Miracle-dz/UniFAR-FTUs huggingface dataset:
In search of forage: predicting dynamic habitats of Mongolian gazelles using satellite-based estimates of vegetation productivity

Summary 1. Temporal variability in habitat suitability has important conservation and ecological implica tions. In grasslands, changes in resource availability can occur at broad spatial scales and enlarge area requirements of ungulate populations, which increases their vulnerability to habitat loss and fragmentation. Understanding and predicting these dynamics, although critical, has received little attention so far. 2. We investigated habitat dynamics for Mongolian gazelles (Procapra gutturosa Pallas) in the eastern steppes of Mongolia. We quantified the distribution of gazelles at four different time periods and tracked primary productivity using Normalized Difference Vegetation Index (NDVI) data from satellite imagery. 3. A second-order logistic model showed that NDVI was an efficient predictor of gazelle presence. We tested the predictive power of the model with independent data from a gazelle telemetry study: 85% of all relocations were found within the predicted area. 4. Gazelles preferred an intermediate range of vegetation productivity, presumably facing quality quantity trade-offs where areas with low NDVI are limited by low ingestion rates, and areas with high NDVI are limited by the low digestibility of mature forage. 5. Spatiotemporal variation of gazelle habitat areas was high. Only 15% of the study area was consistently gazelle habitat throughout all survey periods, indicating that gazelles need to range over vast areas in search of food. Only 1% of the gazelle habitats were consistently located inside protected areas. 6. Synthesis and applications. Habitat variability in grasslands often leads to area requirements of ungulates that prevent effective conservation within single protected areas. They require landscape level management plans, but dynamic habitat predictions to inform such plans are difficult to implement and are often unavailable. We showed that satellite estimates of vegetation productivity can be used successfully to generate dynamic habitat models in landscapes with highly variable resources, and demonstrated that intermediate NDVI values were critical to predict occurrence of Mongolian gazelles.
Chronic Kidney Disease and Associated Cardiovascular Risk Factors in Chinese with Type 2 Diabetes

Background To determine the frequency of chronic kidney disease (CKD) and its associated risk factors in Chinese type 2 diabetic patients, we conducted a cross-sectional study in Nanjing, China, in the period between January 2008 and December 2009. Methods Patients with type 2 diabetes under the care by Jiangsu Province Official Hospital, Nanjing, China were invited for assessment. CKD was defined as the presence of albuminuria or estimated glomerular filtration rate <60 mL/min/1.73 m2. Albuminuria was defined as urinary albumin-to-creatinine ratio ≥30 mg/g. Results We recruited 1,521 urban Chinese patients with type 2 diabetes (mean age, 63.9±12.0 years). The frequency of CKD and albuminuria was 31.0% and 28.9%, respectively. After adjusted by age and sex, hypertension, anemia and duration of diabetes were significantly associated with CKD with odds ratio (95% confidence interval) being 1.93 (1.28 to 2.93), 1.70 (1.09 to 2.64), and 1.03 (1.00 to 1.06), respectively. Conclusion In conclusion, CKD was common in the urban Nanjing Chinese with type 2 diabetes. Strategies to prevent or delay progression of kidney disease in diabetes should be carried out at the early disease course of type 2 diabetes.
Development of ex vivo organ culture models to mimic human corneal scarring

Purpose To develop ex vivo organ culture models of human corneal scarring suitable for pharmacological testing and the study of the molecular mechanisms leading to corneal haze after laser surgery or wounding. Methods Corneas from human donors were cultured ex vivo for 30 days, either at the air-liquid interface (AL) or immersed (IM) in the culture medium. Histological features and immunofluorescence for fibronectin, tenascin C, thrombospondin-1, and α-smooth muscle actin were graded from 0 to 3 for control corneas and for corneas wounded with an excimer laser. The effects of adding 10 ng/ml transforming growth factor-β1 (TGF-β1) to the culture medium and of prior complete removal of the epithelium and limbus, thus preventing reepithelialization, were also analyzed on wounded corneas. Collagen III expression was detected with real-time PCR. Results Wounding alone was sufficient to induce keratocyte activation and stromal disorganization, but it was only in the presence of added TGF-β1 that intense staining for fibronectin and tenascin C was found in the AL and IM models (as well as thrombospondin-1 in the AL model) and that α-smooth muscle actin became detectable. The scar-like appearance of the corneas was exacerbated when TGF-β1 was added and reepithelialization was prevented, resulting in the majority of corneas becoming opaque and marked upregulation of collagen III. Conclusions The main features of corneal scarring were reproduced in these two complementary models: the AL model preserved differentiation of the epithelium and permits the topical application of active molecules, while the IM model ensures better perfusion by soluble compounds.
Vocabulary acquisition and self-selected reading: A test of the reading hypothesis in Singapore

The Reading Hypothesis is a special case of the more general Comprehension Hypothesis, the hypothesis that we acquire language, aural and written, by understanding messages, not through deliberate study, production, or correction (Krashen 2003). The kind of reading that has been shown to have an especially powerful influence on literacy development is self-selected, also known as free voluntary reading: Free voluntary reading is simply "reading because you want to," with little or no accountability.
Cannabidiol Attenuates Sensorimotor Gating Disruption and Molecular Changes Induced by Chronic Antagonism of NMDA receptors in Mice

Background: Preclinical and clinical data suggest that cannabidiol (CBD), a major non-psychotomimetic compound from Cannabis sativa, induces antipsychotic-like effects. However, the antipsychotic properties of repeated CBD treatment have been poorly investigated. Behavioral changes induced by repeated treatment with glutamate N-methyl-D-aspartate receptor (NMDAR) antagonists have been proposed as an animal model of schizophrenia-like signs. In the present study, we evaluated if repeated treatment with CBD would attenuate the behavioral and molecular modifications induced by chronic administration of one of these antagonists, MK-801. Methods: Male C57BL/6J mice received daily i.p. injections of MK-801 (0.1, 0.5, or 1mg/kg) for 14, 21, or 28 days. Twenty-four hours after the last injection, animals were submitted to the prepulse inhibition (PPI) test. After that, we investigated if repeated treatment with CBD (15, 30, and 60mg/kg) would attenuate the PPI impairment induced by chronic treatment with MK-801 (1mg/kg; 28 days). CBD treatment began on the 6th day after the start of MK-801 administration and continued until the end of the treatment. Immediately after the PPI, the mice brains were removed and processed to evaluate the molecular changes. We measured changes in FosB/ΔFosB and parvalbumin (PV) expression, a marker of neuronal activity and a calcium-binding protein expressed in a subclass of GABAergic interneurons, respectively. Changes in mRNA expression of the NMDAR GluN1 subunit gene (GRN1) were also evaluated. CBD effects were compared to those induced by the atypical antipsychotic clozapine. Results: MK-801 administration at the dose of 1mg/kg for 28 days impaired PPI responses. Chronic treatment with CBD (30 and 60mg/kg) attenuated PPI impairment. MK-801 treatment increased FosB/ΔFosB expression and decreased PV expression in the medial prefrontal cortex. A decreased mRNA level of GRN1 in the hippocampus was also observed. All the molecular changes were attenuated by CBD. CBD by itself did not induce any effect. Moreover, CBD effects were similar to those induced by repeated clozapine treatment. Conclusions: These results indicate that repeated treatment with CBD, similar to clozapine, reverses the psychotomimetic-like effects and attenuates molecular changes observed after chronic administration of an NMDAR antagonist. These data support the view that CBD may have antipsychotic properties.
Breast Cancer Subtype is Associated With Axillary Lymph Node Metastasis

AbstractThe purpose of this study was to assess whether breast cancer subtype (BCS) as determined by estrogen receptor, progesterone receptor, and human epidermal growth factor receptor 2 can predict the axillary lymph node metastasis in breast cancer.Patients who received breast conserving surgery or mastectomy and axillary lymph node dissection were identified from 2 cancer centers. The associations between clinicopathological variables and axillary lymph node involvement were evaluated in univariate and multivariate regression analyses.A total of 3471 patients met the inclusion criteria, and 53.0% had axillary lymph node metastases at diagnosis. Patients with hormone receptor (HR)−/human epidermal growth factor receptor 2 (HER2)− subtype had a higher grade disease and the lowest rate of lymphovascular invasion. Univariate and multivariable logistic regression analyses showed that BCS was significantly associated with lymph node involvement. Patients with the HR−/HER2− subtype had the lowest odds of having nodal positivity than those with other BCSs. HR+/HER2− (odds ratio [OR] 1.651, 95% confidence interval [CI]: 1.349–2.021, P < 0.001), HR+/HER2+ (OR 1.958, 95%CI 1.542–2.486, P < 0.001), and HR−/HER2+ (OR 1.525, 95%CI 1.181–1.970, P < 0.001) tumors had higher risk of nodal positivity than the HR−/HER2− subtype. The other independent predictors of nodal metastases included tumor size, tumor grade, and lymphovascular invasion.Breast cancer subtype can predict the presence of axillary lymph node metastasis in breast cancer. HR−/HER2− is associated with a reduced risk of axillary lymph node metastasis compared to other BCSs. Our findings may play an important role in guiding axillary treatment considerations if further confirmed in larger sample size studies.
TRIGGERED OR SELF-REGULATED STAR FORMATION WITHIN INTERMEDIATE REDSHIFT LUMINOUS INFRARED GALAXIES. I. MORPHOLOGIES AND SPECTRAL ENERGY DISTRIBUTIONS

As part of the Center for Adaptive Optics (AO) Treasury Survey (CATS) we imaged a set of 15 intermediate redshift (z ∼ 0.8) luminous infrared (IR) galaxies (LIRGs) with the Keck Laser Guide Star (LGS) AO facility. These galaxies were selected from the Great Observatories Origins Deep Survey (GOODS) southern field, allowing us to combine the high spatial resolution Hubble Space Telescope optical (B, V, i, and z-bands) images with our near-infrared (K′-band) images to study the LIRG morphologies and spatially resolved spectral energy distributions (SEDs). Two thirds of the LIRGs are disk galaxies, with only one third showing some evidence for interactions, minor, or major mergers. In contrast with local LIRG disks (which are primarily barred systems), only 10% of the LIRG disks in our sample contain a prominent bar. While the optical bands tend to show a significant point-like substructure, indicating distributed star formation, the AO K-band images tend to be smooth. They lack point-like structures to a K ∼ 23.5 limit. This places an upper bound on the number of red super giants per blue knot at less than 4000. The SEDs of the LIRGs are consistent with distributed dusty star formation, as exhibited by optical to IR colors redder than allowed by old stellar populations alone. This effect is most pronounced in the galaxy cores, possibly indicating central star formation. We also observed a set of 11 intermediate redshift comparison galaxies, selected to be non-ellipticals with apparent K-band magnitudes comparable to the LIRGs. The “normal” (non-LIRG) systems tended to have lower optical luminosity, lower stellar mass, and more irregular morphology than the LIRGs. Half of the “normal” galaxies have SEDs consistent with intermediate aged stellar populations and minimal dust. The other half show evidence for some dusty star formation, usually concentrated in their cores. Our work suggests that the LIRG disk galaxies are similar to large disk systems today, undergoing self-regulated star formation, only at 10–20 times higher rates.
Pre-ischemic exercise alleviates oxidative damage following ischemic stroke in rats

Physical exercise has been proved to be neuroprotective in clinical trials and animal experiments. However, the exact mechanism underlying this neuroprotective effect remains unclear. The aim of the present study was to explore whether pre-ischemic treadmill training could act as a form of ischemic preconditioning in a rat following ischemic stroke by reducing oxidative damage. Fifty-four rats were randomly divided into three groups (n=18 per group): Sham surgery, middle cerebral artery occlusion (MCAO) without exercise and MCAO with exercise. Subsequent to treadmill training, ischemic stroke was induced by occluding the MCA for 1.5 h, followed by reperfusion. Six rats in each group were evaluated for neurological deficits and then sacrificed by decapitation to calculate the infarct volume. The remaining rats in each group were sacrificed to detect the level of superoxide dismutase (SOD) activity (n=6) and malondialdehyde (MDA) concentration (n=6). The results indicated that pre-ischemic exercise training reduced brain infarct volume and neurological deficits, increased SOD activity and decreased the concentration of MDA following ischemic stroke. In conclusion, treadmill exercise training prior to MCAO/reperfusion increased the antioxidant ability and decreased the oxidative damage in the brain subsequent to ischemic stroke.
Value-Directed Remembering and Aging: Examination of Supporting Mechanisms and Effects on Memory Quality

Author(s): Hennessee, Joseph P | Advisor(s): Knowlton, Barbara J | Abstract: Aging is associated with declines in memory performance and profound functional and structural changes in the brain, though older adult’s ability to selectively learn and retrieve valuable information appears to be well preserved. Prior research suggests that older adults differentially employ elaborative encoding strategies when encoding valuable items and selectively allocate attention to these items, as reviewed in Chapter 1. The underlying aims of the current study were to examine how this selective learning affects different aspects of memory and what cognitive and neural mechanisms may support older adult’s effective learning of valuable information. Chapter 2 describes findings from a project aimed at determining how value-directed remembering affects different aspects of memory. This research suggests that selectively encoding valuable items is associated with greater recognition performance, higher confidence, and increased recollection in both younger and older adults. Although age-related declines in recollection are typically observed, value’s enhancement of item recollection appears to be intact in healthy aging. Selectively encoding valuable items also resulted in stronger binding between items and incidentally learned task-relevant details, perhaps at the expense of encoding extraneous details. Older adults did not demonstrate greater item-location memory for valuable items, suggesting that value’s influence on associative binding may be diminished in aging. Chapters 3 and 4 describe two projects designed to investigate how strategic and automatic processes contribute to value-directed remembering, and whether differences in the structural integrity of white matter tracts predicts differences in older adult’s ability to selectively learn based on value. The findings of these two studies suggest that younger adults are relying on a more automatic reward circuit involving the nucleus accumbens and ventral tegmental area, whereas older adults rely on semantic processing in the inferior fronto-occipital fasciculus (IFOF). Older adults may be relying on the IFOF in a compensatory manner. The implications of these findings for theories of aging and learning are discussed in Chapter 5.
Deep Sequencing of Porphyromonas gingivalis and Comparative Transcriptome Analysis of a LuxS Mutant

Porphyromonas gingivalis is a major etiological agent in chronic and aggressive forms of periodontal disease. The organism is an asaccharolytic anaerobe and is a constituent of mixed species biofilms in a variety of microenvironments in the oral cavity. P. gingivalis expresses a range of virulence factors over which it exerts tight control. High-throughput sequencing technologies provide the opportunity to relate functional genomics to basic biology. In this study we report qualitative and quantitative RNA-Seq analysis of the transcriptome of P. gingivalis. We have also applied RNA-Seq to the transcriptome of a ΔluxS mutant of P. gingivalis deficient in AI-2-mediated bacterial communication. The transcriptome analysis confirmed the expression of all predicted ORFs for strain ATCC 33277, including 854 hypothetical proteins, and allowed the identification of hitherto unknown transcriptional units. Twelve non-coding RNAs were identified, including 11 small RNAs and one cobalamin riboswitch. Fifty-seven genes were differentially regulated in the LuxS mutant. Addition of exogenous synthetic 4,5-dihydroxy-2,3-pentanedione (DPD, AI-2 precursor) to the ΔluxS mutant culture complemented expression of a subset of genes, indicating that LuxS is involved in both AI-2 signaling and non-signaling dependent systems in P. gingivalis. This work provides an important dataset for future study of P. gingivalis pathophysiology and further defines the LuxS regulon in this oral pathogen.
Quality of Care Issues in Colorectal Cancer

Colorectal cancer is a common, detectable, and treatable malignancy. Given the aging of the population, the number of patients diagnosed with colorectal cancer will likely increase; thus, efforts to improve the quality and delivery of appropriate care to patients with colorectal cancer are needed. The overarching goal of this article is to summarize recent efforts to evaluate and improve the quality of colorectal cancer care through the use of selective referral, quality performance measures, and assessment of outcomes. First, we provide a framework for quality of care assessment, including a discussion of the structural, process, and outcome components of care for colorectal cancer. Second, we discuss the current level of assessment of colorectal cancer care quality, highlighting four potential targets for quality improvement: increased provider volume for colorectal cancer resection, process-based quality measures for colorectal cancer care (including measures specific to colorectal cancer surgery), data collection and feedback programs for colorectal cancer care, and evaluation of health-related quality of life in patients with colorectal cancer. Further research is needed to evaluate both the implementation and effectiveness of these quality improvement strategies for improving outcome in patients with colorectal cancer.
THE SHIFT IN VISUAL PIGMENT DOMINANCE IN THE RETINAE OF JUVENILE COHO SALMON (ONCORHYNCHUS KISUTCH): AN INDICATOR OF SMOLT STATUS

Smolting juvenile coho salmon were sampled to determine (1) whether a correlation between hypo-osmoregulatory ability and visual pigment composition existed and (2) whether the hormone 3,5,3'-tri-iodothyronine (T3) was playing a role in the visual pigment conversion process. Plasma sodium levels of seawater-challenged fish (30 ) indicated that there was a 5 week period of optimal ability to excrete excess plasma sodium ions (hypo-osmoregulation) in the late spring/early summer that represented the 'window of opportunity' for the entry or introduction to sea water of the salmon. Early in the smoltification process, the vitamin-A2-based visual pigment porphyropsin increased its dominance in the retinae, and radioimmunoassay of plasma indicated that T3 levels were at a maximum prior to this increase in porphyropsin. As the parr­smolt transformation continued, there was a steady decrease in the relative amounts of porphyropsin, indicating that the retinae were favouring the acquisition of rhodopsin. Rhodopsin dominance virtually coincided with the period of best hypo-osmoregulatory ability. Subsequently, the salmon showed a loss of hypo-osmoregulatory ability and concomitant increases in the amount of porphyropsin in the retina were observed. The relationship between the visual pigment shift and the smoltification process is discussed in terms of preparation for migration and thyroid hormone involvement, and the use of retinal visual pigment composition as an index of smolt status is proposed.
Distinct mechanism for long-term contrast adaptation

To optimize perception, neurons in the visual system adapt to the current environment. What determines the durability of this plasticity? Longer exposures to an environment produce longer-lasting effects, which could be due to either (i) a single mechanism controlling adaptation that gains strength over time, or (ii) long-term mechanisms that become active after long-term exposure. Using recently developed technology, we tested adaptation durations an order of magnitude greater that those tested previously, and used a “deadaptation” procedure to reveal effects of a unique long-term mechanism in the longest adaptation periods. After 4 h of contrast adaptation, human observers were exposed to natural images for 15 min, which completely cancelled perceptual aftereffects of adaptation. Strikingly, during continued testing this deadaptation faded, and the original adaptation effects reappeared. This pattern strongly suggests that adaptation was maintained in a distinct long-term mechanism, whereas deadaptation affected a short-term mechanism.
A field study of multi-device workflows in distributed workspaces

With the selection of devices encompassing a wider range of computing surfaces, along with the near ubiquity of wireless networks, the nature of the workspace has become distributed over multiple locations and digital artifacts. We interviewed 22 professionals across a wide range of industries about their use of artifacts in their workflows to dis-cover new cross-device interaction paradigms and issues. We explore the impact of today's cloud services and app-based computing on how devices are used together. Gaps in data management and cross-device interactions were identified as the main obstacles and opportunities for improvement for multi-device interaction.
An Evaluation of a Secure Email Service (Healthmail): A Cross-sectional Survey of Irish GPs

Securing sensitive patient information has become increasingly important after cyber-attacks on healthcare systems. Many current forms of communication such as fax and letter are insecure. Effective cybersecurity can increase patient safety. Healthmail is a secure email service which acts as a means of transferring patient information. Healthmail is available to a range of Irish medical workers. An online survey was sent to Healthmail account holders and to general practitioners (GPs) in Ireland. Self-declared GP account holders' responses were examined to evaluate their usage of Healthmail, opinions on Healthmail's merits and suggestions for improving Healthmail. The response rate was 19.5% (276/1415). Over half (51.5%) of respondents sent at least one Healthmail email in the previous week. Overall, 64.7% (n=178) of respondents said Healthmail improves patient care. Also, 58.7% (n=155) of respondents said Healthmail should be expanded to other disciplines. Many respondents (40.5%) said they would be happy to communicate with patients using secure email. These results suggest that Healthmail's perceived utility is high and could increase. Therefore, Healthmail has the potential to become part of mainstream communication between healthcare workers.