Journal Article10.1146/ANNUREV.PHYTO.42.012604.135455
Microbial diversity in soil: Selection of microbial populations by plant and soil type and implications for disease suppressiveness
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TL;DR: This review focuses on recent data relating how plant type, soil type, and soil management regime affect the microbial diversity of soil and the implication for the soil's disease suppressiveness.
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Abstract: An increasing interest has emerged with respect to the importance of microbial diversity in soil habitats The extent of the diversity of microorganisms in soil is seen to be critical to the maintenance of soil health and quality, as a wide range of microorganisms is involved in important soil functions This review focuses on recent data relating how plant type, soil type, and soil management regime affect the microbial diversity of soil and the implication for the soil's disease suppressiveness The two main drivers of soil microbial community structure, ie, plant type and soil type, are thought to exert their function in a complex manner We propose that the fact that in some situations the soil and in others the plant type is the key factor determining soil microbial diversity is related to the complexity of the microbial interactions in soil, including interactions between microorganisms and soil and microorganisms and plants A conceptual framework, based on the relative strengths of the shaping forces exerted by plant and soil versus the ecological behavior of microorganisms, is proposed
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References
Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA
TL;DR: Analysis of the genomic DNA from a bacterial biofilm grown under aerobic conditions suggests that sulfate-reducing bacteria, despite their anaerobicity, were present in this environment.
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Application of denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE) in microbial ecology
Gerard Muyzer,Kornelia Smalla +1 more
TL;DR: The potentials and limitations of these techniques will be discussed, and it will be indicated why their use in ecological studies has become so important.
Determination of microbial diversity in environmental samples: pitfalls of PCR‐based rRNA analysis
TL;DR: Specific aspects of sample collection, cell lysis, nucleic acid extraction, PCR amplification, separation of amplified DNA, application of nucleic probes and data analysis are covered.
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Microbial diversity and function in soil: from genes to ecosystems
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TL;DR: This review summarizes the recent progress in studies of soil microbial communities with focus on novel methods and approaches that provide new insight into the relationship between phylogenetic and functional diversity.
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TL;DR: The results show that the major part of DNA isolated from the bacterial fraction of soil is very heterogeneous, with a C0t1/2 value corresponding to about 4,000 completely different genomes of standard soil bacteria.
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