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  • 1
    In: Royal Society Open Science, The Royal Society, Vol. 9, No. 8 ( 2022-08)
    Abstract: The large size of free-ranging mysticetes, such as humpback whales ( Megaptera novaeangliae ), make capture and release health assessments unfeasible for conservation research. However, individual energetic condition or reproductive health may be assessed from the gene expression of remotely biopsied tissue. To do this, researchers must reliably extract RNA and interpret gene expression measurements within the context of an individual's sex. Here, we outline an RNA extraction protocol from blubber tissue and describe a novel mammalian RNA sex determination method. Our method consists of a duplex reverse transcription-quantitative (real-time) polymerase chain reaction (RT-qPCR) with primer sets for a control gene ( ACTB ) and the X-chromosome inactivation gene ( XIST ). Products of each RT-qPCR had distinct melting temperature profiles based on the presence (female) or absence (male) of the XIST transcript. Using high-resolution melt analysis, reactions were sorted into one of two clusters (male/female) based on their melting profiles. We validated the XIST method by comparing results with a standard DNA-based method. With adequate quantities of RNA (minimum of approx. 9 ng µl −1 ), the XIST sex determination method shows 100% agreement with traditional DNA sex determination. Using the XIST method, future cetacean health studies can interpret gene expression within the context of an individual's sex, all from a single extraction.
    Type of Medium: Online Resource
    ISSN: 2054-5703
    Language: English
    Publisher: The Royal Society
    Publication Date: 2022
    detail.hit.zdb_id: 2787755-3
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  • 2
    In: Animal Biotelemetry, Springer Science and Business Media LLC, Vol. 9, No. 1 ( 2021-08-26)
    Abstract: Bio-logging devices equipped with inertial measurement units—particularly accelerometers, magnetometers, and pressure sensors—have revolutionized our ability to study animals as necessary electronics have gotten smaller and more affordable over the last two decades. These animal-attached tags allow for fine scale determination of behavior in the absence of direct observation, particularly useful in the marine realm, where direct observation is often impossible, and recent devices can integrate more power hungry and sensitive instruments, such as hydrophones, cameras, and physiological sensors. To convert the raw voltages recorded by bio-logging sensors into biologically meaningful metrics of orientation (e.g., pitch, roll and heading), motion (e.g., speed, specific acceleration) and position (e.g., depth and spatial coordinates), we developed a series of MATLAB tools and online instructional tutorials. Our tools are adaptable for a variety of devices, though we focus specifically on the integration of video, audio, 3-axis accelerometers, 3-axis magnetometers, 3-axis gyroscopes, pressure, temperature, light and GPS data that are the standard outputs from Customized Animal Tracking Solutions (CATS) video tags. Our tools were developed and tested on cetacean data but are designed to be modular and adaptable for a variety of marine and terrestrial species. In this text, we describe how to use these tools, the theories and ideas behind their development, and ideas and additional tools for applying the outputs of the process to biological research. We additionally explore and address common errors that can occur during processing and discuss future applications. All code is provided open source and is designed to be useful to both novice and experienced programmers.
    Type of Medium: Online Resource
    ISSN: 2050-3385
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2021
    detail.hit.zdb_id: 2711027-8
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  • 3
    In: Animal Biotelemetry, Springer Science and Business Media LLC, Vol. 8, No. 1 ( 2020-12)
    Abstract: Advances in biologging technology allow researchers access to previously unobservable behavioral states and movement patterns of marine animals. To relate behaviors with environmental variables, features must be evaluated at scales relevant to the animal or behavior. Remotely sensed environmental data, collected via satellites, often suffers from the effects of cloud cover and lacks the spatial or temporal resolution to adequately link with individual animal behaviors or behavioral bouts. This study establishes a new method for remotely and continuously quantifying surface ice concentration (SIC) at a scale relevant to individual whales using on-animal tag video data. Results Motion-sensing and video-recording suction cup tags were deployed on 7 Antarctic minke whales ( Balaenoptera bonaerensis ) around the Antarctic Peninsula in February and March of 2018. To compare the scale of camera-tag observations with satellite imagery, the area of view was simulated using camera-tag parameters. For expected conditions, we found the visible area maximum to be ~ 100m 2 which indicates that observations occur at an equivalent or finer scale than a single pixel of high-resolution visible spectrum satellite imagery. SIC was classified into one of six bins (0%, 1–20%, 21–40%, 41–60%, 61–80%, 81–100%) by two independent observers for the initial and final surfacing between dives. In the event of a disagreement, a third independent observer was introduced, and the median of the three observer’s values was used. Initial results ( n  = 6) show that Antarctic minke whales in the coastal bays of the Antarctic Peninsula spend 52% of their time in open water, and only 15% of their time in water with SIC greater than 20%. Over time, we find significant variation in observed SIC, indicating that Antarctic minke occupy an extremely dynamic environment. Sentinel-2 satellite-based approaches of sea ice assessment were not possible because of persistent cloud cover during the study period. Conclusion Tag-video offers a means to evaluate ice concentration at spatial and temporal scales relevant to the individual. Combined with information on underwater behavior, our ability to quantify SIC continuously at the scale of the animal will improve upon current remote sensing methods to understand the link between animal behavior and these dynamic environmental variables.
    Type of Medium: Online Resource
    ISSN: 2050-3385
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2020
    detail.hit.zdb_id: 2711027-8
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  • 4
    In: Nature Ecology & Evolution, Springer Science and Business Media LLC, Vol. 7, No. 4 ( 2023-03-13), p. 535-546
    Type of Medium: Online Resource
    ISSN: 2397-334X
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2023
    detail.hit.zdb_id: 2879715-2
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  • 5
    In: Circulation, Ovid Technologies (Wolters Kluwer Health), Vol. 144, No. 23 ( 2021-12-07), p. 1845-1855
    Abstract: Despite advances in surgery and pharmacotherapy, there remains significant residual ischemic risk after coronary artery bypass grafting surgery. Methods: In REDUCE-IT (Reduction of Cardiovascular Events With Icosapent Ethyl–Intervention Trial), a multicenter, placebo-controlled, double-blind trial, statin-treated patients with controlled low-density lipoprotein cholesterol and mild to moderate hypertriglyceridemia were randomized to 4 g daily of icosapent ethyl or placebo. They experienced a 25% reduction in risk of a primary efficacy end point (composite of cardiovascular death, myocardial infarction, stroke, coronary revascularization, or hospitalization for unstable angina) and a 26% reduction in risk of a key secondary efficacy end point (composite of cardiovascular death, myocardial infarction, or stroke) when compared with placebo. The current analysis reports on the subgroup of patients from the trial with a history of coronary artery bypass grafting. Results: Of the 8179 patients randomized in REDUCE-IT, a total of 1837 (22.5%) had a history of coronary artery bypass grafting, with 897 patients randomized to icosapent ethyl and 940 to placebo. Baseline characteristics were similar between treatment groups. Randomization to icosapent ethyl was associated with a significant reduction in the primary end point (hazard ratio [HR], 0.76 [95% CI, 0.63–0.92] ; P =0.004), in the key secondary end point (HR, 0.69 [95% CI, 0.56–0.87]; P =0.001), and in total (first plus subsequent or recurrent) ischemic events (rate ratio, 0.64 [95% CI, 0.50–0.81]; P =0.0002) compared with placebo. This yielded an absolute risk reduction of 6.2% (95% CI, 2.3%–10.2%) in first events, with a number needed to treat of 16 (95% CI, 10–44) during a median follow-up time of 4.8 years. Safety findings were similar to the overall study: beyond an increased rate of atrial fibrillation/flutter requiring hospitalization for at least 24 hours (5.0% vs 3.1%; P =0.03) and a nonsignificant increase in bleeding, occurrences of adverse events were comparable between groups. Conclusions: In REDUCE-IT patients with a history of coronary artery bypass grafting, treatment with icosapent ethyl was associated with significant reductions in first and recurrent ischemic events. Registration: URL: https://www.clinicaltrials.gov ; Unique identifier: NCT01492361.
    Type of Medium: Online Resource
    ISSN: 0009-7322 , 1524-4539
    Language: English
    Publisher: Ovid Technologies (Wolters Kluwer Health)
    Publication Date: 2021
    detail.hit.zdb_id: 1466401-X
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  • 6
    In: Implementation Science Communications, Springer Science and Business Media LLC, Vol. 3, No. 1 ( 2022-12)
    Abstract: The adoption and sustainment of evidence-based practices (EBPs) is a challenge within many healthcare systems, especially in settings that have already strived but failed to achieve longer-term goals. The Veterans Affairs (VA) Maintaining Implementation through Dynamic Adaptations (MIDAS) Quality Enhancement Research Initiative (QUERI) program was funded as a series of trials to test multi-component implementation strategies to sustain optimal use of three EBPs: (1) a deprescribing approach intended to reduce potentially inappropriate polypharmacy; (2) appropriate dosing and drug selection of direct oral anticoagulants (DOACs); and (3) use of cognitive behavioral therapy as first-line treatment for insomnia before pharmacologic treatment. We describe the design and methods for a harmonized series of cluster-randomized control trials comparing two implementation strategies. Methods For each trial, we will recruit 8–12 clinics (24–36 total). All will have access to relevant clinical data to identify patients who may benefit from the target EBP at that clinic and provider. For each trial, clinics will be randomized to one of two implementation strategies to improve the use of the EBPs: (1) individual-level academic detailing (AD) or (2) AD plus the team-based Learn. Engage. Act. Process. (LEAP) quality improvement (QI) learning program. The primary outcomes will be operationalized across the three trials as a patient-level dichotomous response (yes/no) indicating patients with potentially inappropriate medications (PIMs) among those who may benefit from the EBP. This outcome will be computed using month-by-month administrative data. Primary comparison between the two implementation strategies will be analyzed using generalized estimating equations (GEE) with clinic-level monthly (13 to 36 months) percent of PIMs as the dependent variable. Primary comparative endpoint will be at 18 months post-baseline. Each trial will also be analyzed independently. Discussion MIDAS QUERI trials will focus on fostering sustained use of EBPs that previously had targeted but incomplete implementation. Our implementation approaches are designed to engage frontline clinicians in a dynamic optimization process that integrates the use of actional clinical data and making incremental changes, designed to be feasible within busy clinical settings. Trial registration ClinicalTrials.gov: NCT05065502 . Registered October 4, 2021—retrospectively registered.
    Type of Medium: Online Resource
    ISSN: 2662-2211
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2022
    detail.hit.zdb_id: 3038166-6
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