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  • 1
    Publication Date: 2011-12-28
    Description: Soil pH is a major determinant of microbial ecosystem processes and potentially a major driver of evolution, adaptation, and diversity of ammonia oxidizers, which control soil nitrification. Archaea are major components of soil microbial communities and contribute significantly to ammonia oxidation in some soils. To determine whether pH drives evolutionary adaptation and community structure of soil archaeal ammonia oxidizers, sequences of amoA, a key functional gene of ammonia oxidation, were examined in soils at global, regional, and local scales. Globally distributed database sequences clustered into 18 well-supported phylogenetic lineages that dominated specific soil pH ranges classified as acidic (pH
    Print ISSN: 0027-8424
    Electronic ISSN: 1091-6490
    Topics: Biology , Medicine , Natural Sciences in General
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  • 2
    Publication Date: 2002-10-19
    Description: Human impacts, including global change, may alter the composition of soil faunal communities, but consequences for ecosystem functioning are poorly understood. We constructed model grassland systems in the Ecotron controlled environment facility and manipulated soil community composition through assemblages of different animal body sizes. Plant community composition, microbial and root biomass, decomposition rate, and mycorrhizal colonization were all markedly affected. However, two key ecosystem processes, aboveground net primary productivity and net ecosystem productivity, were surprisingly resistant to these changes. We hypothesize that positive and negative faunal-mediated effects in soil communities cancel each other out, causing no net ecosystem effects.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Bradford, M A -- Jones, T H -- Bardgett, R D -- Black, H I J -- Boag, B -- Bonkowski, M -- Cook, R -- Eggers, T -- Gange, A C -- Grayston, S J -- Kandeler, E -- McCaig, A E -- Newington, J E -- Prosser, J I -- Setala, H -- Staddon, P L -- Tordoff, G M -- Tscherko, D -- Lawton, J H -- New York, N.Y. -- Science. 2002 Oct 18;298(5593):615-8.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Natural Environment Research Council Centre for Population Biology, Department of Biological Sciences, Imperial College at Silwood Park, Ascot, SL5 7PY, UK. m.a.bradford@ic.ac.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/12386334" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Bacteria/growth & development ; Biomass ; Body Constitution ; Carbon/metabolism ; Ecological Systems, Closed ; *Ecosystem ; Environment ; Fungi/growth & development ; Oxygen Consumption ; Photosynthesis ; Plant Development ; Plant Roots/metabolism ; Poaceae/growth & development ; Population Density ; *Soil ; Soil Microbiology
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 3
    Publication Date: 2014-09-05
    Description: Soils store about four times as much carbon as plant biomass, and soil microbial respiration releases about 60 petagrams of carbon per year to the atmosphere as carbon dioxide. Short-term experiments have shown that soil microbial respiration increases exponentially with temperature. This information has been incorporated into soil carbon and Earth-system models, which suggest that warming-induced increases in carbon dioxide release from soils represent an important positive feedback loop that could influence twenty-first-century climate change. The magnitude of this feedback remains uncertain, however, not least because the response of soil microbial communities to changing temperatures has the potential to either decrease or increase warming-induced carbon losses substantially. Here we collect soils from different ecosystems along a climate gradient from the Arctic to the Amazon and investigate how microbial community-level responses control the temperature sensitivity of soil respiration. We find that the microbial community-level response more often enhances than reduces the mid- to long-term (90 days) temperature sensitivity of respiration. Furthermore, the strongest enhancing responses were observed in soils with high carbon-to-nitrogen ratios and in soils from cold climatic regions. After 90 days, microbial community responses increased the temperature sensitivity of respiration in high-latitude soils by a factor of 1.4 compared to the instantaneous temperature response. This suggests that the substantial carbon stores in Arctic and boreal soils could be more vulnerable to climate warming than currently predicted.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Karhu, Kristiina -- Auffret, Marc D -- Dungait, Jennifer A J -- Hopkins, David W -- Prosser, James I -- Singh, Brajesh K -- Subke, Jens-Arne -- Wookey, Philip A -- Agren, Goran I -- Sebastia, Maria-Teresa -- Gouriveau, Fabrice -- Bergkvist, Goran -- Meir, Patrick -- Nottingham, Andrew T -- Salinas, Norma -- Hartley, Iain P -- England -- Nature. 2014 Sep 4;513(7516):81-4. doi: 10.1038/nature13604.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Geography, College of Life and Environmental Sciences, University of Exeter, Exeter EX4 4RJ, UK [2] Department of Forest Sciences, University of Helsinki, 00014 Helsinki, Finland. ; Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen AB24 3UU, UK. ; Rothamsted Research-North Wyke, Okehampton, Devon EX20 2SB, UK. ; School of Agriculture, Food &Environment, The Royal Agricultural University, Cirencester, Gloucestershire GL7 6JS, UK. ; Hawkesbury Institute for the Environment, University of Western Sydney, Penrith 2751, New South Wales, Australia. ; School of Natural Sciences, Biological and Environmental Sciences, University of Stirling, Stirling FK9 4LA, UK. ; School of Life Sciences, Heriot-Watt University, Edinburgh EH14 4AS, UK. ; Department of Ecology, Swedish University of Agricultural Sciences (SLU), 750 07 Uppsala, Sweden. ; 1] Laboratory of Functional Ecology and Global Change, Forest Sciences Centre of Catalonia (CTFC), 25280 Solsona, Spain [2] Department of Horticulture, Botany and Landscaping, School of Agrifood and Forestry Science and Engineering, University of Lleida, 25198 Lleida, Spain. ; Laboratory of Functional Ecology and Global Change, Forest Sciences Centre of Catalonia (CTFC), 25280 Solsona, Spain. ; Department of Crop Production Ecology, Swedish University of Agricultural Sciences (SLU), 750 07 Uppsala, Sweden. ; 1] School of Geosciences, University of Edinburgh, Edinburgh EH8 9XP, UK [2] Research School of Biology, The Australian National University, Canberra, Australian Capital Territory 0200, Australia. ; School of Geosciences, University of Edinburgh, Edinburgh EH8 9XP, UK. ; Seccion Quimica, Pontificia Universidad Catolica del Peru, Lima 32, Peru. ; Geography, College of Life and Environmental Sciences, University of Exeter, Exeter EX4 4RJ, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25186902" target="_blank"〉PubMed〈/a〉
    Keywords: Arctic Regions ; Carbon/metabolism ; Carbon Dioxide/*metabolism ; Cold Climate ; *Feedback ; Global Warming ; Nitrogen/metabolism ; Oxygen/*metabolism ; Soil/chemistry ; *Soil Microbiology ; *Temperature ; Tropical Climate
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 4
    Publication Date: 2013-02-08
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Jansson, Janet K -- Prosser, James I -- England -- Nature. 2013 Feb 7;494(7435):40-1. doi: 10.1038/494040a.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/23389537" target="_blank"〉PubMed〈/a〉
    Keywords: *Data Mining ; Ecology/methods ; Geologic Sediments/*microbiology ; Metagenome/*genetics ; *Models, Biological ; Sequence Analysis, DNA ; *Soil Microbiology
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 5
    ISSN: 1476-4687
    Source: Nature Archives 1869 - 2009
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Notes: [Auszug] Ammonia oxidation is the first step in nitrification, a key process in the global nitrogen cycle that results in the formation of nitrate through microbial activity. The increase in nitrate availability in soils is important for plant nutrition, but it also has considerable impact on ...
    Type of Medium: Electronic Resource
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  • 6
    Electronic Resource
    Electronic Resource
    Springer
    Archives of microbiology 147 (1987), S. 73-79 
    ISSN: 1432-072X
    Keywords: Nitrosomonas europaea ; Nitrobacter ; Nitrification ; Continuous culture ; Transient growth
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Growth of the autotrophic nitrifying bacteria Nitrosomonas europaea and Nitrobacter sp. was studied in continuous culture. Steady state growth kinetics of both organisms conformed with that predicted by chemostat theory, modified to account for maintenance energy requirement. Steady state data were used to calculate the maximum specific growth rate, the saturation constant for growth, the true growth yield and the maintenance coefficient. Transient growth was studied by imposing step changes in dilution rate. Step increases resulted in overshoots and oscillations in substrate concentration before establishment of a new steady state while step decreases in dilution rate were followed by monotonic changes in substrate concentration. The size of overshoots in substrate concentration following step increases in dilution rate was dependent on both the magnitude of the increase and of the dilution rate prior to the change.
    Type of Medium: Electronic Resource
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  • 7
    Electronic Resource
    Electronic Resource
    Springer
    Microbial ecology 14 (1987), S. 129-139 
    ISSN: 1432-184X
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract Ion exchange resins and glass microscope slides were used to investigate factors affecting attachment of nitrifying bacteria to solid surfaces and the effect of attachment on inhibition ofNitrobacter by potassium ethyl xanthate. The ammonium oxidizerNitrosomonas attached preferentially to cation exchange resins while the nitrite oxidizerNitrobacter colonized anion exchange resins more extensively. Colonization was always associated with growth, and the site of substrate (NH4 + or NO2 −) adsorption was the major factor in attachment and colonization. The specific growth rate of cells colonizing either ion exchange resin beads or glass surfaces was greater than that of freely suspended cells, butNitrobacter populations colonizing glass surfaces were more sensitive to the inhibitor potassium ethyl xanthate. The findings indicate that surface growth alone does not protect soil nitrifying bacteria from inhibition by potassium ethyl xanthate and explain different patterns of inhibition for ammonium and nitrite oxidizers in the soil.
    Type of Medium: Electronic Resource
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  • 8
    Electronic Resource
    Electronic Resource
    Springer
    Microbial ecology 15 (1988), S. 21-39 
    ISSN: 1432-184X
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The effect of surface attachment on oxidation of nitrite to nitrate byNitrobacter was studied in batch culture, on glass coverslips, and in continuous culture on glass beads and anion exchange resin beads in an air-lift column fermenter. In batch culture, the surfaces stimulated specific growth rate, while in continuous culture, activity of attached cells was less than that of freely suspended cells. Nitrate productivity, free cell productivity, and attached cell concentration increased exponentially at the same specific rate, termed the colonization rate, and nitrate productivity was found to be a convenient estimate of biomass concentration. Permanent attachment was mediated by production of slime material. Surface growth resulted in multiple steady states and the ability to respond quickly to changes in dilution rate. The air-lift column fermenter system provided a convenient system for the study of growth and activity of attached cells and was most suitable when using ion exchange resins as a substratum for attachment.
    Type of Medium: Electronic Resource
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  • 9
    Electronic Resource
    Electronic Resource
    Springer
    Microbial ecology 24 (1992), S. 43-50 
    ISSN: 1432-184X
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The influence of surface attachment and growth on inhibition of the ammonia oxidizing bacterium, Nitrosomonas europaea, by nitrapyrin was investigated in liquid culture in the presence and absence of glass slides. Significant attachment to glass slides occurred in the absence of ammonia, but the extent of attachment was not affected by nitrapyrin, nor by previous culture of cells in medium containing nitrapyrin. The presence of glass slides affected neither the specific growth rate of N. europaea, measured by changes in nitrite concentration, nor inhibition by nitrapyrin. Inhibitory effects of nitrapyrin on increases in nitrite concentration and in free cell concentration were similar, but greater effects were observed on changes in attached cell concentration. Established biofilms on glass slides grew at a lower specific growth rate than freely suspended cells. Both biofilm cells, and those detached from the biofilm, were protected from inhibition. A mechanism for protection of biofilm populations is proposed involving reduced sensitivity of slowly growing cells producing extracellular polymeric material.
    Type of Medium: Electronic Resource
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  • 10
    ISSN: 1615-6102
    Keywords: Chitin ; Microfibrils ; Handedness ; Fungal cell wall ; Mushroom ; Coprinus cinereus
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Chitin microfibrils are a major component of the walls of stipe cells of the mushroomCoprinus cinereus. They occur as shallow helices, which may be right-or left-handed, with about two thirds being left-handed. The sense of the helicity is constant throughout one cell, but cells with both senses are found in the same stipe. This shallow helicity is the same in stipe cells before and after rapid elongation, i.e. the elongation process must involve insertion of new microfibrils between existing ones, with no angular rearrangements as are seen in some other elongating systems. Models are proposed for the ontogeny and elongation of the helical wall structure. Stipe cell walls of an elongationless mutant show the same helicity of microfibrils as strains with normal elongation, before and after fruit body maturation.
    Type of Medium: Electronic Resource
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