Journal ArticleDOI
Novel techniques for analysing microbial diversity in natural and perturbed environments
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TLDR
Using DNA reassociation analysis, it is demonstrated that bacterial communities in pristine soil and sediments may contain more than 10,000 different bacterial types, indicating that the culturing conditions select for a distinct subpopulation of the bacteria present in the environment.About:
This article is published in Journal of Biotechnology.The article was published on 1998-09-17. It has received 431 citations till now. The article focuses on the topics: Environmental pollution.read more
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Microbial diversity and function in soil: from genes to ecosystems
Vigdis Torsvik,Lise Øvreås +1 more
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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Prokaryotic Diversity--Magnitude, Dynamics, and Controlling Factors
TL;DR: There are probably millions of species in the microorganismal domains Bacteria and Archaea (the prokaryotes), and the authors are only just beginning to work out the basic principles governing their distribution and abundance in natural environments.
Journal ArticleDOI
Methods of studying soil microbial diversity
Jennifer L. Kirk,L. A. Beaudette,Miranda M. Hart,Peter Moutoglis,John N. Klironomos,Hung Lee,Jack T. Trevors +6 more
TL;DR: This review examines and compares the various methods used to study microbial diversity in soil and describes the current state of the art in these methods.
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The metagenomics of soil
TL;DR: This review describes how to construct complex libraries from soil samples, and how to use these libraries to unravel functions of soil microbial communities.
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Genes Lost and Genes Found: Evolution of Bacterial Pathogenesis and Symbiosis
Howard Ochman,Nancy A. Moran +1 more
TL;DR: This work has shown that changes in genome repertoire, occurring through gene acquisition and deletion, are the major events underlying the emergence and evolution of bacterial pathogens and symbionts.
References
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Journal ArticleDOI
Basic Local Alignment Search Tool
TL;DR: A new approach to rapid sequence comparison, basic local alignment search tool (BLAST), directly approximates alignments that optimize a measure of local similarity, the maximal segment pair (MSP) score.
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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.
Journal ArticleDOI
Phylogenetic identification and in situ detection of individual microbial cells without cultivation.
TL;DR: Phylogenetic analysis of the retrieved rRNA sequence of an uncultured microorganism reveals its closest culturable relatives and may, together with information on the physicochemical conditions of its natural habitat, facilitate more directed cultivation attempts.
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Report of the Ad Hoc Committee on Reconciliation of Approaches to Bacterial Systematics
Lawrence G. Wayne,Don J. Brenner,R. R. Colwell,Patrick A. D. Grimont,O. Kandler,Micah I. Krichevsky,L. H. Moore,W. E. C. Moore,R. G. E. Murray,Erko Stackebrandt,M. P. Starr,H. G. Truper +11 more
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Rapid determination of 16S ribosomal RNA sequences for phylogenetic analyses
TL;DR: A protocol is described for rapidly generating large blocks of 16S rRNA sequence data without isolation of the 16 S rRNA or cloning of its gene, and its phylogenetic usefulness is evaluated by examination of several 17S rRNAs whose gene sequences are known.
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