Molecular diagnosis of infectious diarrhea: focus on enteric protozoa

References

• Carreno RA, Martin DS, Barta JR. Cryptosporidium is more closely related to the gregarines than to coccidia as shown by phylogenetic analysis of apicomplexan parasites inferred using small-subunit ribosomal RNA gene sequences. Parasitol Res 1999;85(11):899-904
   Google Scholar
• Clark CG, Diamond LS. Ribosomal RNA genes of “pathogenic” and “nonpathogenic” Entamoeba histolytica are distinct. Mol Biochem Parasitol 1991;49(2):297-302
   Google Scholar
• Tannich E, Horstmann RD, Knobloch J, Arnold HH. Genomic DNA differences between pathogenic and nonpathogenic Entamoeba histolytica. Proc Natl Acad Sci USA 1989;86(13):5118-22
   Google Scholar
• Shimokawa C, Kabir M, Taniuchi M, et al. Entamoeba moshkovskii is associated with diarrhea in infants and causes diarrhea and colitis in mice. J Infect Dis 2012;206(5):744-51
   PubMed Web of Science ®Google Scholar
• Royer TL, Gilchrist C, Kabir M, et al. Entamoeba bangladeshi nov. sp., Bangladesh. Emerg Infect Dis 2012;18(9):1543-5
   Google Scholar
• Das SK, Ahmed S, Ferdous F, et al. Etiological diversity of diarrhoeal disease in Bangladesh. J Infect Dev Ctries Internet 2013;7(12):900-9. Available from: www.jidc.org/index.php/journal/article/view/24334935
   PubMed Web of Science ®Google Scholar
• Kotloff KL, Nataro JP, Blackwelder WC, et al. Burden and aetiology of diarrhoeal disease in infants and young children in developing countries (the Global Enteric Multicenter Study, GEMS): a prospective, case-control study. Lancet 2013;382(9888):209-22
   PubMed Web of Science ®Google Scholar
• Anuar TS, Al-Mekhlafi HM, Abdul Ghani MK, et al. Molecular epidemiology of amoebiasis in Malaysia: highlighting the different risk factors of Entamoeba histolytica and Entamoeba dispar infections among Orang Asli communities. Int J Parasitol 2012;42(13–14):1165-75
   Google Scholar
• Tengku SA, Norhayati M. Public health and clinical importance of amoebiasis in Malaysia: a review. Trop Biomed 2011;28(2):194-222
   PubMed Web of Science ®Google Scholar
• Charles M, Delva GG, Boutin J, et al. Importance of cholera and other etiologies of acute diarrhea in post-earthquake Port-au-Prince, Haiti. Am J Trop Med Hyg 2014;90(3):511-17
   Google Scholar
• Moss DM, Priest JW, Hamlin K, et al. Longitudinal evaluation of enteric protozoa in haitian children by stool exam and multiplex serologic assay. Am J Trop Med Hyg 2014;90(4):653-60
   Google Scholar
• Checkley W, Gilman RH, Epstein LD, et al. Asymptomatic and symptomatic cryptosporidiosis: their acute effect on weight gain in peruvian children. Am J Epidemiol 1997;145(2):156-63
   PubMed Web of Science ®Google Scholar
• Gonçalves JF, Tanabe M, Medeiros F de P, et al. Parasitological and serological studies on amoebiasis and other intestinal parasitic infections in the rural sector around Recife, northeast Brazil. Rev Inst Med Trop Sao Paulo 1990;32(6):428-35
   Google Scholar
• Liu L, Johnson HL, Cousens S, et al. Global. regional, and national causes of child mortality: an updated systematic analysis for 2010 with time trends since 2000. Lancet 2012;379(9832):2151-61
   PubMed Web of Science ®Google Scholar
• Davis AN, Haque R, Petri WA Jr. Update on protozoan parasites of the intestine. Curr Opin Gastroenterol 2002;18(1):10-14
   Google Scholar
• Haque R, Duggal P, Ali IM, et al. Innate and acquired resistance to amebiasis in Bangladeshi children. J Infect Dis 2002;186(4):547-52
   PubMed Web of Science ®Google Scholar
• Haque R, Mondal D, Karim A, et al. Prospective case-control study of the association between common enteric protozoal parasites and diarrhea in Bangladesh. Clin Infect Dis 2009;48(9):1191-7
   Google Scholar
• Haque R, Snider C, Liu Y, et al. Oral polio vaccine response in breast fed infants with malnutrition and diarrhea. Vaccine 2014;32(4):478-82
   PubMed Web of Science ®Google Scholar
• Mondal D, Minak J, Alam M, et al. Contribution of enteric infection, altered intestinal barrier function, and maternal malnutrition to infant malnutrition in Bangladesh. Clin Infect Dis 2012;54(2):185-92
   Google Scholar
• Tarleton JL, Haque R, Mondal D, et al. Cognitive effects of diarrhea, malnutrition, and entamoeba histolytica infection on school age children in Dhaka, Bangladesh. Am J Trop Med Hyg 2006;74(3):475-81
   Google Scholar
• Haque R, Roy S, Kabir M, et al. Infection and diarrhea in Bangladesh. J Infect Dis 2005;192(12):2171-3
   Google Scholar
• Beck DL, Doğan N, Maro V, et al. High prevalence of entamoeba moshkovskii in a Tanzanian HIV population. Acta Trop 2008;107(1):48-9
   Google Scholar
• Copeland CC, Beers BB, Thompson MR, et al. Faecal contamination of drinking water in a Brazilian shanty town: importance of household storage and new human faecal marker testing. J Water Health 2009;7(2):324-31
   PubMed Web of Science ®Google Scholar
• Ajjampur SSR, Sarkar R, Sankaran P, et al. Symptomatic and asymptomatic cryptosporidium infections in children in a semi-urban slum community in Southern India. Am J Trop Med Hyg 2010;83(5):1110-15
   Google Scholar
• Haque R, Huston CD, Hughes M, et al. Amebiasis. N Engl J Med 2003;348(16):1565-73
   PubMed Web of Science ®Google Scholar
• Haque R, Kabir M, Noor Z, et al. Diagnosis of amebic liver abscess and amebic colitis by detection of entamoeba histolytica DNA in blood, urine, and saliva by a real-time PCR assay. J Clin Microbiol 2010;48(8):2798-801
   PubMed Web of Science ®Google Scholar
• Haque R, Petri WA Jr. Diagnosis of amebiasis in Bangladesh. Arch Med Res 2006;37(2):273-6
   Google Scholar
• Platts-Mills JA, Operario DJ, Houpt ER. Molecular diagnosis of diarrhea: current status and future potential. Curr Infect Dis Rep 2012;14(1):41-6
   PubMed Web of Science ®Google Scholar
• Barda BD, Rinaldi L, Ianniello D, et al. Mini-FLOTAC, an innovative direct diagnostic technique for intestinal parasitic infections: experience from the field. PLoS Negl Trop Dis Internet 2013;7(8):e2344. Available from: www.ncbi.nlm.nih.gov/pmc/articles/PMC3731229/
   PubMedGoogle Scholar
• Furrows SJ, Moody AH, Chiodini PL. Comparison of PCR and antigen detection methods for diagnosis of Entamoeba histolytica infection. J Clin Pathol 2004;57(12):1264-6
   Google Scholar
• Haque R, Ali IKM, Akther S, et al. Isoenzyme analysis, and antigen detection for diagnosis of entamoeba histolytica infection. J Clin Microbiol 1998;36(2):449-52
   PubMed Web of Science ®Google Scholar
• Goldin AJ, Hall A, Sarker RN, et al. Diagnosis of Giardia duodenalis infection in Bangladeshi infants: faecal antigen capture ELISA. Tran R Soc Trop Med Hyg 1993;87(4):428-32
   Google Scholar
• Tanyuksel M, Petri WA. Laboratory diagnosis of amebiasis. Clin Microbiol Rev 2003;16(4):713-29
   PubMed Web of Science ®Google Scholar
• Korpe PS, Stott BR, Nazib F, et al. Evaluation of a rapid point-of-care fecal antigen detection test for entamoeba histolytica. Am J Trop Med Hyg 2012;86(6):980-1
   Google Scholar
• Christy NC, Hencke JD, Escueta-De Cadiz A, et al. Multisite performance evaluation of an enzyme-linked immunosorbent assay for detection of Giardia, Cryptosporidium, and Entamoeba histolytica antigens in human stool. J Clin Microbiol 2012;50(5):1762-3
   Google Scholar
• Panchalingam S, Antonio M, Hossain A, et al. Diagnostic microbiologic methods in the GEMS-1 Case/Control Study. Clin Infect Dis 2012;55(Suppl 4):S294-302
   PubMedGoogle Scholar
• Fotedar R, Stark D, Beebe N, et al. Laboratory diagnostic techniques for Entamoeba species. Clin Microbiol Rev 2007;20(3):511-532. table of contents
   Google Scholar
• Liu J, Gratz J, Maro A, et al. Simultaneous detection of six diarrhea-causing bacterial pathogens with an in-house PCR-luminex assay. J Clin Microbiol 2012;50(1):98-103
   PubMedGoogle Scholar
• Liu J, Gratz J, Amour C, et al. A laboratory-developed TaqMan Array Card for simultaneous detection of 19 enteropathogens. J Clin Microbiol 2013;51(2):472-80
   PubMed Web of Science ®Google Scholar
• Taniuchi M, Sobuz SU, Begum S, et al. Etiology of diarrhea in Bangladeshi infants in the first year of life using molecular methods. J Infect Dis 2013;208(11):1794-802
   Google Scholar
• Jones CS, Iannetta PP, Woodhead M, et al. The isolation of RNA from raspberry (Rubus idaeus) fruit. Mol Biotechnol 1997;8(3):219-21
   Google Scholar
• Lorenz H, Jäger C, Willems H, Baljer G. PCR detection of Coxiella burnetii from different clinical specimens, especially bovine milk, on the basis of DNA preparation with a silica matrix. Appl Environ Microbiol 1998;64(11):4234-7
   PubMed Web of Science ®Google Scholar
• Da Silva AJ, Bornay-Llinares FJ, Moura IN, et al. Fast and reliable extraction of protozoan parasite DNA from fecal specimens. Mol Diagn 1999;4(1):57-64
   Google Scholar
• Esona MD, McDonald S, Kamili S, et al. Comparative evaluation of commercially available manual and automated nucleic acid extraction methods for rotavirus RNA detection in stools. J Virol Methods 2013;194(1–2):242-9
   PubMed Web of Science ®Google Scholar
• Kim T-H, Park J, Kim C-J, Cho Y-K. A fully integrated lab-on-a-disc for nucleic acid analysis of food-borne pathogens. Anal Chem Internet 2014;86(8):3841-8. Available from: http://dx.doi.org/10.1021/ac403971h
   Google Scholar
• Yager P, Edwards T, Fu E, et al. Microfluidic diagnostic technologies for global public health. Nature 2006;442(7101):412-18
   PubMed Web of Science ®Google Scholar
• Orlandi PA, Lampel KA. Extraction-free, filter-based template preparation for rapid and sensitive pcr detection of pathogenic parasitic protozoa. J Clin Microbiol 2000;38(6):2271-7
   Google Scholar
• Coupe S, Sarfati C, Hamane S, Derouin F. Detection of cryptosporidium and identification to the species level by nested PCR and restriction fragment length polymorphism. J Clin Microbiol 2005;43(3):1017-23
   Google Scholar
• Evangelopoulos A, Spanakos G, Patsoula E, et al. A nested, multiplex, PCR assay for the simultaneous detection and differentiation of Entamoeba histolytica and Entamoeba dispar in faeces. Ann Trop Med Parasitol 2000;94(3):233-40
   Web of Science ®Google Scholar
• Caraguel CGB, Stryhn H, Gagné N, et al. Selection of a cutoff value for real-time polymerase chain reaction results to fit a diagnostic purpose: analytical and epidemiologic approaches. J VET Diagn Invest 2011;23(1):2-15
   PubMed Web of Science ®Google Scholar
• Bruijnesteijn van Coppenraet LE, Wallinga JA, Ruijs GJ, et al. Parasitological diagnosis combining an internally controlled real-time PCR assay for the detection of four protozoa in stool samples with a testing algorithm for microscopy. Clin Microbiol Infect 2009;15(9):869-74
   PubMed Web of Science ®Google Scholar
• Calderaro A, Gorrini C, Montecchini S, et al. Evaluation of a real-time polymerase chain reaction assay for the laboratory diagnosis of giardiasis. Diagn Microbiol Infect Dis 2010;66(3):261-7
   Google Scholar
• Nazeer JT, Khalifa KES, von Thien H, et al. Use of multiplex real-time PCR for detection of common diarrhea causing protozoan parasites in Egypt. Parasitol Res 2013;112(2):595-601
   Google Scholar
• Verweij JJ, Blangé RA, Templeton K, et al. Simultaneous detection of Entamoeba histolytica, Giardia lamblia, and Cryptosporidium parvum in fecal samples by using multiplex real-time PCR. J Clin Microbiol 2004;42(3):1220-3
   PubMed Web of Science ®Google Scholar
• Acuna-Soto R, Samuelson J, Girolami PD, et al. Application of the polymerase chain reaction to the epidemiology of pathogenic and nonpathogenic Entamoeba histolytica. Am J Trop Med Hyg 1993;48(1):58-70
   Google Scholar
• Aguirre A, Warhurst DC, Guhl F, Frame IA. Polymerase chain reaction-solution hybridization enzyme-linked immunoassay (PCR-SHELA) for the differential diagnosis of pathogenic and non-pathogenic Entamoeba histolytica. Trans R Soc Trop Med Hyg 1995;89(2):187-8
   Google Scholar
• Britten D, Wilson SM, McNerney R, et al. An improved colorimetric PCR-based method for detection and differentiation of Entamoeba histolytica and Entamoeba dispar in feces. J Clin Microbiol 1997;35(5):1108-11
   Google Scholar
• Verweij JJ, Blotkamp J, Brienen EA, et al. Differentiation of Entamoeba histolytica and Entamoeba dispar cysts using polymerase chain reaction on DNA isolated from faeces with spin columns. Eur J Clin Microbiol Infect Dis 2000;19(5):358-61
   Google Scholar
• Clark CG, Kaffashian F, Tawari B, et al. New insights into the phylogeny of Entamoeba species provided by analysis of four new small-subunit rRNA genes. Int J Syst Evol Microbiol 2006;56:9.2235-9
   Google Scholar
• Cama VA, Bern C, Sulaiman IM, et al. Cryptosporidium species and genotypes in HIV-positive patients in Lima, Peru. J Eukaryot Microbiol 2003;50 Suppl:531-3
   Google Scholar
• Jex AR, Gasser RB. Diagnostic and analytical mutation scanning of Cryptosporidium: utility and advantages. Expert Rev Mol Diagn 2009;9(2):179-85
   PubMed Web of Science ®Google Scholar
• Tanrıverdi S, Tanyeli A, Başlamışlı F, et al. Detection and genotyping of oocysts of cryptosporidium parvum by real-time PCR and melting curve analysis. J Clin Microbiol 2002;40(9):3237-44
   Google Scholar
• Pangasa A, Jex AR, Campbell BE, et al. High resolution melting-curve (HRM) analysis for the diagnosis of cryptosporidiosis in humans. Mol Cell Probes 2009;23(1):10-15
   PubMed Web of Science ®Google Scholar
• Notomi T, Okayama H, Masubuchi H, et al. Loop-mediated isothermal amplification of DNA. Nucleic Acids Res 2000;28(12):e63
   PubMed Web of Science ®Google Scholar
• Bakheit MA, Torra D, Palomino LA, et al. Sensitive and specific detection of Cryptosporidium species in PCR-negative samples by loop-mediated isothermal DNA amplification and confirmation of generated LAMP products by sequencing. Vet Parasitol 2008;158(1-2):11-22
   Google Scholar
• Karanis P, Thekisoe O, Kiouptsi K, et al. Development and preliminary evaluation of a loop-mediated isothermal amplification procedure for sensitive detection of cryptosporidium oocysts in fecal and water samples. Appl Environ Microbiol 2007;73(17):5660-2
   PubMed Web of Science ®Google Scholar
• Ng CT, Gilchrist CA, Lane A, et al. Multiplex real-time PCR assay using scorpion probes and DNA capture for genotype-specific detection of Giardia lamblia on fecal samples. J Clin Microbiol 2005;43(3):1256-60
   Google Scholar
• Muhsen K, Levine MM. A systematic review and meta-analysis of the association between Giardia lamblia and endemic pediatric diarrhea in developing countries. Clin Infect Dis 2012;55(Suppl 4):S271-93
   PubMed Web of Science ®Google Scholar
• Navidad JF, Griswold DJ, Gradus MS, Bhattacharyya S. Evaluation of Luminex xTAG gastrointestinal pathogen analyte-specific reagents for high-throughput, simultaneous detection of bacteria, viruses, and parasites of clinical and public health importance. J Clin Microbiol 2013;51(9):3018-24
   PubMed Web of Science ®Google Scholar
• Wessels E, Rusman LG, Van Bussel MJ, Claas EC. Added value of multiplex Luminex gastrointestinal pathogen panel (xTAG® GPP) testing in the diagnosis of infectious gastroenteritis. Clin Microbiol Infect 2014;20(3):O182-7
   Google Scholar
• McAuliffe GN, Anderson TP, Stevens M, et al. Systematic application of multiplex PCR enhances the detection of bacteria, parasites, and viruses in stool samples. J Infect 2013;67(2):122-9
   PubMed Web of Science ®Google Scholar
• Taniuchi M, Verweij JJ, Noor Z, et al. High throughput multiplex PCR and probe-based detection with Luminex beads for seven intestinal parasites. Am J Trop Med Hyg 2011;84(2):332-7
   Google Scholar
• Goldfarb DM, Dixon B, Moldovan I, et al. Nanolitre real-time PCR detection of bacterial, parasitic, and viral agents from patients with diarrhoea in Nunavut, Canada. Int J Circumpolar Health Internet 2013;72:19903. Available from: www.circumpolarhealthjournal.net/index.php/ijch/article/view/19903/html#sec0010_19903
   Google Scholar
• Mejia R, Vicuña Y, Broncano N, et al. A novel, multi-parallel, real-time polymerase chain reaction approach for eight gastrointestinal parasites provides improved diagnostic capabilities to resource-limited at-risk populations. Am J Trop Med Hyg 2013;88(6):1041-7
   Web of Science ®Google Scholar
• Claas EC, Burnham C-AD, Mazzulli T, et al. Performance of the xTAG® gastrointestinal pathogen panel, a multiplex molecular assay for simultaneous detection of bacterial, viral, and parasitic causes of infectious gastroenteritis. J Microbiol Biotechnol 2013;23(7):1041-5
   PubMed Web of Science ®Google Scholar
• Kodani M, Yang G, Conklin LM, et al. Application of TaqMan low-density arrays for simultaneous detection of multiple respiratory pathogens. J Clin Microbiol 2011;49(6):2175-82
   Google Scholar
• Platts-Mills JA, Gratz J, Mduma E, et al. Association between stool enteropathogen quantity and disease in Tanzanian children using TaqMan array cards: a nested case-control study. Am J Trop Med Hyg 2014;90(1):133-8
   Google Scholar
• Sýkora J, Siala K, Huml M, et al. Evaluation of faecal calprotectin as a valuable non-invasive marker in distinguishing gut pathogens in young children with acute gastroenteritis. Acta Paediatr 2010;99(9):1389-95
   PubMedGoogle Scholar