The Escherichia coli CydX Protein Is a Member of the CydAB Cytochrome bd Oxidase Complex and Is Required for Cytochrome bd Oxidase Activity

Cytochrome bd oxidase operons from more than 50 species of bacteria contain a short gene encoding a small protein that ranges from ∼30 to 50 amino acids and is predicted to localize to the cell membrane. Although cytochrome bd oxidases have been studied for more than 70 years, little is known about the role of this small protein, denoted CydX, in oxidase activity. Here we report that Escherichia coli mutants lacking CydX exhibit phenotypes associated with reduced oxidase activity. In addition, cell membrane extracts from ΔcydX mutant strains have reduced oxidase activity in vitro. Consistent with data showing that CydX is required for cytochrome bd oxidase activity, copurification experiments indicate that CydX interacts with the CydAB cytochrome bd oxidase complex. Together, these data support the hypothesis that CydX is a subunit of the CydAB cytochrome bd oxidase complex that is required for complex activity. The results of mutation analysis of CydX suggest that few individual amino acids in the small protein are essential for function, at least in the context of protein overexpression. In addition, the results of analysis of the paralogous small transmembrane protein AppX show that the two proteins could have some overlapping functionality in the cell and that both have the potential to interact with the CydAB complex.     

Identification of a Novel Human Papillomavirus by Metagenomic Analysis of Samples from Patients with Febrile Respiratory Illness

As part of a virus discovery investigation using a metagenomic approach, a highly divergent novel Human papillomavirus type was identified in pooled convenience nasal/oropharyngeal swab samples collected from patients with febrile respiratory illness. Phylogenetic analysis of the whole genome and the L1 gene reveals that the new HPV identified in this study clusters with previously described gamma papillomaviruses, sharing only 61.1% (whole genome) and 63.1% (L1) sequence identity with its closest relative in the Papillomavirus episteme (PAVE) database. This new virus was named HPV_SD2 pending official classification. The complete genome of HPV-SD2 is 7,299 bp long (36.3% G/C) and contains 7 open reading frames (L2, L1, E6, E7, E1, E2 and E4) and a non-coding long control region (LCR) between L1 and E6. The metagenomic procedures, coupled with the bioinformatic methods described herein are well suited to detect small circular genomes such as those of human papillomaviruses.     

Inducing Acute Traumatic Coagulopathy In Vitro: The Effects of Activated Protein C on Healthy Human Whole Blood

Introduction

Acute traumatic coagulopathy has been associated with shock and tissue injury, and may be mediated via activation of the protein C pathway. Patients with acute traumatic coagulopathy have prolonged PT and PTT, and decreased activity of factors V and VIII; they are also hypocoagulable by thromboelastometry (ROTEM) and other viscoelastic assays. To test the etiology of this phenomenon, we hypothesized that such coagulopathy could be induced in vitro in healthy human blood with the addition of activated protein C (aPC).

Methods

Whole blood was collected from 20 healthy human subjects, and was “spiked” with increasing concentrations of purified human aPC (control, 75, 300, 2000 ng/mL). PT/PTT, factor activity assays, and ROTEM were performed on each sample. Mixed effect regression modeling was performed to assess the association of aPC concentration with PT/PTT, factor activity, and ROTEM parameters.

Results

In all subjects, increasing concentrations of aPC produced ROTEM tracings consistent with traumatic coagulopathy. ROTEM EXTEM parameters differed significantly by aPC concentration, with stepwise prolongation of clotting time (CT) and clot formation time (CFT), decreased alpha angle (α), impaired early clot formation (a10 and a20), and reduced maximum clot firmness (MCF). PT and PTT were significantly prolonged at higher aPC concentrations, with corresponding significant decreases in factor V and VIII activity.

Conclusion

A phenotype of acute traumatic coagulopathy can be induced in healthy blood by the in vitro addition of aPC alone, as evidenced by viscoelastic measures and confirmed by conventional coagulation assays and factor activity. This may lend further mechanistic insight to the etiology of coagulation abnormalities in trauma, supporting the central role of the protein C pathway. Our findings also represent a model for future investigations in the diagnosis and treatment of acute traumatic coagulopathy.     

Modeling Hurricane Exposure in a Caribbean Lower Montane Tropical Wet Forest: The Effects of Frequent,Intermediate Disturbances and Topography on Forest Structural Dynamics and Composition

Frequent intermediate disturbances can produce qualitatively different spatial heterogeneity and environmental variability than large infrequent disturbances, which facilitates the coexistence of disparate species types. We hypothesized that species coexistence will be maximized at sites exposed to recurring hurricanes with intermediate frequencies and effects. Consequently, we sought to determine if exposure vulnerability (EV) from three hurricanes with intermediate effects and frequencies (Ivan-2004, Dennis-2005 and Dean-2007), or the interaction between exposure and topography, could be used to explain forest structural dynamics and composition. We used data obtained in 2006 and 2012 from within 45, 25 × 25 m (2.8125 ha) permanent sample plots, established according to a randomized block design, and stratified according to elevation and aspect/sites (NE and SW facing ridges) in a tropical montane wet forest, John Crow Mountains, Jamaica. There was a significant reduction in basal area (BA) (14%), tree volume (10%), and density (26%) and there was a negative shift in the height profile of trees. Understory light (2008), stem density, and mortality increased with EV but decreased with aspect. The NE aspect/sites had higher EV after Dean and the other hurricanes. Consequently, BA, volume and density increased significantly for light-demanding species at the NE sites, but declined significantly overall with minimal changes at SW sites. Moreover, diversity was significantly higher at sites with higher EV for the three hurricanes. The frequent hurricanes with intermediate effects may have therefore maintained/increased spatial heterogeneity, which promoted the coexistence of species with disparate life histories at more exposed sites.     

Competition and facilitation between Australian and Spanish legumes in seven Australian soils

This paper evaluates the relative performance and competitive ability of seven legumes from the Iberian Peninsula, Spain (one already invasive in Australia), grown singly or pairwise with seven legumes from south‐western Australia in their own soils. Indices of growth used were root, shoot and total mass and shoot dimensions. Water content, xylem water potential during drying and nodule production were also measured. The index of competition used was the intensity of competition coefficient (ICC), which is suitable for additive designs. The Australian species usually grew larger than the Spanish species, in their presence or absence, although the results were sensitive to the index of growth or resource capture used. The Australian legumes usually possessed greater total water content than the co‐occurring Spanish legumes. At least five Australian species were less reduced or not affected at all by inter‐regional competition compared with growth in isolation. Two Australian legumes performed relatively poorly in the presence of at least four Spanish legumes. The ICC identified many instances of growth promotion (facilitation) of the Australian species, which we attribute to extra nitrogen obtained through enhanced nodulation of both cohabiting species. Five of the seven Spanish species were outcompeted by the Australian species, whereas the growth of two was sometimes facilitated. Although the Spanish legumes had greater competitive ability in the more fertile Australian soils, they remained competitively inferior to the Australian legumes in their first season of growth and none is likely to displace the native legumes at this stage of growth. Longer‐term field studies are needed to fully evaluate the potential invasiveness of perennial legumes.     

Maize seedlings produced from dry seeds exposed to liquid nitrogen display altered levels of shikimate pathway compounds

In light of climate change and risks of food insecurity, it is becoming increasingly important to preserve plant germplasm in genebanks. Storage of seeds, particularly via cryopreservation, is one of the most proficient methods for ex situ plant germplasm conservation. Whilst seed cryo-banking can have little, to no, or even beneficial effects on subsequent seedling vigor in some species, it can lead to a number of plant abnormalities (morphological and physiological). This study investigated the effects of maize seed cryopreservation on seedling growth (until 14 d) and levels of selected amino acids produced in the shikimate pathway, a major link between primary and secondary metabolism. Seed cryopreservation reduced FW in recovered seedlings, reduced caffeic acid (2.5-fold decrease), and increased levels of all other shikimate pathway–related compounds assessed: phenylalanine (2.9-fold increase), tyrosine (2.6-fold increase), and shikimic (2.1-fold increase) and protocathecuic (3.1-fold increase) acids in cotyledons. Our results suggest that maize seed cryopreservation results in seedlings that exhibit signs of an ‘overly’ efficient and caffeic acid–deficient shikimate pathway, possibly related to their reduced growth during a highly vulnerable growth stage. However, these metabolic abnormalities manifested most severely in the maternal (cotyledonary), as opposed to vegetative (roots, stems, and leaves), tissues and hence are likely to disappear when the seedlings shed the cotyledons and become completely autotrophic.

     

Oligopeptidase B-dependent signaling mediates host cell invasion by Trypanosoma cruzi.

Mammalian cell invasion by the intracellular protozoan parasite Trypanosoma cruzi is mediated by recruitment and fusion of host cell lysosomes, an unusual process that has been proposed to be dependent on the ability of parasites to trigger intracellular free calcium concentration ([Ca2+]i) transients in host cells. Previous work implicated the T.cruzi serine hydrolase oligopeptidase B in the generation of Ca2+-signaling activity in parasite extracts. Here we show that deletion of the gene encoding oligopeptidase B results in a marked defect in host cell invasion and in the establishment of infections in mice. The invasion defect is associated with the inability of oligopeptidase B null mutant trypomastigotes to mobilize Ca2+ from thapsigargin-sensitive stores in mammalian cells. Exogenous recombinant oligopeptidase B reconstitutes the oligopeptidase B-dependent Ca2+ signaling activity in null mutant parasite extracts, demonstrating that this enzyme is responsible for the generation of a signaling agonist for mammalian cells.     

Bt: mode of action and use

The insecticidal toxins from Bacillus thuringiensis (Bt) represent a class of biopesticides that are attractive alternatives to broad-spectrum "hard" chemistries. The U.S. Food Quality Protection Act and the European Economic Council directives aimed at reducing the use of carbamate and organophosphate insecticides were expected to increase the use of narrowly targeted, "soft" compounds like Bt. Here we summarize the unique mode of action of Bt, which contributes to pest selectivity. We also review the patterns of Bt use in general agriculture and in specific niche markets. Despite continued predictions of dramatic growth for biopesticides due to US Food Quality Protection Act-induced cancellations of older insecticides, Bt use has remained relatively constant, even in niche markets where Bt has traditionally been relatively high.