Changes in diet and trophic position of a top predator 10 years after a mass mortality of a key prey

After the disappearance of primary prey, seabirds exhibit gradually decreased breeding performance, and eventually the population size drops. Results are presented of an investigation into the diet of little penguins (Eudyptula minor) at Phillip Island, Australia, during a period when their key prey, pilchard (Sardinops sagax), declined dramatically. Data from stomach flushing (1982-2006) were used, supported by stable isotope (δ 15N, δ13C) analyses of blood samples (2003, 2004, and 2006). The effect of the pilchard mortality on penguin diet was immediate, the birds shifting to a diet almost devoid of pilchard, and this was followed by 2 years of low breeding success, with considerably fewer penguins coming ashore. During periods when pilchard was not part of the diet, penguins consumed prey of a higher trophic level, e.g. higher values of δ15N. Variability in penguin blood δ15N coincided with years of low prey diversity. The disappearance of pilchard resulted in a decrease in prey diversity and led penguins to >fish up> the foodweb, possibly because of the simplified trophic structure. After 1998, however, breeding success re-attained average levels and the numbers of penguins coming ashore increased, probably because of increased abundance of prey other than pilchard after a 3-year period of food scarcity. Although little penguins apparently compensated over time, a less-flexible diet could make them ultimately vulnerable to further changes in their foodweb. © 2010 International Council for the Exploration of the Sea.Peer Reviewe

Reducing uncertainties in greenhouse gas emissions from chemical production

Uncertainties in greenhouse gas emissions estimates for petrochemical production have lacked quantification globally, impacting emissions reporting and decarbonization policymaking. Here we analyze cradle-to-gate emissions of 81 chemicals at 37,000 facilities worldwide, assessing 6 uncertainty sources. The results estimate a 34% uncertainty in total global emissions of 1.9 ± 0.6 Gt of CO2-equivalent emissions for 2020, and 15–40% uncertainties across most petrochemicals analyzed. The largest uncertainties stem from the inability to assign specific production processes to facilities owing to data limitations. Uncertain data on feedstock production and off-site energy generation contribute substantially, while on-site fuel combustion and chemical reactions have smaller roles. Allocation method choices for co-products are generally insignificant. Prioritizing facility-level process specification in data collection for just 20% of facilities could reduce global uncertainty by 80%. This underscores the necessity of quantifying uncertainty in petrochemical greenhouse gas emissions globally and outlines priorities for improved reporting. The dataset generated offers independent emissions factor estimates based on facility-specific information for 81 chemicals, supporting future analyses

Mapping material use and embodied carbon in UK construction

The latest available high-level top-down analysis shows that the embodied carbon of the UK construction in 2018 was 43 MtCO2e, of which 80% came from materials and on-site activities. In this paper, for the first time, we combine a detailed bottom-up model of representative residential and non-residential buildings with top-down infrastructure and other material consumption data to quantify the material use and embodied carbon in UK construction. We found that almost 100 Mt of materials were used with an embodied carbon of 25 Mt CO2e. Half of these emissions were from concrete. We found that existing top-down approaches underestimate emissions by up to 20%. We developed a benchmark for UK building typologies and explore interventions to achieve the UK's carbon reduction goals. We found that conversion from non-domestic to domestic purposes can bring 34% embodied carbon savings of the construction total, 30% by avoiding demolition, 20% by switching to the most material and carbon efficient technology options and by 10% if all new houses were multi-storey buildings. We have shown that the bottom-up approach allows identifying areas with high potential for decarbionisation. Due to the flexibility of the model, it can be successfully used in other countries and regions

Altered methylation of specific DNA loci in the liver of Bhmt-null mice results in repression of Iqgap2 and F2rl2 and is associated with development of preneoplastic foci

Folate B12-dependent remethylation of homocysteine is important, but less is understood about the importance of the alternative betaine-dependent methylation pathway - catalyzed by betaine-homocysteine methyltransferase (BHMT) - for establishing and maintaining adequate DNA methylation across the genome. We studied C57Bl/6J Bhmt (betaine-homocysteine methyltransferase)-null mice at age 4, 12, 24, and 52 wk (N = 8) and observed elevation of S-adenosylhomocysteine concentrations and development of preneoplastic foci in the liver (increased placental glutathione S-transferase and cytokeratin 8-18 activity; starting at 12 wk). At 4 wk, we identified 63 differentially methylated CpGs (DMCs; false discovery rate < 5%) proximal to 81 genes (across 14 chromosomes), of which 18 were differentially expressed. Of these DMCs, 52% were located in one 15.5-Mb locus on chromosome 13, which encompassed the Bhmt gene and defined a potentially sensitive region with mostly decreased methylation. Analyzing Hybrid Mouse Diversity Panel data, which consisted of 100 inbred strains of mice, weidentified 97DMCs that were affected by Bhmt genetic variation in the same region, with 7 overlapping those found in Bhmt-null mice (P < 0.001). At all time points, we found a hypomethylated region mapping to Iqgap2 (IQ motif-containing GTPase activating protein 2) and F2rl2 (proteinase-activated receptor-3), 2 genes that were also silenced and under expressed, respectively

Therapeutic vaccination of woodchucks against chronic woodchuck hepatitis virus infection

BACKGROUND/AIMS: Therapeutic vaccination is a new approach to treat patients with chronic hepatitis B virus infection. We have used the woodchuck model to examine the efficacy and safety of this approach. METHODS: Seven woodchucks chronically infected with woodchuck hepatitis virus were immunized with surface antigen from this virus, purified from plasma, in conjunction with a peptide named FIS (encompassing amino acids 106-118: FISEAIIHVLHSR from sperm whale myoglobin), which is recognized by T helper lymphocytes. As controls, two woodchucks chronically infected with woodchuck hepatitis virus were immunized: one with FIS only and the other with surface antigen only. RESULTS: Co-immunization with surface antigen and FIS, but not with FIS or surface antigen alone, induced anti-surface antibodies in 7/7 immunized woodchucks. In the two woodchucks in which the highest titer of anti-surface antibody was elicited, severe liver damage was observed: one died of fulminant hepatitis and the other became seriously ill with hepatic injury and had to be sacrificed. CONCLUSIONS: Co-immunization of chronically infected woodchucks with surface antigen and a peptide recognized by T helper cells produces a good anti-surface antibody response. However, this strategy needs to be optimized before its implementation in humans. Although our experiments are not strictly comparable to vaccination of chronically hepatitis B virus-infected patients with recombinant or plasma-derived vaccines, we believe that precautions should be taken to avoid the risk of severe liver injury when immunizing hepatitis B virus carriers

False negatives in GBA1 sequencing due to polymerase dependent allelic imbalance

A variant in the GBA1 gene is one of the most common genetic risk factors to develop Parkinson's disease (PD). Here the serendipitous finding is reported of a polymerase dependent allelic imbalance when using next generation sequencing, potentially resulting in false-negative results when the allele frequency falls below the variant calling threshold (by default commonly at 30%). The full GBA1 gene was sequenced using next generation sequencing on saliva derived DNA from PD patients. Four polymerase chain reaction conditions were varied in twelve samples, to investigate the effect on allelic imbalance: (1) the primers (n=4); (2) the polymerase enzymes (n=2); (3) the primer annealing temperature (T-a) specified for the used polymerase; and (4) the amount of DNA input. Initially, 1295 samples were sequenced using Q5 High-Fidelity DNA Polymerase. 112 samples (8.6%) had an exonic variant and an additional 104 samples (8.0%) had an exonic variant that did not pass the variant frequency calling threshold of 30%. After changing the polymerase to TaKaRa LA Taq DNA Polymerase Hot-Start Version: RR042B, all samples had an allele frequency passing the calling threshold. Allele frequency was unaffected by a change in primer, annealing temperature or amount of DNA input. Sequencing of the GBA1 gene using next generation sequencing might be susceptible to a polymerase specific allelic imbalance, which can result in a large amount of flase-negative results. This was resolved in our case by changing the polymerase. Regions displaying low variant calling frequencies in GBA1 sequencing output in previous and future studies might warrant additional scrutiny.Perioperative Medicine: Efficacy, Safety and Outcome (Anesthesiology/Intensive Care

Gallbladder microbiota in healthy dogs and dogs with mucocele formation

To date studies have not investigated the culture-independent microbiome of bile from dogs, a species where aseptic collection of bile under ultrasound guidance is somewhat routine. Despite frequent collection of bile for culture-based diagnosis of bacterial cholecystitis, it is unknown whether bile from healthy dogs harbors uncultivable bacteria or a core microbiota. The answer to this question is critical to understanding the pathogenesis of biliary infection and as a baseline to exploration of other biliary diseases in dogs where uncultivable bacteria could play a pathogenic role. A pressing example of such a disease would be gallbladder mucocele formation in dogs. This prevalent and deadly condition is characterized by excessive secretion of abnormal mucus by the gallbladder epithelium that can eventually lead to rupture of the gallbladder or obstruction of bile flow. The cause of mucocele formation is unknown as is whether uncultivable, and therefore unrecognized, bacteria play any systematic role in pathogenesis. In this study we applied next-generation 16S rRNA gene sequencing to identify the culture-negative bacterial community of gallbladder bile from healthy dogs and gallbladder mucus from dogs with mucocele formation. Integral to our study was the use of 2 separate DNA isolations on each sample using different extraction methods and sequencing of negative control samples enabling recognition and curation of contaminating sequences. Microbiota findings were validated by simultaneous culture-based identification, cytological examination of bile, and fluorescence in-situ hybridization (FISH) performed on gallbladder mucosa. Using culture-dependent, cytological, FISH, and 16S rRNA sequencing approaches, results of our study do not support existence of a core microbiome in the bile of healthy dogs or gallbladder mucus from dogs with mucocele formation. Our findings further document how contaminating sequences can significantly contribute to the results of sequencing analysis when performed on samples with low bacterial biomass

Probing Sub-Micron Forces by Interferometry of Bose-Einstein Condensed Atoms

We propose a technique, using interferometry of Bose-Einstein condensed alkali atoms, for the detection of sub-micron-range forces. It may extend present searches at 1 micron by 6 to 9 orders of magnitude, deep into the theoretically interesting regime of 1000 times gravity. We give several examples of both four-dimensional particles (moduli), as well as higher-dimensional particles -- vectors and scalars in a large bulk-- that could mediate forces accessible by this technique.Comment: 32 pages, 5 figures, RevTeX4, expanded discussion of interactions, references added, to appear in PR

Stripes and holes in a two-dimensional model of spinless fermions and hardcore bosons

We consider a Hubbard-like model of strongly-interacting spinless fermions and hardcore bosons on a square lattice, such that nearest neighbor occupation is forbidden. Stripes (lines of holes across the lattice forming antiphase walls between ordered domains) are a favorable way to dope this system below half-filling. The problem of a single stripe can be mapped to a spin-1/2 chain, which allows understanding of its elementary excitations and calculation of the stripe's effective mass for transverse vibrations. Using Lanczos exact diagonalization, we investigate the excitation gap and dispersion of a hole on a stripe, and the interaction of two holes. We also study the interaction of two, three, and four stripes, finding that they repel, and the interaction energy decays with stripe separation as if they are hardcore particles moving in one (transverse) direction. To determine the stability of an array of stripes against phase separation into particle-rich phase and hole-rich liquid, we evaluate the liquid's equation of state, finding the stripe-array is not stable for bosons but is possibly stable for fermions.Comment: 24 pages, 18 figure

Cosmology of Brane Models with Radion Stabilization

We analyze the cosmology of the Randall-Sundrum model and that of compact brane models in general in the presence of a radius stabilization mechanism. We find that the expansion of our universe is generically in agreement with the expected effective four dimensional description. The constraint (which is responsible for the appearance of non-conventional cosmologies in these models) that must be imposed on the matter densities on the two branes in the theory without a stabilized radius is a consequence of requiring a static solution even in the absence of stabilization. Such constraints disappear in the presence of a stablizing potential, and the ordinary FRW (Friedmann-Robertson-Walker) equations are reproduced, with the expansion driven by the sum of the physical values of the energy densities on the two branes and in the bulk. For the case of the Randall-Sundrum model we examine the kinematics of the radion field, and find that corrections to the standard FRW equations are small for temperatures below the weak scale. We find that the radion field has renormalizable and unsuppressed couplings to Standard Model particles after electroweak symmetry breaking. These couplings may have important implications for collider searches. We comment on the possibility that matter off the TeV brane could serve as a dark matter candidate.Comment: 35 pages, Late