Miracle-dz/UniFAR-FTUs huggingface dataset:
Genetic mapping studies in Coffea sp using molecular marker methods Studi peta genetik pada Coffea sp. menggunakan metode penanda molekuler

Abstrak Analisis genetik telah menjadi alat yang penting dalam pemuliaan tanaman untuk perbaikan sifat penting tanaman. Salah satu potensi terbesar dari analisis tersebut adalah identifikasi penanda molekuler yang berguna untuk pemetaan genetik. Pemetaan genetik merupakan salah satu langkah penting dari analisis genetik. Intisari dari semua pemetaan genetik adalah menempatkan koleksi pe- nanda molekuler pada posisi tertentu dalam genom. Hal tersebut dapat kemudian digunakan untuk meng- identifikasi lokus sifat kuantitatif (QTLs) dengan memanfaatan keragaman genetik alami yang tersedia dan meningkatkan sifat-sifat penting serta berharga. Sampai saat ini, tiga belas peta genetik telah dipublikasi dan tersedia pada Coffea sp. yang menciptakan database besar untuk kerangka genetik. Sebuah peta genetik terbaru dengan akses terbuka dan berfungsi sebagai referensi telah dibangun oleh International Coffee Genomics Network (ICGN). Peta tersebut tediri dari 3230 lokus, dengan panjang peta 1471 cM (1cm ~ 500 Kb) serta kepadatan satu penanda setiap 220 Kb. Peta-peta genetik pada tanaman kopi telah digunakan dari karakterisasi gen hingga analisis komparatif genom dengan spesies tanaman yang berbeda. Saat ini, pesatnya kemajuan teknologi New Genome Sequencing (NGS) untuk sekuensing DNA dan RNA memungkinkan validasi dari peta-peta genetik untuk prediksi QTLs serta gen-gen yang membawa sifat penting Coffea sp. Abstract Genetic analysis has become an important tool in plant breeding for crop improvement. One of their greatest potential appears to be the identification of molecular markers useful for genetic mapping. Genetic mapping is one of important steps in genetic analysis. The essence of all genetic mapping is to place a collection of molecular markers onto their respective positions on the genome. Thus, it leads to identification of new quantitative trait loci (QTLs) by making benefits of natural available genetic diversity.and to improve important and valuable traits. Until present, thirteen genetic maps were published and available in Coffea sp. creating a huge database for genetic framework. One most recent and open reference genetic map for robusta coffee has been generated by the International Coffee Genomics Network (ICGN) comprising 3230 loci, genetic size 1471 cM (1cM ~500 Kb), with an average density close to one marker every 220 Kb. The Coffea genetic maps have been utilized from gene characterization to genomic comparative analysis with different plant species. Nowadays, the feasibility of NGS for DNA and RNA sequencing allow the validation of genetic map related to the prediction of QTLs and adjacent genes related to important traits for Coffea sp.
Production of New Kenguri Strain-1 of Sheep by Breeding with Nari-Suwarna Frozen Thawed Semen

Oestrous cycle of Kenguri ewes (n=10 + 10) was synchronized by injecting PGF2α on days 0 and 9 in Group 1 and on day 0 and day 11 in Group 2. All the oestrus ewes were inseminated twice with gap of 12 hours using frozen thawed semen dose of NARI Suwarna (Deccani + Garole) strain. Pregnancy diagnosis was initiated on days 24, 34 and 44 of post artificial insemination using trans-abdominal ultrasonography. It was concluded that, oestrous cycle was synchronized by injecting PGF2α on days 0 and 9 or day 0 and day 11 with 100 % estrus induction and 10% lambing rate in Kenguri ewes. A new Kenguri strain-1 of sheep (Kenguri > 50% + Deccani < 40% + Garole < 10%) was produced using frozen thawed semen of NARI Suwarna strain from Kenguri breed
A Major Regional Measles Outbreak: Description of Hospitalized Cases in 2017–2018 at Bordeaux University Hospital, France

Abstract Background Measles remains endemic worldwide, despite current vaccination recommendations, and is associated with high morbidity and mortality rates. We describe all cases hospitalized in Bordeaux University Hospital (BUH), the starting point of a national significant measles outbreak in 2017–2018. Methods In this retrospective study, we included all patients hospitalized in BUH from September 1, 2017, to May 31, 2018. Inclusion criteria were age >1 year, clinical symptoms, and biological confirmation by measles immunoglobulin M or measles reverse transcription polymerase chain reaction positivity. Results We included 171 patients. Most patients were immunocompetent; only 19% had preexisting medical histories. Most patients had rash and fever (97%), but some cases were atypical and difficult to diagnose. Köplik’s spots were reported in 66 cases (38%). The most frequent biological markers were blood inflammation markers (96%) and lymphopenia (81%). Unexpectedly, we found hyponatremia (<135 mmol/L) in 40% of patients. We identified peaks in January and March, corresponding to 76 D8 genotypes and 28 B3 strains. The following complications were reported in 65 patients (38%): pneumonia, hepatitis, and keratitis; 10 had neurological symptoms. One patient had Guillain-Barré syndrome, and a young immunocompromised patient died from measles inclusion-body encephalitis. Most of the patients (80%) had not been correctly vaccinated, including 28 health care workers. Some patients (n = 43, 25%) developed measles despite having plasma IgG. These included 12 possible vaccination failure cases. Conclusions During the BUH outbreak, measles was often complicated and sometimes atypical. Vaccination coverage was dramatically insufficient. We also describe vaccination failure cases that must be better investigated.
Evaluation of antibacterial effect of Eucalyptus and ginger on dentinal tubules Enterococcus faecalis in the presence of smear layer

Enterococcus faecalis is a resistant microorganism and plays an important role in root canal treatment failure. One of the most critical steps in root canal treatment is chemical cleaning of the root canal with endodontic irrigation solutions. The most commonly used solution is Sodium hypochlorite which in spite of its broad antimicrobial activity, has many disadvantages. Therefore, this study was designed to evaluate the antibacterial effect of eucalyptus and ginger on dentinal tubules Enterococcus faecalis in the presence of smear layer. In this study dentin cylinders from 80 single rooted human teeth were prepared and contaminated with Enterococcus faecalis with smear layer created in each dentin disk. Experimental groups were as follows: Group 1: Sodium hypochlorite 5.25%, Group 2: ginger extract, Group 3: eucalyptus extract, Group 4: Normal saline (positive control), Group 5: sterile cylinders. Then dentin chips were collected from three different depths of dentin including 0.1,0.2 and 0.3 millimeters. Optical density comparison of different experimental groups showed that there is a signifi cant difference between groups in 0.1 and 0.2 millimeters depth (p<0.01), however no signifi cant difference in 0.3 millimeters depth was obtained. Antimicrobial effi cacy of eucalyptus and Sodium hypochlorite in the presence of smear layer showed no signifi cant differences, while this effect was weaker with ginger compared to Sodium hypochlorite.
Whistling in a noisy ocean: bottlenose dolphins adjust whistle frequencies in response to real-time ambient noise levels

ABSTRACT Common bottlenose dolphins (Tursiops truncatus) use complex acoustic behaviours for communication, group cohesion and foraging. Ambient noise from natural and anthropogenic sources has implications for the acoustic behaviour of dolphins, and research shows that average ambient noise levels alter dolphin acoustic behaviour. However, when background noise levels are highly variable, the relationships between noise and acoustic behaviour over short time periods are likely important. This study investigates whether bottlenose dolphins altered the temporal and spectral qualities of their whistles in relation to the ambient noise present at the time the whistles were produced. Dolphin groups were recorded in Tampa Bay (western Florida) between 2008 and 2015. Six whistle parameters were analysed in spectrogram software (minimum frequency, maximum frequency, bandwidth, peak frequency, duration and number of inflection points) and ambient noise levels were calculated immediately prior to each whistle. Linear regression analysis indicated that the minimum, maximum and peak frequencies of whistles had significant positive relationships with the ambient noise levels present at the time of the whistles. These models suggested that for each 1 dB increase in ambient noise, minimum frequency increased by 121 Hz, maximum frequency increased by 108 Hz and peak frequency increased by between 122 and 144 Hz. As ambient noise is typically low frequency, this suggests that bottlenose dolphins increased whistle frequency in response to real-time noise levels to avoid masking. Future research to determine the fitness consequences of noise-induced changes in the communication behaviour of dolphins would be an important contribution to conservation efforts.
Characterizing the Regional Structure in the United States: A County-based Analysis of Labor Market Centrality

Categorizing places based on their network connections to other places in the region reveals not only population concentration but also economic dynamics that are missed in other typologies. The US Office of Management and Budget categorization of counties into metropolitan/micropolitan and central/outlying is widely seen as insufficient for many analytic purposes. In this article, we use a coreness index from network analysis to identify labor market centrality of a county. We use county-to-county commute flows, including internal commuting, to identify regional hierarchies. Indicators broken down by this typology reveal counterintuitive results in many cases. Not all strong core counties have large populations or high levels of urbanization. Employment in these strong core counties grew faster in the postrecession (2008–2015) than in other types of counties. This economic dimension is missed by other typologies, suggesting that our categorization may be useful for regional analysis and policy.
Prevention of wound infection: a new technique

Caesarean delivery is a major obstetrical surgical procedure aiming to save the lives of mothers and fetuses. The incidence of caesarean deliveries, both repeat and primary, has risen dramatically over the last few decades, with an estimated global number of 22.9 million caesarean deliveries in 2012. Caesarean wound infection is a major cause of prolonged hospital stay, high hospital bills, as well as other morbidities and mortality. 7 The incidence of wound infection has been shown to be influenced by the duration of labor prior to the caesarean section, prolonged period of rupture of membranes, postoperative anemia, skill of the surgeon, duration of operation and multiple vaginal examinations. Emergency caesarean section, booking status, and maternal age have been implicated by other researcher as significant factors influencing the incidence of wound infection. Women undergoing caesarean section have a 5 to 20-fold greater chance of getting an infection compared with women who give birth vaginally. These infections can be in the organs within the pelvis, around the surgical incision and sometimes the urine. The infections can be serious, and very occasionally can lead to mother`s death.
Serotonergic-linked alterations of aggression of the crayfish

ABSTRACT Current theory suggests that aggressive behavior in the crayfish is largely modulated and regulated by the neurotransmitter serotonin (5-HT). To test this theory that links serotonin to aggression, we performed a series of drug treatments using various serotonin-related chemicals to measure their effects on subsequent aggressive behavior. Treatments included serotonin, the serotonin precursor tryptophan, agonists: 1-(3-chlorophenyl) piperazine (m-CPP) and 5-Carboxy, an antagonist: cinanserin, and a serotonin receptor specific neurotoxin: 5,7-dihydroxytryptamine creatinine sulfate (5,7-DHT). Significant increases in aggression of Faxonius rusticus crayfish were observed when injected with serotonin and both agonists, however no decrease in aggression occurred with the antagonist. Crayfish injected with the agonist m-CPP increased aggression but did not directly confer success in fights. Our data support the current literature that the internal aggressive state of crayfish is altered by serotonin and its agonist/antagonists, however it does not on its own improve the aggressive fighting response and/or dominance status.
Ongoing evolution of KRAB zinc finger protein-coding genes in modern humans

Abstract Background Kruppel-associated box (KRAB) zinc finger proteins (KZFPs) constitute the largest and fastest evolving family of gene regulators encoded by the human genome. Recent data indicate that many KZFPs serve as repressors of transposable element-embedded regulatory sequences (TEeRS) and that the evolutionary turnover of KZFP genes is mainly attributable to the changing transposable element (TE) load of their hosts. However, how natural selection and genetic variation are shaping this process is still poorly defined. Methods Genetic information was collected from nine primate species and 138,500 human genomes. Gene-wide as well as functional amino acid position specific constraint was calculated across all human KZFPs. Results We found that the most conserved KZFPs, some of which go back close to 400 million years, have been subjected to marked negative selection in the evolutionarily recent past and are very homogeneous within the human population. In contrast, younger, largely primate-restricted family members present evidence of less negative selection than the rest of genome and lower levels of coding constraint, particularly within the sequences encoding the functional sites of their zinc finger (ZF) arrays. We defined 33 sets of KZFP paralogs, which pairwise displayed a broad range of coding constraints differentials, with more recently emerged paralogs usually displaying a higher frequency of putatively deleterious mutations and missense variants within the functional sites of their ZF arrays than their source gene. Finally, we identified three KZFP genes more constrained in the genomes of individuals of African ancestry than in Europeans, with their modes of expression or DNA targets pointing to possible links between these inter-populational genetic differences and regional differences in the prevalence of some diseases. Conclusions This work shows how the ongoing selection of KZFPs contributes to modern human genetic variation, in particular through the constraint of putatively deleterious- and missense variants in functional protein sites, and how ongoing interplays between environment and KZFP genes might be impacting the biology of modern humans.
EFFECTS OF GRAPHENE OXIDE ON THE HYDRATION OF TRICALCIUM SILICATE

*Shandong Provincial Key Laboratory of Preparation and Measurement of Building Materials, University of Jinan, Jinan, Shandong, China, 250022 **School of Civil Engineering and Architecture, University of Jinan, Jinan, Shandong, 250022, China ***State Key Laboratory of Green Building Materials, Beijing, 100024, China ****China Construction Materials Technology Research Chengdu Co., Ltd, Chengdu 610221, China *****School of Mechanical Engineering and Jiangsu Marine Resources Development Research Institute, Jiangsu Ocean University, Lianyungang, Jiangsu, 222005, China
Parameter identiﬁcation of Bouc–Wen type models using a modified experience-based learning algorithm

The experience-based learning (EBL) algorithm is a new global optimization algorithm that is free from any algorithm-specific control parameters and has been applied to solve structural damage identification problems. However, similar to other metaheuristic algorithms, the EBL algorithm has its disadvantages. To obtain better searching performance, a modified EBL algorithm is proposed for solving the nonlinear hysteretic parameter identiﬁcation problem with a Bouc–Wen type model. A new updating equation is introduced to improve the global optimization ability of the algorithm. Numerical studies on a single-degree-of-freedom system with or without degradation and pinching are conducted to investigate the efficiency and robustness of the proposed algorithm. A laboratory test of four precast concrete infill walls is presented and their hysteretic parameters are also successfully identified. Both numerical and laboratory results are compared with those obtained from the original EBL algorithm, a cloud model based fruit fly optimization algorithm, the Jaya algorithm, a particle swarm optimization algorithm and a squirrel search algorithm, demonstrating the superiority of the proposed method for nonlinear hysteretic parameter identiﬁcation.
Shifting biomass allocation determines community water use efficiency under climate warming

Understanding how net primary production (NPP) and its allocation respond to climate warming is of fundamental importance in predicting ecosystem carbon (C) cycle and C-climate feedback. Especially, the optimal partitioning theory suggests that plants preferentially allocate photosynthates toward the above- or below-ground parts to acquire the limiting resources to maximize their growth rate and optimize resource use under environmental change. However, it remains elusive on how NPP allocation changes and regulates community water-use efficiency (WUEc) under climate warming. In this study, we conducted a manipulative warming experiment with three levels of warming treatments (control, + 1.5 °C and + 2.5 °C) to explore the response of NPP allocation and its regulation on WUEc in an alpine meadow. Results showed that above-ground NPP (ANPP) and below-ground NPP (BNPP) responded differently to warming. On average, W1.5 (+ 1.5 °C) and W2.5 (+ 2.5 °C) treatments increased BNPP by 28.98% and 33.28% and increased NPP by 20.05% and 38.70%, respectively, across 4 years. Whereas no consistent warming effect on ANPP was observed across years. The fraction of BNPP to total NPP (fBNPP) responded positively to warming under low ambient temperature and community biomass while it responded negatively under high ambient temperature and community biomass. Notably warming-induced changes in fBNPP negatively correlated with warming-induced changes in WUEc. These results suggested that warming effect on NPP allocation was largely contextually dependent and implied important biological regulation on WUEc. The emerging trade-offs between NPP allocation and WUEc reflect adaptation strategy of plant community under climate change.
Fallbericht: Best Supportive Care (BSC) in der Palliativmedizin – was bedeutet BSC eigentlich?

Zusammenfassung Wir berichten über einen multimorbiden 56-jährigen Patienten, welcher mit unbehandelter Tumorerkrankung nach Multiorganversagen auf die Palliativstation verlegt wurde. Aufgrund einer Eisenmangelanämie wurde eine Magen-Darm-Diagnostik zum Ausschluss einer gastrointestinalen Blutung durchgeführt. Diese Untersuchung zeigte ein Adenokarzinom des proximalen Kolons. Im Rahmen der Narkoseeinleitung zur Resektion des Tumors aspirierte der Patient und entwickelte einen schweren septischen Schock mit Multiorganversagen. Entsprechend der interdisziplinären Tumorboardempfehlung für Best Supportive Care (BSC) sowie dem vom Patienten gewünschten Abbruch der Therapie, erfolgte die Zuweisung auf die Palliativstation. Der voll urteilsfähige Patient hatte im Zuge der aus seiner Sicht dramatischen Ereignisse keine weiteren intensivmedizinischen Maßnahmen gewünscht. Im weiteren Verlauf der insgesamt fünfwöchigen Behandlung auf der Palliativstation stabilisierte sich der Patient. Dank intensiver Gespräche mit unterschiedlichen Professionen der Palliativmedizin über Therapieziele und die eigenen Präferenzen beschäftigte sich der Patient mit dem Lebensende und bereitete sich auf den Tod vor. Es zeigte sich, dass die Ablehnung weiterer intensivmedizinischer Maßnahmen aus Patientensicht keinen generellen Verzicht auf die Behandlung der Tumorerkrankung beinhaltete. Schließlich konnte bei vollständiger Rekonvaleszenz die geplante onkologische Therapie mit neoadjuvanter Chemotherapie und Tumorresektion erfolgreich durchgeführt werden.
Professional Development Opportunities as a determinant of Turnover Intention: A case of teachers in Public Secondary Schools in Meru County, Kenya

The study sought to establish whether the availability or non-availability of professional development opportunities determine the turnover intention of teachers in public secondary schools in Meru County, Kenya. Descriptive survey design, where both qualitative and quantitative paradigms were employed. The study population comprised of 2582 secondary school teachers and principals in 367 public secondary schools. Stratified proportionate sampling and simple random sampling methods were used to pick 518 participants who included 503 secondary school teachers and 15 secondary school principals. Questionnaires were used to collect quantitative data from teachers while interview schedules were used to collect qualitative data from the sampled principals. The hypothesis was tested using the Pearson Product-Moment Correlation and chi-square goodness of fit. Computer software SPSS Version 21 aided in data analysis. An analysis of the Pearson product-moment correlation showed a negative correlation between professional development opportunities and the turn-over intention of teachers in secondary schools in Meru County. Equally, Chi-square results corroborated indicating a strong and significant association of professional development opportunities and turn-over intention of teachers in secondary schools in Meru County. The study concluded that a lack of professional development opportunities leads to low morale, low motivation, and high turnover intention of teachers in public secondary schools in Meru County. The study recommended that the education stakeholders including the schools’ Boards of Management, the Ministry of Education, and the Teachers Service Commission among others motivate teachers by regularly offering them professional development. This would enhance their pedagogical skills thus reducing turnover intention among teachers.
Power Grid Fault Diagnosis Method Based on Stacked Sparse Denoising Auto-Encoder and GRU Network

This research aims to solve the problems of feature extraction, data dimension reduction, gradient dissipation and low training efficiency in power grid fault classification. Aiming at PMU measurement data with high dimensionality and strong real-time characteristics, a fault diagnosis method based on Stacked Sparse Denoising Auto-Encoder and GRU network is proposed. The Stacked Sparse Denoising Auto-Encoder is used to reduce the sequence dimension to obtain the sparse feature expression of the data, and then the time-dependent features of the data extracted by the GRU are used to obtain the fault type. Simulations and experiments show that compared with the traditional neural network algorithm, the proposed method can effectively extract high-dimensional data features, reduce data dimensions, improve the efficiency of GRU network classification, accelerate the convergence speed and reduce the training time, and has better stability and higher accuracy.