Rapid Method for Coextraction of DNA and RNA from Natural Environments for Analysis of Ribosomal DNA- and rRNA-Based Microbial Community Composition

By R. Griffiths, Andrew S. Whiteley, A. O'donnell, M. Bailey. Applied and Environmental Microbiology, 2000

1,635 citations recorded by the source corpus.

Subfields: Ecology, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/ec84dc72b3f2e5f0d59ad42ab643552e293b8547

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In Ecology

1. Ji‐Zheng He
2. G. Nicol
3. J. Prosser
4. Hangwei Hu
5. Li‐Mei Zhang
6. Cindy H. Nakatsu
7. Ju-Pei Shen
8. G. Sims

In Molecular Biology

1. Ji‐Zheng He
2. G. Nicol
3. J. Prosser
4. Cindy H. Nakatsu
5. Hangwei Hu
6. Li‐Mei Zhang
7. G. Sims
8. A. Cupples

Citations in the corpus

• Effects of plant species richness and evenness on soil microbial community diversity and function (2010, methodology): “Soil DNA was extracted using the method described by Griffiths et al. (2000), except the soil mass was 0.5 g (wet mass), centrifugation was at 14,000× g and soils were purified in PEG (polyethylene glycol) overnight at 20°C. Ammonia-oxidizing bacteria and archaea were quantified by assessing the…”
• Plant community composition affects the biomass, activity and diversity of microorganisms in limestone grassland soil (2003, methodology): “The procedure followed that of Griffiths et al. (2000).”
• Novel genes for nitrite reductase and Amo-related proteins indicate a role of uncultivated mesophilic crenarchaeota in nitrogen cycling. (2005, background): “Nitrite reductase is the key enzyme of denitrification, a process performed by various organisms (bacteria and some archaea), in which nitrate is eventually reduced to nitrous oxide or dinitrogen gas by respiration under oxygen-limiting conditions (Zumft, 1997; Eady and Hasnain, 2003 ).”
• Metagenomic analysis of a permafrost microbial community reveals a rapid response to thaw (2011, methodology): “DNA extraction Three DNA extractions per sample were conducted according to a modified bead-beading protoco”
• Simultaneous Assessment of Soil Microbial Community Structure and Function through Analysis of the Meta-Transcriptome (2008, methodology): “cDNA synthesis Nucleic acid extractions (RNA and DNA) were performed using a modification of the method of [37], and as briefly described in [15].”
• Molecular detection and quantification of nifH gene sequences in the rhizosphere of sorghum (Sorghum bicolor) sown with two levels of nitrogen fertilizer (2009, methodology): “DNA was extracted from rhizospheric and non-rhizospheric (bulk) soil samples in triplicate (0.5 g of each sample) according to the method of Griffiths et al. (2000).”
• Soil Microbial Community Analysis Using Denaturing Gradient Gel Electrophoresis (2007, background): “For community analysis, both DNA and RNA can be extracted from soil (Duineveld et al., 2001; Griffi ths et al., 2000; Hurt et al., 2001) but because of the greater stability of DNA, it is usually the molecule of choice.”
• Identification of in situ 2,4-dichlorophenoxyacetic acid-degrading soil microorganisms using DNA-stable isotope probing (2007, positive): “…fractions (150 ml) were collected at the bottom as previously described (Cupples et al., 2006; Lueders et al., 2004b), the BD of each fraction was then determined, CsCl was removed (Cupples et al., 2006; Griffiths et al., 2000; Lueders et al., 2004b) and purified DNA fractions were stored at 20 1C.”