Scanning Hyperspectral Imaging for In Situ Biogeochemical Analysis of Lake Sediment Cores: Review of Recent Developments

Hyperspectral imaging (HSI) in situ core scanning has emerged as a valuable and novel tool for rapid and non-destructive biogeochemical analysis of lake sediment cores. Variations in sediment composition can be assessed directly from fresh sediment surfaces at ultra-high-resolution (40–300 μm measurement resolution) based on spectral profiles of light reflected from sediments in visible, near infrared, and short-wave infrared wavelengths (400–2500 nm). Here, we review recent methodological developments in this new and growing field of research, as well as applications of this technique for paleoclimate and paleoenvironmental studies. Hyperspectral imaging of sediment cores has been demonstrated to effectively track variations in sedimentary pigments, organic matter, grain size, minerogenic components, and other sedimentary features. These biogeochemical variables record information about past climatic conditions, paleoproductivity, past hypolimnetic anoxia, aeolian input, volcanic eruptions, earthquake and flood frequencies, and other variables of environmental relevance. HSI has been applied to study seasonal and inter-annual environmental variability as recorded in individual varves (annually laminated sediments) or to study sedimentary records covering long glacial–interglacial time-scales (>10,000 years)

Linking the formation of varves in a eutrophic temperate lake to meteorological conditions and water column dynamics.

Despite varved sediments being widely used for paleolimnological studies, little information is available about how climate and meteorological signals are recorded in varves at sub-seasonal to annual scale. We investigate links between meteorological and limnological conditions and their influence on biochemical varve formation and preservation of sub-seasonal climate signals in the sediments. Our study site is postglacial Lake Żabińskie located in NE Poland, in which thick and complex varved sediments have been studied for the last decade. These sediments provide an excellent material for studying the influence of short-term weather conditions on geological records. For this, we use an almost decade-long (2012-2019) series of observational data (meteorological conditions, physicochemical water parameters, and modern sedimentation observations) to understand varve formation processes. Then we compare these results with a high-resolution biogeochemical proxy dataset based on μXRF and hyperspectral imaging (HSI) measurements of a varved sediment core spanning the same period. Here we show direct links between the meteorological and limnological conditions and varve formation processes This is particularly the case for air temperature which governs calcite laminae formation and primary production. We further show that calcite grain size is influenced by lake mixing intensity resulting from the wind activity, and that holomixis events lead to the formation of distinct manganese (Mn) peaks in the typically anoxic sediments. Our findings show that high-resolution non-destructive spectroscopy methods applied to complex biochemical varves, in combination with long observational limnological datasets, provide useful information for tracking meteorological and limnological processes in the past

Miniature radiocarbon measurements (< 150 μg C) from sediments of Lake Żabińskie, Poland: effect of precision and dating density on age-depth models

The recent development of the MIni CArbon DAting System (MICADAS) allows researchers to obtain radiocarbon (14C) ages from a variety of samples with miniature amounts of carbon (<150 µg C) by using a gas ion source input that bypasses the graphitization step used for conventional 14C dating with accelerator mass spectrometry (AMS). The ability to measure smaller samples, at reduced cost compared with graphitized samples, allows for greater dating density of sediments with low macrofossil concentrations. In this study, we use a section of varved sediments from Lake Żabińskie, NE Poland, as a case study to assess the usefulness of miniature samples from terrestrial plant macrofossils for dating lake sediments. Radiocarbon samples analyzed using gas-source techniques were measured from the same depths as larger graphitized samples to compare the reliability and precision of the two techniques directly. We find that the analytical precision of gas-source measurements decreases as sample mass decreases but is comparable with graphitized samples of a similar size (approximately 150 µg C). For samples larger than 40 µg C and younger than 6000 BP, the uncalibrated 1σ age uncertainty is consistently less than 150 years (±0.010 F14C). The reliability of 14C ages from both techniques is assessed via comparison with a best-age estimate for the sediment sequence, which is the result of an OxCal V sequence that integrates varve counts with 14C ages. No bias is evident in the ages produced by either gas-source input or graphitization. None of the 14C ages in our dataset are clear outliers; the 95 % confidence intervals of all 48 calibrated 14C ages overlap with the median best-age estimate. The effects of sample mass (which defines the expected analytical age uncertainty) and dating density on age–depth models are evaluated via simulated sets of 14C ages that are used as inputs for OxCal P-sequence age–depth models. Nine different sampling scenarios were simulated in which the mass of 14C samples and the number of samples were manipulated. The simulated age–depth models suggest that the lower analytical precision associated with miniature samples can be compensated for by increased dating density. The data presented in this paper can improve sampling strategies and can inform expectations of age uncertainty from miniature radiocarbon samples as well as age–depth model outcomes for lacustrine sediments

Pilot trial of paclitaxel-trastuzumab adjuvant therapy for early stage breast cancer: a trial of the ECOG-ACRIN cancer research group (E2198)

BACKGROUND: Blockade of human epidermal growth factor receptor type 2 (HER2) has dramatically improved outcome for patients with HER2-positive breast cancer. Trastuzumab, an anti-HER2 monoclonal antibody, has previously demonstrated improvement in overall survival (OS) in patients with metastatic and early stage HER2-positive breast cancer. However, trastuzumab can cause congestive heart failure (CHF) with an increased frequency for patients who have also received an anthracycline. The current trial was designed to evaluate the impact of the duration of trastuzumab on CHF. METHODS: E2198 included 227 eligible women with histologically confirmed stage II or IIIA HER2-positive breast cancer. The patients were randomised to receive 12 weeks of paclitaxel and trastuzumab followed by four cycles of doxorubicin and cyclophosphamide (abbreviated Arm) or the aforementioned treatment with additional 1 year of trastuzumab (conventional Arm). The primary end point was to evaluate the safety of this variable duration of trastuzumab therapy, particularly cardiac toxicity defined as CHF or left ventricular ejection fraction decrease >10%. Secondary end points included disease-free survival (DFS) and OS. RESULTS: Compared with 12-week treatment with trastuzumab, 1 year of trastuzumab-based therapy did not increase the frequency or severity of cardiac toxicity: three patients on the abbreviated Arm and four on the conventional Arm experienced CHF. The 5-year DFS was 76% and 73% for the abbreviated and conventional Arms, respectively, with a hazard ratio (HR) of 1.3 (95% CI: 0.8-2.1; P=0.3). There was also no statistically significance difference in OS (HR, 1.4; P=0.3). CONCLUSIONS: Compared with 12 weeks of treatment, 1 year of treatment with trastuzumab did not significantly increase the risk of cardiac toxicity. Although not powered for efficacy comparisons, the longer duration of trastuzumab therapy did not demonstrate a signal for marked superiority

Agricultural land use changes – a scenario-based sustainability impact assessment for Brandenburg, Germany

AbstractDecisions for agricultural management are taken at farm scale. However, such decisions may well impact upon regional sustainability. Two of the likely agricultural management responses to future challenges are extended use of irrigation and increased production of energy crops. The drivers for these are high commodity prices and subsidy policies for renewable energy. However, the impacts of these responses upon regional sustainability are unknown. Thus, we conducted integrated impact assessments for agricultural intensification scenarios in the federal state of Brandenburg, Germany, for 2025. One Irrigation scenario and one Energy scenario were contrasted with the Business As Usual (BAU) scenario. We applied nine indicators to analyze the economic, social and environmental effects at the regional, in this case district scale, which is the smallest administrative unit in Brandenburg. Assessment results were discussed in a stakeholder workshop involving 16 experts from the state government.The simulated area shares of silage maize for fodder and energy were 29%, 37% and 49% for the BAU, Irrigation, and Energy scenarios, respectively. The Energy scenario increased bio-electricity production to 41% of the demand of Brandenburg, and it resulted in CO2 savings of up to 3.5milliontons. However, it resulted in loss of biodiversity, loss of landscape scenery, increased soil erosion risk, and increased area demand for water protection requirements. The Irrigation scenario led to yield increases of 7% (rapeseed), 18% (wheat, sugar beet), and 40% (maize) compared to the BAU scenario. It also reduced the year-to-year yield variability. Water demand for irrigation was found to be in conflict with other water uses for two of the 14 districts. Spatial differentiation of scenario impacts showed that districts with medium to low yield potentials were more affected by negative impacts than districts with high yield potentials.In this first comprehensive sustainability impact assessment of agricultural intensification scenarios at regional level, we showed that a considerable potential for agricultural intensification exists. The intensification is accompanied by adverse environmental and socio-economic impacts. The novelty lies in the multiscale integration of comprehensive, agricultural management simulations with regional level impact assessment, which was achieved with the adequate use of indicators. It provided relevant evidence for policy decision making. Stakeholders appreciated the integrative approach of the assessment, which substantiated ongoing discussions among the government bodies. The assessment approach and the Brandenburg case study may stay exemplary for other regions in the world where similar economic and policy driving forces are likely to lead to agricultural intensification

Anthropogenic modification of phosphorus sequestration in lake sediments during the Holocene: A global perspective

Human activity has fundamentally altered the global phosphorus (P) cycle. Yet our understanding of when and how humans influenced the P cycle has been limited by the scarcity of long-term P sequestration records, particularly outside Europe and North America. Lake sediments provide a unique archive of past P burial rates and allow the human-mediated disruption of the global P cycle to be examined. We compiled the first global-scale and continentally resolved reconstruction of lake-wide Holocene P burial rates using 108 lakes from around the world. In Europe, lake P burial rates started to increase noticeably after ∼4000 calendar years before 1950 CE (cal BP), whereas the increase occurred later in China (∼2000 cal BP) and in North America (∼550 cal BP), which is most likely related to different histories of population growth, land-use and associated soil erosion intensities. Anthropogenic soil erosion explains ∼86% of the observed changes in global lake P burial rates in pre-industrial times. We also provide the first long-term estimates of the global lake P sink over the Holocene (∼2686 Tg P). We estimate that the global mean lake sediment P sequestration since 1850 CE (100 cal BP) is ∼1.54 Tg P yr−1, representing approximately a six-fold increase above the mean pre-industrial value (∼0.24 Tg P yr−1; 11,500 to 100 cal BP) and around a ten-fold increase above the Early-Middle Holocene low-disturbance baseline of 0.16 Tg P yr−1. This study suggests that human activities have been affecting the global P cycle for millennia, with substantial alteration after industrial times (1850 CE)

IFNAR1-Signalling Obstructs ICOS-mediated Humoral Immunity during Non-lethal Blood-Stage Plasmodium Infection

Funding: This work was funded by a Career Development Fellowship (1028634) and a project grant (GRNT1028641) awarded to AHa by the Australian National Health & Medical Research Council (NHMRC). IS was supported by The University of Queensland Centennial and IPRS Scholarships. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.Peer reviewedPublisher PD

High incidence of pandrug-resistant Acinetobacter baumannii isolates collected from patients with ventilator-associated pneumonia in Greece, Italy and Spain as part of the MagicBullet clinical trial

Objectives: To investigate the molecular epidemiology, antimicrobial susceptibility and carbapenem resistance determinants of Acinetobacter baumannii isolates from respiratory tract samples of patients diagnosed with ventilator-associated pneumonia (VAP) who were enrolled in the MagicBullet clinical trial. Methods: A. baumannii isolates were prospectively cultured from respiratory tract samples from 65 patients from 15 hospitals in Greece, Italy and Spain. Susceptibility testing was performed by broth microdilution. Carbapenem resistance determinants were identified by PCR and sequencing. Molecular epidemiology was investigated using rep-PCR (DiversiLab) and international clones (IC) were identified using our in-house database. Results: Of 65 isolates, all but two isolates (97%) were resistant to imipenem and these were always associated with an acquired carbapenemase, OXA-23 (80%), OXA-40 (4.6%), OXA-58 (1.5%) or OXA-23/58 (1.5%). Resistance to colistin was 47.7%. Twenty-two isolates were XDR, and 20 isolates were pandrug-resistant (PDR). The majority of isolates clustered with IC2 ( n = 54) with one major subtype comprising isolates from 12 hospitals in the three countries, which included 19 XDR and 16 PDR isolates. Conclusions: Carbapenem resistance rates were very high in A. baumannii recovered from patients with VAP. Almost half of the isolates were colistin resistant, and 42 (64.6%) isolates were XDR or PDR. Rep-PCR confirmed IC2 is the predominant clonal lineage in Europe and suggests the presence of an epidemic XDR/PDR A. baumannii clone that has spread in Greece, Italy and Spain. These data highlight the difficulty in empirical treatment of patients with A. baumannii VAP in centres with a high prevalence of carbapenem-resistant A. baumannii

A review of rapid serial visual presentation-based brain-computer interfaces

International audienceRapid serial visual presentation (RSVP) combined with the detection of event related brain responses facilitates the selection of relevant information contained in a stream of images presented rapidly to a human. Event related potentials (ERPs) measured non-invasively with electroencephalography (EEG) can be associated with infrequent targets amongst a stream of images. Human-machine symbiosis may be augmented by enabling human interaction with a computer, without overt movement, and/or enable optimization of image/information sorting processes involving humans. Features of the human visual system impact on the success of the RSVP paradigm, but pre-attentive processing supports the identification of target information post presentation of the information by assessing the co-occurrence or time-locked EEG potentials. This paper presents a comprehensive review and evaluation of the limited but significant literature on research in RSVP-based brain-computer interfaces (BCIs). Applications that use RSVP-based BCIs are categorized based on display mode and protocol design, whilst a range of factors influencing ERP evocation and detection are analyzed. Guidelines for using the RSVP-based BCI paradigms are recommended, with a view to further standardizing methods and enhancing the inter-relatability of experimental design to support future research and the use of RSVP-based BCIs in practice

The Long-Baseline Neutrino Experiment: Exploring Fundamental Symmetries of the Universe

The preponderance of matter over antimatter in the early Universe, the dynamics of the supernova bursts that produced the heavy elements necessary for life and whether protons eventually decay --- these mysteries at the forefront of particle physics and astrophysics are key to understanding the early evolution of our Universe, its current state and its eventual fate. The Long-Baseline Neutrino Experiment (LBNE) represents an extensively developed plan for a world-class experiment dedicated to addressing these questions. LBNE is conceived around three central components: (1) a new, high-intensity neutrino source generated from a megawatt-class proton accelerator at Fermi National Accelerator Laboratory, (2) a near neutrino detector just downstream of the source, and (3) a massive liquid argon time-projection chamber deployed as a far detector deep underground at the Sanford Underground Research Facility. This facility, located at the site of the former Homestake Mine in Lead, South Dakota, is approximately 1,300 km from the neutrino source at Fermilab -- a distance (baseline) that delivers optimal sensitivity to neutrino charge-parity symmetry violation and mass ordering effects. This ambitious yet cost-effective design incorporates scalability and flexibility and can accommodate a variety of upgrades and contributions. With its exceptional combination of experimental configuration, technical capabilities, and potential for transformative discoveries, LBNE promises to be a vital facility for the field of particle physics worldwide, providing physicists from around the globe with opportunities to collaborate in a twenty to thirty year program of exciting science. In this document we provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess.Comment: Major update of previous version. This is the reference document for LBNE science program and current status. Chapters 1, 3, and 9 provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess. 288 pages, 116 figure