Overt Mycobacterium avium subsp. paratuberculosis Infection: An Infrequent Occurrence in Archived Tissue from False TB Reactor Cattle in Michigan, USA

The objective of this study was to retrospectively determine whether or not cattle from the state of Michigan which were classified as bovine tuberculosis reactors, based on currently approved field and laboratory testing methods, were overtly infected with Mycobacterium avium subsp. paratuberculosis (MAP). Included in this study were 384 adult cattle submitted to the Diagnostic Center for Population and Animal Health over a seven-year period. Cattle were tested utilizing standard methods to confirm that all cattle were lesion and culture negative for infection with Mycobacterium bovis at postmortem examination. Retrospective analysis of formalin-fixed, paraffin-embedded sections of ileum and ileocecal lymph node were evaluated by histopathology, acid-fast staining, and PCR assays to detect MAP. Overall, only 1.04 percent of cattle showed overt infection with MAP on visual examination of sections of ileum and/or ileo-cecal lymph node. This increased slightly to 2.1 percent of cattle likely infected with MAP after additional testing using a PCR assay. Based on these results, we found no evidence that overt infection with MAP plays a major role in the false tuberculosis reactor test results for cattle examined in this study

The use of quantitative Real-Time PCR to estimate Salmonella shed in fecal samples from naturally infected finishing pigs

The objective of this study was to describe the shedding pattern of Salmonella in finishing pigs, as well to quantify the Salmonella load. A longitudinal study was conducted in 12 cohorts of pigs in a multi-site farrow-to-finish production system. At the beginning of each cohort, 50 pigs (10 ± 2 weeks old) were randomly selected and individually identified. Individual pig fecal samples were collected and cultured every 2 weeks for 16 weeks (8 collections)

Near-Earth asteroid (3200) Phaethon. Characterization of its orbit, spin state, and thermophysical parameters

The near-Earth asteroid (3200) Phaethon is an intriguing object: its perihelion is at only 0.14 au and is associated with the Geminid meteor stream. We aim to use all available disk-integrated optical data to derive a reliable convex shape model of Phaethon. By interpreting the available space- and ground-based thermal infrared data and Spitzer spectra using a thermophysical model, we also aim to further constrain its size, thermal inertia, and visible geometric albedo. We applied the convex inversion method to the new optical data obtained by six instruments and to previous observations. The convex shape model was then used as input for the thermophysical modeling. We also studied the long-term stability of Phaethon's orbit and spin axis with a numerical orbital and rotation-state integrator. We present a new convex shape model and rotational state of Phaethon: a sidereal rotation period of 3.603958(2) h and ecliptic coordinates of the preferred pole orientation of (319$^{\circ}$, $-$39$^{\circ}$) with a 5$^{\circ}$ uncertainty. Moreover, we derive its size ($D$=5.1$\pm$0.2 km), thermal inertia ($\Gamma$=600$\pm$200 J m$^{-2}$ s$^{-1/2}$ K$^{-1}$), geometric visible albedo ($p_{\mathrm{V}}$=0.122$\pm$0.008), and estimate the macroscopic surface roughness. We also find that the Sun illumination at the perihelion passage during the past several thousand years is not connected to a specific area on the surface, which implies non-preferential heating.Comment: Astronomy and Astrophysics. In pres

Geologic Evaluation of Critical Production Parameters for Coalbed Methane Resources, Black Warrior Basin - Final Report

Characterization of coalbed methane occurrence and producibility in the Black Warrior basin of Alabama indicates that geologic factors are the principal controls on the occurrence and producibility of coalbed methane. Results of engineering analysis indicate that application of completion and stimulation techniques may be used to increase recovery once favorable well sites are chosen. Sedimentologic and coal-quality parameters may be used to locate regions for coalbed methane development by characterizing the occurrence, rank, and grade of coal resources. However, high-productivity trends within those regions are localized, and geologic data suggest that productivity trends may be predictable on the basis of structural and hydrologic parameters. Several highly productive trends occur along northeast-oriented lineaments. These trends evidently are the surface expression of zones of enhanced permeability which apparently are related to fractures. Productive trends also are associated with areas of low reservoir pressure, and salinity maps indicate that fresh water has migrated toward these areas from the southeast margin of the basin. The available data indicate that structure and hydrology are critical production parameters that may be used to identify favorable well sites within regions containing significant, high-quality coal resources.Bureau of Economic Geolog

Geologic Evaluation of Critical Production Parameters for Coalbed Methane Resources, Part II, Black Warrior Basin

Geologic evaluation of critical production parameters for coalbed-methane resources in the Black Warrior basin of Alabama employed an interdisciplinary approach that utilized structural, coal-quality, sedimentologic, hydrologic, and engineering data. Results indicate that geologic factors are a major control on the producibility of coalbed methane and that completion techniques may be used to increase recovery if tailored to specific geologic settings. Sedimentologic and coal-quality parameters may be used to locate regions for coalbed methane development by characterizing the occurrence, rank, and grade of coal resources. However, high-productivity trends within those regions are localized, and geologic data suggest that productivity trends may be predictable. Several highly productive trends occur along northeast-oriented lineaments. These lineaments are the inferred surface expression of zones of enhanced permeability which are related to fractures. Productive trends also are associated with areas of low reservoir pressure, and salinity maps indicate that fresh water has migrated toward areas with low reservoir pressure. The available data indicate that structure and hydrology are critical production parameters that may be used to identify favorable well sites within regions containing significant coalbed-methane resources.Bureau of Economic Geolog

Combinatorial control of temporal gene expression in the Drosophila wing by enhancers and core promoters

Abstract Background The transformation of a developing epithelium into an adult structure is a complex process, which often involves coordinated changes in cell proliferation, metabolism, adhesion, and shape. To identify genetic mechanisms that control epithelial differentiation, we analyzed the temporal patterns of gene expression during metamorphosis of the Drosophila wing. Results We found that a striking number of genes, approximately 50% of the Drosophila transcriptome, exhibited changes in expression during a time course of wing development. While cis-acting enhancer sequences clearly correlated with these changes, a stronger correlation was discovered between core-promoter types and the dynamic patterns of gene expression within this differentiating tissue. In support of the hypothesis that core-promoter type influences the dynamics of expression, expression levels of several TATA-box binding protein associated factors (TAFs) and other core promoter-associated components changed during this developmental time course, and a testes-specific TAF (tTAF) played a critical role in timing cellular differentiation within the wing. Conclusions Our results suggest that the combinatorial control of gene expression via cis-acting enhancer sequences and core-promoter types, determine the complex changes in gene expression that drive morphogenesis and terminal differentiation of the Drosophila wing epithelium.http://deepblue.lib.umich.edu/bitstream/2027.42/112935/1/12864_2012_Article_4965.pd

Induction of T Lymphocytes Specific for Bovine Viral Diarrhea Virus in Calves with Maternal Antibody

Passive antibody to bovine viral diarrhea virus (BVDV) acquired through colostrum intake may interfere with the development of a protective immune response by calves to this virus. The objective of this study was to determine if calves, with a high level of maternal antibody to bovine viral diarrhea virus (BVDV), develop CD4+, CD8+, or γδ T lymphocyte responses to BVDV in the absence of a measurable humoral immune response. Colostrum or milk replacer fed calves were challenged with virulent BVDV at 2-5 weeks of age and/or after maternal antibody had waned. Calves exposed to BVDV while passive antibody levels were high did not mount a measurable humoral immune response to BVDV. However, compared to nonexposed animals, these animals had CD4+, CD8+, and γδ T lymphocytes that were activated by BVDV after exposure to in vitro BVDV. The production of IFNγ by lymphocytes after in vitro BVDV exposure was also much greater in lymphocytes from calves exposed to BVDV in the presence of maternal antibody compared to the nonexposed calves. These data indicate that calves exposed to BVDV while maternal antibody levels are high can develop antigen specific CD4+, CD8+, and γδ T lymphocytes in the absence of an active antibody response. A manuscript presented separately demonstrates that the calves with T lymphocytes specific for BVDV in this study were also protected from virulent BVDV genotype 2 challenge after maternal antibody became undetectable

Naltrexone-Bupropion Combinations Do Not Affect Cocaine Self-Administration in Humans

The FDA has not yet approved a pharmacotherapy for cocaine use disorder despite nearly four decades of research. This study determined the initial efficacy, safety, and tolerability of naltrexone-bupropion combinations as a putative pharmacotherapy for cocaine use disorder. Thirty-one (31) non-treatment seeking participants with cocaine use disorder completed a mixed-design human laboratory study. Participants were randomly assigned to the naltrexone conditions (i.e., 0, 50 mg/day; between-subject factor) and maintained on escalating doses of bupropion (i.e., 0, 100, 200, 400 mg/day; within-subject factor) for at least four days prior to the conduct of experimental sessions. Cocaine self-administration (IN, 0, 40, 80 mg) was then determined using a modified progressive ratio and relapse procedure. Subjective and cardiovascular effects were also measured. Cocaine produced prototypical dose-related increases in self-administration, subjective outcomes (e.g., Like Drug ), and cardiovascular indices (e.g., heart rate, blood pressure) during placebo maintenance. Naltrexone and bupropion alone, or in combination, did not significantly decrease self-administration on either procedure. Low doses of bupropion (i.e., 100 mg) blunted the effects of the cocaine on subjective measures of Like Drug and Stimulated . No unexpected adverse effects were observed with naltrexone and bupropion, alone and combined, in conjunction with cocaine. Together, these results do not support the use of these bupropion-naltrexone combinations for the treatment of cocaine use disorder. Future research should determine if novel drug combinations may decrease cocaine self-administration

An interdisciplinary system dynamics model for post-disaster housing recovery

Many previous disasters have demonstrated the need for extensive personal, public, and governmental expenditures for housing recovery highlighting the importance of studying housing recovery. Yet, much research is still needed to fully understand the multi-faceted and complex nature of housing recovery. The goal of this paper is to present a holistic model to further the understanding of the dynamic processes and interdependencies of housing recovery. The impetus for this work is that inequalities in housing recovery could be addressed more effectively if we better understood interconnected factors and dynamic processes that slow down recovery for some. Currently, there is a lack of understanding about such factors and processes. Literature from engineering and social sciences was reviewed to develop an integrated system dynamics model for post-disaster housing recovery. While it is beyond current capabilities to quantify such complexities, the presented model takes a major stride toward articulating the complex phenomenon that is housing recovery

Structural Characterization of Pandoraea pnomenusa B-356 Biphenyl Dioxygenase Reveals Features of Potent Polychlorinated Biphenyl-Degrading Enzymes

The oxidative degradation of biphenyl and polychlorinated biphenyls (PCBs) is initiated in Pandoraea pnomenusa B-356 by biphenyl dioxygenase $(BPDO_{B356})$. $BPDO_{B356}$, a heterohexameric $(αβ)_3$ Rieske oxygenase (RO), catalyzes the insertion of dioxygen with stereo- and regioselectivity at the 2,3-carbons of biphenyl, and can transform a broad spectrum of PCB congeners. Here we present the X-ray crystal structures of $BPDO_{B356}$ with and without its substrate biphenyl 1.6-Å resolution for both structures. In both cases, the Fe(II) has five ligands in a square pyramidal configuration: H233 Nε2, H239 Nε2, D386 Oδ1 and Oδ2, and a single water molecule. Analysis of the active sites of $BPDO_{B356}$ and related ROs revealed structural features that likely contribute to the superior PCB-degrading ability of certain BPDOs. First, the active site cavity readily accommodates biphenyl with minimal conformational rearrangement. Second, M231 was predicted to sterically interfere with binding of some PCBs, and substitution of this residue yielded variants that transform 2,2′-dichlorobiphenyl more effectively. Third, in addition to the volume and shape of the active site, residues at the active site entrance also apparently influence substrate preference. Finally, comparison of the conformation of the active site entrance loop among ROs provides a basis for a structure-based classification consistent with a phylogeny derived from amino acid sequence alignments