Detection of bacteria in environmental samples by direct PCR without DNA extraction

BioTechniques

Volumn 31, Issue 3, 2001, Pages 598-607

  Fode Vaughan, K A ^a   Wimpee, C F ^a   Remsen, C C ^a   Perille Collins, M L ^a  

^a UNIVERSITY OF WISCONSIN MILWAUKEE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOREMEDIATION; CELL CULTURE; DNA; ENZYMES;

PRIMERS;

BACTERIA;

METHANE MONOOXYGENASE; RNA 16S;

ARTICLE; BACTERIUM CULTURE; BACTERIUM DETECTION; DIAGNOSTIC ACCURACY; DNA TEMPLATE; GENE AMPLIFICATION; METHANOTROPHIC BACTERIUM; POLYMERASE CHAIN REACTION; SENSITIVITY AND SPECIFICITY; SOIL TREATMENT;

EID: 0034856379     PISSN: 07366205     EISSN: None     Source Type: Journal    
DOI: 10.2144/01313rr04     Document Type: Article

References (53)

1. A novel thermophilic methane-oxidizing γ-proteobacterium
2. Estimating microbial population counts by "most probable number" using microsoft excel
3. Activity of methanotrophic bacteria in Green Bay sediments
4. Flow cytometric detection of specific gene expression in prokaryotic cells using in situ RT-PCR
5. Detection of methanotrophs in groundwater by PCR
6. Methytocetta patustris gen. nov., sp. nov., a new methane-oxidizing acidophilic bacterium from peat bogs, representing a novel subtype of serine-pathway methanotrophs
7. Detection and counting of Nitrobacter populations in soil by PCR
8. Trichloroethylene oxidation by the membrane-associated methane monooxygenase in type I, type II, and type X methanotrophs
9. Inhibition of PCR by mineral oil exposed to UV irradiation for prolonged periods
10. Fate of tetrachloroethene and benzene at a dry cleaning facility
11. Extraction of ribosomal RNA and genomic DNA from soil for studying the diversity of the indigenous bacterial community
12. Salmonella DNA persistence in natural seawaters using PCR analysis
13. Effect of genome size and rrn gene copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial species
14. Direct application of PCR to environmental samples
15. Molecular analysis of the pmo (particulate methane monooxygenase) operons from two type II methanotrophs
16. Direct PCR on fruitflies and blood flukes without prior DNA isolation
17. Application of statistics to problems in bacteriology. Volume I. A means of determining bacterial populations by the dilution method
18. High and low annealing temperatures increase both specificity and yield in touchdown and step-down PCR
19. Molecular analyses of novel methanotrophic communities in forest soil that oxidize atmospheric methane
20. Polymerase chain reaction amplification of naphthalene-catabolic and 16S rRNA gene sequences from indigenous sediment bacteria
21. Decontamination of polymerase chain reaction reagents for detection of low concentrations of 16S rRNA genes
22. Direct automated sequencing of 16S rDNA amplified by polymerase chain reaction from bacterial cultures without DNA purification
23. In situ PCR for visualization of microscale distribution of specific genes and gene products in prokaryotic communities
24. DNA probe method for the detection of specific microorganisms in the soil bacterial community
25. Chracterization of methanotrophic bacterial populations in soils showing atmospheric methane uptake
26. Rapid polymerase chain reaction amplification using intact bacterial cells
27. Rapid method for the detection of genetically engineered microorganisms by polymerase chain reaction from soil and sediments
28. Direct detection and genotyping of Chlamydia trachomatis in cervical scrapes by using polymerase chain reaction and restriction fragment length polymorphism analysis
29. UV irradiation of polystyrene pipets releases PCR inhibitors
30. Trichloroethylene biodegradation by a methane-oxidizing bacterium
31. Single-step direct PCR amplification from solid tissues
32. Methane and trichloroethylene degradation by Methylosinus trichosporium OB3b expressing particulate methane monooxygenase
33. Identification of intermediates of in vivo trichloroethylene oxidation by the membrane-associated methane monooxygenase
34. Detection of methanotrophic bacteria in environmental samples with the PCR
35. Quantitative cell lysis of indigenous microorganisms and rapid extraction of microbial DNA from sediment
36. Regulation of expression of methane monooxygenases by copper ions
37. Cell-cycle-specific fluctuation in cytoplasmic membrane composition in aerobically growing Rhodospirillum rubrum
38. Direct PCR of washed blood cells
39. Direct DNA sequencing from colony: Analysis of multiple deletions of mitochondrial genome
40. Direct PCR from solid tissues without DNA extraction
41. Detection and enumeration of bacteria in soil by direct DNA extraction and polymerase chain reaction
42. Bias in template-to-product ratios in multitemplate PCR
43. Unusual behavior exhibited by multistranded guanine-rich DNA complexes
44. Separation of methanotrophic bacteria by using Percoll and its application to isolation of mixed and pure cultures
45. Hydrothermal springs and gas fumaroles in Yellowstone Lake, Yellowstone National Park, Wyoming
46. Quantitative 16S rDNA-targeted polymerase chain reaction and oligonucleotide hybridization for the detection of Paenibacillus azotofixans in soil and the wheat rhizosphere
47. Two-step "hot" PCR amplification of GC-rich avian c-myc sequences
48. Particulate methane monooxygenase genes in methanotrophs
49. Methane and trichloroethylene oxidation by an estuarine methanotroph, Methylobacter sp. strain BB5.1
50. Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR
51. The European small subunit ribosomal RNA database
52. Microbiological and molecular biological methods for monitoring microbial inoculants and their effects in the soil environment
53. Membrane-associated methane monooxygenase from Methylococcus capsulatus (bath)