Structure-function analysis of a bacterial deoxyadenosine kinase reveals the basis for substrate specificity

Deoxyribonucleoside kinases (dNKs) catalyze the transfer of a phosphoryl group from ATP to a deoxyribonucleoside (dN), a key step in DNA precursor synthesis. Recently structural information concerning dNKs has been obtained, but no structure of a bacterial dCK/dGK enzyme is known. Here we report the structure of such an enzyme, represented by deoxyadenosine kinase from Mycoplasma mycoides subsp. mycoides small colony type (Mm-dAK). Superposition of Mm-dAK with its human counterpart's deoxyguanosine kinase (dGK) and deoxycytidine kinase (dCK) reveals that the overall structures are very similar with a few amino acid alterations in the proximity of the active site. To investigate the substrate specificity, Mm-dAK has been crystallized in complex with dATP and dCTP, as well as the products dCMP and dCDP. Both dATP and dCTP bind to the enzyme in a feedback-inhibitory manner with the dN part in the deoxyribonucleoside binding site and the triphosphates in the P-loop. Substrate specificity studies with clinically important nucleoside analogs as well as several phosphate donors were performed. Thus, in this study we combine structural and kinetic data to gain a better understanding of the substrate specificity of the dCK/dGK family of enzymes. The structure of Mm-dAK provides a starting point for making new anti bacterial agents against pathogenic bacteria.     

Fluorescence depolarization studies of filamentous actin analyzed with a genetic algorithm

A new method, in which a genetic algorithm was combined with Brownian dynamics and Monte Carlo simulations, was developed to analyze fluorescence depolarization data collected by the time-correlated single photon-counting technique. It was applied to studies of BODIPY-labeled filamentous actin (F-actin). The technique registered the local order and reorienting motions of the fluorophores, which were covalently coupled to cysteine 374 (C374) in actin and interacted by electronic energy migration within the actin polymers. Analyses of F-actin samples composed of different fractions of labeled actin molecules revealed the known helical organization of F-actin, demonstrating the usefulness of this technique for structure determination of complex protein polymers. The distance from the filament axis to the fluorophore was found to be considerably less than expected from the proposed position of C374 at a high filament radius. In addition, polymerization experiments with BODIPY-actin suggest a 25-fold more efficient signal for filament formation than pyrene-actin.     

Quantitative association of bark beetles with pitch canker fungus and effects of verbenone on their semiochemical communication in Monterey pine forests in Northern Spain

The association between 11 species of bark beetles (Coleoptera: Scolytinae) and one weevil (Coleoptera: Entiminae) with the pitch canker fungus, Fusarium circinatum Nirenberg and O'Donnell, was determined by crushing beetles on selective medium and histone H3 gene sequencing. Pityophthorus pubescens (Marsham) (25.00%), Hylurgops palliatus (Gyllenhal) (11.96%), Ips sexdentatus (B?rner) (8.57%), Hypothenemus eruditus Westwood (7.89%), Hylastes attenuatus Erichson (7.40%), and Orthotomicus erosus (Wollaston) (2.73%) were found to carry the inoculum. In addition, the root weevil Brachyderes incanus L. (14.28%) had the second highest frequency of occurrence of the fungus. The responses of the insects to a range of verbenone doses were tested in field bioassays using funnel traps. Catches of P. pubescens, a species colonizing branch tips of live trees, were significantly reduced in a log-linear dose-dependent relationship. Catches of I. sexdentatus, an opportunistic species normally attacking fresh dead host material, were also gradually reduced with increasing verbenone dose. Catches of Tomicus piniperda L., O. erosus, Dryocoetes autographus (Ratzeburg), H. eruditus, Xyleborus dryographus (Ratzeburg), Hylastes ater (Paykull), Hylurgus ligniperda (F.), H. attenuatus, and B. incanus were not significantly affected by verbenone. The effects of verbenone were consistent with differences in host-age preference. Semiochemical disruption by verbenone in P. pubescens and I. sexdentatus could represent an integrated pest management strategy for the prevention of the spread of pitch canker disease between different stands. However, several species associated with F. circinatum were unaffected by verbenone, not supporting this compound for prevention of the establishment of potential vectors in Northern Spain.     

Seawater drinking restores water balance in dehydrated harp seals

The purpose of this study was to answer the question of whether dehydrated harp seals (Phoca groenlandica) are able to obtain a net gain of water from the intake of seawater. Following 24 h of fasting, three subadult female harp seals were dehydrated by intravenous administration of the osmotic diuretic, mannitol. After another 24 h of fasting, the seals were given 1,000 ml seawater via a stomach tube. Urine and blood were collected for measurement of osmolality and osmolytes, while total body water (TBW) was determined by injections of tritiated water. In all seals, the maximum urinary concentrations of Na⁺ and Cl⁻ were higher than in seawater, reaching 540 and 620 mM, respectively, compared to 444 and 535 mM in seawater. In another experiment, the seals were given ad lib access to seawater for 48 h after mannitol-induced hyper-osmotic dehydration. In animals without access to seawater, the mean blood osmolality increased from 331 to 363 mOsm kg⁻¹ during dehydration. In contrast, the blood osmolality, hematocrit and TBW returned to normal when the seals were permitted ad lib access to seawater after dehydration. In conclusion, this study shows that harp seals have the capacity to gain net water from mariposa (voluntarily drinking seawater) and are able to restore water balance after profound dehydration by drinking seawater.     

Ross seal (<Emphasis Type="Italic">Ommatophoca rossii</Emphasis>) annual distribution,diving behaviour,breeding and moulting,off Queen Maud Land,Antarctica

Six out of ten adult Ross seals that were tagged with Argos satellite-linked dive recorders off Queen Maud Land, just after the moult in February, provided data on location and diving activity throughout a year. Shortly after tagging, the animals headed 2,000 km north and stayed pelagic in the area south of the Antarctic Polar Front, until October when they went south into the pack-ice. Throughout the year they made about 100 dives a day, most to a depth of 100–300 m, the deepest dive on record being 792 m, while some dives were very shallow during their stay in the pack-ice. Most dives, outside the breeding and moulting period, lasted for 5–15 min throughout the year. This diving behaviour is consistent with feeding on mid-water fish, like Pleurogramma antarcticum, squid, and to some extent krill (Euphausia superba), when in the pack-ice, and myctophid fish and several species of squid, when in the open ocean. The nursing period was 13 days in mid-November, and moulting occurs in late January–early February, which is the period when sightings surveys for this species should be done.     

Development stage distribution as a proxy for feeding success and growth for first feeding Norwegian spring spawning herring larvae

The estimation of growth rates in young herring larvae (Clupea harengus) in the field can be difficult because the primary increments in the otoliths may not be discernible or formed at a daily level. Likewise, the estimation of mortality rates of fish larvae in the field is very difficult to achieve, especially in a rigorous quantitative manner. In this study, the authors suggest the use of a stage-based proxy of feeding success, growth and potential survival or mortality risk of field-caught larvae. The stage-based proxy is derived based on observations from previous laboratory studies where larvae successfully completing start-feeding on external food sources will advance through the early development stages, whereas those that do not (unsuccessful larvae) remain and accumulate in the development stage preceding first feeding. The relative occurrence of larvae in the early development stages is therefore expected to reflect feeding conditions of the larvae, with higher ratios of unsuccessful larvae indicative of poor feeding success and higher mortality risk. Using field data on Norwegian spring spawning herring, the authors document that the relative occurrence of larvae in the late non-feeding stage is significantly higher at lower average zooplankton concentrations, in line with the predictions of the authors that this novel approach of using a stage-based proxy could be a useful indication of feeding success, growth and mortality in the field. Further, there was a significant interaction effect with ambient temperature, with the ratio being higher at low zooplankton concentrations at higher temperatures. This study also suggests that these findings are not population specific as the same accumulation of non-feeding larvae in the late non-feeding stage was observed in laboratory-reared larvae of both autumn and spring spawning herring populations.     

Seasonal release from competition explains partial migration in European moose

Partial migration, whereby a proportion of a population migrates between distinct seasonal ranges, is common throughout the animal kingdom. However, studies linking existing theoretical models of migration probability, with empirical data are lacking. The competitive release hypothesis for partial migration predicts that due to density-dependent habitat selection, the proportion of migrants increases as the relative quality and size of the seasonal range increases, but decreases with increasing migration cost and population density. To test this prediction, we developed a quantitative framework to predict the proportion of migrants, using empirical data from 545 individually GPS-marked moose Alces alces from across Fennoscandia, spanning latitudes of 56° to 68°N. Moose contracted their ranges to common and spatially limited winter areas (typically at lower elevation), but expanded them during summer due to an increase in suitable habitat (at highland ranges). As predicted from our model, a better and larger highland range relative to the lowland range corresponded to a higher proportion of migrants in an area. Quantitative predictions coupling the balance of habitat availability of seasonal ranges with the probability of migrating in a large herbivore is a necessary step towards an enhanced understanding of the mechanisms underlying migration at the population level.     

Age at onset determines severity and choice of treatment in early rheumatoid arthritis: a prospective study

Introduction

Disease activity, severity and comorbidity contribute to increased mortality in patients with rheumatoid arthritis (RA). We evaluated the impact of age at disease onset on prognostic risk factors and treatment in patients with early disease.

Methods

In this study, 950 RA patients were followed regularly from the time of inclusion (<12 months from symptom onset) for disease activity (erythrocyte sedimentation rate (ESR), C-reactive protein (CRP), tender and/or swollen joints, Visual Analogue Scale pain and global scores, and Disease Activity Score in 28 joints (DAS28)) and function (Health Assessment Questionnaire (HAQ)). Disease severity, measured on the basis of radiographs of the hands and feet (erosions based on Larsen score), extraarticular disease, nodules, and comorbidities and treatment (disease-modifying antirheumatic drugs (DMARDs), corticosteroids, biologics and nonsteroidal anti-inflammatory drugs) were recorded at the time of inclusion and at 5 years. Autoantibodies (rheumatoid factor, antinuclear antibodies and antibodies against cyclic citrullinated peptides (ACPAs)) and genetic markers (human leucocyte antibody (HLA) shared epitope and protein tyrosine phosphatase nonreceptor type 22 (PTPN22)) were analysed at the time of inclusion. Data were stratified as young-onset RA (YORA) and late-onset RA (LORA), which were defined as being below or above the median age at the time of onset of RA (58 years).

Results

LORA was associated with lower frequency of ACPA (P < 0.05) and carriage of PTPN22-T variant (P < 0.01), but with greater disease activity at the time of inclusion measured on the basis of ESR (P < 0.001), CRP (P < 0.01) and accumulated disease activity (area under the curve for DAS28 score) at 6 months (P < 0.01), 12 months (P < 0.01) and 24 months (P < 0.05), as well as a higher HAQ score (P < 0.01) compared with YORA patients. At baseline and 24 months, LORA was more often associated with erosions (P < 0.01 for both) and higher Larsen scores (P < 0.001 for both). LORA was more often treated with corticosteroids (P < 0.01) and less often with methotrexate (P < 0.001) and biologics (P < 0.001). YORA was more often associated with early DMARD treatment (P < 0.001). The results of multiple regression analyses supported our findings regarding the impact of age on chosen treatment.

Conclusion

YORA patients were more frequently ACPA-positive than LORA patients. LORA was more often associated with erosions, higher Larsen scores, higher disease activity and higher HAQ scores at baseline. Nevertheless, YORA was treated earlier with DMARDs, whilst LORA was more often treated with corticosteroids and less often with DMARDs in early-stage disease. These findings could have implications for the development of comorbidities.