An evaluation of terminal-restriction fragment length polymorphism (T-RFLP) analysis for the study of microbial community structure and dynamics.

By A. Osborn, E. B. Moore, K. Timmis. Environmental Microbiology, 2000

897 citations recorded by the source corpus.

Subfields: Ecology, Molecular Biology, Pollution

View Paper: https://www.semanticscholar.org/paper/602571ce65ae33e8300edeaee44624e590fcc337

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Citations in the corpus

The microbiology of biological phosphorus removal in activated sludge systems. (2003, methodology): “They apply equally to techniques like denaturing gradient gel electrophoresis (DGGE) [125], single strand conformation polymorphism (SSCP) [126] and T-restriction fragment length polymorphism (T-RFLP) [127], all of which are molecular ¢ngerprinting methods which have been applied to following change”
Microbial macroecology: highly structured prokaryotic soil assemblages in a tropical deciduous forest (2005, methodology): “To minimize PCR biases because of preferential amplification and reannealing, we standardized and set the optimum PCR conditions for our environmental samples as suggested by Osborn et al . (2000) .”
PCR-Induced Sequence Artifacts and Bias: Insights from Comparison of Two 16S rRNA Clone Libraries Constructed from the Same Sample (2005, result): “Thus, it may not be surprising that several other studies comparing amplicon distributions in community fingerprints (terminal restriction fragment length polymorphism and automated ribosomal intergenic spacer analyses) generated at different cycles similarly suggested an absence of bias (7, 18, 22)”
Culture-independent molecular tools for soil and rhizosphere microbiology (2013, methodology): “The labeled primer allows the tagging of amplification products that are then digested with one or several restriction enzymes, which result in labeled terminal restriction fragments whose sizes are determined by capillary methods or on a sequencing gel [77].”
Identification of in situ 2,4-dichlorophenoxyacetic acid-degrading soil microorganisms using DNA-stable isotope probing (2007, neutral): “The slight difference (2–3 bases) between the measured fragment lengths and those predicted using sequence data has been noted elsewhere (Clement et al., 1998; Liu et al., 1997; Osborn et al., 2000) and has yet to be explained (Yu et al., 2005).”
Microbial Population Structures in Soil Particle Size Fractions of a Long-Term Fertilizer Field Experiment (2001, methodology): “Terminal restriction length polymorphism (T-RFLP) analysis (7, 11, 38, 47, 50) and cloning and sequencing of 16S rRNA genes were applied to analyze bacterial diversity.”
A critical review of current methods in earthworm ecology: From individuals to populations (2010, background): “blage analyses of other soil organisms such as soil bacteria and nematodes [32,67] have used terminal restriction fragment length”
Sequences, the environment and fungi (2006, background): “The electrophoresis-banding techniques are popular amongst ecologists for evaluating community structure, because the banding patterns from different samples can be compared in the same gel (Osborn et al. 2000; Fromin et al. 2002; Kennedy & Clipson 2003).”
Chemical warfare? Effects of uropygial oil on feather‐degrading bacteria (2003, positive): “, corresponding to Escherichia coli 16SrDNA gene sequence in 50 ml reaction volumes according to the protocol of Osborn et al. (1999).”
Soil Type Is the Primary Determinant of the Composition of the Total and Active Bacterial Communities in Arable Soils (2003, methodology): “In support of the application of PCR-based techniques, several reports investigating the effects of target DNA dilution or decreasing numbers of PCR cycles have suggested that such PCR biases may not be such a significant problem when applied to 16S rRNA gene-based community fingerprinting (16, 18, ”
Influence of Drying–Rewetting Frequency on Soil Bacterial Community Structure (2002, methodology): “The T-RFLP method was chosen because it has been proven to be a reproducible method with sufficient resolution to detect differences in soil bacterial community structure [9, 15, 27, 34].”
Rumen Microbial Population Dynamics during Adaptation to a High-Grain Diet (2010, methodology): “T-RFLP analysis (22, 27, 32) was performed using 100 ng of”