Referencing for people who value simplicity, privacy, and speed.Get Citationsy
← Back to Search
Bulk And Rhizosphere Soil Bacterial Communities Studied By Denaturing Gradient Gel Electrophoresis: Plant-Dependent Enrichment And Seasonal Shifts Revealed
K. Smalla, G. Wieland, A. Buchner, A. Zock, J. Parzy, S. Kaiser, N. Roskot, H. Heuer, G. Berg
Published 2001 · Biology, Medicine
Save to my Library
Download PDFAnalyze on Scholarcy Visualize in Litmaps
Reduce the time it takes to create your bibliography by a factor of 10 by using the world’s favourite reference manager
Time to take this seriously.
ABSTRACT The bacterial rhizosphere communities of three host plants of the pathogenic fungus Verticillium dahliae, field-grown strawberry (Fragaria ananassa Duch.), oilseed rape (Brassica napus L.), and potato (Solanum tuberosum L.), were analyzed. We aimed to determine the degree to which the rhizosphere effect is plant dependent and whether this effect would be increased by growing the same crops in two consecutive years. Rhizosphere or soil samples were taken five times over the vegetation periods. To allow a cultivation-independent analysis, total community DNA was extracted from the microbial pellet recovered from root or soil samples. 16S rDNA fragments amplified by PCR from soil or rhizosphere bacterium DNA were analyzed by denaturing gradient gel electrophoresis (DGGE). The DGGE fingerprints showed plant-dependent shifts in the relative abundance of bacterial populations in the rhizosphere which became more pronounced in the second year. DGGE patterns of oilseed rape and potato rhizosphere communities were more similar to each other than to the strawberry patterns. In both years seasonal shifts in the abundance and composition of the bacterial rhizosphere populations were observed. Independent of the plant species, the patterns of the first sampling times for both years were characterized by the absence of some of the bands which became dominant at the following sampling times.Bacillus megaterium and Arthrobacter sp. were found as predominant populations in bulk soils. Sequencing of dominant bands excised from the rhizosphere patterns revealed that 6 out of 10 bands resembled gram-positive bacteria. Nocardiapopulations were identified as strawberry-specific bands.
This paper references
Fate and activity of microorganisms introduced into soil.
J. Veen (1997)
Application of denaturing gradient gel electrophoresis and temperature gradient gel electrophoresis for studying soil microbial communities.
H. Heuer (1997)
Phylogenetic analysis of the genera Cellulomonas, Promicromonospora, and Jonesia and proposal to exclude the genus Jonesia from the family Cellulomonadaceae.
F. Rainey (1995)
Rapid differentiation of bacterial species with multiple probes of different lengths in a single slot blot hybridization.
G. Wang (1995)
Diversity of root-associated bacteria associated with field-grown canola (Brassica napus L.) and wheat (Triticum aestivum L.)
J. Germida (1998)
Changes in bacterial populations along roots of wheat seedings
E. Liljeroth (1991)
Rhizosphere Microbial Community Structure in Relation to Root Location and Plant Iron Nutritional Status
C. Yang (2000)
Characterization of the bacterial community of a zinc-polluted soil.
H. Brim (1999)
Analysis of Bacterial Communities in the Rhizosphere of Chrysanthemum via Denaturing Gradient Gel Electrophoresis of PCR-Amplified 16S rRNA as Well as DNA Fragments Coding for 16S rRNA
B. M. Duineveld (2001)
ANALYSIS OF RHIZOSPHERE BACTERIAL COMMUNITIES
Analysis of actinomycete communities by specific amplification of genes encoding 16S rRNA and gel-electrophoretic separation in denaturing gradients.
H. Heuer (1997)
Successful strategy for the selection of new strawberry-associated rhizobacteria antagonistic to Verticillium wilt.
G. Berg (2000)
Genetic Diversity and Biological Control Activity of Novel Species of Closely Related Pseudomonads Isolated from Wheat Field Soils in South Australia
I. Ross (2000)
Variation and composition of bacterial populations in the rhizospheres of maize, wheat, and grass cultivars
H. J. Miller (1989)
Phylogenetic identification and in situ detection of individual microbial cells without cultivation.
R. Amann (1995)
Establishment of introduced antagonistic bacteria in the rhizosphere of transgenic potatoes and their effect on the bacterial community.
J. Lottmann (2000)
The establishment of an introduced community of fluorescent pseudomonads in the soil and in the rhizosphere is affected by the soil type.
Transfer of "Pseudomonas riboflavina" (Foster 1944), a gram-negative, motile rod with long-chain 3-hydroxy fatty acids, to Devosia riboflavina gen. nov., sp. nov., nom. rev.
Y. Nakagawa (1996)
Profiling of complex microbial populations by denaturing gradient gel electrophoresis analysis of polymerase chain reaction-amplified genes coding for 16S rRNA.
G. Muyzer (1993)
Polynucleotide Probes That Target a Hypervariable Region of 16S rRNA Genes To Identify Bacterial Isolates Corresponding to Bands of Community Fingerprints
H. Heuer (1999)
Computer-assisted pattern analysis of molecular fingerprints and database construction, 7.1.3 Molecular microbial ecology manual
J L W Rademaker (1998)
Molecular cloning: A laboratory manual 2nd ed. Edited by J. . Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, 1989 (in 3 volumes)
P. Deininger (1990)
Influence of soil quality on the function of inhibitory rhizobacteria
The rhizosphere as a habitat for soil microorganisms.
J. Sørensen (1997)
Measurement of in situ activities of nonphotosynthetic microorganisms in aquatic and terrestrial habitats.
J. Staley (1985)
Patterns of Rhizosphere Microbial Community Structure Associated with Co-Occurring Plant Species
K. M. Westover (1997)
Phylogeny of the Main Bacterial 16S rRNA Sequences in Drentse A Grassland Soils (The Netherlands)
A. Felske (1998)
Recovery of Bacterial Cells from Soil
L. Bakken (1995)
Soil microbial diversity and community structure under wheat as influenced by tillage and crop rotation
N. Lupwayi (1998)
Nucleic Acids in the Environment
J. Trevors (1995)
Computer-assisted pattern analysis of molecular fingerprints and database construction, 7.1.3
J.L.W. Rademaker (1998)
Bacterial Origin and Community Composition in the Barley Phytosphere as a Function of Habitat and Presowing Conditions
B. Normander (2000)
Comparative Phylogenetic Assignment of Environmental Sequences of Genes Encoding 16S rRNA and Numerically Abundant Culturable Bacteria from an Anoxic Rice Paddy Soil
U. Hengstmann (1999)
Bacterial biosynthesis of indole-3-acetic acid.
C. Patten (1996)
Prolonged final extension time increases cloning efficiency of PCR products.
Q. Li (1996)
Selective influence of plant species on microbial diversity in the rhizosphere
S. Grayston (1998)
Molecular Analysis of Bacterial Community Structure and Diversity in Unimproved and Improved Upland Grass Pastures
A. E. McCaig (1999)
Interactions between plant roots and soil microorganisms.
A. Rovira (1965)
Effect of Two Plant Species, Flax (Linum usitatissinum L.) and Tomato (Lycopersicon esculentum Mill.), on the Diversity of Soilborne Populations of Fluorescent Pseudomonads.
P. Lemanceau (1995)
Phylogenetic analysis of Streptomyces spp. causing potato scab based on 16S rRNA sequences.
T. Takeuchi (1996)
A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences.
J. Chun (1995)
Phylogeny of spore-forming lactic acid bacteria based on 16S rRNA gene sequences.
Taiga Suzuki (1994)
Mapping of Sugar and Amino Acid Availability in Soil around Roots with Bacterial Sensors of Sucrose and Tryptophan
C. Jaeger (1999)
Application of the PCR for Detection of Antibiotic Resistance Genes in Environmental Samples
K. Smalla (1995)
Characterization of bacterial communities in the rhizosphere of chrysanthemum using denaturing gradient gel electrophoresis and carbon utilization analyses.
B. M. Duineveld (1998)
Evaluation of potential biocontrol rhizobacteria from different host plants of Verticillium dahliae Kleb
G. Berg (2001)
Moving Waves of Bacterial Populations and Total Organic Carbon along Roots of Wheat
A. Semenov (1999)
Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis.
F. von Wintzingerode (1997)
Temporal Changes in the Bacterial Communities of Soil, Rhizosphere, and Endorhiza Associated with Field-Grown Cucumber (Cucumis sativus L.)
W.F. Mahaffee (1997)
Phylogenetic and physiological diversity of Arthrobacter strains isolated from unconsolidated subsurface sediments.
F. Crocker (2000)
This paper is referenced by
Changes of Available Phosphorus and phosphatase activity in the rhizosphere of some field and vegetation crops in the fast growth stage
A. A. S. Sinegani (2010)
Microbial Community Dynamics of Soybean (Glycine max) Is Affected by Cropping Sequence
Ayooluwa Bolaji (2021)
Dynamics of the bacterial community structure in the rhizosphere of a maize cultivar
X. Li (2014)
Root Microbiome Assemblage is Modulated by Plant Host Factors
V. Lakshmanan (2015)
Fate of Nonindigenous, Endospore-Forming Bacteria in Soils. Strategies for Laboratory and Field Investigations
Charles M. Reynolds (2003)
Principles of Plant-Microbe Interactions
B. Lugtenberg (2015)
Soil and Cultivar Type Shape the Bacterial Community in the Potato Rhizosphere
Özgül Inceoğlu (2011)
Predominance of soil vs root effect in rhizosphere microbiota reassembly.
Mengli Zhao (2019)
Rhizobacteria-Based Technology for Sustainable Cropping of Potato (Solanum tuberosum L.)
B. N. Aloo (2019)
Evaluating the diversity and composition of bacterial communities associated with Vachellia pachyceras - the only existing native tree species in the Kuwait desert.
M. Suleiman (2019)
Diversity of root-associated microbial populations of Tamarix parviflora cultivated under various conditions.
Markéta Polívková (2018)
Exploring the Role of Plant-Microbe Interactions in Improving Soil Structure and Function Through Root Exudation: A Key to Sustainable Agriculture
Kanchan Vishwakarma (2017)
Phytoavailability of Cr in Silene vulgaris: The role of soil, plant genotype and bacterial rhizobiome.
P. García-Gonzalo (2017)
Mangrovemicroniches determine the structural and functional diversityof enriched petroleumhydrocarbon-degrading consortia
N. C. M. Gomes (2010)
Microarray analysis of Rhizobium leguminosarum bv. viciae 3841 colonization of the rhizosphere.
V. Ramachandran (2008)
Root Exudates Dominate the Colonization of Pathogen and Plant Growth-Promoting Rhizobacteria
J. Yuan (2018)
Turnover of grain legume N rhizodeposits and effect of rhizodeposition on the turnover of crop residues
J. Mayer (2003)
Diversity of ndo Genes in Mangrove Sediments Exposed to Different Sources of Polycyclic Aromatic Hydrocarbon Pollution
N. C. M. Gomes (2007)
Actinobacterial community and diversity in rhizosphere soils of Aquilaria crassna Pierre ex Lec assessed by RT-PCR and PCR-DGGE
P. Nimnoi (2011)
Chemical and microbiological characterization of atmospheric particulate matter during an intense African dust event in Southern Spain.
A. M. Sánchez de la Campa (2013)
Long-Term Use of Copper-Containing Fungicide Affects Microbial Properties of Citrus Grove Soils Soil
Xuxia Zhou (2011)
Etude en microcosmes de l'effet du ray-grass et de ses exsudats racinaires sur la dissipation des HAP et les communautés bactériennes dégradantes
B. Louvel (2010)
Contrasting Water Quality Treatments Result in Structural and Functional Changes to Wetland Plant-Associated Microbial Communities in Lab-Scale Mesocosms
L. Clairmont (2019)
PCR-DGGE analysis of intestinal bacteria and effect of Bacillus spp. on intestinal microbial diversity in kuruma shrimp (Marsupenaeus japonicus)*
Liu Huai-de (2010)
Rhizosphere bacterial communities associated with long-lived perennial prairie plants vary in diversity, composition, and structure.
N. Rosenzweig (2013)
Microbiol . David M . Stamper , Marianne Walch and Rachel N . Jacobs 16 S rRNA Gene Fragments Gradient Gel Electrophoretic Analysis of Treatment Monitored by Denaturing Membrane Bioreactor for Graywater Bacterial Population
D. M. Stamper (2002)
Impact of rhizobial inoculation on Acacia senegal (L.) Willd. growth in greenhouse and soil functioning in relation to seed provenance and soil origin
N. Bakhoum (2012)
Drivers of the composition of active rhizosphere bacterial communities in temperate grasslands
Selma Vieira (2019)
Soil organic matter and microbial community structure in set-aside and intensively managed arable soils in NE-Saxony, Germany
U. Hamer (2008)
Diversity of Plant Associated Actinobacteria
B. Bouizgarne (2014)
Diversity of Cultivated and Uncultivated Actinobacterial Endophytes in the Stems and Roots of Rice
Xinli Tian (2006)
Universidade Federal do Rio Grande do Sul Programa de Pós Graduação em Genética e Biologia Molecular Isolamento e caracterização de linhagens de Bacillus e Paenibacillus promotores de crescimento vegetal em lavouras de arroz e trigo do Rio Grande do Sul
A. Silveira (2008)See more