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Molecular Microbial Ecology of the Rhizosphere
edited_book
Editor(s):
Frans J. de Bruijn
Publication date
(Print):
May 03 2013
Publisher:
John Wiley & Sons, Inc.
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Microbial Genomics
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Book
ISBN (Electronic):
9781118297674
ISBN (Print):
9781118296172
Publication date (Print):
May 03 2013
DOI:
10.1002/9781118297674
SO-VID:
2a31687b-546c-44e5-98c3-0c181feec4d9
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Book chapters
pp. i
Frontmatter
pp. 1
Introduction
pp. 5
Using Genomics to Unveil Bacterial Determinants of Rhizosphere Life Style
pp. 17
Benefits of Breeding Crops for Yield Response to Soil Organisms
pp. 29
Microbial Interactions in the Rhizosphere
pp. 45
Culture-Independent Molecular Approaches to Microbial Ecology in Soil and the Rhizosphere
pp. 57
Exploiting New Systems-Based Strategies to Elucidate Plant-Bacterial Interactions in the Rhizosphere
pp. 69
Combining Molecular Microbial Ecology with Ecophysiology and Plant Genetics for a Better Understanding of Plant-Microbial Communities' Interactions in the Rhizosphere
pp. 87
Microbially Mediated Plant Functional Traits
pp. 103
Unraveling the Shed of Unexplored Rhizosphere Microbial Diversity
pp. 115
Advanced Molecular Tools for Analysis of Bacterial Communities and Their Interactions in the Rhizosphere
pp. 125
Challenges in Assessing Links Between Root Exudates and the Structure and Function of Soil Microbial Communities
pp. 137
Root Secretions: Interrelating Genes and Molecules to Microbial Associations. Is it All that Simple?
pp. 141
The Use of Stable Isotope Labeling and Compound-Specific Analysis of Microbial Phospholipid Fatty Acids to Quantify the Influences of Rhizodeposition on Microbial Community Structure and Function
pp. 149
Metarhizium Robertsii , A Rhizosphere-Competent Insect Pathogen
pp. 161
Shaping of Microbial Community Structure and Function in the Rhizosphere by Four Diverse Plant Species
pp. 169
Exploration of Hitherto-Uncultured Bacteria from the Rhizosphere
pp. 179
The Use of Molecular Methods to Assess Chemotactic-Competent Bacterial Populations in the Rhizosphere
pp. 191
Assessment of Rice Root-Associated Bacteria
pp. 203
Phylogenetic Analysis of Azospirillum Species Isolated from the Rhizosphere of Field-Grown Wheat Based on Genetic and Phenotypic Features
pp. 211
Influence of Intercropping and Intercropping Plus Rhizobial Inoculation on Microbial Activity and Community Composition in Rhizosphere of Alfalfa (Medicago sativa L.) and Siberian Wildrye (Elymus sibiricus L.)
pp. 221
Root Exudates and Soil: Crucial for Molecular Understanding of Interactions in the Rhizosphere
pp. 229
Do Root Exudates Exert More Influence on Rhizosphere Bacterial Community Structure Than Other Rhizodeposits?
pp. 243
Arabidopsis thalianaas Model for Studies on the Bacterial Root Microbiota
pp. 257
Genetic and Developmental Control of Rhizosphere Bacterial Communities
pp. 265
Arabidopsis thaliana : A Useful but Limited Model to Investigate Stress Impacts on Rhizosphere Community Composition and Function
pp. 271
Medicago truncatula Root Proteomics
pp. 279
Control of the Cooperation Between Plant Growth-Promoting Rhizobacteria and Crops by Rhizosphere Signals
pp. 295
Small Molecules Involved in Transkingdom Communication between Plants and Rhizobacteria
pp. 309
Bacterial Biosynthesis of Indole-3-Acetic Acid: Signal Messenger Service
pp. 327
Fixing and Non-Fixing Rhizobia AffectArabidopsisRoot Architecture by Interfering with the Auxin Signaling Pathway
pp. 335
Terpene Production by Bacteria and its Involvement in Plant Growth Promotion, Stress Alleviation, and Yield Increase
pp. 345
Rapid Identification of Plant-Growth-Promoting Rhizobacteria Using an Agar Plate Cocultivation System with Arabidopsis
pp. 355
Strigolactone Biosynthesis and Biology
pp. 373
Chemistry of Strigolactones: Why and How do Plants Produce so Many Strigolactones?
pp. 381
Strigolactones: Crucial Cues in the Rhizosphere
pp. 391
Bacterial Endophytes: Who and Where, and What are they doing there?
pp. 405
Properties of Bacterial Endophytes Leading to Maximized Host Fitness
pp. 413
DNA-Based Stable Isotope Probing for Identifying Active Bacterial Endophytes in Potato
pp. 423
Visualization of Niches of Colonization of Firmicutes with Bacillus spp. in the Rhizosphere, Rhizoplane, and Endorhiza of Grapevine Plants at Flowering Stage of Development by FISH Microscopy
pp. 429
The Poplar Endophyte Pseudomonas putida W619 as a Key to a Successful Phytoremediation of Volatile Organic Contaminants
pp. 437
NifH Gene Expression and Nitrogen Fixation by Diazotrophic Endophytes in Sugarcane and Sweet Potatoes
pp. 445
Surveying Diverse Zea Seed for Populations of Bacterial Endophytes
pp. 457
Molecular Mechanisms Governing Arbuscular Mycorrhiza Development and Function
pp. 467
Diversity and Evolution of Nitrogen-Fixing Legume Symbionts
pp. 483
Lipochitooligosaccharide Perception and the Basis of Partner Recognition in Root Endosymbioses
pp. 495
Rhizobial Genetic Repertoire to Inhabit Legume and Nonlegume Rhizospheres
pp. 501
Who is Controlling whom within the Ectomycorrhizal Symbiosis: Insights from Genomic and Functional Analyses
pp. 513
Role of Carotenoid Metabolism in the Arbuscular Mycorrhizal Symbiosis
pp. 525
Bacterial Colonization of the Arbuscular Mycorrhizal Fungal Hyphosphere
pp. 535
Role of Quorum Sensing in the Sinorhizobium Meliloti -Alfalfa Symbiosis
pp. 541
Roles of Flavonoids in Symbiotic Root-Rhizosphere Interactions
pp. 551
Exopolysaccharides and Nodule Invasion in theSinorhizobium Meliloti-Alfalfa Symbiosis
pp. 559
Plant Growth Promotion by Microbes
pp. 575
Microbial Control of Plant Root Diseases
pp. 587
Biocontrol and Osmoprotection for Plants under Salinated Conditions
pp. 593
Genetics and Evolution of 2, 4-Diacetylphloroglucinol Synthesis inPseudomonas Fluorescens
pp. 607
Suppression of Crown Gall Disease by Rhizosphere Bacteria and Agrobacterium -Specific Bacteriophages
pp. 615
Molecular-Based Strategies to Exploit the Inorganic Phosphate-Solubilization Ability ofPseudomonasin Sustainable Agriculture
pp. 629
The Biocontrol Bacterium Pseudomonas Fluorescens Pf29Arp Strain Affects the Pathogenesis-Related Gene Expression of the Take-All Fungus Gaeumannomyces Graminis Var. Tritici on Wheat Roots
pp. 637
Marker-Assisted Selection of Novel Bacteria Contributing to Soil-Borne Plant Disease Suppression
pp. 643
Combined Effects of Wheat Roots and Pathogenic FungusGaeumannomyces graminisvar.triticion Gene Expression of the Biocontrol BacteriumPseudomonas fluorescensPf29Arp
pp. 655
Biocontrol of Tree Root Diseases
pp. 665
Plant Growth Modulation by Bacterial Volatiles-A Focus on Burkholderia Species
pp. 677
Plant Growth Promoting Microorganisms: The Road from an Academically Promising Result to a Commercial Product
pp. 687
The Effect of Agricultural Practices on Resident Soil Microbial Communities: Focus on Biocontrol and Biofertilization
pp. 701
Biofilm Formation in the Rhizosphere: Multispecies Interactions and Implications for Plant Growth
pp. 713
Probiotics for Plants: Rhizospheric Microbiome and Plant Fitness
pp. 723
Motility, Biofilm Formation, and Rhizosphere Colonization by Pseudomonas fluorescens F113
pp. 733
CMEIAS: An Improved Computing Technology for Quantitative Image Analysis of Root Colonization by Rhizobacteria In Situ At Single-Cell Resolution
pp. 743
Understanding Root-Microbiome Interactions
pp. 755
An Inter-Kingdom Signaling Mechanism in RhizospherePseudomonas
pp. 763
N-Acyl-homoserine-Lactone Quorum-Sensing Signaling in Phenazine and Cyclic Lipopeptide-ProducingPseudomonassp. CMR12a from the Red Cocoyam Rhizosphere
pp. 775
The Response of Plants toward N -Acyl Homoserine Lactones of Quorum-Sensing-Active Bacteria in the Rhizosphere
pp. 785
In Situ Calling Distances and High Population Independent N -Acylhomoserine Lactone-Mediated Communication on Plant Root Surfaces
pp. 791
Quorum-Sensing Quenching by Volatile Organic Compounds Emitted by Rhizosphere Bacteria
pp. 801
The Biological Significance of the Degradation of N -Acyl Homoserine Lactones-Quorum Sensing and Quorum Quenching in Burkholderia and Agrobacterium
pp. 813
Altering Plant-Microbe Interactions Through Artificially Manipulating Bacterial Quorum Sensing
pp. 823
Rhizosphere Microbial Communication in Soil Nutrient Acquisition
pp. 833
Agony to Harmony-What Decides? Calcium Signaling in Beneficial and Pathogenic Plant-Fungus Interactions-What We Can Learn from theArabidopsis/Piriformospora indicaSymbiosis
pp. 851
Genome Transcriptome Analysis and Functional Characterization of a Nitrogen-Fixation Island in Root-Associated Pseudomonas stutzeri
pp. 865
Genome Analysis, Ecology, and Plant Growth Promotion of the Endophyte Burkholderia phytofirmans Strain PsJN
pp. 875
Identification and Mutational Activation of Niche-Specific Genes Provide Insight into Regulatory Networks and Bacterial Function in Complex Environments
pp. 883
Comparative Analysis of the Complete Genome Sequence of the Plant Growth-Promoting Bacterium Bacillus amyloliquefaciens FZB42
pp. 899
Genome Sequence of the Plant Growth-Promoting Endophytic Bacterium Enterobacter sp. 638
pp. 909
Approaches for the Design of Genetically Engineered Bacteria for Ecological Studies and Biotechnological Applications
pp. 921
Construction of Signature-Tagged Mutant Libraries and Its Application to Plant-Symbiotic Bacteria
pp. 929
Use of DOPE-FISH Tool to Better Visualize Colonization of Plants by Beneficial Bacteria? An Example with Saccharothrix algeriensis NRRL B-24137 Colonizing Grapevine Plants
pp. 933
Combining Rhizobox, Reporter Gene Systems, and Molecular Analyses to Assess the Effects of Humic Substances on Plant-Microbes Interactions in Soil Rhizosphere
pp. 943
Multiparameter Flow Cytometry for Characterization of Physiological States in Pseudomonas Fluorescens DR54 Biocontrol Inoculants Under Dry Formulation and Long-Term Storage in Clay Carrier
pp. 951
Endophytic Lifestyle of Biocontrol Strains ofPseudomonasspp. in Olive Roots
pp. 961
Improving Phytoremediation through Plant-Associated Bacteria
pp. 975
Ecology of Alkane-Degrading Bacteria and Their Interaction with the Plant
pp. 991
Abiotic Stress Remediation by the Arbuscular Mycorrhizal Symbiosis and Rhizosphere Bacteria/Yeast Interactions
pp. 1003
Potential Plant-Growth-Promoting and Nitrogen-Fixing Bacteria Associated with Pioneer Plants Growing on Mine Tailings
pp. 1013
Stimulation of Rhizosphere Microbial Communities During Chemophytostabilization of a Pb-Zn Mine Soil
pp. 1023
Arbuscular Mycorrhiza in Glucosinolate-Containing Plants: The Story of the Metal HyperaccumulatorNoccaea(Thlaspi)praecox(Brassicaceae)
pp. 1033
Novel Metal-Resistance Genes from the Rhizosphere of Extreme Environments: A Functional Metagenomics Approach
pp. 1045
Soil Warming Effects on Beneficial Plant-Microbe Interactions
pp. 1055
Soil Respiration, Climate Change, and the Role of Microbial Communities
pp. 1063
Rhizosphere Responses to Elevated CO2
pp. 1075
Applying Stable Isotope Probing of Phospholipid Fatty Acids and Ribosomal RNA in Rice Fields to Study the Composition of the Active Methanotrophic Bacterial Community In Situ
pp. 1081
Impact of Mangrove Roots on Bacterial Composition
pp. 1089
Prediction of an Ectomycorrhizal Metabolome from Transcriptomic Data
pp. 1099
Metagenomic Analysis of the Rhizosphere Soil Microbial Community
pp. 1105
Bacterial Diversity in Rhizosphere Soil from Antarctic Vascular Plants of Admiralty Bay in Maritime Antarctica
pp. 1113
Arbuscular Mycorrhizal Fungi throughout the Year: Using Massively Parallel Pyrosequencing to Quantify Spatiotemporal Seasonal Dynamics
pp. 1123
Transcriptomics and Metatranscriptomic Analysis of the Response of Rhizosphere Bacteria to Environmental Change
pp. 1129
Unraveling the Rhizosphere Using thecpn60 Genomic Marker and Pyrosequencing
pp. 1137
Rhizosphere Metatranscriptomics: Challenges and Opportunities
pp. 1145
The “Biased Rhizosphere” Concept and Advances in the Omics Era to Study Bacterial Competitiveness and Persistence in the Phytosphere
pp. 1163
Bacterial Inositol Catabolism-A Sweet Ride into the Host
pp. 1173
Exogenous Glucosinolate Produced by Transgenic Arabidopsis thaliana has an Impact on Microbes in the Rhizosphere and Plant Roots
pp. 1181
Reciprocal Interactions between Plants and Fluorescent Pseudomonads in Relation to Iron in the Rhizosphere
pp. 1191
Enhancement of Plant-Microbe Interactions using Rhizosphere Metabolomics-Driven Approach and its Application in the Removal of Polychlorinated Biphenyls
pp. 1199
Rhizophagy-A New Dimension of Plant-Microbe Interactions
pp. 1209
The Rhizosphere as a Reservoir for Opportunistic Human Pathogenic Bacteria
pp. 1217
Mechanisms of Plant Colonization by Human Pathogenic Bacteria: An Emphasis on the Roots and Rhizosphere
pp. 1227
Perspectives for Rhizosphere Research
pp. 1233
Index
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