.
Strain MHT MALDI- blaCTX–M-1 blaCTX–M-8 blaCTX–M-14 blaSHV ompk35 (expected size/ ompk36 (expected size/
TOF MS size found; bp) size found; bp)
1 N N P N P N 1148/1148 1148/2000
2 P N N P P N 1148/1148 1148/N
3 P N P N N P 1148/N 1148/1148
4 P N P P N N 1148/1148 1148/N
5 P N P N P N 1148/1148 1148/N
6 P N P N P P 1148/1148 1148/N
7 P N P N N N 1148/N 1148/1148
8 P N P N P N 1148/1148 1148/N
9 P N P N P N 1148/1148 1148/N
10 P N P N N N 1148/N 1148/1148
11 P N P N N N 1148/N 1148/1148
Fig. 1. Dendrogram displaying the genetic relatedness of 47 KPC-producing K. pneumoniae strains recovered in a Brazilian
teaching hospital, based on PFGE data and carbapenemase content. The 33 strains showing 88.80 % similarity are grouped
above (cluster A). Asterisks indicate the colonizing strains.
http://jmm.microbiologyresearch.org 551
probably represent severe underlying illness and therefore patients (87.87 %), urine infections (72.72 %) and a high
increased susceptibility to infection, leading to increased mortality rate (78.78 %). Outbreaks of KPC-producing
risk of infection from multidrug-resistant organisms. Simi- K. pneumoniae isolated from ICU patients have been
lar risk factors for KPC have been described (Souli et al., described (Gupta et al., 2011; Tofteland et al., 2013;
2012; Correa et al., 2013). Prior studies demonstrated asso- Yang et al., 2013) with mortality rates ranging from
ciations between KPC-producing K. pneumoniae infection 52.80 to 66.70 % (Zarcotou et al., 2011; Qureshi et al.,
and length of hospitalization, use of central venous 2012). However, our results showed a higher mortality
catheters, ICU stay and exposure to specific broad-spectrum rate (78.78 %) associated with the KPC outbreak. This
antimicrobial agents, such as carbapenems, cephalosporins, high mortality rate may be overestimated, as patients
fluoroquinolones and penicillins (Papadimitriou-Olivgeris infected with KPC-producing K. pneumoniae had several
et al., 2012; Tumbarello et al., 2014). Despite surgery co-morbidities and invasive devices, which may have
being reported as a risk factor for carbapenem-resistant K. contributed to the worsening of clinical symptoms and
pneumoniae infection/colonization, molecular analysis consequent progression to death. Nevertheless, these
to detect carbapenemase genes was not performed in this results suggest that infection control measures should be
study (Kofteridis et al., 2014). Thus, to our knowledge, this reinforced in our hospital to control the spread of KPC
study is the first to show an association between surgical enzymes and to reduce mortality rates.
procedures and KPC-producing K. pneumoniae. The KPC-2 Our findings showed that KPC-producing K. pneumoniae
strains associated with surgery were isolated over 6 months. strains were associated with several healthcare-related risk
Although correlations among sex, operating room and sur- factors. Furthermore, this is the first study to demonstrate
gical procedures were not observed, patients who undergo an association between surgical procedures and KPC. Early
surgery are generally hospitalized long-term, which could and accurate detection, in conjunction with effective infec-
increase the risk of infection by KPC. Conversely, contact tion control measures, are of utmost importance to control
between patients, hands or contaminated medical equip- the spread of carbapenemase-producing organisms. There-
ment may have contributed to the dissemination of these fore, highly intensive efforts are required to control the
strains. The impossibility of identifying a common source spread of these organisms in our hospital.
in an environmental reservoir is the major limitation of this
study.
To analyse the mechanisms of antimicrobial resistance, ACKNOWLEDGEMENTS
phenotypic and molecular assays of carbapenem-resistant
K. pneumoniae isolates were performed. In vitro antimi- This work was partially supported by the Brazilian National Research
crobial resistance to carbapenems was observed in all K. Council (CNPq grants 480949/2013-1) and the Support Foundation
for the Development of Education, Science and Technology in the
pneumoniae strains. False positives for carbapenemase State of Mato Grosso do Sul (FUNDECT grants 05/2011 and 04/
production was found using MHT in 11 strains. 2012). K.E.S. and W.G.M received a scholarship from Coordenaç~ao
According to Wang et al. (2011), the false positive de Aperfeiçoamento de Pessoal de Nível Superior (CAPES). A.C.G. is
results observed using MHT probably occur due to low- a researcher from the National Council for Science and Technological
level hydrolysis of ertapenem by extended-spectrum b- Development (CNPq), Ministry of Science and Technology, Brazil
lactamases (ESBLs), particularly those of the CTX-M (process number 307816/2009-5). A.C.G. has recently received
research funding and/or consultation fees from AstraZeneca, MSD,
type. Although carbapenemase-encoding genes were not
Novartis, Thermo Fisher Scientific and bioMerieux. The other
identified in 11 K. pneumoniae strains, blaCTX-M and bla authors have no conflict of interest to declare.
SHV genes were detected. The SDS-PAGE results, in con-
junction with PCR analysis, showed that ompK35 and
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