Miracle-dz/UniFAR-FTUs huggingface dataset:
A Central Role for the Nitrate Transporter NRT2.1 in the Integrated Morphological and Physiological Responses of the Root System to Nitrogen Limitation in Arabidopsis1

Up-regulation of the high-affinity transport system (HATS) for NO3− and stimulation of lateral root (LR) growth are two important adaptive responses of the root system to nitrogen limitation. Up-regulation of the NO3− HATS by nitrogen starvation is suppressed in the atnrt2.1-1 mutant of Arabidopsis (Arabidopsis thaliana), deleted for both NRT2.1 and NRT2.2 nitrate transporter genes. We then used this mutant to determine whether lack of HATS stimulation affected the response of the root system architecture (RSA) to low NO3− availability. In Wassilewskija (Ws) wild-type plants, transfer from high to low NO3− medium resulted in contrasting responses of RSA, depending on the level of nitrogen limitation. Moderate nitrogen limitation (transfer from 10 mm to 1 or 0.5 mm NO3−) mostly led to an increase in the number of visible laterals, while severe nitrogen stress (transfer from 10 mm to 0.1 or 0.05 mm NO3−) promoted mean LR length. The RSA response of the atnrt2.1-1 mutant to low NO3− was markedly different. After transfer from 10 to 0.5 mm NO3−, the stimulated appearance of LRs was abolished in atnrt2.1-1 plants, whereas the increase in mean LR length was much more pronounced than in Ws. These modifications of RSA mimicked those of Ws plants subjected to severe nitrogen stress and could be fully explained by the lowered NO3− uptake measured in the mutant. This suggests that the uptake rate of NO3−, rather than its external concentration, is the key factor triggering the observed changes in RSA. However, the mutation of NRT2.1 was also found to inhibit initiation of LR primordia in plants subjected to nitrogen limitation independently of the rate of NO3− uptake by the whole root system and even of the presence of added NO3− in the external medium. This indicates a direct stimulatory role for NRT2.1 in this particular step of LR development. Thus, it is concluded that NRT2.1 has a key dual function in coordinating root development with external NO3− availability, both indirectly through its role as a major NO3− uptake system that determines the nitrogen uptake-dependent RSA responses, and directly through a specific action on LR initiation under nitrogen-limited conditions.
The Mortar Element Method with Overlapping Subdomains

In this paper, we discuss an extension of the mortar element method to overlapping subdomains and nonmatching grids in the overlapped zones. We discuss in particular the case where more than two subdomains overlap. The method is described and analyzed, as are some preconditioned iterative methods for solving the linear systems arising from this discretization.
Similarities and Differences Between Primary and Secondary Sjögren’s Syndrome

Objective. To define the clinical, serological, and histopathological characteristics of primary (pSS) and secondary Sjögren’s syndrome (SS). Methods. Fifty subjects with pSS and 300 with connective tissue diseases (CTD; systemic lupus erythematosus 100, rheumatoid arthritis 100, scleroderma 100) were selected randomly from our patient registry. Selected patients were assessed for fulfillment of the American-European Consensus Group criteria for SS using a 3-phase approach: screening (European questionnaire, Schirmer-I test, wafer test), confirmatory (fluorescein staining test, nonstimulated whole salivary flow, anti-Ro/La antibodies), and lip biopsy (H&E and immunohistochemical staining for anti-CD20 and anti-CD45RO scored by morphometry). Results. All patients with pSS and 65 with CTD met criteria for SS. Oral symptoms (pSS = 92% and secondary SS = 84%; p = 0.02), parotid enlargement (pSS 56%, secondary SS 9.2%; p < 0.001), and higher prevalence (pSS 82%, secondary SS 41%; p < 0.001) and titers of anti-Ro/La antibodies were more common in pSS. Extraglandular manifestations were similar in both groups, except for Raynaud’s phenomenon, which was more common in those with secondary SS (pSS 16% vs secondary SS 41%; p = 0.001). These results remained after 3 different sensitivity analyses. The prevalence of focal infiltration was also similar in both SS varieties; however, a higher B:T cell ratio and higher expression of CD20 cells (2922 vs 607.5 positive cells; p < 0.001) were observed in pSS. Conclusion. A higher frequency of oral symptoms and parotid enlargement and stronger B cell activity (autoantibody production and lymphocyte infiltration) were observed in pSS. Whether these results reflect a true difference between the 2 disease entities or derive from underlying variables remains uncertain.
A Closed-Form Expression for the Exact Bit Error Probability for Viterbi Decoding of Convolutional Codes

In 1995, Best etal. published a formula for the exact bit error probability for Viterbi decoding of the rate R =1/2, memory m = 1 (two-state) convolutional encoder with generator matrix G(D) = (1 1 + D) when used to communicate over the binary symmetric channel. Their formula was later extended to the rate R = 1/2, memory m = 2 (four-state) convolutional encoder with generator matrix G(D) = (1 + D2 1 + D + D2) by Lentmaier et al. In this paper, a different approach to derive the exact bit error probability is described. A general recurrent matrix equation, connecting the average information weight at the current and previous states of a trellis section of the Viterbi decoder, is derived and solved. The general solution of this matrix equation yields a closed-form expression for the exact bit error probability. As special cases, the expressions obtained by Best et al. for the two-state encoder and by Lentmaier et al. for a four-state encoder are used. The closed-form expression derived in this paper is evaluated for various realizations of encoders, including rate R = 1/2 and R = 2/3 encoders, of as many as 16 states. Moreover, it is shown that it is straightforward to extend the approach to communication over the quantized additive white Gaussian noise channel.
The Development of Metaphor Comprehension and Its Relationship with Relational Verbal Reasoning and Executive Function

Our main objective was to analyse the different contributions of relational verbal reasoning (analogical and class inclusion) and executive functioning to metaphor comprehension across development. We postulated that both relational reasoning and executive functioning should predict individual and developmental differences. However, executive functioning would become increasingly involved when metaphor comprehension is highly demanding, either because of the metaphors’ high difficulty (relatively novel metaphors in the absence of a context) or because of the individual’s special processing difficulties, such as low levels of reading experience or low semantic knowledge. Three groups of participants, 11-year-olds, 15-year-olds and young adults, were assessed in different relational verbal reasoning tasks—analogical and class-inclusion—and in executive functioning tasks—updating information in working memory, inhibition, and shifting. The results revealed clear progress in metaphor comprehension between ages 11 and 15 and between ages 15 and 21. However, the importance of executive function in metaphor comprehension was evident by age 15 and was restricted to updating information in working memory and cognitive inhibition. Participants seemed to use two different strategies to interpret metaphors: relational verbal reasoning and executive functioning. This was clearly shown when comparing the performance of the "more efficient" participants in metaphor interpretation with that of the "less efficient” ones. Whereas in the first case none of the executive variables or those associated with relational verbal reasoning were significantly related to metaphor comprehension, in the latter case, both groups of variables had a clear predictor effect.
The Relationship Between Perceived Life Changes and Depression in Caregivers of Stroke Patients

ABSTRACT Most people with stroke are being cared for at home by family caregivers. Giving care is stressful, and family caregivers are predisposed to care-related complications such as life changes and depression. This article is a report of a study that examined the relationship between the perceived care-related life changes and depression in family caregivers of people with stroke, and it identified predictors influencing depression and perceived care-related life changes. A convenience sample of 60 family caregivers completed one demographic data sheet and two questionnaires: Bakas Caregiving Outcomes Scale and Center for Epidemiologic Studies Depression Scale. Data were collected in a 1-month period in 2008. According to the findings, the mean score of the subjects on the Bakas Caregiving Outcomes Scale was −5.70, representing an overall negative change related to the caregiving role. The prevalence of people at a risk of depression or being depressed was 40%. Correlation analysis showed that, as perceived life changes score decreases (change for the worst), the score for the feeling of depression increases (r = −.692, p ⩽ .001). Stroke survivors’ functional disability significantly predicted both perceived care-related life changes and depression in caregivers. Assessment of caregivers of people with stroke for depressive symptoms should be incorporated in the initial nursing assessment process. The perceived life changes among caregivers should be closely monitored, and follow-up meetings should be planned to support caregivers. The functional disability in people with stroke could be a valuable criterion for planning care for their caregivers.
The Receptor-Like Kinase SERK3/BAK1 Is Required for Basal Resistance against the Late Blight Pathogen Phytophthora infestans in Nicotiana benthamiana

Background The filamentous oomycete plant pathogen Phytophthora infestans causes late blight, an economically important disease, on members of the nightshade family (Solanaceae), such as the crop plants potato and tomato. The related plant Nicotiana benthamiana is a model system to study plant-pathogen interactions, and the susceptibility of N. benthamiana to Phytophthora species varies from susceptible to resistant. Little is known about the extent to which plant basal immunity, mediated by membrane receptors that recognise conserved pathogen-associated molecular patterns (PAMPs), contributes to P. infestans resistance. Principal Findings We found that different species of Phytophthora have varying degrees of virulence on N. benthamiana ranging from avirulence (incompatible interaction) to moderate virulence through to full aggressiveness. The leucine-rich repeat receptor-like kinase (LRR-RLK) BAK1/SERK3 is a major modulator of PAMP-triggered immunity (PTI) in Arabidopsis thaliana and N. benthamiana. We cloned two NbSerk3 homologs, NbSerk3A and NbSerk3B, from N. benthamiana based on sequence similarity to the A. thaliana gene. N. benthamiana plants silenced for NbSerk3 showed markedly enhanced susceptibility to P. infestans infection but were not altered in resistance to Phytophthora mirabilis, a sister species of P. infestans that specializes on a different host plant. Furthermore, silencing of NbSerk3 reduced the cell death response triggered by the INF1, a secreted P. infestans protein with features of PAMPs. Conclusions/Significance We demonstrated that N. benthamiana NbSERK3 significantly contributes to resistance to P. infestans and regulates the immune responses triggered by the P. infestans PAMP protein INF1. In the future, the identification of novel surface receptors that associate with NbSERK3A and/or NbSERK3B should lead to the identification of new receptors that mediate recognition of oomycete PAMPs, such as INF1.
NOX1, 2, 4, 5: counting out oxidative stress

For decades, oxidative stress has been discussed as a key mechanism of endothelial dysfunction and cardiovascular disease. However, attempts to validate and exploit this hypothesis clinically by supplementing antioxidants have failed. Nevertheless, this does not disprove the oxidative stress hypothesis. As a certain degree of reactive oxygen species (ROS) formation appears to be physiological and beneficial. To reduce oxidative stress therapeutically, two alternative approaches are being developed. One is the repair of key signalling components that are compromised by oxidative stress. These include uncoupled endothelial nitric oxide (NO) synthase and oxidized/heme‐free NO receptor soluble guanylate cyclase. A second approach is to identify and effectively inhibit the relevant source(s) of ROS in a given disease condition. A highly likely target in this context is the family of NADPH oxidases. Animal models, including NOX knockout mice and new pharmacological inhibitors of NADPH oxidases have opened up a new era of oxidative stress research and have paved the way for new cardiovascular therapies.
Skin Diseases First Described in Japan

Over the 90 year history of dermatology in Japan, about 30 skin diseases have been first described by our colleagues. Although some of them have become well known internationally, many of them are less well known outside of Japan. In this article, we introduce those conditions first described in Japan which are lesser known but have international significance.
Question Answering Using "Common Sense" and Utility Maximization Principle

In this paper, we propose two new methods targeting NTCIR-4 QAC2. First, we use knowledge resembling “common sense” for question answering purposes. For example, the length of a runway in an airport must be a few kilometers, but a few centimeters. In practice, we use specific types of information latent in document collections to verify the correctness of each answer candidate. Second, we use the utility maximization principle to determine the appropriate number of answers for a list question. We estimate the expected value of the evaluation score, on the basis of the probability scores for multiple answer candidates. We show the effectiveness of our methods by means of experiments.
Hypertension Treatment and Control in Five European Countries, Canada, and the United States

Abstract—Levels of hypertension treatment and control have been noted to vary between Europe and North America, although direct comparisons with similar methods have not been undertaken. In this study, we sought to estimate the relative impact of hypertension treatment strategies in Germany, Sweden, England, Spain, Italy, Canada, and the United States by using sample surveys conducted in the 1990s. Hypertension was defined as a blood pressure of 160/95 mm Hg or 140/90 mm Hg, plus persons taking antihypertensive medication. “Controlled hypertension” was defined as a blood pressure less than threshold among persons taking antihypertensive medications. Among persons 35 to 64 years, 66% of hypertensives in the United States had their blood pressure controlled at 160/95 mm Hg, compared with 49% in Canada and 23% to 38% in Europe. Similar discrepancies were apparent at the 140/90 mm Hg threshold, at which 29% of hypertensives in the United States, 17% in Canada, and ≤10% in European countries had their blood pressure controlled. At the 140/90 mm Hg cutpoint, two thirds to three quarters of the hypertensives in Canada and Europe were untreated compared with slightly less than half in the United States. Although guidelines vary among countries, resulting in different case definitions, this does not account entirely for the varying success of different national control efforts. Low treatment and control rates in Europe, combined with a higher prevalence of hypertension, could contribute to a higher burden of cardiovascular disease risk attributable to elevated blood pressure compared with that in North America.
Determining the spin of two stellar‐mass black holes from disc reflection signatures

We present measurements of the dimensionless spin parameters and inner-disc inclination of two stellar-mass black holes. The spin parameter of SWIFT J1753.5−0127 and GRO J1655−40 is estimated by modelling the strong reflection signatures present in their XMM– Newton observations. Using a newly developed, self-consistent reflection model which includes the blackbody radiation of the disc as well as the effect of Comptonization, blurred with a relativistic line function, we infer the spin parameter of SWIFT J1753.5−0127 to be 0.76 +0.11 −0.15 . The inclination of this system is estimated at 55 ◦ +2 −7 . For GRO J1655−40, we find that the disc is significantly misaligned to the orbital plane, with an innermost inclination of 30 ◦+5 −10 . Allowing the inclination to be a free parameter, we find a lower limit for the spin of 0.90, this value increases to that of a maximal rotating black hole when the inclination is set to that of the orbital plane of J1655−40. Our technique is independent of the black hole mass and distance, uncertainties in which are among the main contributors to the spin uncertainty in previous works.
Cross-layer modeling of AMC/ARQ-based wireless networks with outdated CSI

State-of-the-art wireless communications standards combine (hybrid) automatic repeat request (HARQ) protocols at the data link control (DLC) layer with adaptive modulation and coding (AMC) strategies at the physical layer. Most previous work on cross-layer modeling of these networks assumes the availability of ideal channel state information (CSI). However, in practical systems the CSI used to perform link adaptation may be outdated. This paper presents a generalized cross-layer multidimensional discrete-time Markov chain (DTMC)-based queuing model that jointly exploits the capabilities of ARQ and AMC, by explicitly accounting for imperfections in the AMC scheme caused by the delay in the CSI feedback channel. Based on the stationary state probability distribution of the proposed multidimensional DTMC, closed-form analytical expressions for performance metrics such as average throughput, queue length, packet delay and packet loss rate are derived, and an analysis of the impact of using outdated CSI on these performance parameters is presented.
A GLRT approach for detecting correlated signals in white noise in two MIMO channels

In this work, we consider a second-order detection problem where rank-p signals are structured by an unknown, but common, p-dimensional random vector and then received through unknown M × p matrices at each of two M-element arrays. The noises in each channel are independent with identical variances. We derive generalized likelihood ratio (GLR) tests for this problem when the noise variance is either known or unknown. The resulting detection problems may be phrased as two-channel factor analysis problems.
Tracking of risk factors for coronary heart disease over a 14-year period: a comparison between lifestyle and biologic risk factors with data from the Amsterdam Growth and Health Study.

Because the magnitude of tracking coefficients (i.e., stability coefficients and tracking for subjects at risk) greatly depends on the initial age of subjects, the number and spacing of longitudinal measurements, and the length of the total time period, it is difficult to compare tracking coefficients from different studies with each other. Because in the Amsterdam Growth and Health Study both biologic (i.e., lipoproteins, blood pressure, body fatness, and cardiopulmonary fitness) and lifestyle (i.e., dietary intake, daily physical activity, smoking, and alcohol consumption) risk factors for coronary heart disease were measured, this study gives the unique possibility of comparing tracking coefficients of biologic and lifestyle risk factors within one data set. In the Amsterdam Growth and Health Study, six repeated measurements were carried out on 181 subjects over a period from 13 to 27 years of age, beginning in 1977. The results indicated that, over a period of 14 years covering adolescence and young adulthood, both stability coefficients and tracking for subjects at risk for lifestyle risk factors were low (except for smoking), indicating low predictability of early measurements for values later in life. For the biologic risk factors cardiopulmonary fitness and blood pressure, tracking was also low, while for the lipoproteins and body fatness, tracking was much better, indicating good predictability.
Genome-Wide Analysis of Selection on the Malaria Parasite Plasmodium falciparum in West African Populations of Differing Infection Endemicity

Locally varying selection on pathogens may be due to differences in drug pressure, host immunity, transmission opportunities between hosts, or the intensity of between-genotype competition within hosts. Highly recombining populations of the human malaria parasite Plasmodium falciparum throughout West Africa are closely related, as gene flow is relatively unrestricted in this endemic region, but markedly varying ecology and transmission intensity should cause distinct local selective pressures. Genome-wide analysis of sequence variation was undertaken on a sample of 100 P. falciparum clinical isolates from a highly endemic region of the Republic of Guinea where transmission occurs for most of each year and compared with data from 52 clinical isolates from a previously sampled population from The Gambia, where there is relatively limited seasonal malaria transmission. Paired-end short-read sequences were mapped against the 3D7 P. falciparum reference genome sequence, and data on 136,144 single nucleotide polymorphisms (SNPs) were obtained. Within-population analyses identifying loci showing evidence of recent positive directional selection and balancing selection confirm that antimalarial drugs and host immunity have been major selective agents. Many of the signatures of recent directional selection reflected by standardized integrated haplotype scores were population specific, including differences at drug resistance loci due to historically different antimalarial use between the countries. In contrast, both populations showed a similar set of loci likely to be under balancing selection as indicated by very high Tajima’s D values, including a significant overrepresentation of genes expressed at the merozoite stage that invades erythrocytes and several previously validated targets of acquired immunity. Between-population FST analysis identified exceptional differentiation of allele frequencies at a small number of loci, most markedly for five SNPs covering a 15-kb region within and flanking the gdv1 gene that regulates the early stages of gametocyte development, which is likely related to the extreme differences in mosquito vector abundance and seasonality that determine the transmission opportunities for the sexual stage of the parasite.
Risky Decision Making in Smoking and Nonsmoking College Students: Examination of Iowa Gambling Task Performance by Deck Type Selections

The Iowa Gambling Task (IGT) is used to assess risky decision making in clinical and nonclinical populations. Recent studies have begun to assess performance on the IGT not by number of advantageous and disadvantageous selections, but rather by the pattern of performance on each of the four individual decks (A, B, C, and D). The present study sought to further examine deck selection patterns among smoking and nonsmoking college students, as mixed results have been found on the IGT in nicotine and as a function of substance satiation level. Participants were 136 undergraduates (48 male; mean age 19.24 years), of whom 70 were nonsmokers. Thirty-one smokers abstained from smoking overnight. Performance on the IGT was broken into two blocks (Trials 1–40, Trials 41–100) for each of the four decks. Abstinent smokers selected more from Deck A on Block 2 than the ad libitum smokers. No group or block differences were found for Decks B or C. Selections from Deck D increased as the task progressed, regardless of smoking status. Ad libitum smokers preferred Deck B to Deck A on Block 2. The results provide some evidence that nicotine satiation level affects IGT deck selections among smokers.