Methods
This was a retrospective cross-sectional study conducted in the NICU of Patan Hospital. Patan Hospital is the tertiary level teaching hospital of Patan Academy of Health Sciences (PAHS) located in Lalitpur, Nepal. It has a six-bed NICU, caring on average for 120 critically ill neonates annually. Neonates admitted to the NICU between April 15, 2014 and April 15, 2017 with clinical features of sepsis and who had a positive blood culture were included in the study. Blood cultures were sent in neonates with either a clinical suspicion of sepsis or risk factors for it. Sepsis was suspected in the presence of temperature instability, lethargy, feeding intolerance, respiratory distress, hemodynamic instability, convulsion, hypotonia, irritability or bleeding diathesis. Prematurity (< 37 weeks of gestation), low birth weight (< 2500 g), history of resuscitation at birth, rupture of membrane for more than 18 h (PROM), antepartum fever, foul-smelling liquor and repeated (≥3) unclean per vaginal examinations were considered as risk factors for neonatal sepsis.
Patan Hospital follows standard microbiological techniques. Before drawing blood, the skin is disinfected with 10% Povidone-iodine solution for 2 min, followed by 0.5% Chlorhexidine solution for 1 minute. One to three milliliters of blood is taken aseptically from a peripheral vein and injected into the BACTEC PedsPlus™(Becton Dickinson, Ireland) culture vials. It is then incubated in an automated BACTEC system at 35 ± 2 °C for 5 days as per manufacturer’s instructions. Subculture and organism identification is performed as described by Koneman et al. [
3]. Antibiotic susceptibility test is done using the Kirby-Bauer disc diffusion method, as per the Clinical and Laboratory Standards Institute (CLSI) guidelines (2014) [
4]. After collection of blood for culture, neonates are started on empiric intravenous Ampicillin and Amikacin (first line therapy). If there is no clinical response after 48–72 h, antibiotics are upgraded to intravenous Chloramphenicol and Ofloxacin (second line) or Meropenem and Colistin (third line). These are later modified, based on culture and antibiotic susceptibility results. Coagulase-negative Staphylococcus (CONS) isolated from non-septic neonates, in whom the repeat culture showed no growth, was considered as a contaminant and hence excluded from the study. Early-onset sepsis (EOS) was defined as sepsis occurring within first 72 h of life, that occurring after 72 h of life was defined as late-onset sepsis (LOS) [
5]. Multidrug-resistant (MDR) strains were defined as per international standard definitions for acquired resistance and relative to the panel of antibiotics tested for each isolate, as in vitro non-susceptibility to ≥1 agent in ≥3 antimicrobial categories: Penicillins, Cephalosporins, Beta-lactamase inhibitor combinations, Fluoroquinolones, Aminoglycosides, Chloramphenicol, Folate pathway inhibitors, Tetracyclines, Macrolides and Glycopeptides [
6].
For data collection, microbiology laboratory blood culture registers were reviewed and all blood culture positive neonates were identified. Their records were subsequently evaluated for clinical evidence of sepsis and enrolled in the study. Data on age at admission, gestational age at birth, birth weight, maternal risk factors, laboratory parameters, blood culture isolates and their susceptibility pattern and clinical outcome were collected. EpiInfo™ for Mobile was used for data entry and Statistical Package for Social Sciences (SPSS) version 21 was used for data analysis. Summary of measures were reported as percentage for categorical variables and as mean with standard deviation for quantitative variables. Fisher’s exact test was used to infer any differences between the categorical variables and p-value of less than 0.05 was considered statistically significant. Ethical approval to conduct the study was obtained from the Institutional Review Committee (IRC) of PAHS.
Discussion
Neonatal sepsis is considered the leading cause of infant mortality and morbidity in the NICU. Two previous studies conducted in neonatal nurseries from Patan Hospital during the period of 2000–2005 and 2006–2007 showed culture positivity of 13.7 and 19.56% respectively [
7,
8]. However, our study, which is first of its kind to be conducted in NICU of the same institute, showed culture positivity of neonatal sepsis to be 20.7%. In contrast, studies conducted at KIST Medical College and Manipal College of Medical Sciences, Nepal showed culture positivity to be 48 and 44.9% respectively [
9,
10]. Variations in culture positivity rate of neonatal sepsis in different studies seem to arise from differences in culture-techniques and study designs.
The majority of culture positive sepsis was EOS and among preterm and low birth weight neonates, similar to the study findings of Kathmandu University Hospital (KUH), Dhulikhel, Nepal [
11].
The most common clinical manifestation of neonatal sepsis in our study was respiratory distress (79%). Similar findings were noted in studies from KIST Medical College, Nepal (54%) and Beni Suef University Hospital, Egypt (36%) [
9,
12]. At our center, we take CRP as a biomarker of sepsis and its serial decline is taken as laboratory evidence of improvement. In the initial screening test, the majority had raised CRP (75%) and low platelet count (84%) whereas low ANC was seen only in 20% of the cases.
The majority of the isolates were gram-negative, similar to the findings of Shrestha S et al. and that of investigators of the Delhi Neonatal Infection Study (DeNIS) Collaboration [
11,
13]. In contrast, Peterside O et al. in Nigeria and Sharma P et al. in India showed a preponderance of gram-positive organisms of which
Staphylococcus aureus was the most prevalent [
14]. One reason for this variation could be due to the difference in adherence to infection prevention and control measures.
Klebsiella species were the most frequent causative organisms of neonatal sepsis in our study, a similar finding to that of Shrestha S et al. [
11]. In contrast, previous studies conducted at the same institute in the neonatal nurseries showed CONS as a major isolate [
7,
8]. The variation in the major isolate could be due to differences in study setting, study population and adherence to hand hygiene practices. Similar CONS predominance was reported by Mohamadi P et al. [
15]. The same bacterial isolates were attributed to neonatal sepsis among the EOS and LOS groups, in agreement with Shrestha S et al’s and Singh HK et al’s [
11,
16] findings. In contrast, studies by Mahmood A et al. and Ingale HD et al. demonstrated Klebsiella in EOS and Staphylococcus in LOS as common causative organisms [
17,
18]. Wu JH et al. in Taiwan, found GBS and Methicillin resistant-CONS to be the most frequent cause among EOS and LOS respectively [
19].
Our study shows the majority of causative organisms have developed resistance to these frequently used antibiotics; Amoxicillin, Cefotaxime and Oxacillin from the beta-lactam group. This finding is consistent with studies done in neonatal nurseries of the same institute and NICUs in other parts of Nepal and Pakistan [
7,
8,
11,
12,
17]. Both gram-positive and gram-negative organisms showed high susceptibility to Carbapenems, a similar finding to other studies conducted both inside and outside Nepal [
11,
12,
17]. Similarly, gram-negative organisms showed high susceptibility to Colistin, which is consistent with the findings of Jessan Bonny et al. [
20].
Vancomycin and Linezolid showed high (100%) susceptibility towards gram-positive isolates, similar to the finding’s of Mullah SA et al. and Singh HK [
16,
21]. Amikacin showed moderate susceptibility against both gram-positive and negatives. Among second-line antibiotics, Chloramphenicol had low susceptibility (29.3%) against gram-negatives compared to gram-positives (53.8%). Whereas Ofloxacin had moderate susceptibility (52.6%) to gram-negatives.
Klebsiella and Enterobacter, the main gram-negative isolates showed maximum susceptibility to Carbapenems, followed by Colistin and Tigecycline respectively. Such high susceptibility toward Carbapenem was also documented by Sheth KV et and Yusuf D et al. [
22,
23].
Acinetobacter demonstrated good susceptibility to Ciprofloxacin, Colistin, and Tigecycline. Although our study showed high susceptibility towards Ciprofloxacin various other studies reported low susceptibility [
11,
24].
Escherichia coli showed high resistance to the first and second line empirical antibiotics used commonly in our institution, only demonstrating susceptibility towards Colistin and Tigecycline. In contrast to this, Singh HK et al. and Sheth KV et al. showed good susceptibility towards commonly used antibiotics [
16,
24]. This indicates the emergence of highly resistant strains of
Escherichia coli in our setting.
CONS has been reported in various studies as the most common cause of neonatal sepsis in NICUs [
19,
22]. The second commonest cause of neonatal sepsis in our study, CONS showed low susceptibility to Penicillin, third generation Cephalosporin and intermediate to Aminoglycosides and high susceptibility to Linezolid and Vancomycin. Sarangi KK et al. and Dalal P et al. also demonstrated high Vancomycin susceptibility in their studies [
25,
26].
GBS, the most common cause of EOS in high-income countries, has a low reported incidence in low and middle-income countries [
27]. Such low incidence of GBS sepsis in EONS is consistent with our findings. Possible reasons for this could include overuse of antibiotics during the antenatal period or substandard culture techniques and microbiological methods [
28,
29]. At our institution, intravenous Crystalline Penicillin is given for mothers with PROM and intravenous Metronidazole and Gentamicin along with Crystalline Penicillin for mothers with chorioamnionitis as intrapartum antibiotic prophylaxis. Over diagnosis of PROM and chorioamnionitis and subsequent antibiotic treatment could be the reason for low yield of GBS at our institution.
In our study, the overall mortality rate in culture positive sepsis was 15.94%, which is consistent with the studies from Egypt and India [
12,
30,
18]. The highest mortality was seen in the Enterobacter and Klebsiella sepsis group. Though the highest case fatality rate was observed with Pseudomonas sepsis, its limited yield hinders the generalization of this result. A combination of Pip-Taz and Ofloxacin as first line empirical therapy, or Vancomycin and Meropenem as second line would reduce the overall resistance by 22 and 46% respectively. The current first line therapy covers only 28% of the isolates whereas the proposed first line therapy with Pip-taz and Ofloxacin would successfully cover 50% of the isolates.
The emergence of MDR bacteria presents a great challenge to the management of neonatal sepsis, causing significant morbidity and mortality. The prevalence of neonatal sepsis due to MDR strains in our study was 73.91%. MDR among gram-negatives and gram-positives was 80.76 and 52.94% respectively in our study, which is in agreement with the findings of DeNIS Collaboration from India and Labi AK et al. from Ghana [
13,
6].
The retrospective design of our study, together with its single centered, small study population and limited yield of some pathogens were all limitations in our study. Hence, large-scale, multi-center prospective studies are needed to validate our findings.
Acknowledgements
We are grateful to Dr. Katrina Butterworth MD, Professor of General Practice and Dr. Darlene R. House, MD, MS, Assistant Professor of Clinical Emergency Medicine for proofreading our manuscript.