Accuracy, reproducibility, and interpretation of Fatty Acid methyl ester profiles of model bacterial communities.
Sheridan K. Haack,Helen Garchow,David A. Odelson,David A. Odelson,Larry J. Forney,Michael J. Klug +5 more
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Community fatty acid profiles can be used to assess the relative similarities and differences of microbial communities that differ in taxonomic composition but must be viewed with caution until knowledge of the quantitative and qualitative distribution of fatty acids over a wide variety of taxa and the effects of growth conditions is more extensive.Abstract:
We determined the accuracy and reproducibility of whole-community fatty acid methyl ester (FAME) analysis with two model bacterial communities differing in composition by using the Microbial ID, Inc. (MIDI), system. The biomass, taxonomic structure, and expected MIDI-FAME profiles under a variety of environmental conditions were known for these model communities a priori. Not all members of each community could be detected in the composite profile because of lack of fatty acid “signatures” in some isolates or because of variations (approximately fivefold) in fatty acid yield across taxa. MIDI-FAME profiles of replicate subsamples of a given community were similar in terms of fatty acid yield per unit of community dry weight and relative proportions of specific fatty acids. Principal-components analysis (PCA) of MIDI-FAME profiles resulted in a clear separation of the two different communities and a clustering of replicates of each community from two separate experiments on the first PCA axis. The first PCA axis accounted for 57.1% of the variance in the data and was correlated with fatty acids that varied significantly between communities and reflected the underlying community taxonomic structure. On the basis of our data, community fatty acid profiles can be used to assess the relative similarities and differences of microbial communities that differ in taxonomic composition. However, detailed interpretation of community fatty acid profiles in terms of biomass or community taxonomic composition must be viewed with caution until our knowledge of the quantitative and qualitative distribution of fatty acids over a wide variety of taxa and the effects of growth conditions on fatty acid profiles is more extensive.read more
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Fatty acid patterns of phospholipids and lipopolysaccharides in the characterisation of microbial communities in soil: a review
TL;DR: Results from principal component analysis showed that determining the levels of fatty acids present in both low and high concentrations is essential in order to correctly identify microorganisms and accurately classify them into taxonomically defined groups.
Journal ArticleDOI
Impacts of Carbon and Flooding on Soil Microbial Communities: Phospholipid Fatty Acid Profiles and Substrate Utilization Patterns
Deborah A. Bossio,Kate M. Scow +1 more
TL;DR: Direct comparison of PLFA and substrate utilization patterns indicated that Biolog patterns are highly selective, and do not reflect compositional changes in soil communities.
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Visibility: Science and Regulation
TL;DR: Simpler models representing transport, limiting precursor pollutants, and gas-to-particle equilibrium should be used to understand where and when emission reductions will be effective, rather than large complex models that have insufficient input and validation measurements.
Journal ArticleDOI
Phospholipid fatty acid profiles in selected members of soil microbial communities.
TL;DR: The amount of non-ester-linked fatty acids was as high as 70% of the total phospholipid fatty acids in some fungi and varied considerably in different organisms and are not recommended to use as "signature" fatty acids for gram negative bacteria.
Journal ArticleDOI
Ecosystem response of pasture soil communities to fumigation-induced microbial diversity reductions: an examination of the biodiversity-ecosystem function relationship
Bryan S. Griffiths,Karl Ritz,Richard D. Bardgett,Roger Cook,Soren Christensen,Flemming Ekelund,Søren J. Sørensen,Erland Bååth,Jaap Bloem,P.C. de Ruiter,Jan Dolfing,B. Nicolardot +11 more
TL;DR: Although fumigation reduced soil microbial biodiversity, there was evidence to suggest that it selected for organisms with particular physiological characteristics, and specific functional parameters may be a more sensitive indicator of environmental change than general parameters.
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