Archaeal Diversity of Upland Rice Field Soils Assessed by the Terminal Restriction Fragment Length Polymorphism Method Combined with Real Time Quantitative-PCR and a Clone Library Analysis

• Published in: Microbes and Environments Vol. 23; no. 3; pp. 237 - 243
• Main Authors: Komatsuzaki, Masakazu, Nishizawa, Tomoyasu, Kaneko, Nobuhiro, Ohta, Hiroyuki
• Format: Journal Article
• Language: English
• Published: Japan Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles 01.01.2008; Japan Science and Technology Agency
• Subjects: Agricultural practices; Cover crops; Crenarchaeota; Freshwater; Oryza sativa; quenching fluorescence dye; real-time quantitative PCR; Relative abundance; soil Archaea; T-RFLP; Tillage

The PCR amplification-based analysis of microbial diversity is subject to potential problems. In this study, to minimize the bias toward a 1:1 ratio in multitemplate PCR, a real-time PCR assay was carried out using a quenching fluorescence dye primer and amplification efficiency was monitored. Then...