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  • 1
    Electronic Resource
    Electronic Resource
    Oxford, UK : Blackwell Publishing Ltd
    FEMS microbiology ecology 39 (2002), S. 0 
    ISSN: 1574-6941
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Biology
    Notes: The diversity of microbial communities constitutes a critical component of good soil-management practices. To characterize the effects of different management practices, molecular indicators such as phospholipid fatty acid (PLFA), denaturing gradient gel electrophoresis (DGGE) and composition of ammonia-oxidizing bacteria were used to analyze bacterial community structure and diversity from four eastern Washington State soils. Samples from four sites were collected representing a transect of high-precipitation to low-precipitation areas that covered different agronomic zones with different management and cropping practices. Biomass amounts estimated from extractable PLFA were significantly higher in the no-till (NT) soil than in the conventional-till (CT) soil. Similarities among the different 16S rDNA DGGE band profiles were analyzed quantitatively using correspondence analysis and this confirmed that the CT soil was the most dissimilar soil. DGGE analysis of 16S rDNA ammonia-oxidizing bacteria from the four soils revealed two identical bands, indicating little effect of agronomic practices and precipitation on these species. A second set of primers, specific for amoA (ammonia monooxygenase) genes, was used to examine ammonia oxidizers in the samples. Six banding patterns (clusters) from amplified rDNA restriction analysis of 16S rDNA fragments were observed after restriction analysis with HinfI. Sequencing of these clones revealed the presence of only Nitrosospira-like sequences. Analysis of the sequences showed that ammonia oxidizers from the NT soil were more diverse compared to those from the CT and conservation reserve program soils. Our data showed that management and agronomic practices had more impact on bacterial community structure than annual precipitation.
    Type of Medium: Electronic Resource
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  • 2
    Electronic Resource
    Electronic Resource
    Oxford, UK : Blackwell Publishing Ltd
    FEMS microbiology ecology 48 (2004), S. 0 
    ISSN: 1574-6941
    Source: Blackwell Publishing Journal Backfiles 1879-2005
    Topics: Biology
    Notes: The effects of sand and clay soils and water contaminated by Escherichia coli O157:H7 on the development of rhizosphere and phyllosphere microbial communities were analyzed to determine the influence of plant age on microbial community structure and composition. Community bacterial nucleic acids were extracted from lettuce rhizosphere and phyllosphere samples at different stages of plant development after the soils were irrigated with water contaminated with E. coli O157:H7 at planting and 15 days after planting. PCR was used to amplify 16S ribosomal RNA (rRNA) for total bacterial community composition and the products were subjected to denaturing gradient gel electrophoresis (DGGE). Prominent DGGE bands were excised and sequenced to gain insight into the identities of predominant bacterial populations. The majority of DGGE band sequences were related to bacterial genera previously associated with the rhizosphere and phyllosphere, such as Pseudomonas, Acidobacterium, Bacillus and Agrobacterium. The PCR-DGGE patterns observed for rhizosphere samples were more complex than those obtained from the bulk soil and the phyllosphere. The Shannon index of diversity (H) was used to determine the complexity of the DGGE bands from the phyllosphere, rhizosphere and the bulk soils at different growth stages. A higher diversity was observed in the clay soil than sandy soil during the first week. Few changes in diversity were observed after the first week. The results show that microbial community development in lettuce may take about 7–12 days and this may be the most likely period for maximum pathogen contamination in plants.
    Type of Medium: Electronic Resource
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  • 3
    Electronic Resource
    Electronic Resource
    Springer
    Soil Science Society of America journal 62 (1998), S. 204-211 
    ISSN: 1435-0661
    Source: Springer Online Journal Archives 1860-2000
    Topics: Geosciences , Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: 2+ and Cd2+ activities on white clover (Trifolim repens L.), Rhizobium leguminosarum bv. trifolii, the infection process, and nodulation, a growth chamber study was conducted. The chelator EGTA [ethylenebis (oxyethylenetrinitrilo) tetraacetate] was used to buffer Zn2+ and Cd2+ activities in nutrient solution from pZn2+ = 8.0 to 5.0 and pCd2+ = 10.5 to 8.0 mol L-1. Plants grown in pZn2+ = 5.0 and pCd2+ = 8.75 and 8.65 were stunted and chlorotic with interveinal necrosis. Shoot concentrations of Zn and Cd averaged 〉200 and 40 mg kg-1, respectively, in these treatments. This resulted in a 60% yield reduction for plants grown in pZn2+ = 5.0. In pCd2+ = 8.75 and 8.65, 40 and 60% yield reductions, respectively, were observed. In treatments where mineral N was supplied to plants, 20 to 35% greater shoot yield was recorded compared with plants inoculated with rhizobia, presumably due to a period of starvation for N due to the delay in the onset of fixation. Nodulation was observed at all Zn2+ and Cd2+ activities. At pCd2+ = 8.75 and 8.65, however, there was a delay in nodulation. Most nodules were effective in N2 fixation irrespective of Zn2+ and Cd2+ activity. Enumeration of viable cells showed a significant decline of total cell counts from 105.5 cells mL-1 in the control to 105.0 and 104.5 cells mL-1 at the highest Zn2+ and Cd2+ activities, respectively. At the activities studied, Cd was more toxic to rhizobia and nodulation than Zn. At the highest Cd2+ activity, however, plants were killed within 48 h due to metal toxicity. This technique showed for the first time that toxicity of Zn and Cd was greater to plants than to rhizobia.
    Type of Medium: Electronic Resource
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  • 4
    Electronic Resource
    Electronic Resource
    Springer
    Plant and soil 206 (1998), S. 151-161 
    ISSN: 1573-5036
    Keywords: community structure ; fatty acid methyl esters ; rhizosphere ; soil quality
    Source: Springer Online Journal Archives 1860-2000
    Topics: Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition
    Notes: Abstract Soil microbiological parameters may be the earliest predictors of soil quality changes. Recently, molecular techniques such as fatty acid methyl ester (FAME) profiles have been used to characterize soil microbial communities. Fatty acid methyl ester (FAME) from whole soil may be derived from live cells, dead cells, humic materials, as well as plant and root exudates. Our objective was to verify differences in FAME profiles from two agricultural soils with different plants. Soil samples were collected from Ritzville and Palouse silt loams for fatty acid analysis. Soil samples from wheat (Triticum aestivum L.), barley (Hordeum vulgare L.), pea (Pisum sativum L.), jointed goatgrass ( Aegilops cylindrica L.) and downy brome (Bromus tectorum L.) rhizospheres were also collected for fatty acid analysis. Principal component analysis (PCA) of the two soils explained 42% of the variance on PC1, which accounted for Palouse soil. Ritzville soil accounted for 19% of the variance on PC2. Factor analysis showed that rhizosphere microbial communities from various plant species may differ depending on the plant species. Presence of Gram-positive bacteria as identified by a15:0, i15:0, a17:0 and i17:0 peaks were similar between rhizosphere and nonrhizosphere soils. Gram-negative bacteria characterized by short chain hydroxy acids (10:03OH and 12:03OH) as well as cyclopropane acids (cy17:0) were higher in rhizosphere soil than nonrhizosphere. This indicates a possible shift in the bacterial community to more Gram-negative bacteria and fewer Gram-positive bacteria in the rhizospheres of the plants species studied.
    Type of Medium: Electronic Resource
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