Detecting Mutations in the Mycobacterium tuberculosis Pyrazinamidase Gene pncA to Improve Infection Control and Decrease Drug Resistance Rates in Human Immunodeficiency Virus Coinfection.

Hospital infection control measures are crucial to tuberculosis (TB) control strategies within settings caring for human immunodeficiency virus (HIV)-positive patients, as these patients are at heightened risk of developing TB. Pyrazinamide (PZA) is a potent drug that effectively sterilizes persistent Mycobacterium tuberculosis bacilli. However, PZA resistance associated with mutations in the nicotinamidase/pyrazinamidase coding gene, pncA, is increasing. A total of 794 patient isolates obtained from four sites in Lima, Peru, underwent spoligotyping and drug resistance testing. In one of these sites, the HIV unit of Hospital Dos de Mayo (HDM), an isolation ward for HIV/TB coinfected patients opened during the study as an infection control intervention: circulating genotypes and drug resistance pre- and postintervention were compared. All other sites cared for HIV-negative outpatients: genotypes and drug resistance rates from these sites were compared with those from HDM. HDM patients showed high concordance between multidrug resistance, PZA resistance according to the Wayne method, the two most common genotypes (spoligotype international type [SIT] 42 of the Latino American-Mediterranean (LAM)-9 clade and SIT 53 of the T1 clade), and the two most common pncA mutations (G145A and A403C). These associations were absent among community isolates. The infection control intervention was associated with 58-92% reductions in TB caused by SIT 42 or SIT 53 genotypes (odds ratio [OR] = 0.420, P = 0.003); multidrug-resistant TB (OR = 0.349, P < 0.001); and PZA-resistant TB (OR = 0.076, P < 0.001). In conclusion, pncA mutation typing, with resistance testing and spoligotyping, was useful in identifying a nosocomial TB outbreak and demonstrating its resolution after implementation of infection control measures

The SFA Business Review Vol. 3 No. 1

https://scholarworks.sfasu.edu/busreview/1004/thumbnail.jp

UV-induced ligand exchange in MHC class I protein crystals

High-throughput structure determination of protein−ligand complexes is central in drug development and structural proteomics. To facilitate such high-throughput structure determination we designed an induced replacement strategy. Crystals of a protein complex bound to a photosensitive ligand are exposed to UV light, inducing the departure of the bound ligand, allowing a new ligand to soak in. We exemplify the approach for a class of protein complexes that is especially recalcitrant to high-throughput strategies: the MHC class I proteins. We developed a UV-sensitive, “conditional”, peptide ligand whose UV-induced cleavage in the crystals leads to the exchange of the low-affinity lytic fragments for full-length peptides introduced in the crystallant solution. This “in crystallo” exchange is monitored by the loss of seleno-methionine anomalous diffraction signal of the conditional peptide compared to the signal of labeled MHC β2m subunit. This method has the potential to facilitate high-throughput crystallography in various protein families

Mid-infrared spectral evidence for a luminous dust enshrouded source in Arp220

We have re-analyzed the 6-12 micron ISO spectrum of the ultra-luminous infrared galaxy Arp220 with the conclusion that it is not consistent with that of a scaled up version of a typical starburst. Instead, both template fitting with spectra of the galaxies NGC4418 and M83 and with dust models suggest that it is best represented by combinations of a typical starburst component, exhibiting PAH emission features, and a heavily absorbed dust continuum which contributes ~40% of the 6-12 micron flux and likely dominates the luminosity. Of particular significance relative to previous studies of Arp220 is the fact that the emission feature at 7.7 micron comprises both PAH emission and a broader component resulting from ice and silicate absorption against a heavily absorbed continuum. Extinction to the PAH emitting source, however, appears to be relatively low. We tentatively associate the PAH emitting and heavily dust/ice absorbed components with the diffuse emission region and the two compact nuclei respectively identified by Soifer et al. (2002) in their higher spatial resolution 10 micron study. Both the similarity of the absorbed continuum with that of the embedded Galactic protostars and results of the dust models imply that the embedded source(s) in Arp220 could be powered by, albeit extremely dense, starburst activity. Due to the high extinction, it is not possible with the available data to exclude that AGN(s) also contribute some or all of the observed luminosity. In this case, however, the upper limit measured for its hard X-ray emission would require Arp220 to be the most highly obscured AGN known.Comment: 11 pages, 9 figures. Accepted for publication in A&A. Also available at http://www.astro.rug.nl/~spoon/publications.htm

The SFA Business Review Vol. 3 No. 3

https://scholarworks.sfasu.edu/busreview/1006/thumbnail.jp

Nitrogen uptake and internal recycling in Zostera marina exposed to oyster farming: eelgrass potential as a natural biofilter

Oyster farming in estuaries and coastal lagoons frequently overlaps with the distribution of seagrass meadows, yet there are few studies on how this aquaculture practice affects seagrass physiology. We compared in situ nitrogen uptake and the productivity of Zostera marina shoots growing near off-bottom longlines and at a site not affected by oyster farming in San Quintin Bay, a coastal lagoon in Baja California, Mexico. We used benthic chambers to measure leaf NH4 (+) uptake capacities by pulse labeling with (NH4)-N-15 (+) and plant photosynthesis and respiration. The internal N-15 resorption/recycling was measured in shoots 2 weeks after incubations. The natural isotopic composition of eelgrass tissues and vegetative descriptors were also examined. Plants growing at the oyster farming site showed a higher leaf NH4 (+) uptake rate (33.1 mmol NH4 (+) m(-2) day(-1)) relative to those not exposed to oyster cultures (25.6 mmol NH4 (+) m(-2) day(-1)). We calculated that an eelgrass meadow of 15-16 ha (which represents only about 3-4 % of the subtidal eelgrass meadow cover in the western arm of the lagoon) can potentially incorporate the total amount of NH4 (+) excreted by oysters (similar to 5.2 x 10(6) mmol NH4 (+) day(-1)). This highlights the potential of eelgrass to act as a natural biofilter for the NH4 (+) produced by oyster farming. Shoots exposed to oysters were more efficient in re-utilizing the internal N-15 into the growth of new leaf tissues or to translocate it to belowground tissues. Photosynthetic rates were greater in shoots exposed to oysters, which is consistent with higher NH4 (+) uptake and less negative delta C-13 values. Vegetative production (shoot size, leaf growth) was also higher in these shoots. Aboveground/belowground biomass ratio was lower in eelgrass beds not directly influenced by oyster farms, likely related to the higher investment in belowground biomass to incorporate sedimentary nutrients

A glimpse into the differential topology and geometry of optimal transport

This note exposes the differential topology and geometry underlying some of the basic phenomena of optimal transportation. It surveys basic questions concerning Monge maps and Kantorovich measures: existence and regularity of the former, uniqueness of the latter, and estimates for the dimension of its support, as well as the associated linear programming duality. It shows the answers to these questions concern the differential geometry and topology of the chosen transportation cost. It also establishes new connections --- some heuristic and others rigorous --- based on the properties of the cross-difference of this cost, and its Taylor expansion at the diagonal.Comment: 27 page

A 0.8-2.4 microns spectral atlas of Active Galactic Nuclei

Aims: We present a near-infrared spectral atlas of 47 active galactic nuclei (AGN), of all degrees of activity, in the wavelength interval of 0.8-2.4 microns, including the fluxes of the observed emission lines. We analyze the spectroscopic properties of the continuum and emission line spectra of the sources Methods: In order to exclude aperture and seeing effects we use near-infrared spectroscopy in the short cross-dispersed mode (SXD, 0.8-2.4 microns), taking the JHK-bands spectra simultaneously. Results: We present the most extensive NIR spectral atlas of AGN to date. This atlas offers a suitable database for studying the continuum and line emission properties of these objects in a region full of interesting features. The shape of the continuum of QSOs and Seyfert 1's are similar, being essentially flat in H and K band, in the J band, a strong variation is found. In Seyfert 2 galaxies, the continuum in the F_lambda X lambda space smoothly decreases from 1.2 microns redwards in almost all sources. In J, it smoothly rises bluewards in some sources while in others a small decreased in flux is observed. The spectra are dominated by strong emission features of H I, He I, He II, [S III] and conspicuous forbidden lines of low and high ionization species. Molecular lines of H2 are common features to most objects. The absence of O I and Fe II lines in Seyfert 2 galaxies give observational support to the fact that these lines are formated in the outermost portion of the broad line region. [P II] and coronal lines are detected in all degrees of activity. The [Fe II] 12570A/16436A line ratio becomes a reliable reddening indicator for the narrow-line region of Seyfert galaxies.Comment: 39 pages, 17 figures, accepted for publication in Astronomy and Astrophysics (15/05/2006

Using citizen science data to assess the vulnerability of bottlenose dolphins to human impacts along England's South Coast

Coastal bottlenose dolphin populations are highly vulnerable due to their small population sizes and proximity to human activities. Long‐term studies in the UK have monitored populations protected within Special Areas of Conservation (SACs) since the 1990s, but a small community of bottlenose dolphins inhabiting the coastal waters of southern England has received much less attention. The English Channel is one of the most heavily impacted marine ecosystems worldwide and increasing anthropogenic pressures pose a severe threat to the long‐term viability of this population. Conservation measures to protect these animals have been hindered by a lack of knowledge of population size, distribution and ranging behaviour. This study aimed to fill these knowledge gaps. A citizen science sighting network yielded 7458 sighting reports of bottlenose dolphins between 2000 and 2020. Resightings of identified individuals were used to estimate abundance, distribution, and ranging behaviour. Social structure analysis revealed a discrete interconnected group of animals in shallow coastal waters, which did not appear to mix with conspecifics identified further offshore. A Bayesian multi‐site mark–recapture analysis estimated that this population comprises around 48 animals (CV = 0.18, 95% HPDI = 38–66). These dolphins ranged between North Cornwall and Sussex, with an average individual range of 530 km (68–760 km). Areas of high‐modelled habitat suitability were found to overlap with high levels of anthropogenic pressure, with pollution and boat traffic identified as the most pervasive threats. Although adult survival rates indicated that the population was relatively stable from 2008 to 2019 (0.945 (0.017 ± SE)), the small population size implies a significant risk to their long‐term viability and resilience to environmental change. By highlighting the most deleterious anthropogenic activities and regions of conservation significance, our results will be useful for developing management policies for threat mitigation and population conservation, to protect this vulnerable group of dolphins