Recovery of Partial 16S rDNA Sequences Suggests the Presence of Crenarchaeota in the Human Digestive Ecosystem

Current Microbiology

Volumn 51, Issue 5, 2005, Pages 317-321

  Rieu Lesme, Françoise ^a   Delbès, Céline ^b   Sollelis, Lauriane ^a  

^a CEMAGREF   (France)

^b Institut National de la Recherche Agronomique   (France)

Author keywords

[No Author keywords available]

Indexed keywords

DNA 16S;

ADOLESCENT; ARCHAEBACTERIUM; ARTICLE; CONTROLLED STUDY; CRENARCHAEOTA; DIGESTIVE SYSTEM; DNA SEQUENCE; FECES ANALYSIS; FEMALE; GENE SEQUENCE; HUMAN; INTESTINE FLORA; MALE; NORMAL HUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; REAL TIME POLYMERASE CHAIN REACTION; RNA SEQUENCE; SCHOOL CHILD; SEQUENCE HOMOLOGY; SULFOLOBUS;

ADOLESCENT; CRENARCHAEOTA; DNA, ARCHAEAL; DNA, RIBOSOMAL; FECES; FEMALE; GASTROINTESTINAL TRACT; HUMANS; MALE; MOLECULAR SEQUENCE DATA; POLYMERASE CHAIN REACTION; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID; SULFOLOBUS;

ARCHAEA; CRENARCHAEOTA; SULFOLOBUS;

EID: 27744551366     PISSN: 03438651     EISSN: 14320991     Source Type: Journal    
DOI: 10.1007/s00284-005-0036-8     Document Type: Article

References (37)

1. Abreu C, Jurgens G, De Marco P, Saano A, Bordalo AA (2001) Crenarchaeota and Euryarchaeota in temperate estuarine sediments. J Appl Microbiol 90:713-718
2. Belay N, Johnson R, Rajagopal BS, de Macario EC, Daniels L (1988) Methanogenic bacteria in human vaginal samples. J Clin Microbiol 28:1666-1668
3. Blaut M, Collins MD, Welling GW, Doré J, van Loo J, de Vos W (2002) Molecular biological methods for studying the gut microbiota: The EU human gut flora project. Br J Nutr 87:S203-S211
4. DeLong EE, Pace NR (2001) Environmental diversity of Bacteria and Archaea. Syst Biol 50:470-478
5. Eckburg PB, Lepp PW, Relman DA (2003) Archaea and their potential role in human disease. Infect Immun 71:591-596
6. Egert M, Wagner B, Lemke T, Brune A, Friedrich MW (2003) Microbial community structure in midgut and hindgut of the humus-feeding larva of Pachnoda ephippiata (Coleoptera: Scarabaeidae). Appl Environ Microbiol 69:6659-6668
7. Forterre P (2001) New viruses for the new millennium. Trends Microbiol 9:114
8. Forterre P, Brochier C, Philippe H (2002) Evolution of the Archaea. Theor Popul Biol 61:409-422
9. Friedrich MW, Schmitt-Wagner D, Lueders T, Brune A (2001) Axial differences in community structure of Crenarchaeota and Euryarchaeota in the highly compartmentalized gut of the soil-feeding termite Cubitermes orthognathus. Appl Environ Microbiol 67:4880-4890
10. Guarner F, Malagelada JR (2003) Gut flora in health and disease. Lancet 361:512-519
11. Heid CA, Stevens J, Livak KJ, Williams PM (1996) Real time quantitative PCR. Genome Res 6:986-994
12. Hershberger KL, Barns SM, Reysenbach AL, Dawson SC, Pace NR (1996) Wide diversity of Crenarchaeota. Nature 384:420
13. Huber H, Hohn MJ, Rachel R, Fuchs T, Wimmer VC, Stetter KO (2002) A new phylum of Archaea represented by a nanosized hyperthermophilic symbiont. Nature 417:63-67
14. Kulik EM, Sandmeier H, Hinni K, Meyer J (2001) Identification of archaeal rDNA from subgingival dental plaque by PCR amplification and sequence analysis. FEMS Microbiol Lett 196:129-133
15. Leclerc M, Delbes C, Moletta R, Godon JJ (2001) Single strand conformation polymorphism monitoring of 16S rDNA Archaea during start-up of an anaerobic digester. FEMS Microbiol Ecol 34:213-220
16. Lepp PW, Brinig MM, Ouverney CC, Palm K, Armitage GC, Relman DA (2004) Methanogenic Archaea and human periodontal disease. Proc Natl Acad Sci USA 16:6176-6181
17. Lysnes K, Thorseth IH, Steinsbu BO, Ovreas L, Torsvik T, Pederson RB (2004) Microbial community diversity in seafloor basalt from the Arctic spreading ridges. FEMS Microbiol Ecol 50:213-230
18. MacGregor BJ, Moser DP, Alm EW, Nealson KH, Stahl D (1997) Crenarchaeota in Lake Michigan sediment. Appl Environ Microbiol 63:1178-1181
19. Matsuki T, Watanabe K, Fujimoto J, Miyamoto Y, Takada T, Matsumoto K, Oyaizu H, Tanaka R (2002) Development of 16S rRNA-gene-targeted group-specific primers for the detection and identification of predominant bacteria in human feces. Appl Environ Microbiol 68:5445-5451
20. Matsuki T, Watanabe K, Fujimoto J, Takada T, Tanaka R (2004) Use of 16S rRNA gene-targeted group-specific primers for real-time PCR analysis of predominant bacteria in human feces. Appl Environ Microbiol 70:7220-7228
21. Miller TL, Wolin MJ, de Macario EC, Macario AJ (1982) Isolation of Methanobrevibacter smithii from human feces. Appl Environ Microbiol 43:227-232
22. Miller TL, Wolin MJ (1986) Methanogens in human and animal intestinal tracts. Syst Appl Microbiol 7:223-229
23. Nottingham PM, Hungate RE (1968) Isolation of methanogenic bacteria from feces of Man. J Bacteriol 96:2178-2179
24. Ochsenreiter T, Selezi D, Quaiser A, Bonch-Osmolovskaya L, Schleper C (2003) Diversity and abundance of Crenarchaeota in terrestrial habitats studied by 16S RNA surveys and real time PCR. Environ Microbiol 5:787-797
25. O'Connell SP, Lehman RM, Snoeyenbos-West O, Winston VD, Cummings DE, Watwood ME, Colwell FS (2003) Detection of Euryarchaeota and Crenarchaeota in an oxic basalt aquifer. FEMS Microbiol Ecol 44:165-173
26. Prangishvili D, Garrett RA (2004) Exceptionally diverse morphotypes and genomes of crenarchaeal hyperthermophilic viruses. Biochem Soc Trans 32:204-208
27. Preston CM, Wu KY, Molinski TF, DeLong EF (1996) A psychrophilic crenarchaeon inhabits a marine sponge: Cenarchaeum symbiosum gen. nov., sp.nov. Proc Natl Acad Sci USA 93:6241-6246
28. Rappé MS, Giovannoni SJ (2003) The uncultured microbial majority. Annu Rev Microbiol 57:369-394
29. Rieu-Lesme F (2004) Detection of Crenarchaeota in the rumen of cows: Proceedings of the 4th International Symposium on Gut Microbiology: Concerns and Responses to Food Safety, Health and Environmental Issues, Clermont-Ferrand, France. Reprod Nutr Dev 44:S16
30. Rigottier-Gois L, Le Bourhis AG, Gramet G, Rochet V, Doré J (2003) Fluorescent hybridisation combined with cytometry and hybridisation of total RNA to analyse the composition of microbial communities in human faeces using 16S rRNA probes. FEMS Microbiol Ecol 43:237-245
31. Rochet V, Rigottier-Gois L, Beguet F, Doré J (2001) Composition of human intestinal flora analysed by fluorescent in situ hybridisation using group-specific 16S rRNA-targeted oligonucleotide probes. Genet Sel Evol 33:339-352
32. Schrenk MO, Kelley DS, Delaney JR, Baross JA (2003) Incidence and diversity of microorganisms within the walls of an active deep-sea sulphide chimney. Appl Environ Microbiol 69:3580-3592
33. Sliwinski MK, Goodman RM (2004) Spatial heterogeneity of Crenarchaeal assemblages within mesophilic soil ecosystems as revealed by PCR-Single Stranded Conformation Polymorphism Profiling. Appl Environ Microbiol 70:1811-1820
34. Sliwinski MK, Goodman RM (2004) Comparison of Crenarchaeal consortia inhabiting the rhizosphere of diverse terrestrial plants with those in bulk soil in native environments. Appl Environ Microbiol 70:1821-1826
35. Treusch AH, Kletzin A, Raddatz G, Ochsenreiter T, Quaiser A, Meurer G, Schuster SC, Schleper C (2004) Characterization of large-insert DNA libraries from soil for environmental genomic studies of Archaea. Environ Microbiol 6(9):970-980
36. Wang RF, Cao WW, Cerniglia TE (1996) PCR detection and quantitation of predominant anaerobic bacteria in human and animal fecal samples. Appl Environ Microbiol 62:1242-1247
37. Webster NS, Watts JE, Hill RT (2001) Detection and phylogenetic analysis of novel Crenarchaeote and Euryarchaeote 16S ribosomal RNA gene sequences from a Great Barrier Reef sponge. Mar Biotechnol 3:600-608