bluuebunny/crossref_metadata_2025_split huggingface dataset:
GWAS unveils features between early- and late-flowering pearl millets
Authors: Diack Oumar , Kanfany Ghislain , Gueye Mame Codou , Sy Ousmane , Fofana Amadou , Tall Hamidou , Serba Desalegn D. , Zekraoui Leila , Berthouly-Salazar Cécile , Vigouroux Yves , Diouf Diaga , KANE NDJIDO ARDO 
Published: October 2020

Abstract
Background: Pearl millet, a nutritious food for around 100 million people in Africa and India, displays extensive genetic diversity and a high degree of admixture with wild relatives. Two major morphotypes can be distinguished in Senegal: early-flowering Souna and late-flowering Sanio. Phenotypic variabilities related to flowering time play an important role in the adaptation of pearl millet to climate variability. A better understanding of the genetic makeup of these variabilities would make it possible to breed pearl millet to suit regions with different climates. The aim of this study was to characterize the genetic basis of these phenotypic differences.Results: We defined a core collection that captures most of the diversity of cultivated pearl millets in Senegal and includes 60 early-flowering Souna and 31 late-flowering Sanio morphotypes. Sixteen agro-morphological traits were evaluated in the panel in the 2016 and 2017 rainy seasons. Phenological and phenotypic traits related with yield, flowering time, and biomass helped differentiate early- and late-flowering morphotypes. Further, using genotyping-by-sequencing (GBS), 21,663 single nucleotide polymorphisms (SNPs) markers with more than 5% of minor allele frequencies were discovered. Sparse non-negative matrix factorization (sNMF) analysis confirmed the genetic structure in two gene pools associated with differences in flowering time. Two chromosomal regions on linkage groups (LG 3) (~89.7Mb) and (LG 6) (~68.1Mb) differentiated two clusters among the early-flowering Souna. A genome-wide association study (GWAS) was used to link phenotypic variation to the SNPs, and 18 genes were linked to flowering time, plant height, tillering, and biomass (P-value ˂ 2.3E-06).Conclusions: The diversity of early- and late-flowering pearl millet morphotypes in Senegal was captured using a heuristic approach. Key phenological and phenotypic traits, SNPs, and candidate genes underlying flowering time, tillering, biomass yield and plant height of pearl millet were identified. Chromosome rearrangements in LG3 and LG6 were inferred as a source of variation in early-flowering morphotypes. Using candidate genes underlying these features between pearl millet morphotypes will be of paramount importance in breeding for resilience to climatic variability.
Response of Groundnut (Arachis hypogaea L.) Genotypes to Combined Application of Phosphorus and Foliar Zinc Fertilizers in Central Tigray, Ethiopia
Authors: Berhe Hintsa Meresa , Abera Dereje Assefa , Yemane Yemane Tsehaye 
Published: October 2020

Abstract
Background: Adequate phosphorus (P) and foliar zinc (Zn) in groundnut required for obtaining Zn-enriched grain and optimum yield. However, it was very low in the area. Due to that objective of the study was to investigate the response of groundnut genotypes to combined application of phosphorus and zinc on yield and nutritional contents. A field experiment was conducted at Sheka-Tekli in 2017/18 cropping season. Methods:The treatments were consisted of three groundnut genotypes (ICGV00308, ICGV91114 and Sedi) as main plot and four combined PZn fertilizer levels (00), 10 kg P/ha +0.50 g Zn/L, 20 kg P/ha +1 g Zn/L and 30 kg P/ha+1.5 g Zn/L as sub plot were assigned in split plot design with tree replications.Result: The result indicated that yield and yield components respond significantly to the main and interaction effects. The highest significant seed yield (2,529 kg/ha) and protein content (37.79%) were obtained in response to the application of P30Zn1.5 fertilizer on sedi variety in the loamy sand soil. The percentage of crude protein and fat content had significantly affected by interaction components. Most of the yield component traits showed strong positive correlation with seed yield. While the lowest seed yield was recorded from ICGV00308 without fertilizer. The highest fat content (43.95%) was gained from genotype ICGV00308 at P30Zn1.5 fertilizer. From the interaction of sedi with P30Zn1.5 fertilizer was recorded highest protein content. Based on economic analysis the highest MRR (380.58%) was obtained from ICGV00308 genotype at P10Zn0.5 fertilizer. Conclusion: From the result of the study, application of PZn fertilizer increases seed yield of groundnut. Therefore, based on the MRR result ICGV00308 genotype at P10Zn0.5 fertilizer was optimum for groundnut production in the study area and similar agro-ecologies.
Insufficient tuberculosis treatment leads to earlier and higher mortality in individuals co-infected with HIV in Southern China: A cohort study
Authors: Zheng Zhigang , Nehl Eric J. , Zhou Chongxing , Li Jianjun , Xie Zhouhua , Zhou Zijun , Liang Hao 
Published: October 2020

Abstract
Background: Tuberculosis (TB) and Acquired Immune Deficiency Syndrome (AIDS) are the leading causes of death globally. However, little is known about the long-term mortality risk and timeline of death in those co-infected with human immunodeficiency virus (HIV) and mycobacterium tuberculosis (MTB). This study sought to understand the long-term mortality risk, factors, timeline of death in those with HIV-mycobacterium tuberculosis (MTB) coinfection, particularly in those TB treatment are insufficient. Methods: TB-cause specific deaths, classified using a modified ‘Coding of Cause of Death in HIV’ protocol. A longitudinal cross-registration-system checking approach was used to confirm HIV/MTB co-infection between two observational cohorts. The changes of mortality from the end of TB treatment (6 months) to post-treatment year (PTY) 5 (60 months) was investigated by different TB treatment outcomes. General linear model was used to estimate the mean mortality at each time-point and change between time-points. Cox’s proportional hazard regression measured the mortality hazard risk (HR) at each time-point. The Mantel-Haenszel stratification was used to identify mortality risk factors. Mortality density was calculated by person year of followed-up. Results: At the end point, mortality among HIV/MTB coinfection was 34.7%. From the end of TB treatment to PTY5, mortality of percentage and of person year in individuals with TBFMA were significant higher than those with TBC and TBCR. Compared to individuals with TBC and with TBCR, individuals with TBFMA were tend to die earlier, mortality was significantly higher (HR TBFMA-TBC = 3.0, 95% confidence interval: 2.5-3.6, HR TBFMA-TBCR = 2.9, 95% CI: 2.5-3.4, P < 0.0001). Those who were naïve to antiretroviral therapy, were farmers, had lower CD4 counts (≤200 cells/μL ) and were ≥50 years of age were at the highest risk of mortality. Mortality risk for participants with TBFMA was significant higher across all stratifications except those with a CD4 count of ≤200 cells/μL. Conclusions: Earlier and long-term mortality of HIV/MTB co-infection is a significant problem when TB treatment fails or is inadequate.
Topical application of adipose tissue derived mesenchymal stem cells (ADMSCs) reduced cerebral edema in experimental traumatic brain injury (TBI)- a preliminary study
Authors: MA Hui , Cui Lian Xu , Lam Ping Kuen , Tong Cindy SW , Lo Kin KY , Wong George KC , Poon Wai Sang 
Published: October 2020

Abstract
Background: Our previous studies showed that topical application of mesenchymal stem cells (MSCs) improved functional recovery in rat traumatic brain injury (TBI) model, and hypoxic precondition further enhanced the therapeutic effects of MSCs. There was no previous study on the attenuation of cerebral edema by MSCs. Objective: We investigated whether topical application of normoxic and hypoxic MSCs could reduce cerebral edema in an experimental TBI model. Methods: 2 million normoxic (N=24) and hypoxic (N=24) MSCs were applied topically to exposed cerebral cortex in a controlled cortical impact (CCI) model. The MSCs were fixed in position with fibrin glue. No treatment was given to control animals (TBI only: n=24). After surgery, four animals in each group were sacrificed daily (day 1 to day 6) for edema evaluation. Normal animals without TBI were used as reference (n=4). The expressions of GFAP, AQP4 and MMP9 were also investigated by immunofluorescence staining and RT-PCR at day 3. Results: The edema peaked within 3 days after TBI. Compared with the control, hypoxic MSCs reduced brain water content significantly (p<0.05). Both hypoxic and normoxic MSCs downregulated the expression of MMP9 and normalized AQP4 distribution to astrocytes end feet. Conclusion: Our preliminary study showed that topical application of hypoxic MSCs suppressed both vasogenic and cytotoxic edema formation.
A Thermo-Dynamical Theory of Consciousness
Authors: Bajaj Gaurav 
Published: October 2020

Abstract
Humans have always thought of consciousness as property possessed by a living organism, without being able to properly define it in scientific terms. Many articles have been published to explain what consciousness is. In this article, consciousness has been defined as a quantity (‘variable’ would be a better word according to mathematics), which is linked with entropy of the system. The article explains consciousness, its role in the universe, not only in living systems, but also in non-living thermo-dynamical systems. Not only that, the article also explains its role with quantum biology, a newly emerging field of biology.
A Firefly Algorithm Based Hybrid Method for Structural Topology Optimization
Authors: Gebremedhen Hailu Shimels , Woldemichael Dereje Engida , Hashim Fakhruldin Mohd 
Published: October 2020

Abstract
In this paper, a firefly algorithm based hybrid algorithm through retaining global convergence of firefly algorithm and ability to generate connected topologies of optimality criteria (OC) method is proposed as an alternative method to solve stress-based topology optimization problems. The lower and upper limit of design variables (0 and 1) were used to find initial material distribution to initialize the firefly algorithm based section of the hybrid algorithm. Input parameters, the number of fireflies, and the number of function evaluations were determined before the implementation of the firefly algorithm to solve formulated problems. Since the direct application of the firefly algorithm cannot generate connected topologies, outputs from the firefly algorithm were used as an initial input material distribution for the OC method. The proposed method was validated using two-dimensional benchmark problems and the results were compared with results using the OC method. Weight percentage reduction, maximum stress-induced, optimal material distribution, and compliance were used to compare results. Results from the proposed method showed that the proposed method can generate connected topologies which are free from the interference of end-users, and only depend on boundary conditions or design variables. From the results, the objective function (weight of the design domain) can be further reduced in the range of 5% to 15% compared to the OC method.
Effect of advanced chelate technology based trace minerals on growth performance, mineral digestibility, tibia characteristics, and antioxidant status in broiler chickens
Authors: Ghasemi Hossein Ali , Hajkhodadadi Iman , Hafizi Maryam , Taherpour Kamran , Nazaran Mohammad Hassan 
Published: October 2020

Abstract
Background: Compared to the corresponding source of inorganic trace minerals (TM), chelated supplements are characterized by better physical heterogeneity and chemical stability and appear to be better absorbed in the gut due to possibly decreased interaction with other feed components. Methods: This study was designed in broiler chickens to determine the effects of replacing inorganic trace minerals (TM) with an advanced chelate technology based supplement (Bonzachicken) on growth performance, mineral digestibility, tibia bone quality, and antioxidant status. A total of 625 male 1-d-old broiler chickens were allocated to 25 pens and assigned to 5 dietary treatments in a completely randomized design. Chelated TM (CTM) supplement was compared at 3 levels to no TM (NTM) or inorganic TM. A corn–soy-based control diet was supplemented with inorganic TM at the commercially recommended levels (ITM), i.e., iron, zinc, manganese, copper, selenium, iodine, and chromium at 80, 92, 100, 16, 0.3, 1.2, and 0.1 mg/kg, respectively, and varying concentration of CTM, i.e., match to 25, 50, and 100 % of the ITM (diets CTM25, CTM50, and CTM100, respectively). Results: Diets CTM50 and CTM100 increased average daily gain (ADG), European performance index (EPI), and tibia length compared to the NTM diet (P < 0.05). Broilers fed the CTM100 diet had lowest overall FCR and serum malondialdehyde level and highest EPI, tibia ash, zinc, manganese, and copper contents, and serum total antioxidant capacity (P < 0.05). The apparent ileal digestibilities of phosphorus and zinc were lower in the ITM group compared with the CTM25 and CTM50 groups (P < 0.05). Broiler chickens fed any of the diets, except diet CTM25, exhibited higher serum glutathione peroxidase and superoxide dismutase activities than those fed the NTM diet, where the best glutathione peroxidase activity was found for CTM100 treatment (P < 0.05). Conclusions: These results indicate that while CTM supplementation to 25 and 50% of the commercially recommended levels could support growth performance, bone mineralization, and antioxidant status, a totally replacing ITM by equivalent levels of CTM could also improve performance index and glutathione peroxidase activity of broiler chickens under the conditions of this study.
gCAnno: a graph-based single cell type annotation method
Authors: Yang Xiaofei , Gao Shenghan , Wang Tingjie , Yang Boyu , Dang Ningxin , Ye Kai 
Published: October 2020

Abstract
BackgroundCurrent single cell analysis methods annotate cell types at cluster-level rather than ideally at single cell level. Multiple exchangeable clustering methods and many tunable parameters have a substantial impact on the clustering outcome, often leading to incorrect cluster-level annotation or multiple runs of subsequent clustering steps. To address these limitations, methods based on well-annotated reference atlas has been proposed. However, these methods are currently not robust enough to handle datasets with different noise levels or from different platforms.ResultsHere, we present gCAnno, a graph-based Cell type Annotation method. First, gCAnno constructs cell type-gene bipartite graph and adopts graph embedding to obtain cell type specific genes. Then, naïve Bayes (gCAnno-Bayes) and SVM (gCAnno-SVM) classifiers are built for annotation. We compared the performance of gCAnno to other state-of-art methods on multiple single cell datasets, either with various noise levels or from different platforms. The results showed that gCAnno outperforms other state-of-art methods with higher accuracy and robustness.ConclusionsgCAnno is a robust and accurate cell type annotation tool for single cell RNA analysis. The source code of gCAnno is publicly available at https://github.com/xjtu-omics/gCAnno.
Comparison of frontal alpha asymmetry among&nbsp;schizophrenia patients, major depressive disorder patients, and healthy controls
Authors: Jang Kuk-In , Lee Chany , Lee Sangmin , Huh Seung , Chae Jeong-Ho 
Published: October 2020

Abstract
Background: Electroencephalography (EEG) frontal alpha asymmetry (FAA) has been observed in several psychiatric disorders. Dominance in left or right frontal alpha activity remains inconsistent in patients with major depressive disorder (MDD), patients with schizophrenia, and healthy controls. This study compared FAA among patients with MDD and schizophrenia, and healthy controls.Methods: We recruited 20 patients with MDD, 18 patients with schizophrenia, and 16 healthy individuals. The EEG alpha frequency ranged from 8 Hz to 12 Hz. FAA was expressed as the difference between absolute power values of right and left hemisphere electrodes in the alpha frequency range (common-log-transformed frontal right- and left-hemisphere electrodes: F4–F3, F8–F7, FP2–FP1, AF4–AF3, F6–F5, and F2–F1). Hamilton depression and anxiety rating scales were evaluated in patients with MDD. Positive and negative syndrome scales were evaluated in patients with schizophrenia.Results: Patients with schizophrenia showed significantly lower left FAA than healthy controls (F4–F3, schizophrenia vs. healthy controls: -0.10 ± 0.04 vs. -0.05 ± 0.05). There were no significant differences in FAA between patients with schizophrenia and MDD as well as between patients with MDD and healthy controls.Conclusions: The present study suggests that FAA indicates a relatively lower activation of left frontal electrodes in schizophrenia. The left-lateralized FAA could be a neuropathological attribute in patients with schizophrenia, but a lack of sample size and information such as medication and duration of illness might obscure the interpretation and generalization of our findings. Thus, further studies to verify the findings would be warranted.
Mental State of Central Sterile Supply Department Staff During COVID-19 Epidemic and CART Analysis&nbsp;
Authors: Pan Wei , Hu Juan , Yi Liangying 
Published: October 2020

Abstract
Background: During the COVID-19 epidemic, the central sterile supply department (CSSD) staff handled many devices, implements and non-disposable protective articles used by suspected or confirmed COVID-19 patients. As a result, the CSSD staff may have experienced psychological stress, however, the mental state of the CSSD staff during the COVID-19 epidemic has been rarely studied. We aim to investigate the mental state of the CSSD staff and relevant influencing factors experienced during the COVID-19 epidemic.Methods: The survey utilising a general information questionnaire, Chinese perceived stress scale (CPSS), self-rating anxiety scale (SAS), and Connor-Davidson resilience scale (CD-RISC) was conducted with 423 CSSD staff members from 35 hospitals in Sichuan Province, China. Data was analysed in SPSS24.0. Classification and regression tree (CART) was utilised to analyse variables and find variation between groups. A chi-square test was performed on enumeration data, and t-test and analysis of variance were performed on measurement data.Results: The CSSD staff’s SAS score was 37.39 ± 8.458, their CPSS score was 19.21 ± 7.265, and their CD-RISC score was 64.26 ± 15.129 (Tenacity factor score: 31.70 ± 8.066, Strength factor score: 21.60 ± 5.066, Optimism factor scores: 10.96 ± 3.189). The CPSS score was positively correlated with the SAS score (r = 0.66; P < 0.01), the CPSS score was negatively correlated with the CD-RISC score (r = -0.617, P < 0.01), and the SAS score was negatively correlated with the CD-RISC score (r = -0.477, P < 0.01). The job position, age, and political status of the CSSD staff were the main factors affecting their mental state; for example, the CPSS score and SAS score of the CSSD nurses were significantly different from those of the CSSD logistic staff (P < 0.01). Conclusion: During the epidemic, the CSSD staff’s psychological resilience was at a low level; the anxiety level of the CSSD nurses was higher than that of the CSSD logistic staff. Therefore, more attention should be given to the mental health of the CSSD staff, including taking protective measures regarding the risk factors to ensure they can maintain a healthy mental state.
Key facets to build up eHealth and mHealth interventions to enhance physical activity, sedentary behavior and nutrition in healthy subjects – An umbrella review
Authors: Fiedler Janis , Eckert Tobias , Wunsch Kathrin , Woll Alexander 
Published: October 2020

Abstract
Background: Electronic (eHealth) and mobile (mHealth) health interventions can provide a large coverage, and are promising tools to change health behavior (i.e. physical activity, sedentary behavior and healthy eating). However, the determinants of intervention effectiveness in primary prevention has not been explored yet. Therefore, the objectives of this umbrella review were to evaluate intervention effectiveness, to explore the impact of pre-defined determinants of effectiveness (i.e. theoretical foundations, behavior change techniques, social contexts or just-in-time adaptive interventions), and to provide recommendations for future research and practice in the field of primary prevention delivered via e/mHealth technology.Methods: PubMed, Scopus, Web of Science and the Cochrane Library were searched for systematic reviews and meta-analyses (reviews) published between January 1990 and May 2020. Reviews reporting on e/mHealth behavior change interventions in physical activity, sedentary behavior and/or healthy eating for healthy subjects (i.e. subjects without physical or physiological morbidities which would influence the realization of behaviors targeted by the respective interventions) were included if they also investigated respective theoretical foundations, behavior change techniques, social contexts or just-in-time adaptive interventions. Included studies were ranked concerning their methodological quality and qualitatively synthesized.Results: The systematic search reveled eleven systematic reviews and meta-analyses of moderate quality. The majority of original research studies within the reviews found e/mHealth interventions to be effective, but the results showed a high heterogeneity concerning assessment methods and outcomes, making them difficult to compare. Whereas theoretical foundation and behavior change techniques were suggested to be potential positive determinants of effective interventions, the impact of social context remains unclear. None of the reviews included just-in-time adaptive interventions.Conclusion: Findings of this umbrella review support the use of e/mHealth to enhance physical activity and healthy eating and reduce sedentary behavior. The general lack of precise reporting and comparison of confounding variables in reviews and original research studies as well as the limited number of reviews for each health behavior constrains the generalization and interpretation of results. Further research is needed on study-level to investigate effects of versatile determinants of e/mHealth efficiency, using a theoretical foundation and additionally explore the impact of social contexts and more sophisticated approaches like just-in-time adaptive interventions.Trial registration: The protocol for this umbrella review was a priori registered with PROSPERO: CRD42020147902.