Peroxide Content of Secondary Organic Aerosol

Secondary organic aerosol (SOA) formed from the oxidation of monoterpenes can impact the Earth’s radiation balance, act as cloud condensation nuclei and negatively affect human health. In the summer of 2015, the Secondary Organic Aerosol From Forest Emission Experiment (SOAFFEE) laboratory campaign was launched in order to study the physical properties of SOA generated from the oxidation of α−pinene and Δ-carene. Both compounds are gas-phase monoterpenes emitted into the atmosphere via biogenic sources. In this study, the peroxide content of SOA was determined using an iodometricspectrophotometric (IS) technique. It was found that the peroxide content of SOA generated during the SOAFFEE campaign was similar to that found in previous studies

Determination of Total Peroxide Content in Secondary Organic Aerosol Particles

Secondary organic aerosol particles (SOA) formed from the oxidation of monoterpenes can impact the Earth’s radiation balance, act as cloud condensation nuclei and negatively affect human health. In the initial Visiting Faculty Program application, we proposed the use of an ultraviolet-visible spectrometer equipped with a liquid waveguide capillary flow cell to determine the extent to which SOA absorb visible light. The inclusion of Concordia University in the Secondary Organic Aerosol From Forest Emissions Experiment (SOAFFEE) laboratory campaign at PNNL necessitated a change in the proposed experiments. An iodometric-spectrophotometric (IS) technique was developed to quantify the total peroxide content in SOA. The experimental technique was validated by measuring the peroxide content in commercially available products. After the validation of the experimental technique, the total peroxide content of SOA formed from a variety of experimental conditions was quantified. It was found that the amount of peroxides in the SOA generated at PNNL was similar to that found in previous research studies. The research carried out at PNNL will be included in an undergraduate senior thesis at Concordia University - Portland (CU). It is also expected that the research will be included in peer-reviewed journal articles. It is our hope that the success of our work will result in future collaborations between PNNL and CU

Determination of the Optical Properties of Secondary Organic Aerosol Particles

The enhanced greenhouse effect is currently considered to be our most important global environmental problem. While the magnitude of radiation absorbed by greenhouse gases is known to a high certainty, the absorption of radiation by atmospheric aerosol particles is not. In the initial Visiting Faculty Program application, we proposed the use of an ultraviolet-visible (UV/Vis) spectrometer equipped with a liquid waveguide capillary flow cell to determine the extent to which secondary organic aerosol particles (SOA) absorb visible light. Early in the research period, the UV/Vis technique was optimized for three solvent systems (methanol, water and 0.1 M hydrochloric acid). Using the optimized UV/Vis technique optical properties such as mass specific absorption cross-section and imaginary refractive index were determined for SOA dissolved in different solvent systems. The end result of the UV/Vis studies is the inclusion of SOA optical properties into climate models developed at the Pacific Northwest National Laboratory (PNNL). This knowledge will help to improve climate models, which currently do not include the effect of SOA. We also utilized Fourier Transform Infrared Spectroscopy to help elucidate the chemical composition of SOA. Finally, an experimental method was developed to determine the peroxide content of SOA. It is expected that these studies will connect the chemical composition of SOA to their optical properties. The research carried out at PNNL will be included in two undergraduate senior theses at Concordia University - Portland (CU). It is also expected that this research will be included in a peer-reviewed journal article. It is our hope that success of our work will result in future collaborations between PNNL and CU students

Exactly Sparse Extended Information Filters for Feature-Based SLAM

Recent research concerning the Gaussian canonical form for Simultaneous Localization and Mapping (SLAM) has given rise to a handful of algorithms that attempt to solve the SLAM scalability problem for arbitrarily large environments. One such estimator that has received due attention is the Sparse Extended Information Filter (SEIF) proposed by Thrun et al., which is reported to be nearly constant time, irrespective of the size of the map. The key to the SEIF's scalability is to prune weak links in what is a dense information (inverse covariance) matrix to achieve a sparse approximation that allows for efficient, scalable SLAM. We demonstrate that the SEIF sparsification strategy yields error estimates that are overconfident when expressed in the global reference frame, while empirical results show that relative map consistency is maintained. In this paper, we propose an alternative scalable estimator based on an information form that maintains sparsity while preserving consistency. The paper describes a method for controlling the population of the information matrix, whereby we track a modified version of the SLAM posterior, essentially by ignoring a small fraction of temporal measurements. In this manner, the Exactly Sparse Extended Information Filter (ESEIF) performs inference over a model that is conservative relative to the standard Gaussian distribution. We compare our algorithm to the SEIF and standard EKF both in simulation as well as on two nonlinear datasets. The results convincingly show that our method yields conservative estimates for the robot pose and map that are nearly identical to those of the EKF.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/86031/1/mwalter-22.pd

Sparse Extended Information Filters: Insights into Sparsification

Recently, there have been a number of variant Simultaneous Localization and Mapping (SLAM) algorithms that have made substantial progress towards large-area scalability by parameterizing the SLAM posterior within the information (canonical/inverse covariance) form. Of these, probably the most well-known and popular approach is the Sparse Extended Information Filter (SEIF) by Thrun et al. While SEIFs have been successfully implemented with a variety of challenging real-world datasets and have led to new insights into scalable SLAM, open research questions remain regarding the approximate sparsification procedure and its effect on map error consistency. In this paper, we examine the constant-time SEIF sparsification procedure in depth and offer new insight into issues of consistency. In particular, we show that exaggerated map inconsistency occurs within the global reference frame where estimation is performed, but that empirical testing shows that relative local map relationships are preserved. We then present a slightly modified version of their sparsification procedure, which is shown to preserve sparsity while also generating both local and global map estimates comparable to those obtained by the non-sparsified SLAM filter. While this modified approximation is no longer constant-time, it does serve as a theoretical benchmark against which to compare SEIFs constant-time results. We demonstrate our findings by benchmark comparison of the modified and original SEIF sparsification rule using simulation in the linear Gaussian SLAM case and real-world experiments for a nonlinear dataset.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/86045/1/reustice-31.pd

Synthetic and Evolutionary Construction of a Chlorate-Reducing Shewanella oneidensis MR-1.

UnlabelledDespite evidence for the prevalence of horizontal gene transfer of respiratory genes, little is known about how pathways functionally integrate within new hosts. One example of a mobile respiratory metabolism is bacterial chlorate reduction, which is frequently encoded on composite transposons. This implies that the essential components of the metabolism are encoded on these mobile elements. To test this, we heterologously expressed genes for chlorate reduction from Shewanella algae ACDC in the non-chlorate-reducing Shewanella oneidensis MR-1. The construct that ultimately endowed robust growth on chlorate included cld, a cytochrome c gene, clrABDC, and two genes of unknown function. Although strain MR-1 was unable to grow on chlorate after initial insertion of these genes into the chromosome, 11 derived strains capable of chlorate respiration were obtained through adaptive evolution. Genome resequencing indicated that all of the evolved chlorate-reducing strains replicated a large genomic region containing chlorate reduction genes. Contraction in copy number and loss of the ability to reduce chlorate were also observed, indicating that this phenomenon was extremely dynamic. Although most strains contained more than six copies of the replicated region, a single strain with less duplication also grew rapidly. This strain contained three additional mutations that we hypothesized compensated for the low copy number. We remade the mutations combinatorially in the unevolved strain and determined that a single nucleotide polymorphism (SNP) upstream of cld enabled growth on chlorate and was epistatic to a second base pair change in the NarP binding sequence between narQP and nrfA that enhanced growth.ImportanceThe ability of chlorate reduction composite transposons to form functional metabolisms after transfer to a new host is an important part of their propagation. To study this phenomenon, we engineered Shewanella oneidensis MR-1 into a chlorate reducer. We defined a set of genes sufficient to endow growth on chlorate from a plasmid, but found that chromosomal insertion of these genes was nonfunctional. Evolution of this inoperative strain into a chlorate reducer showed that tandem duplication was a dominant mechanism of activation. While copy number changes are a relatively rapid way of increasing gene dosage, replicating almost 1 megabase of extra DNA is costly. Mutations that alleviate the need for high copy number are expected to arise and eventually predominate, and we identified a single nucleotide polymorphism (SNP) that relieved the copy number requirement. This study uses both rational and evolutionary approaches to gain insight into the evolution of a fascinating respiratory metabolism

Concordance of copy number abnormality detection using SNP arrays and Multiplex Ligation-dependent Probe Amplification (MLPA) in acute lymphoblastic leukaemia

In acute lymphoblastic leukaemia, MLPA has been used in research studies to identify clinically relevant copy number abnormality (CNA) profiles. However, in diagnostic settings other techniques are often employed. We assess whether equivalent CNA profiles are called using SNP arrays, ensuring platform independence. We demonstrate concordance between SNP6.0 and MLPA CNA calling on 143 leukaemia samples from two UK trials; comparing 1,287 calls within eight genes and a region. The techniques are 99% concordant using manually augmented calling, and 98% concordant using an automated pipeline. We classify these discordant calls and examine reasons for discordance. In nine cases the circular binary segmentation (CBS) algorithm failed to detect focal abnormalities or those flanking gaps in IKZF1 probe coverage. Eight cases were discordant due to probe design differences, with focal abnormalities detectable using one technique not observable by the other. Risk classification using manually augmented array calling resulted in four out of 143 patients being assigned to a different CNA risk group and eight patients using the automated pipeline. We conclude that MLPA defined CNA profiles can be accurately mirrored by SNP6.0 or similar array platforms. Automated calling using the CBS algorithm proved successful, except for IKZF1 which should be manually inspected

Drug-tolerant persister cancer cells are vulnerable to GPX4 inhibition.

Acquired drug resistance prevents cancer therapies from achieving stable and complete responses. Emerging evidence implicates a key role for non-mutational drug resistance mechanisms underlying the survival of residual cancer 'persister' cells. The persister cell pool constitutes a reservoir from which drug-resistant tumours may emerge. Targeting persister cells therefore presents a therapeutic opportunity to impede tumour relapse. We previously found that cancer cells in a high mesenchymal therapy-resistant cell state are dependent on the lipid hydroperoxidase GPX4 for survival. Here we show that a similar therapy-resistant cell state underlies the behaviour of persister cells derived from a wide range of cancers and drug treatments. Consequently, we demonstrate that persister cells acquire a dependency on GPX4. Loss of GPX4 function results in selective persister cell ferroptotic death in vitro and prevents tumour relapse in mice. These findings suggest that targeting of GPX4 may represent a therapeutic strategy to prevent acquired drug resistance

Investigation on mechanical and thermal properties of 3D-printed polyamide 6, graphene oxide and glass-fibre-reinforced composites under dry, wet and high temperature conditions.

This study is focused on 3D printing of polyamide 6 (PA6), PA6/graphene oxide (PA6/GO) and PA6/glass-fibre-reinforced (PA6/GF) composites. The effect of graphene oxide and glass-fibre reinforcement on 3D-printed PA6 is explored for improvement of the interfacial bond and interlaminar strength in ambient, wet and high temperature conditions relating to electric car battery box requirements. The influence of environmental conditions and process parameters on the 3D printed polymer composites quality is also examined. Commercial PA6 filament was modified with GO to investigate the thermal and mechanical properties. The modified composites were melt-compounded using a twin-feed extruder to produce an improved 3D-printing filament. The improved filaments were then used to 3D-print test samples for tensile and compression mechanical testing using universal testing machines and thermal characterisation was performed following condition treatment in high temperature and water for correlation to dry/ambient samples. The study results show the studied materials were mostly suitable in dry/ambient conditions. PA6/GF samples demonstrated the highest strength of all three samples in ambient and high-temperature conditions, but the least strength in wet conditions due to osmotic pressure at the fibre/matrix interface that led to fibre breakage. The introduction of 0.1% GO improved the tensile strength by 33%, 11% and 23% in dry/ambient, dry/high temperature and wet/ambient conditions, respectively. The wet PA6/GO samples demonstrated the least strength in comparison to the ambient and high temperature conditions. Notwithstanding this, PA6/GO exhibited the highest tensile strength in the wet condition, making it the most suitable for a high-strength, water-exposed engineering application