Evaluation of nested PCR-DGGE (denaturing gradient gel electrophoresis) with group-specific 16S rRNA primers for the analysis of bacterial communities from different wastewater treatment plants

FEMS Microbiology Ecology

Volumn 39, Issue 2, 2002, Pages 101-112

  Boon, Nico ^a   De Windt, Wim ^a   Verstraete, Willy ^a   Top, Eva M ^a  

^a GHENT UNIVERSITY   (Belgium)

Author keywords

Activated sludge; Community analysis; Denaturing gradient gel electrophoresis; Nested polymerase chain reaction

Indexed keywords

RNA 16S;

ACTIVATED SLUDGE; BACTERIUM; COMMUNITY STRUCTURE; MICROBIAL COMMUNITY; WASTEWATER;

ACTINOBACTERIA; ACTIVATED SLUDGE; ANALYTIC METHOD; ARTICLE; CLUSTER ANALYSIS; CONTROLLED STUDY; DENATURING GRADIENT GEL ELECTROPHORESIS; GRAM NEGATIVE BACTERIUM; MICROFLORA; NONHUMAN; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SPECIES DIFFERENCE; WASTE WATER TREATMENT PLANT;

ACIDOBACTERIUM; ACTINOBACTERIA (CLASS); ALPHAPROTEOBACTERIA; BACTERIA (MICROORGANISMS);

EID: 0036202170     PISSN: 01686496     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0168-6496(01)00198-2     Document Type: Article

References (53)

1. Modern methods in subsurface microbiology: In situ identification of microorganisms with nucleic acid probes
2. The use of 16S rDNA clone libraries to describe the microbial diversity of activated sludge communities
3. Phylogenetic identification and in situ detection of individual microbial cells without cultivation
4. Probing activated sludge with oligonucleotides specific for proteobacteria: Inadequacy of culture-dependent methods for describing microbial community structure
5. Development of an rRNA-targeted oligonucleotide probe specific for the genus Acinetobacter and its application for in situ monitoring in activated sludge
6. Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) in microbial ecology
7. Microbiological and molecular biological methods for monitoring microbial inoculants and their effects in the soil environment
8. The comparison of the diversity of activated sludge plants
9. Thermal gradient gel electrophoresis analysis of bioprotection from pollutant shocks in the activated sludge microbial community
10. Analysis of actinomycete communities by specific amplification of genes encoding 16S rRNA and gel-electrophoretic separation in denaturing gradients
11. Molecular analyses of the methane-oxidizing microbial community in rice field soil by targeting the genes of the 16S rRNA, particulate methane monooxygenase, and methanol dehydrogenase
12. Bacterial diversity of the rhizosphere of maize (Zea mays) grown in tropical soil studied by temperature gradient gel electrophoresis
13. Community analysis of ammonia-oxidising bacteria, in relation to oxygen availability in soils and root-oxygenated sediments, using PCR, DGGE and oligonucleotide probe hybridisation
14. Distribution of bacterioplankton in meromictic lake Saelevannet, as determined by denaturing gradient gel electrophoresis of PCR-amplified gene fragments coding for 16S rRNA
15. Analysis of fungal diversity in the wheat rhizosphere by sequencing of cloned PCR-amplified genes encoding 18S rRNA and temperature gradient gel electrophoresis
16. Bioaugmentation of activated sludge by an indigenous 3-chloroaniline degrading Comamonas testosteroni strain, I2gfp
17. Profiling of complex microbial populations using denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA
18. Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
19. On the coefficient of radical likeliness
20. Hierarchical grouping to optimize an objective function
21. Soil microbial diversity and the sustainability of agricultural soils
22. Effects of agronomic treatments on structure and function of ammonia-oxidizing communities
23. Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR
24. Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) for studying soil microbial communities
25. Sequence heterogeneities of genes encoding 16S rRNAs in Paenibacillus polymyxa detected by temperature gradient gel electrophoresis
26. Clostridium paradoxum DSM 7308(T) contains multiple 16S rRNA genes with heterogeneous intervening sequences
27. Sequence heterogeneities among 16S ribosomal RNA sequences, and their effect on phylogenetic analyses at the species level
28. Evaluation of denaturing gradient gel electrophoresis in the detection of 16S rDNA sequence variation in rhizobia and methanotrophs
29. Phylogeny of all recognized species of ammonia oxidizers based on comparative 16S rRNA and amoA sequence analysis: Implications for molecular diversity surveys
30. 16S rRNA in situ probing for the determination of the family level community structure implicated in enhanced biological nutrient removal
31. Phylogenetic analysis of bacterial communities in mesophilic and thermophilic bioreactors treating pharmaceutical wastewater
32. Detection of sphingomonads and in situ identification in activated sludge using 16S rRNA-targeted oligonucleotide probes
33. In situ detection of cell surface hydrophobicity of probe- defined bacteria in activated sludge
34. Identification of 16S ribosomal DNA-defined bacterial populations at a shallow submarine hydrothermal vent near Milos Island (Greece)
35. Wide distribution and diversity of members of the bacterial kingdom Acidobacterium in the environment
36. Detection and in situ identification of representatives of a widely distributed new bacterial phylum
37. Stable-isotope probing as a tool in microbial ecology
38. Quantitative use of fluorescent in situ hybridization to examine relationships between mycolic acid-containing actinomycetes and foaming in activated sludge plants
39. Survey of filamentous microorganisms from bulking and foaming activated-sludge plants in Italy
40. Mycolic acid-containing actinomycetes associated with activated sludge foam
41. Scum in activated sludge plants: Impact of non-filamentous and filamentous bacteria
42. Effects of bacterial host and dichloromethane dehalogenase on the competitiveness of methylotrophic bacteria growing with dichloromethane
43. A proposed pathway for the biodegradation of hexamethylenetetramine
44. Effects of degrading microorganisms on purification of wastewater from Lavsan production enterprises with the use of activated sludge
45. Methylosphaera hansonii gen. nov., sp. nov., a psychrophilic, group I methanotroph from Antarctic marine-salinity, meromictic lakes
46. Monitoring impact of in situ biostimulation treatment on groundwater bacterial community by DGGE
47. Molecular microbial ecology of nitrification in an activated sludge process treating refinery wastewater
48. Analysis of acclimation behavior against nitrification inhibitors in activated sludge processes
49. Microbial community dynamics in Mediterranean nutrient-enriched seawater mesocosms: Changes in the genetic diversity of bacterial populations
50. Effects of mercury contamination on the culturable heterotrophic, functional and genetic diversity of the bacterial community in soil
51. The effect of long-term mercury pollution on the soil microbial community
52. Ribosomal RNA-targeted nucleic acid probes for studies in microbial ecology