Optimized microbial DNA extraction from diarrheic stools

BMC Research Notes

Volumn 5, Issue , 2012, Pages

  Donatin, Emilie ^a   Drancourt, Michel ^a,b  

^a AIX MARSEILLE UNIVERSITÉ   (France)

^b AIX MARSEILLE UNIVERSITY   (France)

Author keywords

Diarrheal stools; DNA extraction; Lyophilization

Indexed keywords

ARCHAEA; BACTERIA (MICROORGANISMS); METHANOBREVIBACTER SMITHII; SALMONELLA ENTERICA;

ARCHAEAL DNA; BACTERIAL DNA; CHLOROFORM; CHORISMATE SYNTHASE; LYASE; PHENOL; RNA 16S;

ARTICLE; CHEMISTRY; DIARRHEA; ENZYMOLOGY; FECES; FRACTIONATION; FREEZE DRYING; GENETICS; HUMAN; ISOLATION AND PURIFICATION; LABORATORY AUTOMATION; METHANOBREVIBACTER; METHODOLOGY; MICROBIOLOGY; PREDICTIVE VALUE; PROSPECTIVE STUDY; REAL TIME POLYMERASE CHAIN REACTION; RIBOTYPING; SALMONELLA ENTERICA;

AUTOMATION, LABORATORY; CHEMICAL FRACTIONATION; CHLOROFORM; DIARRHEA; DNA, ARCHAEAL; DNA, BACTERIAL; FECES; FREEZE DRYING; HUMANS; METHANOBREVIBACTER; PHENOL; PHOSPHORUS-OXYGEN LYASES; PREDICTIVE VALUE OF TESTS; PROSPECTIVE STUDIES; REAL-TIME POLYMERASE CHAIN REACTION; RIBOTYPING; RNA, RIBOSOMAL, 16S; SALMONELLA ENTERICA;

MLCS; MLOWN;

EID: 84872161414     PISSN: None     EISSN: 17560500     Source Type: Journal    
DOI: 10.1186/1756-0500-5-702     Document Type: Article

References (24)

1. Acute Diarrhea. Drancourt M, Infectious Diseases London, UK: Mosby, Cohen E, Powderly WG, Opal SM, 3e 2009 381 389
2. Epidemiology of infectious acute diarrhea in France and Europe. Alain S, Denis F, Arch Pediatr 2007 14 132 144
3. Epidemiological data on pathogenic Yersinia enterocolitica in Southern Germany during 2000-2006. Bucher M, Meyer C, Grötzbach B, Wacheck S, Stolle A, Fredriksson-Ahomaa M, Foodborne Pathog Dis 2008 5 273 280 10.1089/fpd.2007.0076 18564908
4. Development and evaluation of immunochromatographic assay for simple and rapid detection of Campylobacter jejuni and Campylobacter coli in human stool specimens. Kawatsu K, Kumeda Y, Taquchi M, Yamazaki-Matsune W, Kanki M, Inoue K, J Clin Microbiol 2008 46 1226 1231 10.1128/JCM.02170-07 18256225
5. A novel DNA microarray for rapid diagnosis of enteropathogenic bacteria in stool specimens of patients with diarrhea. You Y, Fu C, Zeng X, Fang D, Yan X, Sun B, Xiao D, Zhang J, J Microbiol Methods 2008 75 566 571 10.1016/j.mimet.2008.09.007 18834908
6. Clostridium difficile binary toxin (CDT) and diarrhea. Carman RJ, Stevens AL, Lyerly MW, Hiltonsmith MF, Stiles BG, Wilkins TD, Anaerobe 2011 17 161 165 10.1016/j.anaerobe.2011.02.005 21376825
7. Two or more enteropathogens are associated with diarrhoea in Mexican children. Paniaqua GL, Monroy E, Garcia-Gonzales O, Alonso J, Negrete E, Vaca S, Ann Clin Microbiol Antimicrob 2007 6 17 10.1186/1476-0711-6-17 18162140
8. Molecular screening of major bacterial enteropathogens in human stool samples from diarrhoeal outbreak sites. Dixit S, Bhandari GP, Karmacharya DB, Shrestha S, Manadhar S, Maskey MK, J Nepal Health Res Counc 2011 9 181 185 22929850
9. Complex polysaccharides as PCR inhibitors in feces: Helicobacter pylori model. Monteiro L, Bonnemaison D, Vekris A, Petry KG, Bonnet J, Vidal R, Cabrita J, Mégraud F, J Clin Microbiol 1997 35 995 998 9157172
10. Pathophysiology of acute diarrhea. Binder HJ, Am J Med 1990 88 2S 4S 2356845
11. Diarrhea caused by circulating agents. Fabian E, Kump P, Krejs GJ, Gastroenterol Clin North Am 2012 41 603 610 10.1016/j.gtc.2012.06.008 22917166
12. Evaluation of DNA preparation techniques for detection of the SLT-1 gene of Escherichia coli O157:H7 in bovine faeces using the polymerase chain reaction. Stewart DS, Tortorello ML, Gendel SM, Lett Appl Microbiol 1998 26 93 97 10.1046/j.1472-765X.1998.00279.x 9569687
13. Simultaneous detection of Salmonella strains and Escherichia coli O157:H7 with fluorogenic PCR and single-enrichment-broth culture. Sharma VK, Carlson SA, Appl Environ Microbiol 2000 66 5472 5476 10.1128/AEM.66.12.5472-5476.2000 11097930
14. Isolation of DNA from bacterial samples of the human gastrointestinal tract. Zoetendal EG, Heilig HG, Klaassens ES, Booijink CC, Kleerebezem M, Smidt H, de Vos WM, Nat Protoc 2006 1 870 873 10.1038/nprot.2006.142 17406319
15. New protocol for DNA extraction of stool. Machiels BM, Ruers T, Lindhout M, Hardy K, Hlavaty T, Bang DD, Somers VA, Baeten C, von Meyenfeldt M, Thunnissen FB, Biotechniques 2000 28 286 290 10683738
16. Lyophilization improves the extraction of PCR-quality community DNA from pig faecal samples. Ruiz R, Rubio LA, J Sci Food Agric 2009 89 723 727 10.1002/jsfa.3465
17. Lyophilization prior to direct DNA extraction from bovine feces improves the quantification of Escherichia coli O157:H7 and Campylobacter jejuni. Rapp D, Waller J, Brightwell G, Muirhead RW, Appl Environ Microbiol 2010 76 1686 1688 10.1128/AEM.01866-09 20038690
18. Revolutionizing clinical microbiology laboratory organization in hospitals with in situ point-of-care. Cohen-Bacrie S, Ninove L, Nougairède A, Charrel R, Richet H, Minodier P, Badiaga S, Noël G, La Scola B, de Lamballerie X, Drancourt M, Raoult D, PLoS One 2011 6 7 22403 10.1371/journal.pone.0022403 21811599
19. A review of human salmonellosis: I. Infective dose. Blaser MJ, Newman LS, Rev Infect Dis 1982 4 1096 1106 10.1093/clinids/4.6.1096 6760337
20. The human pathogenic vibrios-a public health update with environmental perspectives. West PA, Epidemiol Infect 1989 103 1 34 10.1017/S0950268800030326 2673820
21. Characterization of Shigella sonnei in Malaysia, an increasingly prevalent etiologic agent of local shigellosis cases. Koh XP, Chiou CS, Ajam N, Watanabe H, Ahmad N, Thong KL, BMC Infect Dis 2012 12 122 10.1186/1471-2334-12- 122 22606962
22. High prevalence of Methanobrevibacter smithii and Metanosphaera stadtmanae detected in the human gut using an improved DNA detection protocol. Dridi B, Henry M, El Kéchine A, Raoult D, Drancourt M, PLoS One 2009 9 7063
23. Detection of Mycobacterium tuberculosis complex organisms in the stools of patients with pulmonary tuberculosis. El Kéchine A, Henry M, Raoult D, Drancourt M, Microbiology 2009 155 2384 2389 10.1099/mic.0.026484-0 19389783
24. A DNA microarray for the versatile diagnosis of infectious diarrhea. Donatin E, Buffet S, Leroy Q, Raoult D, Drancourt M, 2012 submitted for publication