Identification of boreal mixedwood forest structure cohorts in Northwestern Ontario using Ontario's forest resource inventory, Abitibi-Bowater's continuous forest inventory and stepwise discriminant function analysis

A model was developed to determine if Ontario's Forest Resource Inventory (FRI) could be used to classify boreal mixedwood stands in northwestern Ontario into structural cohorts as proposed in the Multi Cohort Forest Management (MCFM) concept. Successful methods developed to-date for determining cohort status rely on Weibull functions of tree diameter distributions. This study proposed an alternative method for multi-cohort classification based on the range of stand attributes found in the FRI

Using a commercially available DNA extraction kit to obtain high quality human genomic DNA suitable for PCR and genotyping from 11-year-old saliva saturated cotton spit wads

<p>Abstract</p> <p>Background</p> <p>We sought to describe the integrity of human genomic DNA extracted from saliva saturated cotton spit wads stored at -20°C for approximately 11 years. 783 spit wad samples were collected from an ADHD sample population (Vermont Family Study) during 1996–2000. Human genomic DNA was extracted from the spit wads using a commercially available kit; QIAamp DNA Blood Midi Kit (Qiagen, Inc., Valencia, CA.) with a few modifications.</p> <p>Results</p> <p>The resulting DNA yield was more than adequate for genetic analysis and ranged from approximately 1 μg to a total of 80 μg (mean 17.3 μgs ± 11.9 μgs). A₂₆₀/A₂₈₀ratios for the human genomic DNA extracted from the spit wads was consistently within the generally acceptable values of 1.7–2.0, with the lowest purity being 1.70, and a mean value of 1.937 ± 0.226 for the 783 samples. The DNA also was suitable for PCR reactions as evidenced by the amplification of the serotonin-transporter-linked polymorphic region, 5HTTLPR. 5HTTLPR is a functional polymorphism in the promoter region of the serotonin transporter gene (<it>HTT, SLC6A4</it>, or <it>SERT</it>), consisting of two intensively studied alleles. 770 of the 783 samples (98.3%) produced fragments after PCR of the expected size with primers specific for 5HTTLPR.</p> <p>Conclusion</p> <p>High quality and abundant genomic DNA can be successfully retrieved from saliva saturated cotton spit wads using the commercially available kit, QIAamp DNA Blood Midi Kit from Qiagen, Inc. Furthermore, the DNA can be extracted in less than 3 hours and multiple samples can be processed simultaneously thus reducing processing time.</p

ArchEnemy: Removing scattered-light glitches from gravitational wave data

Data recorded by gravitational wave detectors includes many non-astrophysical transient noise bursts, the most common of which is caused by scattered-light within the detectors. These so-called ``glitches'' in the data impact the ability to both observe and characterize incoming gravitational wave signals. In this work we use a scattered-light glitch waveform model to identify and characterize scattered-light glitches in a representative stretch of gravitational wave data. We identify $2749$ scattered-light glitches in $5.96$ days of LIGO-Hanford data and $1306$ glitches in $5.93$ days of LIGO-Livingston data taken from the third LIGO-Virgo observing run. By subtracting identified scattered-light glitches we demonstrate an increase in the sensitive volume of the gravitational wave search for binary black hole signals by $\sim1\%$.Comment: 30 pages + acknowledgements and references, 13 figure

Associations among types of impulsivity, substance use problems and \u3ci\u3eNeurexin-3\u3c/i\u3e polymorphisms

Background—Some of the genetic vulnerability for addiction may be mediated by impulsivity. This study investigated relationships among impulsivity, substance use problems and six neurexin-3 (NRXN3) polymorphisms. Neurexins (NRXNs) are presynaptic transmembrane proteins that play a role in the development and function of synapses. Methods—Impulsivity was assessed with the Barratt Impulsiveness Scale Version 11 (BIS-11), the Boredom Proneness Scale (BPS) and the TIME paradigm; alcohol problems with the Michigan Alcoholism Screening Test (MAST); drug problems with the Drug Abuse Screening Test (DAST-20); and regular tobacco use with a single question. Participants (N = 439 Caucasians, 64.7% female) donated buccal cells for genotyping. Six NRXN3 polymorphisms were genotyped: rs983795, rs11624704, rs917906, rs1004212, rs10146997 and rs8019381. A dual luciferase assay was conducted to determine whether allelic variation at rs917906 regulated gene expression. Results—In general, impulsivity was significantly higher in those who regularly used tobacco and/or had alcohol or drug problems. In men, there were modest associations between rs11624704 and attentional impulsivity (p = .005) and between rs1004212 and alcohol problems (p = .009). In women, there were weak associations between rs10146997 and TIME estimation (p = .03); and between rs1004212 and drug problems (p = .03). The dual luciferase assay indicated that C and T alleles of rs917906 did not differentially regulate gene expression in vitro. Conclusions—Associations between impulsivity, substance use problems and polymorphisms in NRXN3 may be gender specific. Impulsivity is associated with substance use problems and may provide a useful intermediate phenotype for addiction

Associations among types of impulsivity, substance use problems and \u3ci\u3eNeurexin-3\u3c/i\u3e polymorphisms

Background—Some of the genetic vulnerability for addiction may be mediated by impulsivity. This study investigated relationships among impulsivity, substance use problems and six neurexin-3 (NRXN3) polymorphisms. Neurexins (NRXNs) are presynaptic transmembrane proteins that play a role in the development and function of synapses. Methods—Impulsivity was assessed with the Barratt Impulsiveness Scale Version 11 (BIS-11), the Boredom Proneness Scale (BPS) and the TIME paradigm; alcohol problems with the Michigan Alcoholism Screening Test (MAST); drug problems with the Drug Abuse Screening Test (DAST-20); and regular tobacco use with a single question. Participants (N = 439 Caucasians, 64.7% female) donated buccal cells for genotyping. Six NRXN3 polymorphisms were genotyped: rs983795, rs11624704, rs917906, rs1004212, rs10146997 and rs8019381. A dual luciferase assay was conducted to determine whether allelic variation at rs917906 regulated gene expression. Results—In general, impulsivity was significantly higher in those who regularly used tobacco and/or had alcohol or drug problems. In men, there were modest associations between rs11624704 and attentional impulsivity (p = .005) and between rs1004212 and alcohol problems (p = .009). In women, there were weak associations between rs10146997 and TIME estimation (p = .03); and between rs1004212 and drug problems (p = .03). The dual luciferase assay indicated that C and T alleles of rs917906 did not differentially regulate gene expression in vitro. Conclusions—Associations between impulsivity, substance use problems and polymorphisms in NRXN3 may be gender specific. Impulsivity is associated with substance use problems and may provide a useful intermediate phenotype for addiction

Comparison of strontium isotope ratios in Mexican human hair and tap water as provenance indicators

Deceased undocumented border crossers are some of the most difficult individuals to identify due to the inability to narrow down the region of origin and therefore to obtain family reference samples for DNA comparison. The isotopic compositions of various body tissues have been demonstrated to be useful biomarkers for tracking locations and movements to aid in the identification of human remains. This study closes the large spatial gap of available 87Sr/86Sr ratios from North America in tap water and presents the first 87Sr/86Sr human tissue-based ratios from Mexico. The 101 hair samples from 32 locations in Mexico range in 87Sr/86Sr ratios from 0.70424 to 0.71613 (ΔSrmax–min = 0.01189). Furthermore, 151 tap water samples from 51 locations range between 0.70404 to 0.71385 (ΔSrmax–min = 0.00981). Overall, small variations in the hair and tap water samples collected from individual locations were recorded (ΔSrmax–min = 0.00041 and 0.00034 respectively). Despite the fact that Mexico is one of the largest bottled water consumers in the world, the 87Sr/86Sr ratios of human hair and tap water correlated strongly (R2 = 0.87 for location averages and R2 = 0.80 when using individual data points). These data represent a valuable resource for identifying the provenance of human remains

COVID-19 managed on respiratory wards and intensive care units: Results from the national COVID-19 outcome report in Wales from March 2020 to December 2021

Background: A COVID-19 hospital guideline was implemented across all 18 acute hospitals in Wales in March 2020, promoting ward management of COVID pneumonitis and data collected across the first 3 Waves of the pandemic (Wave 1 March 1st 2020 to November 1st 2020, Wave 2 November 2st 2020 to February 21st 2021 and Wave 3 June 1st 2021 to December 14th 2021). The aim of this paper is to compare outcomes for patients by admission setting and type of ventilatory support given, with a particular focus on CPAP therapy. Methods: This is a retrospective observational study of those aged over 18 admitted to hospital with community acquired COVID-19 between March 2020 and December 2021. The outcome of interest was in-hospital mortality. Univariate logistic regression models were used to compare crude outcomes across the waves. Multivariable logistic regression models were used to assess outcomes by different settings and treatments after adjusting for Wave, age, sex, co-morbidity and deprivation. Results: Of the 7,803 records collected, 5,887 (75.4%) met the inclusion criteria. Analysis of those cases identified statistically significant outcome improvements across the waves for all patients combined (Waves 1 to 3: 31.5% to 18.8%, p<0.01), all ward patients (28.9% to 17.7%, p<0.01), and all ICU patients (44.3% to 32.2%, p = 0.03). Sub group analyses identified outcome improvements in ward patients without any oxygen therapy (Waves 1 to 3: 22.2% to 12.7%, p<0.01), with oxygen therapy only (34.0% to 12.9%, p<0.01) and with CPAP only (63.5% to 39.2%, p<0.01). The outcome improvements for ICU patients receiving CPAP only (35.7% to 24.6%, p = 0.31) or invasive ventilation (61.6% to 54.6%, p = 0.43) were not statistically significant though the numbers being admitted to ICU were small. The logistic regression models identified important age and comorbidity effects on outcomes. The multivariable model that took these into account suggested no statistically significantly greater risk of death for those receiving CPAP on the ward compared to those receiving CPAP in ICU (OR 0.89, 95% CI: 0.49 to 1.60). Conclusions: There were successive reductions in mortality in inpatients over the three Waves reflecting new treatments and better management of complications. Mortality for those requiring CPAP was similar in respiratory wards and ICUs after adjusting for differences in their respective patient populations

Inflammation and infection in plasma cell disorders: how pathogens shape the fate of patients

The role of infection and chronic inflammation in plasma cell disorders (PCD) has been well-described. Despite not being a diagnostic criterion, infection is a common complication of most PCD and represents a significant cause of morbidity and mortality in this population. As immune-based therapeutic agents are being increasingly used in multiple myeloma, it is important to recognize their impact on the epidemiology of infections and to identify preventive measures to improve outcomes. This review outlines the multiple factors attributed to the high infectious risk in PCD (e.g. the underlying disease status, patient age and comorbidities, and myeloma-directed treatment), with the aim of highlighting future prophylactic and preventive strategies that could be implemented in the clinic. Beyond this, infection and pathogens as an entity are believed to also influence disease biology from initiation to response to treatment and progression through a complex interplay involving pathogen exposure, chronic inflammation, and immune response. This review will outline both the direct and indirect role played by oncogenic pathogens in PCD, highlight the requirement for large-scale studies to decipher the precise implication of the microbiome and direct pathogens in the natural history of myeloma and its precursor disease states, and understand how, in turn, pathogens shape plasma cell biology