Environmental Microbiology and Microbial Ecology Commons^™

Managing Soil Microbial Communities With Organic Amendments To Promote Soil Aggregate Formation And Plant Health, Shawn T. Lucas

Theses and Dissertations--Plant and Soil Sciences

The effects of managing soil with organic amendments were examined with respect to soil microbial community dynamics, macroaggregate formation, and plant physio-genetic responses. The objective was to examine the possibility of managing soil microbial communities via soil management, such that the microbial community would provide agronomic benefits. In part one of this research, effects of three amendments (hairy vetch residue, manure, compost) on soil chemical and microbial properties were examined relative to formation of large macroaggregates in three different soils. Vetch and manure promoted fungal proliferation (measured via two biomarkers: fatty acid methyl ester 18:2ω6c and ergosterol) and also stimulated …

Interactions Of Zooplankton And Phytoplankton With Cyanobacteria, Rebecca Alexander

School of Natural Resources: Dissertations, Theses, and Student Research

Cyanobacteria are a major concern in Nebraska reservoirs and are capable of producing toxins that can cause skin irritations and gastrointestinal problems, as well as affect the nervous system. It is important to determine the mechanisms that can cause cyanobacteria blooms due to the effect they can have on human health. The interaction of zooplankton and other phytoplankton groups with cyanobacteria is important because there is a biological component in surface waters that should be taken into consideration along with the physical and chemical parameters that have been noted to promote cyanobacteria. For example, zooplankton have the ability to alter …

The Use Of Diatoms To Infer Environmental Change Of The Lower White River, Southeastern Arkansas, Ruchi Bhattacharya

Graduate Theses and Dissertations

This dissertation describes the limnology of the lower White River oxbow lakes in southeast Arkansas, inundated by the major 2008 spring flood. The flood water and sediment deposited in oxbow lakes were analyzed for water chemistry, sediment geochemistry and diatom assemblages and used as an analogue for past floods. The 2008 spring flood inundated and homogenized the entire floodplain; also represented by the predominantly planktonic diatom assemblage suggesting riverine input. Indicator species for eutrophication were also recorded consistent with the high nutrient content in the lakes. However, the variance in the surface diatom assemblage was best explained by the lake …

Chemoorganotrophic Bacteria Isolated From Biodeteriorated Surfaces In Cave And Catacombs, Filomena De Leo, Agnese Iero, Gabrielle Zammit, Clara E. Urzi

International Journal of Speleology

The main objective of this work was the comparative analysis of a large number of bacterial strains isolated from biodeteriorated surfaces in three different sites, namely the catacombs of St. Callistus in Rome, Italy, the catacombs dedicated to St. Agatha in Rabat, Malta and the Cave of Bats in Zuheros, Spain. Our results showed that even considering only culturable chemoorganotrophic bacteria the variability is very high, reflecting the great variety of microhabitats present. Hence any strategies to prevent, control or eliminate the biofilm-embedded microbiota from an archeological surface should take into account a number of considerations as stipulated in our …

Bacterial Community Survey Of Sediments At Naracoorte Caves, Australia, Eric M. Adetutu, Krystal Thorpe, Esmaeil Shahsavari, Steven Bourne, Xiangsheng Cao, Ramin Mazaheri Nezhad Fard, Greg Kirby, Andrew S. Ball

International Journal of Speleology

Bacterial diversity in sediments at UNESCO World Heritage listed Naracoorte Caves was surveyed as part of an investigation carried out in a larger study on assessing microbial diversity in caves. Cave selection was based on tourist accessibility; Stick Tomato and Alexandra Cave (> 15000 annual visits) and Strawhaven Cave was used as control (no tourist access). Microbial analysis showed that Bacillus was the most commonly detected microbial genus by culture dependent and independent survey of tourist accessible and inaccessible areas of show (tourist accessible) and control caves. Sediment bacterial groups were assigned to the Firmicutes, Actinobacteria and Proteobacteria. The survey …

Biological Effects On Serpentinite Weathering, Mary H. Evert, Julie Baumeister, Elisabeth Hausrath

Undergraduate Research Opportunities Program (UROP)

Serpentinites, perhaps more than any other rock type, control the composition and evolution of the development of the surrounding ecosystems. The bulk chemistry of serpentinite rocks, high in Mg and trace elements, and low in nutrients such as Ca, K, P, and N, causes an extreme and stressful environment for ecosystems. However, the role that those serpentine ecosystems play in development of serpentine soils has not been examined.

Due to the unusual chemistry of serpentine soils, serpentine ecosystems have deeper and better-developed root systems than other ecosystems. The rhizosphere of serpentine systems, documented to produce abundant organic acids and siderophores, …

Potential Fossil Endoliths In Vesicular Pillow Basalt, Coral Patch Seamount, Eastern North Atlantic Ocean, Barbara Cavalazzi, Frances Westall, Sherry L. Cady, Roberto Barbieri, Frédéric Foucher

Geology Faculty Publications and Presentations

The chilled rinds of pillow basalt from the Ampere-Coral Patch Seamounts in the eastern North Atlantic were studied as a potential habitat of microbial life. A variety of putative biogenic structures, which include filamentous and spherical microfossil-like structures, were detected in K-phillipsite-filled amygdules within the chilled rinds. The filamentous structures (similar to 2.5 mu m in diameter) occur as K-phillipsite tubules surrounded by an Fe-oxyhydroxide (lepidocrocite) rich membranous structure, whereas the spherical structures (from 4 to 2 mu m in diameter) are associated with Ti oxide (anatase) and carbonaceous matter. Several lines of evidence indicate that the microfossil-like structures in …

Iron Oxide And Calcite Associated With Leptothrix Sp. Biofilms Within An Estavelle In The Upper Floridan Aquifer, Lee J. Florea, Chasity L. Stinson, Josh Brewer, Rick Fowler, B Joe Kearns, Anthony M. Greco

International Journal of Speleology

In Thornton’s Cave, an estavelle in west-central Florida, SEM, EDS, and XRD data reveal biofilms that are predominantly comprised of FeOOH-encrusted hollow sheaths that are overgrown and intercalated with calcite. Fragments of this crystalline biofilm adhere to the walls and ceiling as water levels vary within the cave. Those on the wall have a ‘cornflake’ appearance and those affixed to the ceiling hang as fibrous membranes. PCR of DNA in the active biofilm, combined with morphologic data from the tubes in SEM micrographs, point to Leptothrix sp., a common Fe-oxidizing bacteria, as the primary organism in the biofilm. Recent discoveries …

Biogeochemical Behavior Of Dissolved Arsenic And Uranium Concentrations In Public Water Supply Wells, Kevin J. Mcvey

School of Natural Resources: Dissertations, Theses, and Student Research

Public water supply (PWS) wells currently contain dissolved uranium concentrations above the federally mandated maximum contaminant level (MCL) of 30 ppb (parts per billion) and dissolved arsenic concentrations above the 10 ppb MCL. Both uranium and arsenic are known to cause various forms of cancer in humans. Variations in total uranium concentrations in PWS wells in Nebraska indicate a relationship to the duration and rate of pumping in specific wells. Although total arsenic concentrations show some variability over time in specific wells, the relationship to pumping is not as clear. Previous studies show that iron and sulfur bacteria present in …

Multimeric Hemicellulases Facilitate Biomass Conversion, Zhanmin Fan, Kurt Wagschal, Wei Chen, Michael D. Montross, Charles C. Lee, Ling Yuan

Plant and Soil Sciences Faculty Publications

Two highly active trifunctional hemicellulases were constructed by linking the catalytic portion of a xylanase with an arabinofuranosidase and a xylosidase, using either flexible peptide linkers or linkers containing a cellulose-binding domain. The multifunctional enzymes retain the parental enzyme properties and exhibit synergistic effects in hydrolysis of natural xylans and corn stover.

Environmental Controls On The Landscape-Scale Biogeography Of Stream Bacterial Communities, Noah Fierer, Jennifer L. Morse, Sean T. Berthrong, Emily S. Bernhardt, Robert B. Jackson

Environmental Science and Management Faculty Publications and Presentations

We determined the biogeographical distributions of stream bacteria and the biogeochemical factors that best explained heterogeneity for 23 locations within the Hubbard Brook watershed, a 3000-ha forested watershed in New Hampshire, USA. Our goal was to assess the factor, or set of factors, responsible for generating the biogeographical patterns exhibited by microorganisms at the landscape scale. We used DNA fingerprinting to characterize bacteria inhabiting fine benthic organic matter (FBOM) because of their important influence on stream nutrient dynamics. Across the watershed, streams of similar pH had similar FBOM bacterial communities. Streamwater pH was the single variable most strongly correlated with …

Microbial Nitrogen Limitation Increases Decomposition, Joseph M. Craine, Carl Morrow, Noah Fierer

Dartmouth Scholarship

With anthropogenic nutrient inputs to ecosystems increasing globally, there are long-standing, fundamental questions about the role of nutrients in the decomposition of organic matter. We tested the effects of exogenous nitrogen and phosphorus inputs on litter decomposition across a broad suite of litter and soil types. In one experiment, C mineralization was compared across a wide array of plants individually added to a single soil, while in the second, C mineralization from a single substrate was compared across 50 soils. Counter to basic stoichiometric decomposition theory, low N availability can increase litter decomposition as microbes use labile substrates to acquire …

Isolation And Characterization Of Thermophilic, Calcium-Precipitating Bacteria Form Calcite Deposits At Yucca Mountain, Terry Ann Else, Curtis R. Pantle, Penny S. Amy, Mark P. Buttner, Amy J. Smiecinski

Publications (YM)

Calcite deposits, composed of a mixture of calcium carbonate and silicon dioxide, were found in fractures and small cavities within the welded tuff of Yucca Mountain. This research investigation involves determining the presence of thermophilic, calciumprecipitating bacteria within these deposits. The possible existence of thermophilic bacteria may help to resolve the issue of whether these calcite deposits formed from precipitation of dissolved calcium carbonate in rain water transported from the overlying soil environment or as a result of upwelling of geothermally-heated waters transported from below the mountain. Evidence for microbially-influenced calcite precipitation in these deposits is indicated by the presence …

Morphological Biosignatures And The Search For Life On Mars, Sherry L. Cady, Jack D. Farmer, John P. Grotzinger, J. William Schopf, Andrew Steele

Geology Faculty Publications and Presentations

This report provides a rationale for the advances in instrumentation and understanding needed to assess claims of ancient and extraterrestrial life made on the basis of morphological biosignatures. Morphological biosignatures consist of bona fide microbial fossils as well as microbially influenced sedimentary structures. To be recognized as evidence of life, microbial fossils must contain chemical and structural attributes uniquely indicative of microbial cells or cellular or extracellular processes. When combined with various research strategies, high-resolution instruments can reveal such attributes and elucidate how morphological fossils form and become altered, thereby improving the ability to recognize them in the geological record …

A Comparison Of No And N20 Production By The Autophic Nitrifier Nitrosomonas Europaea And The Heterotrophic Nitrifier Alcaligenes Faecalis, Iris C. Anderson, Mark Poth, Julie Homstead, David J. Burdige

OES Faculty Publications

Soil microorganisms are important sources of the nitrogen trace gases NO and N₂O for the atmosphere. Present evidence suggests that autotrophic nitrifiers such as Nitrosomonas europaea are the primary producers of NO and N₂O in aerobic soils, whereas denitrifiers such as Pseudomonas spp. or Alcaligenes spp. are responsible for most of the NO and N₂O emissions from anaerobic soils. It has been shown that Alcaligenes faecalis, a bacterium common in both soil and water, is capable of concomitant heterotrophic nitrification and denitrification. This study was undertaken to determine whether heterotrophic nitrification might be …

The Voluntary Water Quality Monitoring Program : 1982 Project Report, Barbara Welch, Judy Potvin, Mary Ellen Dennis

Maine Collection

The Voluntary Water Quality Monitoring Program : 1982 Project Report

by Barbara Welch, Judy Potvin & Mary Ellen Dennis

Division of Environmental Evaluation and Lake Studies, Maine Department of Environmental Protection, Augusta, Maine 1982.

Contents: Understanding Maine's Lakes and Ponds / Acknowledgement / Temperature / Dissolved Oxygen / Other Measures of Lake Water Quality / Nutrients / Algae and Chlorophyll a / Transparency / Morphometry / Sampling / Protection / Classification / Answers to Most Frequently Asked Questions / Glossary of Terms / Appendix A : Maximum, Minimum, and Mean Values / Appendix B : Phosphate Content of Common Cleansers …

A Limnological Study Of 43 Selected Maine Lakes, Derrill J. Cowing, Matthew Scott

Maine Collection

A Limnological Study of 43 Selected Maine Lakes

by Derrill J. Cowing and Matthew Scott

U.S. Geological Survey : Water-Resources Investigations 80-69

Prepared in cooperation with the Maine Department of Environmental Protection

U.S. Geological Survey, 26 Ganneston Drive, August, Maine 04330

Pesticide Effects In A Simulated Soil Ecosystem, Raymond J. Samp

Masters Theses

The screening of pesticides to determine which were most inhibitory to bacteria was accomplished by testing the effects of 10 pesticides on 9 different organisms using the disk assay method. Results showed that Gram positive bacteria were more sensitive to all pesticides tested than were the Gram negative bacteria. In addition, the hormone herbicides were found to be the most inhibitory to these bacteria and 2,4-D (2,4-dichlorophenoxyacetic acid), a hormone herbicide, was chosen for subsequent in vivo studies.

A soil perfusion apparatus was used to determine the effects of 2,4-D in a typical soil ecosystem. Bacterial plate counts and nutrient …

Micronutrients And Biological Patterns In Lake Mead, Hasan K. Qashu, Lorne G. Everett, J. S. Carlson, Bureau Of Reclamation

Publications (WR)

Progressive increases in concentration of dissolved solids in the Colorado River water from Lake Powell to Imperial Dam seem to alter plankton dynamics and biological productivity of the river. Also, changes in biological productivity and micronutrients concentrations occur within the same reservoir. Development of a digital simulation model to predict micronutrients concentrations and biological productivity is necessary for diagnosing changes in plankton population and effluent-carrying capacity of the system. The objectives of the study are: (1) to determine trace metal balance at different locations in Lake Mead, (2) to measure biological productivity and conduct plankton population counts at each sampling …

Microorganisms And Soil Structure, T. M. Mccalla

Department of Agronomy and Horticulture: Faculty Publications

SUMMARY

Laboratory tests were made to determine the effectiveness of different compounds and microbial groups in increasing the stability of Peorian loess lumps against the action of falling water drops. The influence of these on percolation tests in the laboratory was also determined.

Many organic substances-dextrose, sucrose, starch, peptone, cullulose, and gum arabic-did not themselves contribute directly to soil-structure stability, though these substances do furnish energy material for soil microorganisms, which can convert them readily into either microbial tissue or decomposition products that increase soil-structure stability. Lignin, proteins, oils, fats, waxes, resin, and paraffin increased the stability of lumps of …

The Geographic Distribution Of Azotobacter And Rhizobium Meliloti In Nebraska Soils In Relation To Certain Environmental Factors, H. B. Peterson, T. H. Goodding

Nebraska Agricultural Experiment Station: Historical Research Bulletins

In this investigation a survey of Nebraska soils has been made in order to determine the distribution of the aerobic nonsymbiotic and symbiotic nitrogen fixers of the genera Azotobacter and Rhizobium respectively. In connection with this survey, some of the characteristics of the soils which may bring about this distribution were studied. Up to this time practically no research has been reported on the microflora of the soils of Nebraska. Hence there is little basis for predicting the activity of these organisms under environmental conditions as they exist here. It is hoped that this work will not only supply some …