Whole-Genome Sequencing and Concordance Between Antimicrobial Susceptibility Genotypes and Phenotypes of Bacterial Isolates Associated with Bovine Respiratory Disease.

Extended laboratory culture and antimicrobial susceptibility testing timelines hinder rapid species identification and susceptibility profiling of bacterial pathogens associated with bovine respiratory disease, the most prevalent cause of cattle mortality in the United States. Whole-genome sequencing offers a culture-independent alternative to current bacterial identification methods, but requires a library of bacterial reference genomes for comparison. To contribute new bacterial genome assemblies and evaluate genetic diversity and variation in antimicrobial resistance genotypes, whole-genome sequencing was performed on bovine respiratory disease-associated bacterial isolates (Histophilus somni, Mycoplasma bovis, Mannheimia haemolytica, and Pasteurella multocida) from dairy and beef cattle. One hundred genomically distinct assemblies were added to the NCBI database, doubling the available genomic sequences for these four species. Computer-based methods identified 11 predicted antimicrobial resistance genes in three species, with none being detected in M. bovis While computer-based analysis can identify antibiotic resistance genes within whole-genome sequences (genotype), it may not predict the actual antimicrobial resistance observed in a living organism (phenotype). Antimicrobial susceptibility testing on 64 H. somni, M. haemolytica, and P. multocida isolates had an overall concordance rate between genotype and phenotypic resistance to the associated class of antimicrobials of 72.7% (P < 0.001), showing substantial discordance. Concordance rates varied greatly among different antimicrobial, antibiotic resistance gene, and bacterial species combinations. This suggests that antimicrobial susceptibility phenotypes are needed to complement genomically predicted antibiotic resistance gene genotypes to better understand how the presence of antibiotic resistance genes within a given bacterial species could potentially impact optimal bovine respiratory disease treatment and morbidity/mortality outcomes

Communications and Transport: The mobility of information, people and commodities

In a context where the study of communications tends to focus only on the mobility of information, to the neglect of that of people and commodities, this article explores the potential for a closer integration between the fields of communications and transport studies. Against the presumption that the emergence of virtuality means that material geographies are no longer of consequence, the role of mediated ‘technologies of distance’ is considered here in the broader contexts of the construction (and regulation) of a variety of physical forms of mobility and the changing modes of articulation of the virtual and material worlds

Regulators of AWC-Mediated Olfactory Plasticity in Caenorhabditis elegans

While most sensory neurons will adapt to prolonged stimulation by down-regulating their responsiveness to the signal, it is not clear which events initiate long-lasting sensory adaptation. Likewise, we are just beginning to understand how the physiology of the adapted cell is altered. Caenorhabditis elegans is inherently attracted to specific odors that are sensed by the paired AWC olfactory sensory neurons. The attraction diminishes if the animal experiences these odors for a prolonged period of time in the absence of food. The AWC neuron responds acutely to odor-exposure by closing calcium channels. While odortaxis requires a Gα subunit protein, cGMP-gated channels, and guanylyl cyclases, adaptation to prolonged odor exposure requires nuclear entry of the cGMP-dependent protein kinase, EGL-4. We asked which candidate members of the olfactory signal transduction pathway promote nuclear entry of EGL-4 and which molecules might induce long-term adaptation downstream of EGL-4 nuclear entry. We found that initiation of long-term adaptation, as assessed by nuclear entry of EGL-4, is dependent on G-protein mediated signaling but is independent of fluxes in calcium levels. We show that long-term adaptation requires polyunsaturated fatty acids (PUFAs) that may act on the transient receptor potential (TRP) channel type V OSM-9 downstream of EGL-4 nuclear entry. We also present evidence that high diacylglycerol (DAG) levels block long-term adaptation without affecting EGL-4 nuclear entry. Our analysis provides a model for the process of long-term adaptation that occurs within the AWC neuron of C. elegans: G-protein signaling initiates long-lasting olfactory adaptation by promoting the nuclear entry of EGL-4, and once EGL-4 has entered the nucleus, processes such as PUFA activation of the TRP channel OSM-9 may dampen the output of the AWC neuron

Food and Nutrition Security Indicators: A Review

In this paper, we review existing food and nutrition security indicators, discuss some of their advantages and disadvantages, and finally classify them and describe their relationships and overlaps. In order to achieve this, the paper makes reference to the existing definitions of food and nutrition security (FNS), in particular as they have been agreed upon and implemented in the FoodSecure project (www.foodsecure.eu). The main existing conceptual frameworks of FNS predating the present paper are also used as guidelines and briefly discussed. Finally, we make recommendations in terms of the most appropriate FNS indicators to quantify the impacts of various shocks and interventions on food and nutrition security outcomes

The role of sulfate-rich springs and groundwater in the formation of sinkholes over gypsum in eastern England

Heavily karstified gypsum and dolomite aquifers occur in the Permian (Zechstein Group) of Eastern England. Here rapid active gypsum dissolution causes subsidence and abundant sinkholes affect an approximately 140-km by 3-km area from Darlington, through Ripon to Doncaster. The topography and easterly dip of the strata feed artesian water through the dolomite up into the overlying gypsum sequences. The shallow-circulating groundwater emerges as sulfate-rich springs with temperatures between 9-12 oC, many emanating from sinkholes that steam and do not freeze in the winter (such as Hell Kettles, Darlington). Water also circulates from the east through the overlying Triassic sandstone aquifer. Calcareous tufa deposits and tufa-cemented gravels also attest to the passage and escape of this groundwater. The sizes of the sinkholes, their depth and that of the associated breccia pipes is controlled by the thickness of gypsum that can dissolve and by the bulking factors associated with the collapsed rocks. The presence of sulfate-rich water affects the local potability of the supply. Groundwater abstraction locally aggravates the subsidence problems, both by active dissolution and drawdown. Furthermore, the gypsum and dolomite karstification has local implications for the installation of ground-source heat pumps. The sulfate-rich springs show where active subsidence is expected; their presence along with records of subsidence can inform planning and development of areas requiring mitigation measures