Effects of bark beetle outbreaks on forest landscape pattern in the southern rocky mountains, U.S.A.

Since the late 1990s, extensive outbreaks of native bark beetles (Curculionidae: Scolytinae) have affected coniferous forests throughout Europe and North America, driving changes in carbon storage, wildlife habitat, nutrient cycling, and water resource provisioning. Remote sensing is a cru-cial tool for quantifying the effects of these disturbances across broad landscapes. In particular, Landsat time series (LTS) are increasingly used to characterize outbreak dynamics, including the presence and severity of bark beetle-caused tree mortality, though broad-scale LTS-based maps are rarely informed by detailed field validation. Here we used spatial and temporal information from LTS products, in combination with extensive field data and Random Forest (RF) models, to develop 30-m maps of the presence (i.e., any occurrence) and severity (i.e., cumulative percent basal area mortality) of beetle-caused tree mortality 1997–2019 in subalpine forests throughout the Southern Rocky Mountains, USA. Using resultant maps, we also quantified spatial patterns of cumulative tree mortality throughout the region, an important yet poorly understood concept in beetle-affected forests. RF models using LTS products to predict presence and severity performed well, with 80.3% correctly classified (Kappa = 0.61) and R2 = 0.68 (RMSE = 17.3), respectively. We found that ≥10,256 km2 of subalpine forest area (39.5% of the study area) was affected by bark beetles and 19.3% of the study area experienced ≥70% tree mortality over the twenty-three year period. Variograms indi-cated that severity was autocorrelated at scales \u3c 250 km. Interestingly, cumulative patch-size dis-tributions showed that areas with a near-total loss of the overstory canopy (i.e., ≥90% mortality) were relatively small (\u3c0.24 km2) and isolated throughout the study area. Our findings help to in-form an understanding of the variable effects of bark beetle outbreaks across complex forested regions and provide insight into patterns of disturbance legacies, landscape connectivity, and susceptibility to future disturbance

Galaxy Zoo: comparing the demographics of spiral arm number and a new method for correcting redshift bias

The majority of galaxies in the local Universe exhibit spiral structure with a variety of forms. Many galaxies possess two prominent spiral arms, some have more, while others display a many-armed flocculent appearance. Spiral arms are associated with enhanced gas content and star formation in the discs of low-redshift galaxies, so are important in the understanding of star formation in the local universe. As both the visual appearance of spiral structure, and the mechanisms responsible for it vary from galaxy to galaxy, a reliable method for defining spiral samples with different visual morphologies is required. In this paper, we develop a new debiasing method to reliably correct for redshift-dependent bias in Galaxy Zoo 2, and release the new set of debiased classifications. Using these, a luminosity-limited sample of ∼18 000 Sloan Digital Sky Survey spiral galaxies is defined, which are then further sub-categorized by spiral arm number. In order to explore how different spiral galaxies form, the demographics of spiral galaxies with different spiral arm numbers are compared. It is found that whilst all spiral galaxies occupy similar ranges of stellar mass and environment, many-armed galaxies display much bluer colours than their two-armed counterparts. We conclude that two-armed structure is ubiquitous in star-forming discs, whereas many-armed spiral structure appears to be a short-lived phase, associated with more recent, stochastic star-formation activity

Application of Newtonian physics to predict the speed of a gravity racer

Gravity racing can be studied using numerical solutions to the equations of motion derived from Newton’s second law. This allows students to explore the physics of gravity racing and to understand how design and course selection influences vehicle speed. Using Euler’s method, we have developed a spreadsheet application that can be used to predict the speed of a gravity powered vehicle. The application includes the effects of air and rolling resistance. Examples of the use of the application for designing a gravity racer are presented and discussed. Predicted speeds are compared to the results of an official world record attempt

Outer-Sphere Contributions to the Electronic Structure of Type Zero Copper Proteins

Bioinorganic canon states that active-site thiolate coordination promotes rapid electron transfer (ET) to and from type 1 copper proteins. In recent work, we have found that copper ET sites in proteins also can be constructed without thiolate ligation (called “type zero” sites). Here we report multifrequency electron paramagnetic resonance (EPR), magnetic circular dichroism (MCD), and nuclear magnetic resonance (NMR) spectroscopic data together with density functional theory (DFT) and spectroscopy-oriented configuration interaction (SORCI) calculations for type zero Pseudomonas aeruginosa azurin variants. Wild-type (type 1) and type zero copper centers experience virtually identical ligand fields. Moreover, O-donor covalency is enhanced in type zero centers relative that in the C112D (type 2) protein. At the same time, N-donor covalency is reduced in a similar fashion to type 1 centers. QM/MM and SORCI calculations show that the electronic structures of type zero and type 2 are intimately linked to the orientation and coordination mode of the carboxylate ligand, which in turn is influenced by outer-sphere hydrogen bonding

Galaxy Zoo: morphological classifications for 120 000 galaxies in HST legacy imaging

We present the data release paper for the Galaxy Zoo: Hubble (GZH) project. This is the third phase in a large effort to measure reliable, detailed morphologies of galaxies by using crowdsourced visual classifications of colour-composite images. Images in GZH were selected from various publicly released Hubble Space Telescope legacy programmes conducted with the Advanced Camera for Surveys, with filters that probe the rest-frame optical emission from galaxies out to z ∼ 1. The bulk of the sample is selected to have mI814W < 23.5, but goes as faint as mI814W < 26.8 for deep images combined over five epochs. The median redshift of the combined samples is 〈z〉 = 0.9 ± 0.6, with a tail extending out to z ≃ 4. The GZH morphological data include measurements of both bulge- and disc-dominated galaxies, details on spiral disc structure that relate to the Hubble type, bar identification, and numerous measurements of clump identification and geometry. This paper also describes a new method for calibrating morphologies for galaxies of different luminosities and at different redshifts by using artificially redshifted galaxy images as a baseline. The GZH catalogue contains both raw and calibrated morphological vote fractions for 119 849 galaxies, providing the largest data set to date suitable for large-scale studies of galaxy evolution out to z ∼ 1

Combinatorial CRISPR-Cas9 screens for de novo mapping of genetic interactions.

We developed a systematic approach to map human genetic networks by combinatorial CRISPR-Cas9 perturbations coupled to robust analysis of growth kinetics. We targeted all pairs of 73 cancer genes with dual guide RNAs in three cell lines, comprising 141,912 tests of interaction. Numerous therapeutically relevant interactions were identified, and these patterns replicated with combinatorial drugs at 75% precision. From these results, we anticipate that cellular context will be critical to synthetic-lethal therapies

Immunization with Cocktail of HIV-Derived Peptides in Montanide ISA-51 Is Immunogenic, but Causes Sterile Abscesses and Unacceptable Reactogenicity

BACKGROUND: A peptide vaccine was produced containing B and T cell epitopes from the V3 and C4 Envelope domains of 4 subtype B HIV-1 isolates (MN, RF, CanO, & Ev91). The peptide mixture was formulated as an emulsion in incomplete Freund's adjuvant (IFA). METHODS: Low-risk, healthy adult subjects were enrolled in a randomized, placebo-controlled dose-escalation study, and selected using criteria specifying that 50% in each study group would be HLA-B7+. Immunizations were scheduled at 0, 1, and 6 months using a total peptide dose of 1 or 4 mg. Adaptive immune responses in16 vaccine recipients and two placebo recipients after the 2nd immunization were evaluated using neutralization assays of sera, as well as ELISpot and ICS assays of cryopreserved PBMCs to assess CD4 and CD8 T-cell responses. In addition, (51)Cr release assays were performed on fresh PBMCs following 14-day stimulation with individual vaccine peptide antigens. RESULTS: 24 subjects were enrolled; 18 completed 2 injections. The study was prematurely terminated because 4 vaccinees developed prolonged pain and sterile abscess formation at the injection site-2 after dose 1, and 2 after dose 2. Two other subjects experienced severe systemic reactions consisting of headache, chills, nausea, and myalgia. Both reactions occurred after the second 4 mg dose. The immunogenicity assessments showed that 6/8 vaccinees at each dose level had detectable MN-specific neutralizing (NT) activity, and 2/7 HLA-B7+ vaccinees had classical CD8 CTL activity detected. However, using both ELISpot and ICS, 8/16 vaccinees (5/7 HLA-B7+) and 0/2 controls had detectable vaccine-specific CD8 T-cell responses. Subjects with moderate or severe systemic or local reactions tended to have more frequent T cell responses and higher antibody responses than those with mild or no reactions. CONCLUSIONS: The severity of local responses related to the formulation of these four peptides in IFA is clinically unacceptable for continued development. Both HIV-specific antibody and T cell responses were induced and the magnitude of response correlated with the severity of local and systemic reactions. If potent adjuvants are necessary for subunit vaccines to induce broad and durable immune responses, careful, incremental clinical evaluation is warranted to minimize the risk of adverse events. TRIAL REGISTRATION: ClinicalTrials.gov NCT00000886

Phenotypic screen for oxygen consumption rate identifies an anti-cancer naphthoquinone that induces mitochondrial oxidative stress.

A hallmark of cancer cells is their ability to reprogram nutrient metabolism. Thus, disruption to this phenotype is a potential avenue for anti-cancer therapy. Herein we used a phenotypic chemical library screening approach to identify molecules that disrupted nutrient metabolism (by increasing cellular oxygen consumption rate) and were toxic to cancer cells. From this screen we discovered a 1,4-Naphthoquinone (referred to as BH10) that is toxic to a broad range of cancer cell types. BH10 has improved cancer-selective toxicity compared to doxorubicin, 17-AAG, vitamin K3, and other known anti-cancer quinones. BH10 increases glucose oxidation via both mitochondrial and pentose phosphate pathways, decreases glycolysis, lowers GSH:GSSG and NAPDH/NAPD+ ratios exclusively in cancer cells, and induces necrosis. BH10 targets mitochondrial redox defence as evidenced by increased mitochondrial peroxiredoxin 3 oxidation and decreased mitochondrial aconitase activity, without changes in markers of cytosolic or nuclear damage. Over-expression of mitochondria-targeted catalase protects cells from BH10-mediated toxicity, while the thioredoxin reductase inhibitor auranofin synergistically enhances BH10-induced peroxiredoxin 3 oxidation and cytotoxicity. Overall, BH10 represents a 1,4-Naphthoquinone with an improved cancer-selective cytotoxicity profile via its mitochondrial specificity

Best practices for using drones in seabird monitoring and research

Over the past decade, drones have become increasingly popular in environmental biology and have been used to study wildlife on all continents. Drones have become of global importance for surveying breeding seabirds by providing opportunities to transform monitoring techniques and allow new research on some of the most threatened birds. However, such fast-changing and increasingly available technology presents challenges to regulators responding to requests to carry out surveys and to researchers ensuring their work follows best practice and meets legal and ethical standards. Following a workshop convened at the 14th International Seabird Group Conference and a subsequent literature search, we collate information from over 100 studies and present a framework to ensure drone-seabird surveys are safe, effective, and within the law. The framework comprises eight steps: (1) Objectives and Feasibility; (2) Technology and Training; (3) Site Assessment and Permission; (4) Disturbance Mitigation; (5) Pre-deployment Checks; (6) Flying; (7) Data Handling and Analysis; and (8) Reporting. The audience is wide-ranging with sections having relevance for different users, including prospective and experienced drone-seabird pilots, landowners, and licensors. Regulations vary between countries and are frequently changing, but common principles exist. Taking-off, landing, and conducting in-flight changes in altitude and speed at ≥ 50 m from the study area, and flying at ≥ 50 m above ground-nesting seabirds/horizontal distance from vertical colonies, should have limited disturbance impact on many seabird species; however, surveys should stop if disturbance occurs. Compared to automated methods, manual or semi-automated image analyses are, at present, more suitable for infrequent drone surveys and surveys of relatively small colonies. When deciding if drone-seabird surveys are an appropriate monitoring method long-term, the cost, risks, and results obtained should be compared to traditional field monitoring where possible. Accurate and timely reporting of surveys is essential to developing adaptive guidelines for this increasingly common technology

Best practices for using drones in seabird monitoring and research

Over the past decade, drones have become increasingly popular in environmental biology and have been used to study wildlife on all continents. Drones have become of global importance for surveying breeding seabirds by providing opportunities to transform monitoring techniques and allow new research on some of the most threatened birds. However, such fast-changing and increasingly available technology presents challenges to regulators responding to requests to carry out surveys and to researchers ensuring their work follows best practice and meets legal and ethical standards. Following a workshop convened at the 14th International Seabird Group Conference and a subsequent literature search, we collate information from over 100 studies and present a framework to ensure drone-seabird surveys are safe, effective, and within the law. The framework comprises eight steps: (1) Objectives and Feasibility; (2) Technology and Training; (3) Site Assessment and Permission; (4) Disturbance Mitigation; (5) Pre-deployment Checks; (6) Flying; (7) Data Handling and Analysis; and (8) Reporting. The audience is wide-ranging with sections having relevance for different users, including prospective and experienced drone-seabird pilots, landowners, and licensors. Regulations vary between countries and are frequently changing, but common principles exist. Taking-off, landing, and conducting in-flight changes in altitude and speed at ≥ 50 m from the study area, and flying at ≥ 50 m above ground-nesting seabirds/horizontal distance from vertical colonies, should have limited disturbance impact on many seabird species; however, surveys should stop if disturbance occurs. Compared to automated methods, manual or semi-automated image analyses are, at present, more suitable for infrequent drone surveys and surveys of relatively small colonies. When deciding if drone-seabird surveys are an appropriate monitoring method long-term, the cost, risks, and results obtained should be compared to traditional field monitoring where possible. Accurate and timely reporting of surveys is essential to developing adaptive guidelines for this increasingly common technology