Semi-empirical analysis of leptons in gases in crossed electric and magnetic fields. I. Electrons in helium.

In this series, we outline a strategy for analyzing electrons and muons in gases in crossed electric and magnetic fields using the straightforward transport equations of momentum-transfer theory, plus empirical arguments. The method, which can be carried through from first principles to provide numerical estimates of quantities of experimental interest, offers a straightforward, physically transparent alternative to "off-the-shelf" simulation packages, such as Magboltz and GEANT. In this first article, we show how swarm data for electrons in helium gas subject to an electric field only can be incorporated into the analysis to generate electron swarm properties in helium gas in crossed electric and magnetic fields and to estimate the Lorentz angle in particular. The subsequent articles in the series analyze muons in crossed fields using similar transport theory, though the absence of muon swarm data requires empiricism of quite a different nature.

Semi-empirical analysis of leptons in gases in crossed electric and magnetic fields. Part II. Transverse compression of muon beams.

This article employs fluid equations to analyze muon beams in gases subject to crossed electric and magnetic fields, focusing, in particular, on a scheme proposed by Taqqu [Phys. Rev. Lett. 97, 194801 (2006)], whereby transverse compression of the beam is achieved by creating a density gradient in the gas. A general criterion for maximizing beam compression, derived from first principles, is then applied to determine optimal experimental conditions for µ+ in helium gas. Although the calculations require the input of transport data for (µ+, He), which are generally unavailable, this issue is circumvented by "aliasing" (µ+, He) with (H+, He), for which transport coefficient data are available.

Commentary: Three Ideas about "Post-Vention".

When presented with the opportunity to provide a commentary on this Special Issue of Healthcare Quarterly on patient safety, we thought it would be particularly powerful to bring together those with intimate lived experience of patient safety incidents. As such, this submission is being brought to you by two patients whose lives have been irrevocably altered by medical mishaps, along with a physician who has spent a considerable portion of his career advancing and integrating the patient voice on patient safety issues.

Cohort profile: prescriptions dispensed in the community linked to the national cancer registry in England.

PURPOSE: The linked prescriptions cancer registry data resource was set up to extend our understanding of the pathway for patients with cancer past secondary care into the community, to ultimately improve patient outcomes. PARTICIPANTS: The linked prescriptions cancer registry data resource is currently available for April to July 2015, for all patients diagnosed with cancer in England with a dispensed prescription in that time frame.The dispensed prescriptions data are collected by National Health Service (NHS) Prescription Services, and the cancer registry data are processed by Public Health England. All data are routine healthcare data, used for secondary purposes, linked using a pseudonymised version of the patient's NHS number and date of birth.Detailed demographic and clinical information on the type of cancer diagnosed and treatment is collected by the cancer registry. The dispensed prescriptions data contain basic demographic information, geography measures of the dispensed prescription, drug information (quantity, strength and presentation), cost of the drug and the date that the dispensed prescription was submitted to NHS Business Services Authority. FINDINGS TO DATE: Findings include a study of end of life prescribing in the community among patients with cancer, an investigation of repeat prescriptions to derive measures of prior morbidity status in patients with cancer and studies of prescription activity surrounding the date of cancer diagnosis. FUTURE PLANS: This English linked resource could be used for cancer epidemiological studies of diagnostic pathways, health outcomes and inequalities; to establish primary care comorbidity indices and for guideline concordance studies of treatment, particularly hormonal therapy, as a major treatment modality for breast and prostate cancer which has been largely delivered in the community setting for a number of years.

Azotobacter Genomes: The Genome of Azotobacter chroococcum NCIMB 8003 (ATCC 4412).

The genome of the soil-dwelling heterotrophic N2-fixing Gram-negative bacterium Azotobacter chroococcum NCIMB 8003 (ATCC 4412) (Ac-8003) has been determined. It consists of 7 circular replicons totalling 5,192,291 bp comprising a circular chromosome of 4,591,803 bp and six plasmids pAcX50a, b, c, d, e, f of 10,435 bp, 13,852, 62,783, 69,713, 132,724, and 311,724 bp respectively. The chromosome has a G+C content of 66.27% and the six plasmids have G+C contents of 58.1, 55.3, 56.7, 59.2, 61.9, and 62.6% respectively. The methylome has also been determined and 5 methylation motifs have been identified. The genome also contains a very high number of transposase/inactivated transposase genes from at least 12 of the 17 recognised insertion sequence families. The Ac-8003 genome has been compared with that of Azotobacter vinelandii ATCC BAA-1303 (Av-DJ), a derivative of strain O, the only other member of the Azotobacteraceae determined so far which has a single chromosome of 5,365,318 bp and no plasmids. The chromosomes show significant stretches of synteny throughout but also reveal a history of many deletion/insertion events. The Ac-8003 genome encodes 4628 predicted protein-encoding genes of which 568 (12.2%) are plasmid borne. 3048 (65%) of these show > 85% identity to the 5050 protein-encoding genes identified in Av-DJ, and of these 99 are plasmid-borne. The core biosynthetic and metabolic pathways and macromolecular architectures and machineries of these organisms appear largely conserved including genes for CO-dehydrogenase, formate dehydrogenase and a soluble NiFe-hydrogenase. The genetic bases for many of the detailed phenotypic differences reported for these organisms have also been identified. Also many other potential phenotypic differences have been uncovered. Properties endowed by the plasmids are described including the presence of an entire aerobic corrin synthesis pathway in pAcX50f and the presence of genes for retro-conjugation in pAcX50c. All these findings are related to the potentially different environmental niches from which these organisms were isolated and to emerging theories about how microbes contribute to their communities.

Housing conditions in 2 Canadian First Nations communities.

OBJECTIVES: Housing conditions were assessed in 2 Canadian First Nations communities. Possible associations with tuberculosis (TB) were explored. Study design. Participatory community-based survey. METHODS: Qualitative and quantitative data on housing and health were collected in the northern Dené community at Lac Brochet (LB), which has experienced endemic and epidemic TB, and the southern Ojibwa community at Valley River (VR), which has not. Results. 72 of 135 (53%) houses at LB and 57 of 95 (60%) houses at VR were enrolled. Houses in both communities were small (mean 882 and 970 sq. ft., respectively) compared to the Manitoba average (1,200 sq. ft.). Crowding was evident at LB (mean persons per room [ppr] 1.1) and VR (mean ppr 0.9). The provincial mean ppr is 0.5. However, only 49% of householders at LB and 19% at VR felt "crowded" in their homes. More than two-thirds of houses had absent or non-functional heat recovery ventilation systems. Mould was observed in 44% of LB houses and 19% of VR houses. At LB a significant association was found between the number of permanent residents in the house and the presence of selfreported latent or active TB, either currently or during residence in that house (p=0.001). CONCLUSIONS: Houses that were studied in these 2 First Nations communities were predominantly small, crowded and in poor repair. An association was found between the number of persons in a house and self-reported TB. Improved housing conditions in First Nations communities are indicated to promote and sustain health as well as human and Indigenous rights.

Exchangeability of mammalian DNA ligases between base excision repair pathways.

In mammalian cells, DNA ligase IIIalpha and DNA ligase I participate in the short- and long-patch base excision repair pathways, respectively. Using an in vitro repair assay employing DNA ligase-depleted cell extracts and DNA substrates containing a single lesion repaired either through short-patch (regular abasic site) or long-patch (reduced abasic site) base excision repair pathways, we addressed the question whether DNA ligases are specific to each pathway or if they are exchangeable. We find that immunodepletion of DNA ligase I did not affect the short-patch repair pathway but blocked long-patch repair, suggesting that DNA ligase IIIalpha is not able to substitute DNA ligase I during long-patch repair. In contrast, immunodepletion of DNA ligase IIIalpha did not significantly affect either pathway. Moreover, repair of normal abasic sites in wild-type and X-ray cross-complementing gene 1 (XRCC1)-DNA ligase IIIalpha-immunodepleted cell extracts involved similar proportions of short- and long-patch repair events. This suggests that DNA ligase I was able to efficiently substitute the XRCC1-DNA ligase IIIalpha complex during short-patch repair.

Reversible phase variation in the phnE gene, which is required for phosphonate metabolism in Escherichia coli K-12.

It is known that Escherichia coli K-12 is cryptic (Phn-) for utilization of methyl phosphonate (MePn) and that Phn+ variants can be selected for growth on MePn as the sole P source. Variants arise from deletion via a possible slip strand mechanism of one of three direct 8-bp repeat sequences in phnE, which restores function to a component of a putative ABC type transporter. Here we show that Phn+ variants are present at the surprisingly high frequency of >10(-2) in K-12 strains. Amplified-fragment length polymorphism analysis was used to monitor instability in phnE in various strains growing under different conditions. This revealed that, once selection for growth on MePn is removed, Phn+ revertants reappear and accumulate at high levels through reinsertion of the 8-bp repeat element sequence. It appears that, in K-12, phnE contains a high-frequency reversible gene switch, producing phase variation which either allows ("on" form) or blocks ("off" form) MePn utilization. The switch can also block usage of other metabolizable alkyl phosphonates, including the naturally occurring 2-aminoethylphosphonate. All K-12 strains, obtained from collections, appear in the "off" form even when bearing mutations in mutS, mutD, or dnaQ which are known to enhance slip strand events between repetitive sequences. The ability to inactivate the phnE gene appears to be unique to K-12 strains since the B strain is naturally Phn+ and lacks the inactivating 8-bp insertion in phnE, as do important pathogenic strains for which genome sequences are known and also strains isolated recently from environmental sources.

The structure and mechanism of serine acetyltransferase from Escherichia coli.

Serine acetyltransferase (SAT) catalyzes the first step of cysteine synthesis in microorganisms and higher plants. Here we present the 2.2 A crystal structure of SAT from Escherichia coli, which is a dimer of trimers, in complex with cysteine. The SAT monomer consists of an amino-terminal alpha-helical domain and a carboxyl-terminal left-handed beta-helix. We identify His(158) and Asp(143) as essential residues that form a catalytic triad with the substrate for acetyl transfer. This structure shows the mechanism by which cysteine inhibits SAT activity and thus controls its own synthesis. Cysteine is found to bind at the serine substrate site and not the acetyl-CoA site that had been reported previously. On the basis of the geometry around the cysteine binding site, we are able to suggest a mechanism for the O-acetylation of serine by SAT. We also compare the structure of SAT with other left-handed beta-helical structures.