bluuebunny/crossref_metadata_2025_split huggingface dataset:
Origin and evolution of qingke barley in Tibet
Authors: Zeng Xingquan , Guo Yu , Xu Qijun , Mascher Martin , Guo Ganggang , Li Shuaicheng , Mao Likai , Liu Qingfeng , Xia Zhanfeng , Zhou Juhong , Yuan Hongjun , Tai Shuaishuai , Wang Yulin , Wei Zexiu , Song Li , Zha Sang , Li Shiming , Tang Yawei , Bai Lijun , Zhuang Zhenhua , He Weiming , Zhao Shancen , Fang Xiaodong , Gao Qiang , Yin Ye , Wang Jian , Yang Huanming , Zhang Jing , Henry Robert J. , Stein Nils , Tashi Nyima 
Published: December 2018

AbstractTibetan barley (Hordeum vulgare L., qingke) is the principal cereal cultivated on the Tibetan Plateau for at least 3,500 years, but its origin and domestication remain unclear. Here, based on deep-coverage whole-genome and published exome-capture resequencing data for a total of 437 accessions, we show that contemporary qingke is derived from eastern domesticated barley and it is introduced to southern Tibet most likely via north Pakistan, India, and Nepal between 4,500 and 3,500 years ago. The low genetic diversity of qingke suggests Tibet can be excluded as a center of origin or domestication for barley. The rapid decrease in genetic diversity from eastern domesticated barley to qingke can be explained by a founder effect from 4,500 to 2,000 years ago. The haplotypes of the five key domestication genes of barley support a feral or hybridization origin for Tibetan weedy barley and reject the hypothesis of native Tibetan wild barley.
Fire air pollution reduces global terrestrial productivity
Authors: Yue Xu , Unger Nadine 
Published: December 2018

AbstractFire emissions generate air pollutants ozone (O3) and aerosols that influence the land carbon cycle. Surface O3 damages vegetation photosynthesis through stomatal uptake, while aerosols influence photosynthesis by increasing diffuse radiation. Here we combine several state-of-the-art models and multiple measurement datasets to assess the net impacts of fire-induced O3 damage and the aerosol diffuse fertilization effect on gross primary productivity (GPP) for the 2002–2011 period. With all emissions except fires, O3 decreases global GPP by 4.0 ± 1.9 Pg C yr−1 while aerosols increase GPP by 1.0 ± 0.2 Pg C yr−1 with contrasting spatial impacts. Inclusion of fire pollution causes a further GPP reduction of 0.86 ± 0.74 Pg C yr−1 during 2002–2011, resulting from a reduction of 0.91 ± 0.44 Pg C yr−1 by O3 and an increase of 0.05 ± 0.30 Pg C yr−1 by aerosols. The net negative impact of fire pollution poses an increasing threat to ecosystem productivity in a warming future world.
Prognostic Relevance of CCDC88C (Daple) Transcripts in the Peripheral Blood of Patients with Cutaneous Melanoma
Authors: Dunkel Ying , Reid Anna L. , Ear Jason , Aznar Nicolas , Millward Michael , Gray Elin , Pearce Robert , Ziman Melanie , Ghosh Pradipta 
Published: December 2018

AbstractA loss of balance between G protein activation and deactivation has been implicated in the initiation of melanomas, and non-canonical Wnt signaling via the Wnt5A/Frizzled (FZD) pathway has been shown to be critical for the switch to an invasive phenotype. Daple [CCDC88C], a cytosolic guanine nucleotide exchange modulator (GEM) which enhances non-canonical Wnt5A/FZD signaling via activation of trimeric G protein, Gαi, has been shown to serve opposing roles–as an inducer of EMT and invasiveness and a potent tumor suppressor–via two isoforms, V1 (full-length) and V2 (short spliced isoform), respectively. Here we report that the relative abundance of these isoforms in the peripheral circulation, presumably largely from circulating tumor cells (CTCs), is a prognostic marker of cutaneous melanomas. Expression of V1 is increased in both the early and late clinical stages (p < 0.001, p = 0.002, respectively); V2 is decreased exclusively in the late clinical stage (p = 0.003). The two isoforms have opposing prognostic effects: high expression of V2 increases relapse-free survival (RFS; p = 0.014), whereas high expression of V1 tends to decrease RFS (p = 0.051). Furthermore, these effects are additive, in that melanoma patients with a low V2-high V1 signature carry the highest risk of metastatic disease. We conclude that detection of Daple transcripts in the peripheral blood (i.e., liquid biopsies) of patients with melanoma may serve as a prognostic marker and an effective strategy for non-invasive long-term follow-up of patients with melanoma.
CHA2DS2-VASc score predicts exercise intolerance in young and middle-aged male patients with asymptomatic atrial fibrillation
Authors: Yi Jeong-Eun , Lee Young Soo , Choi Eue-Keun , Cha Myung-Jin , Kim Tae-Hoon , Park Jin-Kyu , Lee Jung-Myung , Kang Ki-Woon , Shim Jaemin , Uhm Jae-Sun , Kim Jun , Kim Changsoo , Kim Jin-Bae , Park Hyung Wook , Joung Boyoung , Park Junbeom 
Published: December 2018

AbstractExercise intolerance among the clinical symptoms in patients with atrial fibrillation (AF) has usually been masked by their adjusted life style. We sought to assess the role of CHA2DS2-VASc score to predict exercise intolerance in asymptomatic AF patients, and further examine whether the relationship differs by age and gender. Among the 6,275 participants of the prospective Korean registry of the Comparison study of Drugs for symptom control and complication prevention of Atrial Fibrillation (CODE-AF), 1,080 AF patients who underwent exercise treadmill testing were studied. Exercise intolerance was defined as a peak exercise capacity of 7 metabolic equivalents (METs) or less, and the patients were divided into two groups for the analysis: ≤7 METs (n = 131) and >7 METs (n = 949). Patients with exercise intolerance had a significantly higher CHA2DS2-VASc score than those without (3.1 ± 1.3 vs. 2.0 ± 1.5, p < 0.0001). In the multivariate analysis, a higher CHA2DS2-VASc score (OR 1.54, 95% CI 1.31–1.81, p < 0.0001), corrected QT interval (OR 1.01, 95% CI 1.00–1.02, p = 0.026), and increased left atrial volume index (OR 1.02, 95% CI 1.01–1.03, p = 0.001) were found to be independent predictors of exercise intolerance. The impact of the CHA2DS2-VASc score on exercise intolerance was significant only in male patients aged <65 years (OR 3.30, 95% CI 1.76–6.19, p < 0.0001). The CHA2DS2-VASc score may be a feasible risk assessment tool to predict exercise intolerance, especially in young and middle-aged male patients with asymptomatic AF.
Brushfield spots and Wölfflin nodules unveiled in dark irides using near-infrared light
Authors: Postolache Lavinia , Parsa Cameron F. 
Published: December 2018

AbstractWölfflin nodules and Brushfield spots were described essentially in light colored irides. The purpose of our study is to determine if these iris features are also present in dark irides, hidden by melanin granules of the anterior leaf of the iris. We examined iris images, taken with standard visible white, as well as with near-infrared light of children with Down syndrome and without. Using white light, Brushfield spots were seen in 21% of children with Down syndrome, and Wölfflin nodules in 12% of controls (p < 0.001), all noted in those with lightly colored irides. Brushfield spots were detected in 67% of children with Down syndrome using near-infrared light compared to 21% using white light (p < 0.001). Wölfflin nodules were detected in 19% of controls using near-infrared light compared to 12% using white light. Peripheral iris thinning was present in 63% of children with Down syndrome but in only 23% of those without (p = 0.001). Contraction furrows were less frequent in children with Down syndrome (16%) compared to controls (74%)(p < 0.001). Near-infrared light unveils Brushfield spots and Wölfflin nodules in dark irides. Clearing this discrepancy should assist in the elucidation of their pathophysiologic origin. A high prevalence of peripheral iris thinning is also present in children with Down syndrome along with a heretofore unreported reduction in iris contraction furrows.
An adaptive microbiome α-diversity-based association analysis method
Authors: Koh Hyunwook 
Published: December 2018

AbstractTo relate microbial diversity with various host traits of interest (e.g., phenotypes, clinical interventions, environmental factors) is a critical step for generic assessments about the disparity in human microbiota among different populations. The performance of the current item-by-item α-diversity-based association tests is sensitive to the choice of α-diversity metric and unpredictable due to the unknown nature of the true association. The approach of cherry-picking a test for the smallest p-value or the largest effect size among multiple item-by-item analyses is not even statistically valid due to the inherent multiplicity issue. Investigators have recently introduced microbial community-level association tests while blustering statistical power increase of their proposed methods. However, they are purely a test for significance which does not provide any estimation facilities on the effect direction and size of a microbial community; hence, they are not in practical use. Here, I introduce a novel microbial diversity association test, namely, adaptive microbiome α-diversity-based association analysis (aMiAD). aMiAD simultaneously tests the significance and estimates the effect score of the microbial diversity on a host trait, while robustly maintaining high statistical power and accurate estimation with no issues in validity.
IL-33, IL-25 and TSLP contribute to development of fungal-associated protease-induced innate-type airway inflammation
Authors: Hiraishi Yoshihisa , Yamaguchi Sachiko , Yoshizaki Takamichi , Nambu Aya , Shimura Eri , Takamori Ayako , Narushima Seiko , Nakanishi Wakako , Asada Yosuke , Numata Takafumi , Suzukawa Maho , Yamauchi Yasuhiro , Matsuda Akira , Arae Ken , Morita Hideaki , Hoshino Tomoaki , Suto Hajime , Okumura Ko , Matsumoto Kenji , Saito Hirohisa , Sudo Katsuko , Iikura Motoyasu , Nagase Takahide , Nakae Susumu 
Published: December 2018

AbstractCertain proteases derived from house dust mites and plants are considered to trigger initiation of allergic airway inflammation by disrupting tight junctions between epithelial cells. It is known that inhalation of proteases such as house dust mite-derived Der p1 and/or papaya-derived papain caused airway eosinophilia in naïve mice and even in Rag-deficient mice that lack acquired immune cells such as T, B and NKT cells. In contrast, little is known regarding the possible involvement of proteases derived from Aspergillus species (fungal-associated proteases; FAP), which are ubiquitous saprophytic fungi in the environment, in the development of allergic airway eosinophilia. Here, we found that inhalation of FAP by naïve mice led to airway eosinophilia that was dependent on protease-activated receptor-2 (PAR2), but not TLR2 and TLR4. Those findings suggest that the protease activity of FAP, but not endotoxins in FAP, are important in the setting. In addition, development of that eosinophilia was mediated by innate immune cells (ILCs) such as innate lymphoid cells, but not by acquired immune cells such as T, B and NKT cells. Whereas IL-33, IL-25 and thymic stromal lymphopoietin (TSLP) are involved in induction of FAP-induced ILC-mediated airway eosinophilia, IL-33—rather than IL-25 and/or TSLP—was critical for the eosinophilia in our model. Our findings improve our understanding of the molecular mechanisms involved in induction of airway inflammation by FAP.
Prickle1 regulates differentiation of frontal bone osteoblasts
Authors: Wan Yong , Lantz Brandi , Cusack Brian J. , Szabo-Rogers Heather L. 
Published: December 2018

AbstractEnlarged fontanelles and smaller frontal bones result in a mechanically compromised skull. Both phenotypes could develop from defective migration and differentiation of osteoblasts in the skull bone primordia. The Wnt/Planar cell polarity (Wnt/PCP) signaling pathway regulates cell migration and movement in other tissues and led us to test the role of Prickle1, a core component of the Wnt/PCP pathway, in the skull. For these studies, we used the missense allele of Prickle1 named Prickle1Beetlejuice(Prickle1Bj). The Prickle1Bj/Bj mutants are microcephalic and develop enlarged fontanelles between insufficient frontal bones, while the parietal bones are normal. Prickle1Bj/Bj mutants have several other craniofacial defects including a midline cleft lip, incompletely penetrant cleft palate, and decreased proximal-distal growth of the head. We observed decreased Wnt/β-catenin and Hedgehog signaling in the frontal bone condensations of the Prickle1Bj/Bj mutants. Surprisingly, the smaller frontal bones do not result from defects in cell proliferation or death, but rather significantly delayed differentiation and decreased expression of migratory markers in the frontal bone osteoblast precursors. Our data suggests that Prickle1 protein function contributes to both the migration and differentiation of osteoblast precursors in the frontal bone.
Elevated Creatine Kinase and Lactic Acid Dehydrogenase and Decreased Osteocalcin and Uncarboxylated Osteocalcin are Associated with Bone Stress Injuries in Young Female Athletes
Authors: Miyamoto Takeshi , Oguma Yuko , Sato Yuiko , Kobayashi Tami , Ito Eriko , Tani Mayaka , Miyamoto Kana , Nishiwaki Yuji , Ishida Hiroyuki , Otani Toshiro , Matsumoto Hideo , Matsumoto Morio , Nakamura Masaya 
Published: December 2018

AbstractStress fractures are a limitation for athletes not only in sports performance but in activities of daily living. Thus, preventing them is crucial. In female athletes, a triad of symptoms including low energy availability, functional hypothalamic amenorrhea and osteoporosis are considered risk factors for stress injuries, but biomarkers predictive of these outcomes are not available. Here, we evaluated 56 female university athletes and found that 13 had a history of stress bone injuries. Logistic regression analysis demonstrated that dysmenorrhea including amenorrhea, but not reduced food intake or body weight loss, was significantly associated with stress injuries. When we subdivided subjects into stress fracture and non-fracture groups, we found that serum levels of creatine kinase (CK) and lactic acid dehydrogenase (LDH) were significantly higher in the fracture group, while osteocalcin and uncarboxylated osteocalcin (ucOC), which are bone forming parameters, significantly decreased. Low vitamin D levels are associated with stress fractures, but serum vitamin D levels were higher in fracture compared to non-fracture subjects. We followed up 32 subjects for one year, and three exhibited new stress injuries during that period. A history of stress fracture history is significantly associated with experiencing a new stress fracture. We also found that subjects with new fracture performed significantly greater exercise activity than did non-fracture subjects. Taken together, our data indicate that increased serum CK and LDH and decreased serum osteocalcin and ucOC are biomarkers of stress injuries, and evaluating these markers along with dysmenorrhea, stress fracture history or high sports activity could predict future stress fractures in female athletes.
Direct imaging of capillaries reveals the mechanism of arteriovenous interlacing in the chick chorioallantoic membrane
Authors: Richard Sophie , Brun Amanda , Tedesco Antonio , Gallois Benjamin , Taghi Naoual , Dantan Philippe , Seguin Johanne , Fleury Vincent 
Published: December 2018

AbstractUnderstanding vascular development in vertebrates is an important scientific endeavor. Normal vasculatures generally start off as a disorganized capillary lattice which progressively matures into a well-organized vascular loop comprising a hierarchy of arteries and veins. One striking feature of vascular development is the interlacing of arteries and veins. How arteries and veins manage to avoid themselves and interlace with such a perfect architecture is not understood. Here we present a detailed view of the development of the vasculature in the chorioallantoic membrane of the chicken embryo. We find that the origin of arteriovenous interlacing lies in the presence of an increased hemodynamic resistance at the distal part of the arteries due to vascular flattening onto the ectodermal surface. This reduces the vascular conductance distally, thus repelling veins away. In more proximal parts, vessels round off into cylinders and the increased flow attracts veins.
Adaptation of the Staphylococcus aureus leukocidin LukGH for the rabbit host by protein engineering
Authors: Trstenjak Nikolina , Stulik Lukas , Rouha Harald , Zmajkovic Jakub , Zerbs Manuel , Nagy Eszter , Badarau Adriana 
Published: December 2018

Abstract
Host defense against Staphylococcus aureus greatly depends on bacterial clearance by phagocytic cells. LukGH (or LukAB) is the most potent staphylococcal leukocidin towards human phagocytes in vitro, but its role in pathogenesis is obscured by the lack of suitable small animal models because LukGH has limited or no cytotoxicity towards rodent and rabbit compared with human polymorphonuclear cells (PMNs) likely due to an impaired interaction with its cellular receptor, CD11b. We aimed at adapting LukGH for the rabbit host by improving binding to the rabbit homolog of CD11b, specifically its I-domain (CD11b-I). Targeted amino acid substitutions were introduced into the LukH polypeptide to map its receptor interaction site(s). We found that the binding affinity of LukGH variants to the human and rabbit CD11b-I correlated well with their PMN cytotoxicity. Importantly, we identified LukGH variants with significantly improved cytotoxicity towards rabbit PMNs, when expressed recombinantly (10–15-fold) or by engineered S. aureus strains. These findings support the development of small animal models of S. aureus infection with the potential for demonstrating the importance of LukGH in pathogenesis.
Identification of candidate biomarkers associated with apoptosis in melanosis coli: GNG5, LPAR3, MAPK8, and PSMC6
Authors: Hua Xiaohang , Chen Jiangang , Wu Lingli 
Published: December 2018

Abstract
Purpose: Melanosis coli (MC) is a disorder of pigmentation of the wall of the colon, often identified at the time of colonoscopy. The aim of the present study is to identify candidate biomarkers for MC. Methods: The transcriptome data for MC (GSE78933) with five MC tissues and five corresponding normal tissues is obtained from the NCBI Gene Expression Omnibus (GEO) database. R/Bioconductor package limma was used to screen differently expressed genes (DEGs). ClueGO of cytoscape was applied for Gene Ontology (GO) functional and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment. Based on STRING V10 database, protein–protein interaction (PPI) network was constructed. The pathological tissue and normal tissue from 23 MC patients and 23 controls were collected, respectively. The relative expression of hub nodes was detected by qRT-PCR and Western blot. For regulating the expression of these genes, overexpression vector was constructed or siRNA transfection was used. Finally, apoptosis was detected by flow cytometry. Results: Total 1342 DEGs were screened, including 786 up-regulated and 556 down-regulated genes. These genes were mainly enriched in stimulatory C-type lectin receptor signaling pathway, polysaccharide biosynthetic process, intracellular, and oxidative phosphorylation. PPI network was then constructed with 426 DEGs and 895 interactions. Thereinto, G-protein subunit γ 5 (GNG5), lysophosphatidic acid receptor 3 (LPAR3), mitogen-activated protein kinase 8 (MAPK8), NHP2L1, proteasome 26S subunit, ATPase 6 (PSMC6), and phosphatidylinositol-4,5-bisphosphate 3-kinase catalytic subunit β (PIK3CB) were hub nodes with higher degree. RT-PCR and Western blot results showed that GNG5, LPAR3, MAPK8, and PSMC6 were differently expressed with significance. The expression of these screened genes is also related with cell apoptosis. Conclusion: GNG5, LPAR3, MAPK8, and PSMC6 might be candidate biomarkers associated with apoptosis in MC.
Magnetic fields of intermediate-mass T Tauri stars
Authors: Villebrun F. , Alecian E. , Hussain G. , Bouvier J. , Folsom C. P. , Lebreton Y. , Amard L. , Charbonnel C. , Gallet F. , Haemmerlé L. , Böhm T. , Johns-Krull C. , Kochukhov O. , Marsden S. C. , Morin J. , Petit P. 
Published: December 2018

Context. The origin of the fossil magnetic fields detected in 5 to 10% of intermediate-mass main sequence stars is still highly debated.Aims. We want to bring observational constraints to a large population of intermediate-mass pre-main sequence (PMS) stars in order to test the theory that convective-dynamo fields generated during the PMS phases of stellar evolution can occasionally relax into fossil fields on the main sequence.Methods. Using distance estimations, photometric measurements, and spectropolarimetric data from HARPSpol and ESPaDOnS of 38 intermediate-mass PMS stars, we determined fundamental stellar parameters (Teff,Landvsini) and measured surface magnetic field characteristics (including detection limits for non-detections, and longitudinal fields and basic topologies for positive detections). Using PMS evolutionary models, we determined the mass, radius, and internal structure of these stars. We compared different PMS models to check that our determinations were not model-dependant. We then compared the magnetic characteristics of our sample accounting for their stellar parameters and internal structures.Results. We detect magnetic fields in about half of our sample. About 90% of the magnetic stars have outer convective envelopes larger than ∼25% of the stellar radii, and heavier than ∼2% of the stellar mass. Going to higher mass, we find that the magnetic incidence in intermediate-mass stars drops very quickly, within a timescale on the order of few times 0.1 Myr. Finally, we propose that intermediate-mass T Tauri stars with large convective envelopes, close to the fully convective limit, have complex fields and that their dipole component strengths may decrease as the sizes of their convective envelopes decrease, similar to lower-mass T Tauri stars.
Halo intruders in the Galactic bulge revealed by HST and Gaia: the globular clusters Terzan 10 and Djorgovski 1
Authors: Ortolani S. , Nardiello D. , Pérez-Villegas A. , Bica E. , Barbuy B. 
Published: December 2018

Context. The low-latitude globular clusters Terzan 10 and Djorgovski 1 are projected in the Galactic bulge, in a Galactic region highly affected by extinction. A discrepancy of a factor of ∼2 exists in the literature in regards to the distance determination of these clusters.
Aims. We revisit the colour-magnitude diagrams (CMDs) of these two globular clusters with the purpose of disentangling their distance determination ambiguity and, for the first time, of determining their orbits to identify whether or not they are part of the bulge/bar region.
Methods. We use Hubble Space Telescope CMDs, with the filters F606W from ACS and F160W from WFC3 for Terzan 10, and F606W and F814W from ACS for Djorgosvski 1, and combine them with the proper motions from Gaia Data Release 2. For the orbit integrations, we employed a steady Galactic model with bar.
Results. For the first time the blue horizontal branch of these clusters is clearly resolved. We obtain reliable distances of d⊙ = 10.3 ± 1.0 kpc and 9.3 ± 0.5 kpc for Terzan 10, and Djorgovski 1 respectively, indicating that they are both currently located in the bulge volume. From Gaia DR2 proper motions, together with our new distance determination and recent literature radial velocities, we are able to show that the two sample clusters have typical halo orbits that are passing by the bulge/bar region, but that they are not part of this component. For the first time, halo intruders are identified in the bulge.