Etiology of severe childhood pneumonia in the Gambia, West Africa, determined by conventional and molecular microbiological analyses of lung and pleural aspirate samples

Clinical Infectious Diseases

Volumn 59, Issue 5, 2014, Pages 682-685

  Howie, Stephen R C ^a   Morris, Gerard A J ^a   Tokarz, Rafal ^b   Ebruke, Bernard E ^a   Machuka, Eunice M ^a   Ideh, Readon C ^a   Chimah, Osaretin ^a   Secka, Ousman ^a   Townend, John ^a   Dione, Michel ^a   Oluwalana, Claire ^a   Njie, Malick ^c   Jallow, Mariatou ^c   Hill, Philip C ^d   Antonio, Martin ^a   Greenwood, Brian ^e   Briese, Thomas ^b   Mulholland, Kim ^e   Corrah, Tumani ^a   Lipkin, W Ian ^b   Adegbola, Richard A ^a,f   more..

^a Medical Research Council Unit   (Gambia)

^b Och Spine at New York Presbyterian Hospitals   (United States)

^c MINISTRY OF HEALTH AND SOCIAL WELFARE   (Gambia)

^d UNIVERSITY OF OTAGO   (New Zealand)

^e LONDON SCHOOL OF HYGIENE AND TROPICAL MEDICINE   (United Kingdom)

^f GSK   (Belgium)

Author keywords

Children; Etiology; Gambia; Lung aspirate; Pneumonia

Indexed keywords

PNEUMOCOCCUS VACCINE; BACTERIAL PROTEIN; CARRIER PROTEIN; CPSA PROTEIN, STREPTOCOCCUS PNEUMONIAE; GLPQ PROTEIN, HAEMOPHILUS INFLUENZAE; IMMUNOGLOBULIN D; LIPOPROTEIN;

ACINETOBACTER; ADENOVIRUS; ARTICLE; BACTERIAL PNEUMONIA; BACTERIUM CULTURE; BACTEROIDES; BOCAVIRUS; CHILD; CHILDHOOD; CORONAVIRUS; CYTOMEGALOVIRUS; DISEASE SEVERITY; ENTEROBACTER; ENTEROVIRUS; GAMBIA; HAEMOPHILUS INFLUENZAE; HUMAN; INFLUENZA VIRUS C; KLEBSIELLA PNEUMONIAE; LUNG ASPIRATION; MICROBIOLOGICAL EXAMINATION; MIXED INFECTION; MOLECULAR PATHOLOGY; PLEURA FLUID; PREVOTELLA; PRIORITY JOURNAL; RESPIRATORY SYNCYTIAL PNEUMOVIRUS; SALMONELLA; SEROTYPE; STAPHYLOCOCCUS AUREUS; STREPTOCOCCUS; STREPTOCOCCUS PNEUMONIAE; STREPTOCOCCUS PSEUDOPNEMONIAE; THORACOCENTESIS; VIRUS PNEUMONIA; AFRICA; DIAGNOSTIC IMAGING; GENETICS; HAEMOPHILUS INFECTIONS; INFANT; ISOLATION AND PURIFICATION; LUNG; MICROBIOLOGY; MULTILOCUS SEQUENCE TYPING; PNEUMONIA, BACTERIAL; PNEUMONIA, PNEUMOCOCCAL; PNEUMONIA, VIRAL; POLYMERASE CHAIN REACTION; PRESCHOOL CHILD; RADIOGRAPHY; VIROLOGY; VIRUS;

AFRICA, WESTERN; BACTERIAL PROTEINS; CARRIER PROTEINS; CHILD, PRESCHOOL; COINFECTION; GAMBIA; HAEMOPHILUS INFECTIONS; HAEMOPHILUS INFLUENZAE; HUMANS; IMMUNOGLOBULIN D; INFANT; LIPOPROTEINS; LUNG; MULTILOCUS SEQUENCE TYPING; PNEUMOCOCCAL VACCINES; PNEUMONIA, BACTERIAL; PNEUMONIA, PNEUMOCOCCAL; PNEUMONIA, VIRAL; POLYMERASE CHAIN REACTION; RADIOGRAPHY; SEROGROUP; STREPTOCOCCUS PNEUMONIAE; VIRUSES;

EID: 84907384177     PISSN: 10584838     EISSN: 15376591     Source Type: Journal    
DOI: 10.1093/cid/ciu384     Document Type: Article

References (19)

1. Murdoch DR, et al. Breathing new life into pneumonia diagnostics. J Clin Microbiol 2009; 47:3405-8.
2. Adegbola RA, et al. The etiology of pneumonia in malnourished and well-nourished Gambian children. Pediatr Infect Dis J 1994; 13:975-82. (Pubitemid 24363107)
3. Scott J, Hall A. The value and complications of percutaneous thoracic lung aspiration for etiologic diagnosis of community-acquired pneumonia. Chest 1999; 116:1716-32. (Pubitemid 30012718)
4. Levine OS, et al. The Pneumonia Etiology Research for Child Health Project: a 21st century childhood pneumonia etiology study. Clin Infect Dis 2012; 54(suppl 2):S93-101.
5. Ideh R, et al. Use of percutaneous transthoracic lung aspiration for the etiologic diagnosis of pneumonia: a 25 year experience from The Gambia. Int J Tuberc Lung Dis 2010; 15:729-35.
6. Brito DA, Ramirez M, de Lencastre H. Serotyping Streptococcus pneumoniae by multiplex PCR. J Clin Microbiol 2003; 41:2378-84. (Pubitemid 36712439)
7. Chakravorty S, et al. A detailed analysis of 16S ribosomal RNA gene segments for the diagnosis of pathogenic bacteria. J Microbiol Methods 2007; 69:330-9. (Pubitemid 46566457)
8. Enright MC, Spratt BG. A multilocus sequence typing scheme for Streptococcus pneumoniae: identification of clones associated with serious invasive disease. Microbiology 1998; 144(pt 11):3049-60. (Pubitemid 28515583)
9. Meats E, et al. Characterization of encapsulated and noncapsulated Haemophilus in fl uenzae and determination of phylogenetic relationships by multilocus sequence typing. J Clin Microbiol 2003; 41:1623-36. (Pubitemid 36428111)
10. Morris G, et al. A novel Campylobacter jejuni sequence type from a culture-negative patient in The Gambia. PLoS One 2008; 3:e1773. doi:10.1371/journal.pone.0001773.
11. Nadkarni M, et al. Determination of bacterial load by real-time PCR using a broad-range (universal) probe and primers set. Microbiology 2002; 148:257-66. (Pubitemid 34083204)
12. Smith-Vaughan H, et al. Measuring nasal bacterial load and its association with otitis media. BMC Ear Nose Throat Disord 2006; 10:10.
13. Tokarz R, et al. Longitudinal molecular microbial analysis of influenza-like illness in New York City, May 2009 through May 2010. Virol J 2011; 8:288.
14. Briese T, et al. Diagnostic system for rapid and sensitive differential detection of pathogens. Emerg Infect Dis 2005; 11:310-3. (Pubitemid 40239252)
15. Rudan I, et al. Epidemiology and etiology of childhood pneumonia. Bull World Health Organ 2008; 86:408-16. (Pubitemid 351694322)
16. Carrol ED, et al. PCR improves diagnostic yield from lung aspiration in Malawian children with radiologically con firmed pneumonia. PLoS One 2011; 6:e21042.
17. Shann F, et al. Aetiology of pneumonia in children in Goroka Hospital, Papua New Guinea. Lancet 1984; 324:537-41. (Pubitemid 14044456)
18. Lozano R, et al. Global and regional mortality from 235 causes of death for 20 age groups in 1990 and 2010: a systematic analysis for the Global Burden of Disease Study 2010. Lancet 2012; 380:2095-128.
19. Tokarz R, et al. Serotype analysis of Streptococcus pneumoniae in lung and nasopharyngeal aspirates from children in The Gambia by MassTag PCR. J Clin Microbiol 2013; 51:995-7.