Febrile illnesses are pre-eminent contributors to morbidity and mortality among children in South-East Asia but the causes are poorly understood. We determined the causes of fever in children hospitalised in Siem Reap province, Cambodia.
Methods and Findings
A one-year prospective study of febrile children admitted to Angkor Hospital for Children, Siem Reap. Demographic, clinical, laboratory and outcome data were comprehensively analysed. Between October 12th 2009 and October 12th 2010 there were 1225 episodes of febrile illness in 1180 children. Median (IQR) age was 2.0 (0.8–6.4) years, with 850 (69%) episodes in children <5 years. Common microbiological diagnoses were dengue virus (16.2%), scrub typhus (7.8%), and Japanese encephalitis virus (5.8%). 76 (6.3%) episodes had culture-proven bloodstream infection, including Salmonella enterica serovar Typhi (22 isolates, 1.8%), Streptococcus pneumoniae (13, 1.1%), Escherichia coli (8, 0.7%), Haemophilus influenzae (7, 0.6%), Staphylococcus aureus (6, 0.5%) and Burkholderia pseudomallei (6, 0.5%). There were 69 deaths (5.6%), including those due to clinically diagnosed pneumonia (19), dengue virus (5), and melioidosis (4). 10 of 69 (14.5%) deaths were associated with culture-proven bloodstream infection in logistic regression analyses (odds ratio for mortality 3.4, 95% CI 1.6–6.9). Antimicrobial resistance was prevalent, particularly in S. enterica Typhi, (where 90% of isolates were resistant to ciprofloxacin, and 86% were multi-drug resistant). Comorbid undernutrition was present in 44% of episodes and a major risk factor for acute mortality (OR 2.1, 95% CI 1.1–4.2), as were HIV infection and cardiac disease.
We identified a microbiological cause of fever in almost 50% of episodes in this large study of community-acquired febrile illness in hospitalized children in Cambodia. The range of pathogens, antimicrobial susceptibility, and co-morbidities associated with mortality described will be of use in the development of rational guidelines for infectious disease treatment and control in Cambodia and South-East Asia.
Citation: Chheng K, Carter MJ, Emary K, Chanpheaktra N, Moore CE, et al. (2013) A Prospective Study of the Causes of Febrile Illness Requiring Hospitalization in Children in Cambodia. PLoS ONE 8(4): e60634. doi:10.1371/journal.pone.0060634
Editor: Caroline L. Trotter, University of Cambridge, United Kingdom
Received: January 3, 2013; Accepted: March 1, 2013; Published: April 9, 2013
This is an open-access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.
Funding: This study was supported by the Wellcome Trust of Great Britain, the Li Ka Shing–University of Oxford Global Health Programme, EMPERIE (European Management Platform for Emerging and Re-emerging Infectious Disease Entities). Respiratory virus assays were supported by the Influenza Division, US Centers for Communicable Disease Control as part of ongoing public health surveillance for severe acute respiratory infection (PK and BS). UK National Institute of Health Research provided grants for academic clinical fellowships to KE and MJC through the University of Oxford, and University College London, respectively. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Competing interests: The authors have declared that no competing interests exist.
Febrile illness in children is a common cause of admission to hospital globally, with significant associated morbidity and mortality . In developing countries this is frequently compounded by low rates of immunisation, untreated co-morbidities, and late presentations . Febrile illnesses are caused by diverse pathogens, presenting with non-specific symptoms to healthcare facilities with limited diagnostic capacity , . Clinical management guidelines for acute febrile illness are available , , but rarely supported by knowledge of the locally prevalent causative agents.
The Kingdom of Cambodia lies in South-East Asia and has a mortality rate in children aged <5 years of 54/1000 live births . This has halved over the last decade but remains one of the highest in the region. The prevalence of undernutrition in children <5 years of age (less than 2 SD of weight for age) is 28% . There is little published information on the causes of fever in Cambodian children.
We characterised the causes of febrile illness in children in Cambodia. We hypothesised that in addition to globally common childhood pathogens such as Streptococcus pneumoniae and influenza virus, other infections that require specific management would be identified, such as typhoid, dengue, leptospirosis, melioidosis and rickettsial disease , –.
Materials and Methods
Parents of all children recruited to the study gave witnessed, written, informed consent before study enrolment. The Oxford Tropical Research Ethics Committee and Angkor Hospital for Children Institutional Review Board approved the study protocol on 24th September 2009 and 2nd October 2009 respectively.
Study Site and Population
This prospective, year-long study of the causes of fever in children was based at Angkor Hospital for Children (AHC), Siem Reap province, Cambodia (Figure 1). AHC is a 50-bed paediatric hospital providing free universal inpatient and outpatient care to children <16 years of age from urban and rural settings. It has critical care capacity, including mechanical ventilation and inotropic support, and is one of two paediatric hospitals serving Siem Reap city and province.
Figure 1. Location and map of Cambodia.
AHC is in Siem Reap (underlined). Map: United Nations, 2004 (http://www.un.org/Depts/Cartographic/map/profile/cambodia.pdf). Accessed 2nd January 2013.doi:10.1371/journal.pone.0060634.g001
The national immunisation schedule included Bacillus Calmette-Guérin (BCG) and hepatitis B virus (HBV) at birth, and diphtheria-pertussis-tetanus, oral poliovirus and measles virus vaccines. 79% of children aged 12–23 months have received these vaccines . Haemophilus influenzae type b immunisation was introduced during the study period.
Patients and Clinical Methods
Patients admitted to AHC between 12th October 2009 and 12th October 2010 were considered for enrolment. Eligibility criteria were age <16 years, documented axillary temperature ≥38.0°C within 48 h of admission, and caregiver consent. Febrile post-surgical patients were excluded. All children, except emergencies, were assessed using locally-modified Integrated Management of Childhood Illness (IMCI) guidelines  prior to a decision to admit. Admission information was recorded on a study-specific clinical record form. Admissions were reviewed twice daily for eligibility.
Sampling and Laboratory Methods
Blood was taken aseptically from all enrolled patients for culture, complete blood count, blood film (including malaria smear), biochemistry, and nucleic acid amplification tests (NAATs). In addition, study patients aged ≥60 days had admission blood samples taken for serology and Leptospira spp. culture, and a convalescent serology sample taken on discharge, or after 7 days of admission. Whole blood and serum samples were stored at –80°C until analysed.
Nasal and throat swabs were taken for respiratory virus detection in patients with a recent history of cough or sore throat, and increased respiratory effort. Cerebrospinal fluid (CSF) analysis was performed on patients with suspected central nervous system (CNS) infection. Urinalysis was performed on all children; other sampling (e.g. HIV serology, gastric aspirates) and imaging were performed as clinically indicated.
Blood was taken for culture, when possible before in-hospital antimicrobial therapy and within 48 h of admission. Blood was inoculated into a pre-weighed blood culture bottle and the vented bottles were incubated aerobically at 37°C for 7 days . Sub-culture onto sheep blood and chocolate agar was undertaken at 24 h, 48 h, 7 days, or if the culture was turbid. CSF samples were separated immediately upon receipt into aliquots for staining and microscopy, cell count and biochemistry, culture, and storage at –80°C. Cultured organisms were identified using routine methods , including API test kits (bioMérieux, France), disc diffusion antimicrobial susceptibility testing  and Etests™ (AB Biodisk, Sweden) performed as appropriate. Samples from other sterile sites (e.g. abscesses, pleural fluid) were cultured using routine methods  and were reviewed daily for clinical relevance by the infectious diseases team. Whole blood samples were cultured for Leptospira spp. .
The Panbio Japanese encephalitis virus (JEV) and dengue virus (DENV) IgM Combo enzyme-linked immunosorbent assay (ELISA) (Panbio, Australia) was used to detect anti-JEV and anti-DENV specific IgM antibodies in sera. An ELISA (Standard Diagnostics, Korea) was used to detect DENV NS1 antigen . A capture IgM ELISA assay (Venture Technologies, Malaysia) was used to detect anti-JEV and anti-DENV specific IgM antibodies in CSF specimens . Table S1 describes the result interpretation.
Separate ELISAs incorporating Orientia tsutsugamushi (Karp and Gilliam strain) and Rickettsia typhi (Wilmington strain) antigens were used to detect O. tsutsugamushi and R. typhi IgM antibodies in serum samples respectively . A positive ELISA result was equivalent to a (conservative) 1:200–1:400 indirect immunofluorescence assay (IFA) titre  (SD Blacksell: unpublished data). “Acute positive serology” was diagnosed in paired samples with a ≥4-fold increase in IFA IgM antibody titres. Serum pairs with <4-fold increase in IFA IgM antibody titres, or a single sample with a titre ≥1:400, were recorded as “acute/recent positive serology” .
Nucleic Acid Amplification Tests
DNA was extracted from whole blood samples with the QIAamp® DNA mini-kit (QIAGEN, Germany), with extended incubation for 30 minutes at 56°C. Probe-based real-time polymerase chain reaction (rPCR) assays were used to detect Leptospira spp. , O. tsutsugamushi  and R. typhi . Low-positive plasmid or sample controls determined adequate detection limits of each assay.
Total nucleic acid was isolated from 100 µL of CSF specimens using the automated easyMAG® system (bioMérieux), and diagnostic NAATs were performed . Four rPCR protocols were used for detection of S. pneumoniae, H. influenzae type B, Neisseria meningitidis, and Streptococcus suis . rRT-PCRs were used to detect herpes simplex virus (HSV) 1 and 2 , varicella zoster virus (VZV) , enteroviruses (generic and 71-specific) , and human parechoviruses (generic) .
Nasal and throat swabs were stored in viral transport medium (Becton Dickinson, USA) at 4°C for ≤72 h, then divided and stored at –80°C. RNA was extracted from one aliquot of the pooled swab medium using the QIAamp® Viral RNA mini-kit (QIAGEN). Specimens were tested for influenza virus (types A, B; and subtypes H1N1-1977, H1N1-pdm09, H3N2 and H5N1) by real-time reverse-transcription PCR (rRT-PCR), and for RSV, parainfluenza virus (PIV)1, PIV2 and PIV3 using multiplex RT-PCR (QIAGEN) –.
Full details are in the supplementary material. All nucleic acid extractions and assays were done according to the manufacturer’s instructions.
For each episode, the first recorded parameter after the time of admission was used. The clinical syndrome was categorised by a senior paediatrician (VK) at hospital discharge according to the localising focus of infection, e.g. lower respiratory tract infection (LRTI), or non-infectious cause for fever. On final analysis of all data, a microbiological diagnosis was given when results were consistent with the presenting clinical syndrome. When microbiological results were inconsistent with the clinical syndrome, both were given as a final diagnosis. Two clinicians (KE and MC) made these judgements independently with disagreements resolved by discussion.
Data Management and Analysis
Data was managed on a study-specific database and analysed using Stata 12 (Stata Corp., USA), with weight-for-age z-scores calculated using the WHO Anthro 3.2.2 Stata macro (World Health Organisation). Multivariate logistic regression was used to analyse the effects of comorbid undernutrition, heart disease, HIV infection, and anaemia; adjusted for each other and age group.
There were 3225 patient admissions during the study year, of which 1361 (42.2%) met the inclusion criteria. Of these, 136 (10.0%) were not enrolled, leaving 1225 febrile episodes in 1180 children (Figure 2). 1144 children had a single episode, 31 children had two episodes, one child had three episodes and four children had four episodes. The median (inter quartile range [IQR]) age was 2.0 (0.8–6.4) years, with 850 (69.4%) episodes in children <5 years of age. The median (IQR) duration of illness prior to admission was 3 (2–5) days. Medication was given by the caregiver prior to admission in 53% of episodes. In 43% of these the medication was a known antibacterial, anti-malarial or steroid. Other baseline characteristics are in Table 1.
Figure 2. Flow chart showing enrolment to the study.
Notes: aincluding one home palliative care; bincluding one home palliative care; cexcluded from analyses of outcome (e.g. in odds ratios); dincluded as “died” in analyses.doi:10.1371/journal.pone.0060634.g002
Table 1. Baseline, comorbidity and outcome characteristics in 1225 disease episodes among 1180 children admitted to hospital with fever over one year.doi:10.1371/journal.pone.0060634.t001
Clinical Syndrome Diagnoses
A total of 1333 presenting clinical syndromes were noted in 1225 febrile episodes, with the most common being LRTI (38.3% of episodes), undifferentiated fever (25.5%) and diarrhoeal disease (19.5%) (Table 2). 575 (46.9%) episodes were positive for a microbiological cause of fever results by any method (culture, NAAT, direct stain, serology), with 731 microbiological causes of fever diagnosed within these 575 episodes (Table 3). A consistent microbiological diagnosis was made in 125 of 472 (26.5%) episodes of LRTI, 77 of 267 (28.8%) episodes of diarrhoeal disease, and 66 of 148 (44.6%) episodes of undifferentiated fever.
Table 2. The presenting clinical syndromes diagnosed for 1225 episodes of febrile illness over the one-year study period.doi:10.1371/journal.pone.0060634.t002
Table 3. Microbiological diagnoses.doi:10.1371/journal.pone.0060634.t003
Blood and Sterile Site Sampling
Blood was cultured within 48 h of admission in 1212 (99.0%) episodes. The mean volume of blood drawn was 1.7 mL (95% confidence interval [CI] 1.0–3.3) for children aged <28 days, and 2.0 mL (95% CI 1.0–4.0) for those ≥60 days of age. The blood culture was positive in 162 (13.4%) samples, of which 76 (6.3%) were considered true positives, 26 (2.1%) were isolates of uncertain significance (Table 4), and 60 (5.0%) considered contaminants. 10 of 69 (14.5%) deaths were associated with a true positive blood culture (Odds Ratio [OR] for mortality 3.4, 95% CI 1.6–6.9). 5 of 69 (7.2%) deaths were associated with isolates from blood culture of uncertain significance (OR adjusted for age 3.8, 95% CI 1.4–10.4). Contaminants from blood culture were not associated with mortality (OR adjusted for age 0.8, 95% CI 0.2–2.6). Pus was sampled in 127 (10.8%) of episodes, with the most numerous isolates being S. aureus (31) and B. pseudomallei (8).
Table 4. Isolates from blood cultures (n = 1212).doi:10.1371/journal.pone.0060634.t004
A CSF sample was examined by microscopy and culture from children in 174 (14.2%) of disease episodes. 52 (30.0%) CSF samples showed white cell pleocytosis, and 11 (6.3%) were culture or CSF stain positive. There was sufficient CSF for NAATs and serology from 107 (62.6%) samples, with 15 (14.0%) positive by NAAT and 7 (6.5%) positive by serology (Table 5). All CSF samples positive by culture for were also positive by NAATs. NAATs also identified an additional three S. pneumoniae and one H. influenzae positive episodes.
Table 5. CSF microscopy and culture (n = 174), NAAT (n = 107) results, and total episodes positive (n = 174) by all methods for children with suspected CNS infection.doi:10.1371/journal.pone.0060634.t005
Leptospira spp. and Rickettsial Disease
Leptospira spp. culture was performed for 1068 of 1149 (93.0%) disease episodes in children ≥60 days of age, and two (0.2%) were positive. NAAT for Leptospira spp. was performed in 1179 episodes (96.2%) of all ages and 17 (1.4%) were positive. Both episodes positive by culture were positive by NAAT (Table 6).
Table 6. Positive results by culture (n = 1068) and NAAT (n = 1179) for Leptospira spp infections; by serology (n = 1125) and NAAT (n = 1179) for rickettsial infections; and total episodes positive for Leptospira spp and rickettsial infections.doi:10.1371/journal.pone.0060634.t006
Serology for O. tsutsugamushi and R. typhi was performed in 1125 (98.0%) disease episodes in children ≥60 days of age, and NAATs for O. tsutsugamushi and R. typhi were done in 1179 (96.3%) of episodes of all ages (Table 6). 95 (8.4%) samples were seropositive for anti-O. tsutsugamushi IgM. 17 (1.4%) samples were positive by NAAT for O. tsutsugamushi, of which 16 were also IgM seropositive. 25 (2.2%) samples were seropositive for anti-R. typhi IgM. 2 (0.2%) samples were positive by NAAT for R. typhi, neither of which were IgM seropositive. Seropositivity for anti-O. tsutsugamushi IgM was negatively associated with seropositivity for anti-R. typhi IgM (4.7% for O. tsutsugamushi alone versus 4.0% for both; McNemar’s test, p = 0.0005).
Serological evidence of a flavivirus infection was determined in 1125 (98.0%) disease episodes in children ≥60 days of age (Table 7); DENV NS1 antigen was assayed in 1105 (96.4%) of episodes in children ≥60 days of age and 60 (5.4%) samples were positive. There was pronounced seasonality in “acute serology” to DENV (NS1 antigen positive, dynamic rise in anti-DENV IgM titres, or CSF anti-DENV IgM positive) in contrast to lack of seasonality in “acute/recent serology” to DENV or other flaviviruses (Figure S2 and Figure S3).
Table 7. Serological results for flaviviruses for episodes in children of 60 days or older (n = 1125).doi:10.1371/journal.pone.0060634.t007
There were 389 febrile episodes that met our criteria to have oral and nasopharyngeal swabs sent for the analysis of respiratory viruses (Table 8).
Table 8. Positive results by NAAT for respiratory viruses in children presenting with sore throat or cough and increased respiratory rate or effort (n = 389).doi:10.1371/journal.pone.0060634.t008
Diagnostic Methods and Multiple Positivity
144 (20.0%) of 731 microbiological causes of fever were diagnosed from direct culture (76 from blood), 440 (60.3%) from serological testing, 115 (15.7%) from NAATs, and 32 (4.4%) from direct stain of CSF, pus or gastric aspirates (for M tuberculosis). Of 440 IgM seropositive tests for flaviviruses and rickettsias, 157 (35.7%) showed clear “acute serology”, with the remainder showing “acute/recent serology” (as defined above). Median time between acute and discharge/convalescent samples was 4 days (IQR 2–7).
444 (77.2%) of 575 microbiologically positive episodes had one microbiological cause of fever, 108 (18.8%) had two microbiological causes, 21 (3.7%) had three microbiological causes, and 2 (0.3%) had four microbiological causes of fever (excluding bacteria of uncertain significance from blood culture).
10 (5.1%) episodes with anti-DENV IgM seropositivity were also positive for invasive bacterial disease from blood culture (7 with S. enterica Typhi, 1 each with H. influenzae, K. pneumoniae and S. aureus). DENV infection was positively associated with malaria (McNemar’s test, p<0.0001) with 11 (5.6%) episodes seropositive for anti-DENV IgM also malaria positive (6 of which P. falciparum positive).
During the one-year study, 69 (5.6%) children died during their acute illness (Table 9). Common associations (Table 1 for definitions and prevalence) with mortality in our cohort (adjusted for comorbid undernutrition, HIV infection, and heart disease), were comorbid undernutrition in children <5 years of age (OR 2.1 [95% CI 1.1–4.2]; population attributable fraction [PAF] = 0.31 [95% CI 0.10–0.52]), comorbid heart disease (OR = 3.3 [95% CI 1.5–6.9]; PAF = 0.14 [95% CI 0.02–0.25]), comorbid HIV infection (OR = 3.9 [95% CI 1.2–12.8]; PAF = 0.06 [–0.02–0.13]). 68 of 69 (98.9%) children who died were admitted to the critical care unit.
Table 9. Primary diagnosis, and contributing diagnoses, for the 69 children who died during the study.doi:10.1371/journal.pone.0060634.t009
Importantly, 23 children of 136 eligible but non-enrolled episodes died (16.9%), and their microbiological data are therefore unavailable (Figure 2). 10 of 19 enrolled children (52.6%) who died with a primary diagnosis of “clinical pneumonia” (Table 9) had samples for respiratory viruses sent for analysis; and 1 of 11 enrolled children (9.1%) who died with a primary diagnosis of “unknown source of fever” (Table 9) had CSF samples analysed.
With comprehensive laboratory investigation we identified a microbiological cause in almost 50% of febrile illness in this one-year study of febrile Cambodian children requiring admission to hospital. The acute mortality rate was 5.6% of children enrolled (6.7% of all eligible). Nurse-led triage using IMCI  guidelines and paediatric review prior to admission excluded less-severe infections. Children died despite availability of parenteral broad-spectrum antimicrobials, critical care, and laboratory facilities, all unavailable to the majority of the Cambodian population. Prevalence of comorbid undernutrition was 43.7%, and doubled the odds of mortality. Comorbid heart disease, and known HIV infection were also associated with large increases in odds of mortality.
LRTIs, diarrhoeal disease or undifferentiated fever were the main presentations, but a microbiological diagnosis was achieved in only 27%, 29%, and 45% of episodes with these syndromes, respectively. The absence of microbiological examination of faeces, limited use of urine culture, and lack of M. tuberculosis culture (or NAAT) facilities were limitations. More inclusive criteria for the analysis of respiratory viruses, HIV testing, and greater emphasis on CSF sampling may have increased our diagnostic yield. In contrast to a recent report , we found no enterovirus-71 in 8 episodes of CSF enterovirus-positive meningoencephalitis.
The serological data from our study is consistent with similar studies in Cambodia , , and neighbouring urban Laos . There was evidence of DENV infection in 16% of episodes, but clinical differentiation from bacterial septic shock was difficult, with children frequently treated for both. This strategy is supported by the co-incidence of both invasive bacterial disease (particularly S. enterica Typhi) and malaria, with DENV infection in our cohort. Serological evidence of infection by O. tsutsugamushi and R. typhi was also common. Although the interpretation of serological tests on cohorts of unselected febrile children can be difficult ,  even with conservative cut-offs for IgM titres against O. tsutsugamushi and R. typhi, we estimated that 10% of children were infected with these microorganisms. NAATs may increase the specificity of diagnosis, but may lack sensitivity due to short periods of rickettsaemia.
Invasive community-acquired bacterial disease was common, frequently resistant to commonly used antimicrobials, and associated with significant mortality. The most common isolate from blood was S. enterica Typhi, with 90% of isolates with intermediate resistance to ciprofloxacin, and 85% multi-drug resistant (MDR) , contrasting with the decline in drug-resistant phenotypes seen in adjacent countries . B. pseudomallei (inherently resistant to ceftriaxone and penicillins) was confirmed as a pathogen of major local public health significance , and E. coli (of which 1 of 7 isolates demonstrated extended-spectrum β-lactamase activity) was also prevalent. S. aureus was the commonest isolate from all sterile sites, with one meticillin-resistant isolate . Invasive disease caused by S. pneumoniae, H. influenzae, and N. meningitidis is present and potentially vaccine-preventable. The small numbers of neonates in this cohort (not due to refusal of parental consent) and their high mortality emphasizes the need for accessible perinatal care in Cambodia .
We are investigating whether pre-treatment with incomplete or sub-therapeutic antimicrobial regimens, especially in an unregulated private sector, contributes to low blood culture yield and high-levels of resistance in Cambodia. Resolution of conflicting demands for rational antibiotic prescribing to help prevent further emergence of antimicrobial resistance, and the urgent need for successful treatment of patients, would be aided by a network of sentinel microbiology laboratories throughout South-East Asia , . Without such laboratories, efforts to treat severe infections in low and middle-income countries will flounder in the dark .
Flowchart summarising methods for the analysis of cerebrospinal fluid (CSF) from children with suspected meningoencephalitis enrolled in the study.
Number of admissions with “acute serology” (see main text for definition) to DENV against period of admission (30-day intervals starting from study start date 12th October 2012).
Number of admissions with “acute/recent serology” (see main text for definition) to DENV against period of admission (30-day intervals starting from study start date 12th October 2012).
Classification of DENV and JEV serology in samples. a Dynamic rise of ≥2 Panbio units between acute and discharge samples. b Dynamic fall of ≤2 Panbio units between acute and discharge samples. c Dynamic rise or fall of ≤2 panbio units between acute and discharge samples. d Considered negative by manufacturer’s criteria.
We thank the children and parents, without whom this study would have been impossible and the nursing, medical, laboratory and administrative staff of AHC, especially the resident doctors and the laboratory staff. Dr. Ly Sovann and team at the Communicable Disease Control Division of the Cambodian Ministry of Health allowed us to collaborate with their severe acute respiratory infection surveillance project. Chin Savuth, Sok Siyeatra, Unn Thy and Nuth Dara at the Cambodian National Institute of Public Health performed the respiratory virus assays with the authors. Prof. Steve Allen and an anonymous reviewer gave helpful comments on the manuscript. Drs. Shunmay Yeung and Rathi Guahadasan helped in the original conception of the study. Dr. Allan Richards gifted O. tsutsugamushi and R. typhi antigens for ELISA testing. Sabine Dietrich and Tippawan Anantatat performed the rickettsia and Leptospira spp. NAATs together with the authors. Ampai Tanganuchitcharnchai performed the serology testing and Sayan Langla performed the Leptospira spp. culture together with the authors. Standard Diagnostics, Korea donated NS1 ELISAs, Panbio Pty Ltd part-donated on JEV/Dengue IgM ELISAs. Other specific support was from Dr Luy Lyda, Line Denker, Sarah Fryxelius, Louisa Bethell, Margaret Chang, Clare Baker, Reet Nijjar, Nuttapol Panachuenwongsakul, Sue Lee, Jeff William, Sun Sopheary, Jon Morgan, and the registration team at AHC. Friends Without A Border helped in the development of the AHC-MORU Collaborative Laboratory. Finally, Dr. Bill Housworth gave his unstinting support.
Supervised clinical aspects of the study: VK KC NC MJC KE CMP. Conceived and designed the experiments: VK KC NC MJC. Performed the experiments: HP SS SR PA VW CEM MJC KE NS CMP PK BS HRvD NHU LVT DP SDB. Analyzed the data: KE MJC. Wrote the paper: MJC KE NS CEM CMP NPJD KC VK.
- 1. Liu L, Johnson HL, Cousens S, Perin J, Scott S, et al. (2012) Global, regional, and national causes of child mortality: an updated systematic analysis for 2010 with time trends since 2000. Lancet 379: 2151–61. doi: 10.1016/s0140-6736(12)60560-1
- 2. Bhutta ZA, Ali S, Cousens S, Ali TM, Azra Haider B, et al. (2008) Alma-Ata: Rebirth and revision 6 interventions to address maternal, newborn, and child survival: What difference can integrated primary health care strategies make? Lancet 372: 972–89. doi: 10.1016/s0140-6736(08)61407-5
- 3. Peacock SJ, Newton PN (2008) Public health impact of establishing the cause of bacterial infections in rural Asia. Trans R Soc Trop Med Hyg 102(1): 5–6. doi: 10.1016/j.trstmh.2007.06.004
- 4. Deen J, von Seidlein L, Andersen F, Elle N, White NJ, et al. (2012) Community-acquired bloodstream infections in developing countries in south and southeast Asia: a systematic review. Lancet Inf Dis 12: 480–87. doi: 10.1016/s1473-3099(12)70028-2
- 5. World Health Organization (2005) Handbook: Integrated management of childhood illness. Geneva, Switzerland: World Health Organization.
- 6. World Health Organization (2005) Pocket book of hospital care for children: guidelines for the management of common illnesses with limited resources. Geneva, Switzerland: World Health Organization.
- 7. National Institute of Statistics, Directorate General for Health, ICF Macro (2011) Cambodia: Demographic and health survey 2010. Phnom Penh, Cambodia and Calverton, Maryland, USA: National Institute of Statistics, Directorate General for Health and ICF Macro.
- 8. Kasper MR, Blair PJ, Touch S, Sokhal B, Yasuda CY, et al. (2012) Infectious etiologies of acute febrile illness among patients seeking health care in south-central Cambodia. Am J Trop Med Hyg 86: 246–53. doi: 10.4269/ajtmh.2012.11-0409
- 9. Leelarasammee A, Chupaprawan C, Chenchittikul M, Udompanthurat S (2004) Etiologies of acute undifferentiated febrile illness in Thailand. J Med Assoc Thai 87(5): 464–72.
- 10. Phetsouvanh R, Phongmany S, Soukaloun D, Rasachak B, Soukhaseum V, et al. (2006) Causes of community-acquired bacteremia and patterns of antimicrobial resistance in Vientiane, Laos. Am J Trop Med Hyg 75(5): 978–85.
- 11. Punjabi NH, Taylor WRJ, Murphy GS, Purwaningsih S, Picarima H, et al. (2012) Etiology of acute, non-malaria, febrile illnesses in Jayapura, northeastern Papua, Indonesia. Am J Trop Med Hyg 86(1): 46–51. doi: 10.4269/ajtmh.2012.10-0497
- 12. Nga TV, Parry CM, Le T, Lan NP, Diep JS, et al. (2012) The decline of typhoid and the rise of non-typhoid salmonellae and fungal infections in a changing HIV landscape: Bloodstream infection trends over 15 years in southern Vietnam. Trans R Soc Trop Med Hyg 106(1): 26–34. doi: 10.1016/j.trstmh.2011.10.004
- 13. Chhour YM, Ruble G, Hong R, Minn K, Kdan Y, et al. (2002) Hospital-Based diagnosis of hemorrhagic fever, encephalitis, and hepatitis in Cambodian children. Emerg Infect Dis 8: 485–9. doi: 10.3201/eid0805.010236
- 14. Vong S, Khieu V, Glass O, Ly S, Duong V, et al. (2010) Dengue incidence in urban and rural Cambodia: results from population-based active fever surveillance, 2006–2008. PLoS Negl Trop Dis 4(11): e903. doi: 10.1371/journal.pntd.0000903
- 15. Kasper MR, Wierzba TF, Sovann L, Blair PJ, Putnam SD (2010) Evaluation of an influenza-like illness case definition in the diagnosis of influenza among patients with acute febrile illness in Cambodia. BMC Inf Dis 10: 320. doi: 10.1186/1471-2334-10-320
- 16. Pagnarith Y, Kumar V, Thaipadungpanit J, Wuthikanun V, Amornchai P, et al. (2010) Emergence of pediatric melioidosis in Siem Reap, Cambodia. Am J Trop Med Hyg 82(6): 1106–12. doi: 10.4269/ajtmh.2010.10-0030
- 17. Wijedoru LPM, Kumar V, Chanpheaktra N, Chheng K, Smits HL, et al. (2012) Typhoid fever among hospitalized febrile children in Siem Reap, Cambodia. J Trop Paediatr 58: 68–70. doi: 10.1093/tropej/fmr032
- 18. Emary K, Moore CE, Chanpheaktra N, An KP, Chheng K, et al. (2012) Enteric fever in Cambodian children is dominated by the multidrug resistant H58 Salmonella enterica serovar Typhi with intermediate susceptibility to ciprofloxacin. Trans R Soc Trop Med Hyg 106(12): 718–24. doi: 10.1016/j.trstmh.2012.08.007
- 19. Chheng K, Tarquinio S, Wuthiekanun V, Sin L, Thaipadungpanit J, et al. (2009) Emergence of community-associated methicillin-resistant Staphylococcus aureus associated with pediatric infection in Cambodia. PloS One 4(8): e6630. doi: 10.1371/journal.pone.0006630
- 20. Murray PR, Baron EJ, Jorgensen JH, Pfaller MA, Tenover FC (2007) Manual of Clinical Microbiology (9th Edition Revised). Washington DC, USA: American Society for Microbiology.
- 21. Clinical and Laboratory Standards Institute (2012) Performance standards for antimicrobial susceptibility testing. Supplement M100-S22. Wayne, PA, USA: Clinical and Laboratory Standards Institute.
- 22. Wuthiekanun V, Chierakul W, Limmathurotsakul D, Smythe LD, Symonds ML, et al. (2007) Optimization of culture of Leptospira from humans with leptospirosis. J Clin Microbiol 45(4): 1363–5. doi: 10.1128/jcm.02430-06
- 23. Blacksell SD, Mammen MP, Thongpaseuth S, Gibbons RV, Jarman RG, et al. (2008) Evaluation of the Panbio dengue virus nonstructural 1 antigen detection and immunoglobulin M antibody enzyme-linked immunosorbent assays for the diagnosis of acute dengue infections in Laos. Diagn Microbiol Infect Dis 60(1): 43–9. doi: 10.1016/j.diagmicrobio.2007.07.011
- 24. Cardosa MJ, Wang SM, Sum MS, Tio PH (2002) Antibodies against prm protein distinguish between previous infection with dengue and Japanese encephalitis viruses. BMC Microbiol 2: 9.
- 25. Blacksell SD, Jenjaroen K, Phetsouvanh R, Tanganuchitcharnchai A, Phouminh P, et al. (2010) Accuracy of rapid IgM-based immunochromatographic and immunoblot assays for diagnosis of acute scrub typhus and murine typhus infections in Laos. Am J Trop Med Hyg 83(2): 365–9. doi: 10.4269/ajtmh.2010.09-0534
- 26. Blacksell SD, Bryant NJ, Paris DH, Doust JA, Sakoda Y, et al. (2007) Scrub typhus serologic testing with the indirect immunofluorescence method as a diagnostic gold standard: A lack of consensus leads to a lot of confusion. Clin Infect Dis 44(3): 391–401. doi: 10.1086/510585
- 27. Thaipadunpanit J, Chierakul W, Wuthiekanun V, Limmathurotsakul D, Amornchai P, et al. (2011) Diagnostic accuracy of real-time PCR assays targeting 16S rRNA and lipl32 genes for human leptospirosis in Thailand: A case-control study. PloS One 6(1): e16236. doi: 10.1371/journal.pone.0016236
- 28. Jiang J, Chan TC, Temenak JJ, Dasch GA, Ching WM, et al. (2004) Development of a quantitative real-time polymerase chain reaction assay specific for Orientia tsutsugamushi. Am J Trop Med Hyg 70(4): 351–6.
- 29. Henry KM, Jiang J, Rozmajzl PJ, Azad AF, Macaluso KR, et al. (2007) Development of quantitative real-time PCR assays to detect Rickettsia typhi and Rickettsia felis, the causative agents of murine typhus and flea-borne spotted fever. Mol Cell Probes 21(1): 17–23. doi: 10.1016/j.mcp.2006.06.002
- 30. Le VT, Phan TQ, Do QH, Nguyen BH, Lam QB, et al. (2010) Viral etiology of encephalitis in children in southern Vietnam: Results of a one-year prospective descriptive study. Plos Negl Trop Dis 4(10): e854. doi: 10.1371/journal.pntd.0000854
- 31. van Doornum GJ, Guldemeester J, Osterhaus AD, Niesters HG (2003) Diagnosing herpesvirus infections by real-time amplification and rapid culture. J Clin Microbiol 41(2): 576–80. doi: 10.1128/jcm.41.2.576-580.2003
- 32. de Jong MD, Weel JF, Schuurman T, Wertheim-van Dillen PM, Boom R (2000) Quantitation of varicella-zoster virus DNA in whole blood, plasma, and serum by PCR and electrochemiluminescence. J Clin Microbiol 38(7): 2568–73.
- 33. Khanh TH, Sabanathan S, Thanh TT, Thoa LPK, Thuong TC, et al. (2012) A large outbreak of Enterovirus 71 associated hand, foot and mouth disease in southern Vietnam, September-November 2011. Emerg Infect Dis 18(12): 2002–5. doi: 10.3201/eid1812.120929
- 34. Benschop K, Molenkamp R, van der Ham A, Wolthers K, Beld M (2008) Rapid detection of human parechoviruses in clinical samples by real-time PCR. J Clin Virol 41(2): 69–74. doi: 10.1016/j.jcv.2007.10.004
- 35. WHO Collaborating Centre for Influenza (2009) CDC rRT-PCR Protocol for Detection and Characterization of Influenza; version 2009 CDC Ref. # I-007–05. Geneva, Switzerland: World Health Organization.
- 36. Gueudin M, Vabret A, Petitjean J, Gouarin S, Brouard J, et al. (2003) Quantification of respiratory syncytial virus RNA in nasal aspirates of children by real-time RT-PCR Assay. J Virol Methods 109: 39–45. doi: 10.1016/s0166-0934(03)00042-9
- 37. Karron RA, Froelich JL, Bobo L, Belshe RB, Yolken RH (1994) Rapid detection of parainfluenza virus type 3 RNA in respiratory specimens: use of reverse transcription-PCR-enzyme immunoassay. J Clin Microbiol 32: 484–488.
- 38. Echevarría JE, Erdman DD, Swierkosz EM, Holloway BP, Anderson LJ (1998) Simultaneous detection and identification of human parainfluenza virus 1, 2 and 3 from clinical samples by multiplex PCR. J Clin Microbiol 36: 1388–1391.
- 39. Becker JU, Theodosis C, Jacob ST, Wira CR, Groce NE (2009) Surviving sepsis in low-income and middle-income countries: new directions for care and research. Lancet Infect Dis 9: 577–82. doi: 10.1016/s1473-3099(09)70135-5