Miracle-dz/UniFAR-FTUs huggingface dataset:
Effects of Litterfall on the Accumulation of Extracted Soil Humic Substances in Subalpine Forests

Plant litter is one of the main sources of soil humus, but which can also promote primary humus degradation by increasing microbial activity due to the higher availability of energy released, resulting in a confusing relationship between litterfall and soil humus. Therefore, an in situ incubation experiment was carried out in three subalpine forests (coniferous, mixed and broadleaved forests) on the eastern Qinghai-Tibetan Plateau. We set up two treatments. One that allowed litterfall to enter the soil normally and the other prevented litterfall to enter the soil. Soils were sampled in October (the end of the growing season), January (the onset of the freezing season), March (the end of the freezing season), and May (the start of the growing season) from May 2017 to May 2018. By assessing the litterfall production, the content of total extracted humus, humic acid (HA) and fulvic acid (FA) in the topsoil (0–20 cm) in each incubation period, we determined the impact of litterfall on the content of humus extracted from the soil during the freezing and the growing season. Over 1-year incubation, soil total extracted humus and HA showed considerable decreases in the treatment of retained litterfall in the mixed forest but not in the coniferous or broadleaved forests. Moreover, litterfall significantly reduced the contents of soil total extracted humus and HA during the growing season in all three forests, while only reduced soil HA content in the broadleaved forest in the freezing season. The relationship between litterfall and soil extracted humic substances was greatly regulated by the seasonal dynamics of litter types and litter production in all forest types. The larger the amount of litterfall was, the more litterfall could promote the reduction of soil extracted humic substances. Compared with a single type of broadleaf or needle litter, mixed litterfall could promote a higher degradation of soil humic substances. However, broadleaf litter might lead to much greater decreases in soil humic substance than needle litter because it is more decomposable. These results indicate that the effect of litterfall on soil humic substances are mainly regulated by litter types and litter production. Moreover, the effects of litterfall on soil humic substances are more significant during the growing season than winter. This suggests that the longer growing season and a shorter winter caused by ongoing global warming may alter the relationships between litterfall and extracted humic substances, further disrupting the carbon balance of forest ecosystems in the subalpine forests.
Baseline Brain Gray Matter Volume as a Predictor of Acupuncture Outcome in Treating Migraine

Background: The present study aimed to investigate the use of imaging biomarkers to predict the outcome of acupuncture in patients with migraine without aura (MwoA). Methods: Forty-one patients with MwoA received 4 weeks of acupuncture treatment and two brain imaging sessions at the Beijing Traditional Chinese Medicine Hospital affiliated with Capital Medical University. Patients kept a headache diary for 4 weeks before treatment and during acupuncture treatment. Responders were defined as those with at least a 50% reduction in the number of migraine days. The machine learning method was used to distinguish responders from non-responders based on pre-treatment brain gray matter (GM) volume. Longitudinal changes in GM predictive regions were also analyzed. Results: After 4 weeks of acupuncture, 19 patients were classified as responders. Based on 10-fold cross-validation for the selection of GM features, the linear support vector machine produced a classification model with 73% sensitivity, 85% specificity, and 83% accuracy. The area under the receiver operating characteristic curve was 0.7871. This classification model included 10 GM areas that were mainly distributed in the frontal, temporal, parietal, precuneus, and cuneus gyri. The reduction in the number of migraine days was correlated with baseline GM volume in the cuneus, parietal, and frontal gyri in all patients. Moreover, the left cuneus showed a longitudinal increase in GM volume in responders. Conclusion: The results suggest that pre-treatment brain structure could be a novel predictor of the outcome of acupuncture in the treatment of MwoA. Imaging features could be a useful tool for the prediction of acupuncture efficacy, which would enable the development of a personalized medicine strategy.
Dissociating the Disruptive Effects of Irrelevant Music and Speech on Serial Recall of Tonal and Verbal Sequences

Task-irrelevant speech or music sounds are known to disrupt verbal short-term memory even when participants are instructed to ignore the sound, suggesting that automatically processed acoustical changes interfere with the rehearsal of phonological items. However, much less is known about auditory distraction in tasks that require the memorization and recall of non-phonological auditory items. In the present study, both musically trained and untrained participants were asked to memorize random tone sequences (consisting of low, medium, and high pitch tones) while task-irrelevant sound was presented. Irrelevant instrumental music was found to produce more disruption of tonal recall than white noise, whereas irrelevant speech produced intermediate levels of disruption. In contrast, only speech produced significant interference in an analogous verbal recall task. Crucially, although musically trained participants were able to recall more tones in general, the degree of auditory distraction that was produced by irrelevant music in the tonal recall task was found to be independent of musical expertise. The findings are in line with the assumption of two separate mechanisms for the maintenance of tonal and phonological information. Specifically, short-term memory for tone sequences may rely on a pitch-based rehearsal system which is disrupted by the perception of irrelevant pitch changes as contained in instrumental music (and to a lesser extent in speech), whereas serial recall of verbal items is most sensitive to phonological sounds.
Psychological and Psychopathological Aspects of Kidney Transplantation: A Systematic Review

Kidney transplantation is a serious event that involves profound psychological, relational and social changes both for the patient and his family context. Assessment of personality profile, awareness of disease, family and social support of the patient candidate for kidney transplantation are necessary because factors not adequately considered, can influence the success of the transplant and alter the psychological stability of the patient. The present study aims to provide a systematic review of the literature of the last twelve years (2006–2018), focusing in particular on patient’s readiness level and illness management and on possible psychopathology. Sixty-two studies were examined. Based on the Downs and Black checklist, most studies (n = 32) were of high quality; 15 of which related to lifestyle, health education, and therapeutic adherence in post-renal transplantation, 17 studies concerned the possible existence of psychopathology and cognitive impairment of renal deceased transplanted subjects. The literature used has shown that the population of kidney transplant patients is exposed to a high risk of psychiatric disorders with repercussions on the quality of life and the risk of rejection. Therefore, an adequate pre-transplant psychosocial assessment is necessary, which allows a more in-depth knowledge of the candidate to plan coping strategies and possible post-transplant psychotherapy.
Delineation of Homeostatic Immune Signatures Defining Viremic Non-progression in HIV-1 Infection

Viremic non-progressors (VNPs), a distinct group of HIV-1-infected individuals, exhibit no signs of disease progression and maintain persistently elevated CD4+ T cell counts for several years despite high viral replication. Comprehensive characterization of homeostatic cellular immune signatures in VNPs can provide unique insights into mechanisms responsible for coping with viral pathogenesis as well as identifying strategies for immune restoration under clinically relevant settings such as antiretroviral therapy (ART) failure. We report a novel homeostatic signature in VNPs, the preservation of the central memory CD4+ T cell (CD4+ TCM) compartment. In addition, CD4+ TCM preservation was supported by ongoing interleukin-7 (IL-7)-mediated thymic repopulation of naive CD4+ T cells leading to intact CD4+ T cell homeostasis in VNPs. Regulatory T cell (Treg) expansion was found to be a function of preserved CD4+ T cell count and CD4+ T cell activation independent of disease status. However, in light of continual depletion of CD4+ T cell count in progressors but not in VNPs, Tregs appear to be involved in lack of disease progression despite high viremia. In addition to these homeostatic mechanisms resisting CD4+ T cell depletion in VNPs, a relative diminution of terminally differentiated effector subset was observed exclusively in these individuals that might ameliorate consequences of high viral replication. VNPs also shared signatures of impaired CD8+ T cell cytotoxic function with progressors evidenced by increased exhaustion (PD-1 upregulation) and CD127 (IL-7Rα) downregulation contributing to persistent viremia. Thus, the homeostatic immune signatures reported in our study suggest a complex multifactorial mechanism accounting for non-progression in VNPs.
Genetic Relationships Among Portuguese Cultivated and Wild Vitis vinifera L. Germplasm

The domesticated grapevine spread along the Mediterranean basin from the primary Near East domestication area, where the greatest genetic diversity is found in its ancestor, the wild vine populations. Portuguese wild populations are on the southwestern fringe of the distribution of the Vitis vinifera L. ssp. sylvestris (C.C. Gmel.) Hegi in Europe. During the last Glacial Period they became isolated from the previous continuum that had been the territory of wild vine populations. Archaeological remains of domesticated vinifera grapevines in Portugal date back from 795 Before Common Era (BCE) in the lower Tagus river basin. In this work, 258 Portuguese vinifera varieties and sylvestris plants were characterized using 261 single nucleotide polymorphism (SNP) markers. The study of the genetic diversity of this local germplasm, its population structure and kinship, all framed in their historical and geographical backgrounds, revealed a complex network of first-degree relationships, where only Iberian varieties are involved. Some Iberian genotypes, like Alfrocheiro (Bruñal, in Spain), Sarigo (Cayetana Blanca), Mourisco Branco (Hebén), Amaral (Caiño Bravo), and Marufo (Moravia Dulce) are ancestors of a considerable fraction of all the autochthonous analyzed varieties. A part of the diversity developed was mostly local in some cases as shown by the closeness of several varieties (Vinhos Verdes) to the wild cluster in different analyses. Besides, several evidences of introgression of domesticated germplasm into wild vines was found, substantiating the high risk of genetic contamination of the sylvestris subspecies. All these findings together to the known matching between the wild maternal lineage of the Iberian Peninsula and an important number of Portuguese grapevine varieties (chlorotype A), point out that some of these varieties derive, directly or indirectly, from originally local wild populations, supporting the possible occurrence of secondary events of local domestication, or, at least, of an introgression process of wild into cultivated grapevines.
Photoprotective Acclimation of the Arabidopsis thaliana Leaf Proteome to Fluctuating Light

Plants are subjected to strong fluctuations in light intensity in their natural growth environment, caused both by unpredictable changes due to weather conditions and movement of clouds and upper canopy leaves and predictable changes during day-night cycle. The mechanisms of long-term acclimation to fluctuating light (FL) are still not well understood. Here, we used quantitative mass spectrometry to investigate long-term acclimation of low light-grown Arabidopsis thaliana to a FL condition that induces mild photooxidative stress. On the third day of exposure to FL, young and mature leaves were harvested in the morning and at the end of day for proteome analysis using a stable isotope labeling approach. We identified 2,313 proteins, out of which 559 proteins exhibited significant changes in abundance in at least one of the four experimental groups (morning-young, morning-mature, end-of-day-young, end-of-day-mature). A core set of 49 proteins showed significant responses to FL in three or four experimental groups, which included enhanced accumulation of proteins involved in photoprotection, cyclic electron flow around photosystem I, photorespiration, and glycolysis, while specific glutathione transferases and proteins involved in translation and chlorophyll biosynthesis were reduced in abundance. In addition, we observed pathway- and protein-specific changes predominantly at the end of day, whereas few changes were observed exclusively in the morning. Comparison of the proteome data with the matching transcript data revealed gene- and protein-specific responses, with several chloroplast-localized proteins decreasing in abundance despite increased gene expression under FL. Together, our data shows moderate but widespread alterations of protein abundance during acclimation to FL and suggests an important role of post-transcriptional regulation of protein abundance.
Neurodegeneration-Associated Proteins in Human Olfactory Neurons Collected by Nasal Brushing

The olfactory neuroepithelium is located in the upper vault of the nasal cavity, lying on the olfactory cleft and projecting into the dorsal portion of the superior and middle turbinates beyond the mid-portion of the nasal septum. It is composed of a variety of cell types including olfactory sensory neurons, supporting glial-like cells, microvillar cells, and basal stem cells. The cells of the neuroepithelium are often intermingled with respiratory and metaplastic epithelial cells. Olfactory neurons undergo a constant self-renewal in the timespan of 2–3 months; they are directly exposed to the external environment, and thus they are vulnerable to physical and chemical injuries. The latter might induce metabolic perturbations and ultimately be the cause of cell death. However, the lifespan of olfactory neurons is biologically programmed, and for this reason, these cells have an accelerated metabolic cycle leading to an irreversible apoptosis. These characteristics make these cells suitable for research related to nerve cell degeneration and aging. Recent studies have shown that a non-invasive and painless olfactory brushing procedure allows an efficient sampling from the olfactory neuroepithelium. This approach allows to detect the pathologic prion protein in patients with sporadic Creutzfeldt–Jakob disease, using the real-time quaking-induced conversion assay. Investigating the expression of all the proteins associated to neurodegeneration in the cells of the olfactory mucosa is a novel approach toward understanding the pathogenesis of human neurodegenerative diseases. Our aim was to investigate the expression of α-synuclein, β-amyloid, tau, and TDP-43 in the olfactory neurons of normal subjects. We showed that these proteins that are involved in neurodegenerative diseases are expressed in olfactory neurons. These findings raise the question on whether a relationship exists between the mechanisms of protein aggregation that occur in the olfactory bulb during the early stage of the neurodegenerative process and the protein misfolding occurring in the olfactory neuroepithelium.
Root canal morphology of mandibular canines in the Syrian population: A CBCT Assessment

Introduction: The recent study aimed to assess the root canal morphology of mandibular canines in the Syrian population depending on the cone beam computed tomography (CBCT) images. Materials and Methods: A total of 418 fully developed mandibular canines in Syrian individuals aged between 16 and 60 years were included. The presence of at least one mandibular right or left canine with fully developed roots was recorded in each image. The root canal configurations were classified according to the method of Vertucci. The mandibular canines were examined in sagittal, coronal, and axial dimensions. The CBCT images were evaluated by three endodontists with at least 9 years of clinical experience in endodontics. Data were analyzed with descriptive analysis and Chi-square tests using the Statistical Package for the Social Sciences (SPSS) software version 25 (SPSS Inc, Chicago, IL, USA). Results: Out of the 418 mandibular canines, 409 (97.85%) were single-rooted canines while only 9 (2.15%) were double-rooted canines. The most common type of Vertucci in single-rooted canines was Type I (1-1) in the percentage of 95.87% and the least type was Type V (1-2) in the percentage of (0.24%). The Chi-square tests showed no significant association between gender and number of roots (P = 0.64) and gender and root canal configuration in single-rooted canine (P = 0.194). Conclusion: Single-rooted with Type I canal configuration was the most common anatomy in mandibular canines in the Syrian population. Incidence of more than one root canal foramen at the end of the single root was detected in one case only.
Improving Restoration Programs Through Greater Connection With Ecological Theory and Better Monitoring

Millions of hectares of land worldwide is in urgent need of restoration. However, many past landscape and ecosystem restoration efforts are likely to have been less than effective. Some of the reasons for these problems include a lack of monitoring, or being subjected to poor quality monitoring practices, or that the restoration efforts are too often not linked with ecological concepts and/or theory. These deficiencies make it difficult to: (1) identify general principles for broader application beyond site-specific insights, (2) quantify success, and (3) identify general ways to improve restoration programs. In this paper, I outline some personal perspectives on how these deficiencies might be addressed using insights from two decades of work on restoration in the temperate woodlands of south-eastern Australia. I argue problems associated with a lack of monitoring and limited connection to ecological theory need to be rectified if future landscape and ecosystem restoration programs are to be more successful than those in the past and are to deliver better ecological returns on investment. This should help enhance learning and boost the potential for continuous improvement in restoration efforts.
Phosphatase PTPN22 Regulates Dendritic Cell Homeostasis and cDC2 Dependent T Cell Responses

Dendritic cells (DCs) are specialized antigen presenting cells that instruct T cell responses through sensing environmental and inflammatory danger signals. Maintaining the homeostasis of the multiple functionally distinct conventional dendritic cells (cDC) subsets that exist in vivo is crucial for regulating immune responses, with changes in numbers sufficient to break immune tolerance. Using Ptpn22−/− mice we demonstrate that the phosphatase PTPN22 is a highly selective, negative regulator of cDC2 homeostasis, preventing excessive population expansion from as early as 3 weeks of age. Mechanistically, PTPN22 mediates cDC2 homeostasis in a cell intrinsic manner by restricting cDC2 proliferation. A single nucleotide polymorphism, PTPN22R620W, is one of the strongest genetic risk factors for multiple autoantibody associated human autoimmune diseases. We demonstrate that cDC2 are also expanded in mice carrying the orthologous PTPN22619W mutation. As a consequence, cDC2 dependent CD4+ T cell proliferation and T follicular helper cell responses are increased. Collectively, our data demonstrate that PTPN22 controls cDC2 homeostasis, which in turn ensures appropriate cDC2-dependent T cell responses under antigenic challenge. Our findings provide a link between perturbations in DC development and susceptibility to a broad spectrum of PTPN22R620W associated human autoimmune diseases.
Circulating MicroRNAs in Plasma Decrease in Response to Sarcopenia in the Elderly

sarcopenia has been defined as the aging-related disease with the declined mass, strength, and function of skeletal muscle, which is a major cause of morbidity and mortality in elders. Current diagnostic criteria of sarcopenia have not been agreed internationally, and the clinical diagnostic biomarkers for sarcopenia have not been identified. Circulating miRNAs (miRNAs, miRs) have recently been characterized as novel biomarkers for sarcopenia. However, the change of circulating miRNAs in response to sarcopenia are still not fully understood. Here, we enrolled a total of 93 elderly patients clinically diagnosed with sarcopenia and matching 93 non-sarcopenia elderly in this study. Specifically, levels of candidate circulating miRNAs which were involved in angiogenesis, inflammation and enriched in muscle and/or cardiac tissues were detected in these two groups. In small-sample screening experiments, plasma miR-155, miR-208b, miR-222, miR-210, miR-328, and miR-499 levels were significantly down-regulated in sarcopenia compared to those who non-sarcopenia. In contrast, miR-1, mir-133a, miR-133b, miR-21, miR-146a, miR-126, miR-221, and miR-20a were not changed significantly. Subsequently, we expanded the sample size to further detection and verification, and found that plasma miR-155, miR-208b, miR-222, miR-210, miR-328, and miR-499 levels in the sarcopenia group were significantly reduced compared to the non-sarcoma group, which is consistent with the results of the small-sample screening experiment. In addition, we showed that ASM/Height2, handgrip strength, knee extension and 4-meter velocity in sarcopenia group were significantly lower than those in non-sarcopenia group. Here we correlated the decrease of miR-208b, miR-499, miR-155, miR-222, miR-328, and miR-210 in sarcopenia group and non-sarcopenia group with diagnostic indexes of sarcopenia (ASM/Height2, Handgrip strength and 4-meter velocity) after adjusting sex. The results showed that miR-208b and miR-155 changes were significantly correlated with handgrip strength in woman, miR-208b, miR-499, and miR-222 changes were significantly correlated with ASM/Height2 in man, while other miRNAs changes did not show a strong correlation with these diagnostic indexes. In conclusion, plasma miR-208b, miR-499, miR-155, miR-222, miR-328, and miR-210 decrease in response to sarcopenia in the elderly. Although further studies are needed to clarify the potential use of circulating miRNAs as biomarkers of sarcopenia, present findings set the stage for defining circulating miRNAs as biomarkers and suggesting their physiological roles in elderly with sarcopenia.