Molecular methods to study the organization of microbial communities

Water Science and Technology

Volumn 32, Issue 8, 1995, Pages 1-9

  Muyzer, Gerard ^a   Ramsing, Niels B ^b  

^a MAX PLANCK INSTITUTE FOR MARINE MICROBIOLOGY   (Germany)

^b AARHUS UNIVERSITY   (Denmark)

Author keywords

Denaturing gradient gel electrophoresis (DGGE); fluorescent in situ hybridization (FISH); molecular microbial ecology; polymerase chain reactio

Indexed keywords

BACTERIA; COMPOSITION; ECOLOGY; ELECTROPHORESIS; ENZYMES; GENES; IN SITU PROCESSING; MOLECULES; RNA;

DENATURING GRADIENT GEL ELECTROPHORESIS; FLUORESCENT IN SITU HYBRIDIZATION; MICROBIAL COMMUNITIES; MOLECULAR BIOLOGICAL TECHNIQUES; MOLECULAR MARKER; MOLECULAR MICROBIAL ECOLOGY; OLIGONUCLEOTIDE PROBES; POLYMERASE CHAIN REACTION; RIBOSOMAL RNA; STRUCTURAL GENES;

MICROORGANISMS;

BACTERIUM IDENTIFICATION; BIOTECHNOLOGY; DENATURING GRADIENT GEL ELECTROPHORESIS; ECOSYSTEM; FLUORESCENCE IN SITU HYBRIDIZATION; MICROBIOLOGY; MOLECULAR BIOLOGY; NONHUMAN; REVIEW;

EID: 0029551398     PISSN: 02731223     EISSN: None     Source Type: Journal    
DOI: 10.1016/0273-1223(96)00001-7     Document Type: Article

References (70)

1. Combination of 16S rRNA targeted oligonucleolide probes with flow cytometry for analyzing mixed microbial populations
2. Fluorescent-oligonucleotide probing of whole cells for determinative, phylogenetic and environmental studies in microbiology
3. Identification in situ and phylogeny of uncultured bacterial endosymbionts
4. Identification and in situ detection of individual bacterial cells
5. Molecular and microscopic identification of sulfate-reducing bacteria in multispecies biofilms
6. Identification of individual procaryolic cells by using enzyme-labeled, rRNA-targeted oligonucleotide probes
7. Phylogenetic identification and in situ detection of individual microbial cells without cultivation
8. in situ identification of microorganisms by whole cell hybridization with rRNA-targeled nucleic acid probes
9. in situ localization of Azospirillum brasilense in the rhizosphere of wheat with fluorescent labeled, rRNA-targeted oligonucleotide probes and scannin
10. Phylogenetic analysis of a natural marine bacterioplankton population by rRNA gene cloning and sequencing
11. Confocal laser microscopy and computer image analysis in microbial ecology
12. Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells
13. Identification of sulfate-reducing ecto-symbiotic bacteria from anaerobic ciliates using 16S rRNA binding oligonucleotide probes
14. Denaturing gradient gel electrophoresis profiles of 165 rRNA-defined populations inhabiting a hot spring microbial mat conununity
15. Phylogenetic group-specific oligodeoxynucleotide probes for identification of single microbial cells
16. Genetic diversity in Sargasso Sea bacterioplankton
17. Detection of micro-organisms in soil after in situ hybridization with rRNA-targeted, fluorescently labelled oligonucleotides
18. Dual staining of natural bacterioplanktcn with 4',6-diamidino-2-phenylindole and fluorescent oligonucleotide probes targeting kingdom-level 16S rRNA sequences
19. Preparation of oligonucleotide-alkaline phosphatase conjugates and their use as hybridization probes
20. Improved method for recovery of mRNA from aquatic samples and its application to detection of mer expression
21. Rapid in situ hybridization technique using 16S rRNA segments for detecting and differentiating the closely related gram-positive organisms Bacillus polym
22. Monitoring the enrichment and isolation of sulfate-reducing bacteria by using oligonucleotide hybridization probes designed from environmentally derived l6S r
23. Conservation of the genes for dissimilatory sulfite reductase from Desulfovibrio vulgaris and Archaeoglobus fulgidus allows their detection by PCR
24. Estimating the growth rate of slowly growing marine bacteria from RNA content
25. Use of multiple 16S rRNA-targeted fluorescent probes to Increase signal strength and measure cellular RNA from natural planktonic bacteria
26. Single-cell RNA content of natural marine planktonic bacteria measured by hybridization with multiple 165 rRNA-targetcd fluorescent probes
27. Potential risks of gene amplification by PCR as determined by 165 rDNA analysis of a mixed culture of strict barophiic bacteria
28. Taxon-specific probes for the cellulolitic genus Fibrobacter reveal abundant and novel equine-associated populations
29. The Ribosomal Database Project
30. Phylogenetic oligonucleotide probes for the major subclasses of Proteobacteria: Problems and solutions
31. In situ Identification of bacteria in drinking water and adjoining biofllms by hybridization with 165 and 23S rRNA-directed fluorescent oligonucleotide pr
32. Ultrastructure of the endophyte and localization of NifH transcripts in root nodules of Coriaria nepalensis Wall. by in situ hybridization
33. Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRN
34. Determination of the genetic diversity of microbial communities using DGGE analysis of PCR-amplified l6S rRNA
35. Phylogenctic relationships of Thiomicrospira species and their identification in deep-sea hydrothermal vent samples by denaturing gradient gel electrophor
36. Detection of gene expression in genetically engineered microorganisms and natural populations in the marine environment by mRNA analysis
37. Gene expression per dose: specific measure of gene expression in aquatic microorganisms
38. Use of rRNA fluorescence in situ hybridisation for measuring the activity of single celis in early and established biofllms
39. Dependence on the taxon composition of clone libraries for PCR amplified, naturally accuring 16S rDNA, on the primer pair and the cloning system
40. 2S in photosynthetic biofilms determined by oligonucleotide probes and microelectrodes
41. Distribution of bacterial populations in a stratified fjord (Mariagerfjord, Denmark) quantified by in situ hybridization with fluorescent probes in relati
42. Quantification of methanogenic groups in anaerobic biological ractors by oligonucleotide probe hybridization
43. Differential amplification of rRNA genes by polymerase chain reaction
44. Community strcture of a microbial mat: The phylogenetic dimension
45. Identification of bacteria in biodegraded wall painting by denaturing gradient gel electrophoresis of PCR-amplified l6S rDNA
46. The abundance of Zoogloea ramigera in sewage treatment plants
47. Enzymatic amplification of beta-globin genomic sequences and restriction site analysis for diagnosis of sickle cell anemia
48. Phylogenetic diversity and identification of nonculturable magnetotactic bacteria
49. Use of phylogenetically based hybridization probes for studies of ruminal microbial ecology
50. Development and application of Nucleic acid probes
51. Methods of microbial identification, tracking and monitoring of function
52. Amplification of the amoA gene from diverse species of ammonium-oxidizing bacteria and from an Indigenous bacterial population from seawater
53. Phylogeny of Thioploca and related gradient bacteria
54. Molecular identification of bacteria from a co-culture by denaturing gradient gel electrophoresis of 16S nbosomal DNA fragments as a tool for isolation in pur
55. Distribution of sulfate-reducing bacteria in a stratified fjord (Mariagerfjord, Denmark) as evaluated by Most-Probable-Number counts and denaturing gradient g
56. High diversity in DNA of soil bacteria
57. Identification of whole fixed bacterial cells with non isotopically labeled rRNA-targeted transcript probes
58. Use of oligonucleotide signature probes for identification of physiological groups of methylotrophic bacteria
59. Database on the structure of small ribosomal subunit RNA
60. The molecular basis of the sparse fur mouse mutation
61. Probing activated sludge with proteobacteria-specific oligonucleotides: inadequacy of culture-dependent methods for describing microbial community structure
62. ldentifcation and in situ detection of Gram-negative filamentous bacteria in activated sludge
63. Development of an rRNA-targeted oligonucleotide probe specific for the genus Acinetobacter and its application for in situ monitoring in activated slu
64. Flow cytometry analysis of activated sludge with rRNA-targeted probes
65. 16S rRNA sequences reveal numerous uncultivated microorganisms in a natural environment
66. Ribosomal RNA analysis of microorganisms as they occur in nature
67. Genetic diversity of Desulfovibrio spp. m environmental samples analy by denaturing gradient gel electrophoresis of [NiFe] hydrogenase gen fragments
68. l6S rRNA sequences of uncultivated hot spring cyanobacterial mat inhabitants retrieved as randomly primed cDNA
69. Identification of single bacterial cell using digoxigenin-labelled, rRNA-targeted oligonucleotides