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Environmental Microbiology and Microbial Ecology Commons

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1,123 full-text articles. Page 40 of 40.

Biosensors As Environmental Monitors, S. Ripp, M. DiClaudio, Gary Sayler 2009 University of Tennessee, Knoxville

Biosensors As Environmental Monitors, S. Ripp, M. Diclaudio, Gary Sayler

Gary S. Sayler

This is the long-awaited and much-anticipated revision of the bestselling text and reference. Based on the latest information and investigative techniques from molecular biology and genetics, this Second Edition offers an in-depth examination of the role of microbiological processes related to environmental deterioration with an emphasis on the detection and control of environmental contaminants. Its goal is to further our understanding of the complex microbial processes underlying environmental degradation, its detection and control, and ultimately, its prevention.


Spatial Structure And Activity Of Sedimentary Microbial Communities Underlying A Beggiatoa Spp. Mat In A Gulf Of Mexico Hydrocarbon Seep, Karen Lloyd, Daniel B. Albert, Jennifer F. Biddle, Jeffrey P. Chanton, Oscar Pizarro, Andreas Teske 2009 Selected Works

Spatial Structure And Activity Of Sedimentary Microbial Communities Underlying A Beggiatoa Spp. Mat In A Gulf Of Mexico Hydrocarbon Seep, Karen Lloyd, Daniel B. Albert, Jennifer F. Biddle, Jeffrey P. Chanton, Oscar Pizarro, Andreas Teske

Karen Lloyd

Background Subsurface fluids from deep-sea hydrocarbon seeps undergo methane- and sulfur-cycling microbial transformations near the sediment surface. Hydrocarbon seep habitats are naturally patchy, with a mosaic of active seep sediments and non-seep sediments. Microbial community shifts and changing activity patterns on small spatial scales from seep to non-seep sediment remain to be examined in a comprehensive habitat study. Methodology/Principal Findings We conducted a transect of biogeochemical measurements and gene expression related to methane- and sulfur-cycling at different sediment depths across a broad Beggiatoa spp. mat at Mississippi Canyon 118 (MC118) in the Gulf of Mexico. High process rates within ...


The Construction And Analysis Of Marker Gene Libraries, S.M. Short, F. Chen, Steven Wilhelm 2009 University of Tennessee, Knoxville

The Construction And Analysis Of Marker Gene Libraries, S.M. Short, F. Chen, Steven Wilhelm

Steven Wilhelm

Marker genes for viruses are typically amplified from aquatic samples to determine whether specific viruses are present in the sample, or to examine the diversity of a group of related viruses. In this chapter, we will provide an overview of common methods used to amplify, clone, sequence, and analyze virus marker genes, and will focus our discussion on viruses infecting algae, bacteria, and heterotrophic flagellates. Within this chapter, we endeavor to highlight critical aspects and components of these methods. To this end, instead of providing a detailed experimental protocol for each of the steps involved in examining virus marker gene ...


Synthetic Genome: Now That We’Re Creators, What Should We Create?, Frederick M. Cohan 2009 Wesleyan University

Synthetic Genome: Now That We’Re Creators, What Should We Create?, Frederick M. Cohan

Frederick M. Cohan

No abstract provided.


The Ecology Of Speciation In Bacillus, Nora Connor, Johannes Sikorski, Alejandro P. Rooney, Sarah Kopac, Alexander F. Koeppel, Andrew Burger, Scott G. Cole, Elizabeth B. Perry, Danny Krizanc, Nicholas C. Field, Michele Slaton, Frederick M. Cohan 2009 Wesleyan University

The Ecology Of Speciation In Bacillus, Nora Connor, Johannes Sikorski, Alejandro P. Rooney, Sarah Kopac, Alexander F. Koeppel, Andrew Burger, Scott G. Cole, Elizabeth B. Perry, Danny Krizanc, Nicholas C. Field, Michele Slaton, Frederick M. Cohan

Frederick M. Cohan

No abstract provided.


Regulatory Elements Of Xenopus Col2a1 Drive Cartilaginous Gene Expression In Transgenic Frogs, Ryan Kerney, Brian K. Hall, James Hanken 2009 Dalhousie University

Regulatory Elements Of Xenopus Col2a1 Drive Cartilaginous Gene Expression In Transgenic Frogs, Ryan Kerney, Brian K. Hall, James Hanken

Ryan Kerney

This study characterizes regulatory elements of collagen 2α1 (col2a1) in Xenopus that enable transgene expression in cartilage-forming chondrocytes. The reporters described in this study drive strong cartilage-specific gene expression, which will be a valuable tool for further investigations of Xenopus skeletal development. While endogenous col2a1 mRNA is expressed in many embryonic tissues, its expression becomes restricted to tadpole and adult chondrocytes. This chondrocyte-specific expression is recapitulated by col2a1 reporter constructs, which were tested through I-SceI meganuclease-mediated transgenesis. These constructs contain a portion of the Xenopus tropicalis col2a1 intron, which aligns to a cartilage-specific intronic enhancer that has been well characterized ...


Quantitativepcrmethods Forrna Anddnainmarine Sediments: Maximizing Yieldwhile Overcoming Inhibition, Karen Lloyd, Barbara J. MacGregor, Andreas Teske 2009 Selected Works

Quantitativepcrmethods Forrna Anddnainmarine Sediments: Maximizing Yieldwhile Overcoming Inhibition, Karen Lloyd, Barbara J. Macgregor, Andreas Teske

Karen Lloyd

For accurate quantification of DNA and RNA from environmental samples, yield loss during nucleic acid purification has to be minimized. Quantitative PCR (qPCR) and reverse transcription (RT)-qPCR require a trade-off between maximizing yield and removing inhibitors. We compared DNA and RNA yield and suitability for quantitative SYBR Green PCR and RT-PCR using the UltraClean and PowerSoil extraction kits and a bead-beating protocol with phenol/chloroform extraction steps. Purification methods included silica-column-based procedures from the MoBio kits, RNeasy MinElute, WizardPlus miniprep columns, and an acrylamide gel extraction. DNA and RNA purification with WizardPlus and RNeasy, respectively, led to significant losses ...


Determining Rates Of Virus Production In Aquatic Systems By The Virus Reduction Approach,, M.G. Weinbauer, J.M. Rowe, Steven Wilhelm 2009 University of Tennessee, Knoxville

Determining Rates Of Virus Production In Aquatic Systems By The Virus Reduction Approach,, M.G. Weinbauer, J.M. Rowe, Steven Wilhelm

Steven Wilhelm

The reduction approach to assess virus production and the prokaryotic mortality by viral lysis stops new infection by reducing total virus abundance (and thus virus–host contacts). This allows for easy enumeration of viruses that originate from lysis of already infected cells due to the decreased abundance of free virus particles. This reoccurrence can be quantified and used to assess production and cell lysis rates. Several modifications of the method are presented and compared. The approaches have great potential for elucidating trends in virus production rates as well as for making generalized estimates of the quantitative effects of viruses on ...


The Manual Of Aquatic Virus Ecology, Steven Wilhelm 2009 University of Tennessee, Knoxville

The Manual Of Aquatic Virus Ecology, Steven Wilhelm

Steven Wilhelm

No abstract provided.


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