Environmental Microbiology Methods and Protocols

About this book

A collection of readily reproducible techniques for determining most of the important factors governing microorganisms and their habitats. Presented in step-by-step detail, these cutting-edge methods range from those for the study of marine organisms, to those for investigating microorganisms occurring in groundwater, to the biodiversity of yeasts found in remote environments. The novel protocols for studying fermented milks are significant for investigators concerned with milk as an item of food for infants, small children, and even adults. Additional methods for the recovery and determination of nucleic acids and other compounds affecting, and affected by, microorganisms are given for certain enzymes produced by plant pathogens and for obtaining microbial species tolerant of such inhibitors as heavy metals.

Contents

Communities And Biofilms
1 Isolation and Molecular Characterization of Seawater Bacteria - Juliana M. Benito, Gustavo A. Lovrich, Faustino Sineriz and Carlos M. Abate
2 Reverse Sample Genome Probing to Monitor Microbial Communities - Annie E. Greene and G. Voordouw
3 Terminal Restriction Fragment Length PolymorphismAnalysis as a Rapid Fingerprinting Method for Studying Diversity, Structure amd Dynamics of Microbial Commuities - W. Liesack and P. F. Dunfied
4 Assessing Bacterial DNA by Flow Cytometry in Aquatic Systems - G.W. Perney, B.R. Robertson, and D. K. Button
5 Multiplexed Identification and Quantification of Analyte DNAs in Environmental Samples Using Microspheres and Flow Cytometry - Mary Lowe, Alex Spiro, Anne Summers, and Joy Wireman
6 Molecular Characterization of Microbial Communities from Marine Environments - Nicolas G. Barengo, Juliana M. Benito, and Carlos M. Abate
7 Yeasts: Ecology in Northwest Argentina - Lucia I.C. de Figueroa, M. Alejandra Martinez, and John F.T. Spencer
8 Aeromonads in Environmental Waters - Anavella Gaitan Herrera
9 Development of Vital Fluorescent Staining Method for Monitoring Bacterial Transport in Subsurface Ground Water - Mark E.Fuller
10 Bench Scale Flow Cell for Nondestructive Imaging of Biofilms - Eric S. Gilbert and J. D. Keasling

Fermented Milks
11 Alpha-Galactosidase Assay in Fermented Soy Milk Products - Marisa S. Garro, Graciela Font de Valdez, and Graciela Savoy de Giori
12 Consideration to Avoid the Overestimation of Exopolysaccharides Produced by Lactic Acid Bacteria - Maria Ines Torino and Graciel Font de Valdez
13 Determination of Oligosaccharides in Fermented Soymilk Products by High Performance Liquid Chromatography - Marisa S. Garro, Graciela Font de Valdez, and Graciela Savoy de Giori
14 Evaluation of Minimal Nutritional Requirements of Lactic Acid Bacteria Used in Functional Foods - Elvira M. Hebert, Raul R. Raya, and Graciela Savoy de Giori

Nucleic Acids, Recovery And Determination
15 Obtaining Simple DNA from Azospirillum, Suitable for RAPD Analysis - Raul O. Pedraza and Juan C. Diaz Ricci
16 PCR Fingerprinting of rRNA Intergenic Spacer Regions of Environmental Isolates - M. Alejandra Martinez, Osvaldo D. Delgado, and Faustino Sineriz
17 A DNA-DNA Hybridization Method for Detection and Quantification of Specific Bacterial Taxa in Natural Environments - Christopher E. Bagwell and Charles R. Lovell
18 ¹³C and ¹H NMR Study of Glycogen Futile Cycle in Fibrobacter succinogenes - Anne-Marie Delort, Genevieve Gaudet and Evelyne Forano
19 Chemical Analysis and Biological Removal of Wood Lipids Forming Pitch Deposits in Paper Pulp Manufacture - Ana Gutierrez, Jose C. del Rio, and Angel T. Martinez
20 Propolis: Chemical Micro-Heterogeneity and Bioactivity - Jose Domingos Fontana, Juliana Adelmann, Mauricio Passos, Marcelo Maraschin, Cristina A. de Lacerda, and Fernando Mauro Lancas

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