Digital Commons Network^™

Molecular Analysis Of The In Situ Growth Rate Of Subsurface Geobacter Species, Dawn E. Holmes, Ludovic Giloteaux, Melissa Barlett, Milind A. Chavan, Jessica A. Smith, Kenneth H. Williams, Michael Wilkins, Philip Long, Derek Lovley

Derek Lovley

Molecular tools that can provide an estimate of the in situ growth rate of Geobacter species could improve understanding of dissimilatory metal reduction in a diversity of environments. Whole genome microarray analyses of the subsurface isolate, Geobacter uraniireducens, grown under a variety of conditions identified a number of genes that are differentially expressed at different specific growth rates. Expression of two genes encoding ribosomal proteins, rpsC and rplL, were further evaluated with quantitative reverse transcription PCR (qRT-PCR) in cells with doubling times ranging from 6.56 h to 89.28 h. Transcript abundance of rpsC correlated best (r2= 0.90) with specific growth …

A Bayesian Model For Pooling Gene Expression Studies That Incorporates Co-Regulation Information, Erin M. Conlon, Bradley L. L. Postier, Barbara A. Methé, Kelly P. Nevin, Derek R. Lovley

Erin M. Conlon

Current Bayesian microarray models that pool multiple studies assume gene expression is independent of other genes. However, in prokaryotic organisms, genes are arranged in units that are co-regulated (called operons). Here, we introduce a new Bayesian model for pooling gene expression studies that incorporates operon information into the model. Our Bayesian model borrows information from other genes within the same operon to improve estimation of gene expression. The model produces the gene-specific posterior probability of differential expression, which is the basis for inference. We found in simulations and in biological studies that incorporating co-regulation information improves upon the independence model. …

The Rnf Complex Of Clostridium Ljungdahlii Is A Proton-Translocating Ferredoxin: Nad+ Oxidoreductase Essential For Autotrophic Growth, Pier-Luc Tremblay, Tian Zhang, Shabir A. Dar, Ching Leang, Derek Lovley

Derek Lovley

It has been predicted that the Rnf complex of Clostridium ljungdahlii is a proton-translocating ferredoxin:NAD+ oxidoreductase which contributes to ATP synthesis by an H+-translocating ATPase under both autotrophic and heterotrophic growth conditions. The recent development of methods for genetic manipulation of C. ljungdahlii made it possible to evaluate the possible role of the Rnf complex in energy conservation. Disruption of the C. ljungdahlii rnf operon inhibited autotrophic growth. ATP synthesis, proton gradient, membrane potential, and proton motive force collapsed in the Rnf-deficient mutant with H2 as the electron source and CO2 as the electron acceptor. Heterotrophic growth was hindered in …

Assessment Of Regional Climate Model Simulation Estimates Over The Northeast United States, M. A. Rawlins, Raymond S. Bradley, H. F. Diaz

Raymond S Bradley

Given the coarse scales of coupled atmosphere-ocean global climate models, regional climate models (RCMs) are increasingly relied upon for studies at scales appropriate for many impacts studies. We use outputs from an ensemble of RCMs participating in the North American Regional Climate Change Assessment Program (NARCCAP) to investigate potential changes in seasonal air temperature and precipitation between present (1971–2000) and future (2041–2070) time periods across the northeast United States. The models show a consistent modest cold bias each season and are wetter than observations in winter, spring, and summer. Agreement in spatial variability and pattern correlation is good for air …

The Shape And Mechanics Of Curved Fold Origami Structures, Marcelo A. Dias, Christian Santangelo

Christian Santangelo

We develop recursion equations to describe the three-dimensional shape of a sheet upon which a series of concentric curved folds have been inscribed. In the case of no stretching outside the fold, the three-dimensional shape of a single fold prescribes the shape of the entire origami structure. To better explore these structures, we derive continuum equations, valid in the limit of vanishing spacing between folds, to describe the smooth surface intersecting all the mountain folds. We find that this surface has negative Gaussian curvature with magnitude equal to the square of the fold's torsion. A series of open folds with …

The Genome Of Pelobacter Carbinolicus Reveals Surprising Metabolic Capabilities And Physiological Features, Muktak Aklujkar, Shelley A. Haveman, Raymond Didonato, Olga Chertkov, Cliff S. Han, Miriam L. Land, Peter Brown, Derek Lovley

Derek Lovley

BackgroundThe bacterium Pelobacter carbinolicus is able to grow by fermentation, syntrophic hydrogen/formate transfer, or electron transfer to sulfur from short-chain alcohols, hydrogen or formate; it does not oxidize acetate and is not known to ferment any sugars or grow autotrophically. The genome of P. carbinolicus was sequenced in order to understand its metabolic capabilities and physiological features in comparison with its relatives, acetate-oxidizing Geobacter species.ResultsPathways were predicted for catabolism of known substrates: 2,3-butanediol, acetoin, glycerol, 1,2-ethanediol, ethanolamine, choline and ethanol. Multiple isozymes of 2,3-butanediol dehydrogenase, ATP synthase and [FeFe]-hydrogenase were differentiated and assigned roles according to their structural properties and …

Public Debt And Functional Finance In An Olg Model With Imperfect Competition, Peter Skott, Soon Ryoo

Economics Department Working Paper Series

This paper examines the role of fiscal policy in the long run. We show that (i) dynamic inefficiency may be empirically relevant in a modified Diamond OLG model with imperfect competition, (ii) fiscal policy may be needed to avoid inefficiency (if investment adjusts passively to saving) and maintain full employment (if investment and saving decisions are taken separately), (iii) a simple and distributionally neutral tax scheme can maintain full employment in the face of variations in 'household confidence', and (iv) the debt ratio is inversely related to both the growth rate and government consumption.

Replacement Versus Historical Cost Profit Rates: What Is The Difference? When Does It Matter?, Deepankar Basu

Economics Department Working Paper Series

This paper explains the BEA methodology for computing historical cost and replacement cost measures of the net stock of capital in the U.S. economy. It is demonstrated that there exists a threshold rate of inflation in the price of capital goods that keeps the percentage difference between the two capital stock measures constant. Hence, over periods when average inflation in the price index for capital goods is equal to the threshold value, historical cost and replacement cost profit rates would show equal percentage changes; an example of such a period for the U.S. economy is the whole postwar period 1946–2010. …

Dose-Response, Vol 10, No 4, Cover

Dose-Response: An International Journal

No abstract provided.

Dose-Response, Vol 10, No 4, Table Of Contents

Dose-Response: An International Journal

No abstract provided.

Commentary On The Appropriate Radiation Level For Evacuations, Jerry M. Cuttler

Dose-Response: An International Journal

This commentary reviews the international radiation protection policy that resulted in the evacuation of more than 90,000 residents from areas near the Fukushima Daiichi NPS and the enormous expenditures to protect them against a hypothetical risk of cancer. The basis for the precautionary measures is shown to be invalid; the radiation level chosen for evacuation is not conservative. The actions caused unnecessary fear and suffering. An appropriate level for evacuation is recommended. Radical changes to the ICRP recommendations are long overdue.

Special Issue Introduction, Bobby R Scott, Ludwik Dobrzy´Nski

Dose-Response: An International Journal

No abstract provided.

Effect Of Low Doses Of Low-Let Radiation On The Innate Antitumor Reactions In Radioresistant And Radiosensitive Mice, Ewa M. Nowosielska, Aneta Cheda, Jolanta Wrembel-Wargocka, Marek K. Janiak

Dose-Response: An International Journal

BALB/c and C57BL/6 mice differ in their Th1/Th2 lymphocyte and M1/M2 macrophage phenotypes, radiosensitivity, and post-irradiation tumor incidence. In this study we evaluated the effects of repeated low-level exposures to X-rays on the development of artificial tumor colonies in the lungs of animals from the two strains and cytotoxic activities of natural killer (NK) cells and macrophages obtained from these mice. After ten daily irradiations of BALB/c or C57BL/6 mice with 0.01, 0.02, and 0.1 Gy X-rays NK cell-enriched splenocytes collected from the animals demonstrated significant and comparable up-regulation of their anti-tumor cytotoxic function. Likewise, peritoneal macrophages collected from the …

Professor Zbigniew Jaworowski – In Memoriam, Ludwik Dobrzyn´Ski, Michael P.R. Waligórski, Marek K. Janiak

Dose-Response: An International Journal

No abstract provided.

Evacuation Criteria After A Nuclear Accident: A Personal Perspective, Richard Wilson

Dose-Response: An International Journal

In any decision involving radiation a risk-risk or risk-benefit comparison should be done. This can be either explicit or implicit. When the adverse effect of an alternate action is less than the planned action, such as medical use of X rays or nuclear power in ordinary operation, the comparison is simple. But in this paper I argue that with the situation faced by the Japanese in Fukushima, the assumption that the risk of an alternate action is small is false. The risks of unnecessary evacuation exceeded the risk of radiation cancers hypothetically produced by staying in place. This was not …

Dose-Response, Vol 10, No 4, Front Matter

Dose-Response: An International Journal

No abstract provided.

Low-Dose Gamma-Radiation Inhibits Benzo[A]Pyrene-Induced Lung Adenoma Development In A/J Mice, Veronica R. Bruce, Steven A. Belinsky, Katherine Gott, Yushi Liu, Thomas March, Bobby Scott, Julie Wilder

Dose-Response: An International Journal

Low-dose ionizing radiation (LDR) may lead to suppression of smoking-related lung cancer. We examined the effects of a known cigarette smoke carcinogen Benzo[a]pyrene (B[a]P) alone or in combination with fractionated low-dose gamma radiation (60 – 600 mGy total dose) on the induction of lung neoplasms in the A/J mouse. Our results show that 600 mGy of gamma radiation delivered in six biweekly fractions of 100 mGy starting 1 month after B[a]P injection significantly inhibits the development of lung adenomas per animal induced by B[a]P. Our data also indicated that the six biweekly doses suppressed the occurrence of spontaneous hyperplastic foci …

Evidence Supporting Radiation Hormesis In Atomic Bomb Survivor Cancer Mortality Data, Mohan Doss

Dose-Response: An International Journal

A recent update on the atomic bomb survivor cancer mortality data has concluded that excess relative risk (ERR) for solid cancers increases linearly with dose and that zero dose is the best estimate for the threshold, apparently validating the present use of the linear no threshold (LNT) model for estimating the cancer risk from low dose radiation. A major flaw in the standard ERR formalism for estimating cancer risk from radiation (and other carcinogens) is that it ignores the potential for a large systematic bias in the measured baseline cancer mortality rate, which can have a major effect on the …

Potential Treatment Of Inflammatory And Proliferative Diseases By Ultra-Low Doses Of Ionizing Radiations, Charles L. Sanders

Dose-Response: An International Journal

Ultra-low doses and dose- rates of ionizing radiation are effective in preventing disease which suggests that they also may be effective in treating disease. Limited experimental and anecdotal evidence indicates that low radiation doses from radon in mines and spas, thorium-bearing monazite sands and enhanced radioactive uranium ore obtained from a natural geological reactor may be useful in treating many inflammatory conditions and proliferative disorders, including cancer. Optimal therapeutic applications were identified via a literature survey as dose-rates ranging from 7 to 11μGy/hr or 28 to 44 times world average background rates. Rocks from an abandoned uranium mine in Utah …

The Cancer Mortality In High Natural Radiation Areas In Poland, Krzysztof Wojciech Fornalski, Ludwik Dobrzyn´Ski

Dose-Response: An International Journal

The cancer mortality ratios (CMRs) in Poland in high and low level radiation areas were analyzed based on information from national cancer registry. Presented ecological study concerned six regions, extending from the largest administration areas (a group of voivodeships), to the smallest regions (single counties). The data show that the relative risk of cancer deaths is lower in the higher radiation level areas. The decrease by 1.17%/mSv/year (p = 0.02) of all cancer deaths and by 0.82%/mSv/year (p = 0.2) of lung cancers only are observed.

Small Γ-Ray Doses Prevent Rather Than Increase Lung Tumors In Mice, B.R. Scott, V.R. Bruce, K.M. Gott, J. Wilder, T. March

Dose-Response: An International Journal

We show evidence for low doses of γ rays preventing spontaneous hyperplastic foci and adenomas in the lungs of mice, presumably via activating natural anticancer defenses. The evidence partly relates to a new study we conducted whereby a small number of female A/J mice received 6 biweekly dose fractions (100 mGy per fraction) of γ rays to the total body which prevented the occurrence of spontaneous hyperplastic foci in the lung. We also analyzed data from a much earlier Oak Ridge National Laboratory study involving more than 10,000 female RFMf/Un mice whereby single γ-ray doses from 100 to 1,000 mGy …

Shifting The Paradigm In Radiation Safety, Mohan Doss

Dose-Response: An International Journal

The current radiation safety paradigm using the linear no-threshold (LNT) model is based on the premise that even the smallest amount of radiation may cause mutations increasing the risk of cancer. Autopsy studies have shown that the presence of cancer cells is not a decisive factor in the occurrence of clinical cancer. On the other hand, suppression of immune system more than doubles the cancer risk in organ transplant patients, indicating its key role in keeping occult cancers in check. Low dose radiation (LDR) elevates immune response, and so it may reduce rather than increase the risk of cancer. LNT …

The New Radiobiology: Returning To Our Roots, Brant A. Ulsh

Dose-Response: An International Journal

In 2005, two expert advisory bodies examined the evidence on the effects of low doses of ionizing radiation. The U.S. National Research Council concluded that current scientific evidence is consistent with the linear no-threshold dose-response relationship (NRCNA 2005) while the French National Academies of Science and Medicine concluded the opposite (Aurengo et al. 2005). These contradictory conclusions may stem in part from an emphasis on epidemiological data (a “top down” approach) versus an emphasis on biological mechanisms (a “bottom up” approach). In this paper, the strengths and limitations of the top down and bottom up approaches are discussed, and proposals …

The Role Of X-Rays In The Treatment Of Gas Gangrene: A Historical Assessment, Edward J. Calabrese, Gaurav Dhawan

Dose-Response: An International Journal

While the use of x-rays to treat patients with gas gangrene ended in the early 1940’s with the advent of antibiotics, x-ray had been widely accepted as a useful and highly effective treatment for this condition. The present paper re-assesses the historical foundations of this belief, the quality of the data, use of confirmatory animal models, and underlying mechanisms that might account for the therapeutic role of x-rays in the treatment of gas gangrene.

Hemopoietic Response To Low Dose-Rates Of Ionizing Radiation Shows Stem Cell Tolerance And Adaptation, Theodor M. Fliedner, Dieter H. Graessle, Viktor Meineke, Ludwig E. Feinendegen

Dose-Response: An International Journal

Chronic exposure of mammals to low dose-rates of ionizing radiation affects proliferating cell systems as a function of both dose-rate and the total dose accumulated. The lower the dose-rate the higher needs to be the total dose for a deterministic effect, i.e., tissue reaction to appear. Stem cells provide for proliferating, maturing and functional cells. Stem cells usually are particularly radiosensitive and damage to them may propagate to cause failure of functional cells. The paper revisits 1) medical histories with emphasis on the hemopoietic system of the victims of ten accidental chronic radiation exposures, 2) published hematological findings of long-term …

Climate Change Adaptation Chapter: Marshfield, Massachusetts, Joshua H. Chase, Jonathan G. Cooper, Rory Elizabeth Fitzgerald, Filipe Antunes Lima, Sally R. Miller, Toni Marie Pignatelli

Landscape Architecture & Regional Planning Studio and Student Research and Creative Activity

Climate change, understood as a statistically significant variation in the mean state of the climate or its variability, is the greatest environmental challenge of this generation (Intergovernmental Panel on Climate Change, 2001). Marshfield is already being affected by changes in the climate that will have a profound effect on the town’s economy, public health, coastal resources, natural features, water systems, and public and private infrastructure. Adaptation strategies have been widely recognized as playing an important role in improving a community’s ability to respond to climate stressors by resisting damage and recovering quickly.

Based on review of climate projections for the …

A Genetic System For Clostridium Ljungdahlii: A Chassis For Autotrophic Production Of Biocommodities And A Model Homoacetogen, Ching Leang, Toshiyuki Ueki, Kelly Nevin, Derek R. Lovley

Kelly Nevin

Methods for genetic manipulation of Clostridium ljungdahlii are of interest because of the potential for production of fuels and other biocommodities from carbon dioxide via microbial electrosynthesis or more traditional modes of autotrophy with hydrogen or carbon monoxide as the electron donor. Furthermore, acetogenesis plays an important role in the global carbon cycle. Gene deletion strategies required for physiological studies of C. ljungdahlii have not previously been demonstrated. An electroporation procedure for introducing plasmids was optimized, and four different replicative origins for plasmid propagation in C. ljungdahlii were identified. Chromosomal gene deletion via double-crossover homologous recombination with a suicide vector …

Copyright Developments In 2012 (Version 1.1), Laura Quilter

Laura Quilter

No abstract provided.

Statics And Dynamics Of Atomic Dark-Bright Solitons In The Presence Of Impurities, V. Achilleos, Panos Kevrekidis, V. M. Rothos, D. J. Frantzeskakis

Panos Kevrekidis

Adopting a mean-field description for a two-component atomic Bose-Einstein condensate, we study the statics and dynamics of dark-bright solitons in the presence of localized impurities. We use adiabatic perturbation theory to derive an equation of motion for the dark-bright soliton center. We show that, counterintuitively, an attractive (repulsive) delta-like impurity, acting solely on the bright-soliton component, induces an effective localized barrier (well) in the effective potential felt by the soliton; this way, dark-bright solitons are reflected from (transmitted through) attractive (repulsive) impurities. Our analytical results for the small-amplitude oscillations of solitons are found to be in good agreement with results …

Transfer And Scattering Of Wave Packets By A Nonlinear Trap, Kai Li, Panos Kevrekidis, Boris A. Malomed, D. J. Frantzeskakis

Panos Kevrekidis

In the framework of a one-dimensional model with a tightly localized self-attractive nonlinearity, we study the formation and transfer (dragging) of a trapped mode by “nonlinear tweezers,” as well as the scattering of coherent linear wave packets on the stationary localized nonlinearity. The use of a nonlinear trap for dragging allows one to pick up and transfer the relevant structures without grabbing surrounding “radiation.” A stability border for the dragged modes is identified by means of analytical estimates and systematic simulations. In the framework of the scattering problem, the shares of trapped, reflected, and transmitted wave fields are found. Quasi-Airy …