Development of a species-specific gene probe for Hyphomicrobium facilis with the inverse PCR
Article Abstract:
A species-specific probe for Hyphomicrobium facilis is developed from a transposon Tn5-132 insertion mutant, defective in methanol oxidation, using the inverse polymerase chain reaction method. The probe hybridized only with DNA from H. facilis, its sub species and with some of its strains. The probe is used to identify the presence of H. facilis, by screening the isolated DNA from lawn soil, directly. This screening indicates that H. facilis constitutes 30% of the total hyphomicrobia found in the soil.
Publication Name: Applied and Environmental Microbiology
Subject: Biological sciences
ISSN: 0099-2240
Year: 1997
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Direct DNA extraction for PCR-mediated assays of soil organisms
Article Abstract:
A protocol for DNA extraction directly from soil samples uses rDNA of the plant wilt pathogen Verticillium dahliae as the reference sequence. This protocol can further be integrated with polymerase chain reaction (PCR) for DNA-based identification of soil organisms. Samples are ground in liquid nitrogen, suspended in skim milk powder solution, DNA is extracted with sodium dodecyl sulfate buffer-phenol extractant, and collected by ethanol precipitation. DNA thus obtained can be subjected to PCR assay.
Publication Name: Applied and Environmental Microbiology
Subject: Biological sciences
ISSN: 0099-2240
Year: 1995
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Quantitative analysis of small-subunit rRNA genes in mixed microbial populations via 5'-nuclease assays
Article Abstract:
Researchers used a newly developed quantitative PCR assay called TaqMan to measure small-subunit rRNA genes from planktonic prokaryotes in Monterey Bay, California. The distribution of planktonic microbes using this method matched the results of other methods, including oligonucleotide probe hybridization, whole-cell hybridization assays, and flow cytometry.
Publication Name: Applied and Environmental Microbiology
Subject: Biological sciences
ISSN: 0099-2240
Year: 2000
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- Abstracts: Relationship of species-specific filament levels to filamentous bulking in activated sludge. Molecular detection of epiphytic Acaryochloris spp. on marine macroalgae
- Abstracts: Development of a PCR protocol for sensitive detection of Cryptosporidium oocysts in water samples. Simplified method for recovery and PCR detection of Cryptosporidium DNA from bovine feces
- Abstracts: Conjugative transfer of chromosomal genes between fluorescent Pseudomonads in the rhizosphere of wheat. Effect of starvation and the viable-but-nonculturable state on green fluorescent protein (GFP) fluorescence in GFP-tagged Pseudomonas fluorescens A506
- Abstracts: Inactivation of Aeromonas hydrophila by Fe(II)-related-radical generation in oxidizing groundwaters. Survival and plant growth promotion of detergent-adapted Pseudomonas fluorescens ANP15 and Pseudomonas aeruginosa 7NSK2