Miracle-dz/UniFAR-FTUs huggingface dataset:
Apomixis in Taraxacum : an embryological and genetic study = Apomixie in Taraxacum : een embryologische en genetische studie

Apomixis is asexual plant reproduction through seeds that are produced with no prior genome reduction or fertilisation. The use of apomixis holds enormous potential for future plant breeding and production. The outcome of the research described in this thesis suggests that the genetic basis for apomixis in Taraxacum (dandelions) comprises three major dominant genes whose timely expression may be influenced by modifier genes. Its also suggests that genome interactions effect successful establishment of apomixis in polyploid hybrids of sexual x apomictic dandelions. The work consisted of cytogenetic and embryological studies performed at the Laboratory of Genetics, Wageningen University, and the analysis of inheritance of apomixis in sexual x apomict crossings performed at the Netherlands Institute of Ecology, Centre for Terrestrial Ecology, (NIOO-CTO), Heteren, the Netherlands. A theoretical model for the Taraxacum type of apomixis is described. As a conclusion, we discuss several aspects of the evolution of apomixis in Taraxacum which serve to explain why Taraxacum is a very successful genus.
In vitro activity of fosfomycin against uropathogen multi-drug resistant (MDR) Pseudomonas aeruginosa and Acinetobacter baumannii

Urinary tract infections caused by multidrug resistant Gram negative bacilli constitute a major global healthcare problem. Fosfomycin is considered the best treatment option for such infections. Urine samples were collected and cultured in a tertiary care hospital (Urology). Identification of these uropathogens and their antibiotic sensitivity screening were performed according to CLSI guidelines. Urine samples (n=436) were selected in which Ps. aeruginosa and Acinetobacter baumannii were found to be the significant pathogens and treated-exposed to fosfomycin. Sixty six (15%) were identified as Acinetobacter baumannii , Ps. aeruginosa n=370(85%). Forty four percent of all Ps. aeruginosa were found to be multidrug resistant while 48.5% of the Acinetobacter baumannii strains were found multidrug resistant. Polymyxin B was found to be the most effective drug (100%) against all uropathogens and fosfomycin was found effective against 73% of the multidrug resistant Acinetobacter baumannii isolates and 70% of the multidrug resistant Pseudomonas aeruginosa strains. It may be concluded that antimicrobial activity (in vitro) of fosfomycin, especially against MDR uropathogens, is very effective. Keywords : Fosfomycin , Multidrug resistant Gram negative bacilli, Urinary tract infections, Ps. aeruginosa, Acinetobacter baumannii L’ACTIVITE IN VITRO DE LA FOSFOMYCINE CONTRE UROPATHOGEN MULTI-DRUG RESISTANT (MDR) PSEUDOMONAS AERUGINOSA ET ACINETOBACTER BAUMANNII Les infections des voies urinaires causees par les bacilles de multi resistants Gram negatifs, constituent un probleme majeur de sante mondiale. Fosfomycine est considere comme la meilleure option de traitement pour telles infections. Les echantillons d’urine ont ete recueillis et cultives dans un hopital de soins tertiaires. Identification de ces uropathogenes et programmation de leur sensibilite aux antibiotiques ont ete realises selon les directives (CLSI). Les echantillons d’urine (n = 436) ont ete choisis dans laquelle Ps. aeruginosa et Acinetobacter baumannii se sont trouves etre l’agent pathogene important et traites – exposes a Fosfomycine. Soixante – six (15%) ont ete identifies comme Acinetobacter baumannii, Ps. aeruginosa = 370 (85%). Quarante – quatre pourcent de tous les Ps. aeruginosa se sont trouves etre multi resistants et 48,5% des souches Acinetobacter baumannii se sont trouves multi resistants. Polymyxine B a ete trouve d’etre le medicament le plus efficace (100%) contre tous les uropathogenes et Fosfomycine a ete trouve efficace contre 73% des isolats de multi resistants Acinetobacter baumannii et 70% des souches de multi resistants Pseudomonas aeruginosa. On peut conclure que l’activite antimicrobienne (in vitro) de Fosfomycine est tres efficace, particulierement contre les uropathogenes MDR. Mots – cles : Fosfomycine, les bacilles de Multi resistants Gram negatifs, les infections des voies urinaires, Ps. aeruginosa, Acinetobacter baumannii.
Herança da tolerância à toxidez de alumínio em arroz baseada em análises de médias e variâncias

Com o objetivo de estudar a heranca da tolerância a toxidez de Al em arroz, baseado em medias e variâncias, realizou-se o cruzamento de uma cultivar tolerante, Guapore, com uma sensivel, IAC 899. Os progenitores, as geracoes F 1 e F 2 , e os retrocruzamentos para ambos os pais foram avaliados na concentracao de 20 ppm de Al, medindo-se, apos 10 dias de crescimento em solucao nutritiva, o carater comprimento da raiz seminal primaria. Os resultados evidenciam que a tolerância causada pela toxidez de Al em arroz comportou-se como um carater quantitativo. As medias dos F 1s , F 2s , RC 1s e RC 2s , foram semelhantes a do progenitor tolerante, indicando a dominância da alta tolerância a toxidez causada pelo Al. Os efeitos geneticos mais importantes na determinacao do carater comprimento da raiz seminal primaria foram a media e o efeito genico aditivo. As interacoes epistaticas aditiva x aditiva, aditiva x dominante e dominante x dominante influiram 16,83% na determinacao total das medias das geracoes utilizadas; entretanto, ao transformar os dados para a escala logaritmica a influencia da epistasia foi reduzida para 13,28%. Com a referida transformacao, o modelo aditivo-dominante foi suficiente para explicar as variacoes no carater estudado.
SAMM50 Level as a Prognostic and/or Diagnostic Marker for Breast Cancer Development and Progression

Abstract : (1) MCF7 cells are more resistant to SAM50 and TOM40 knockdown. This could be due to their ability to activate the transcription machinery to compensate for the loss due siRNA. (2) All the cell lines try to compensate for the loss of mitochondrial beta barrel proteins by up regulating the respiratory enzyme COXIV. (#) While suppression of SAM50, TOM40, and VDAC1 could result in suppression of epithelial-mesenchymal transition in MCF7, it would prove counter-productive in MDA468, where the expression of Snail was enhanced after knockdown. (4) Since TOM40 is the main channel of entry of nuclear encoded proteins, its knockdown should result in suppresseion of mitochondrial activity. The results of western blot suggest contrary to this in some cases. This could be a result of negative feedback loops originating from mitochondria, but this hypothesis needs to be investigated in detail. (5) The variation in the level of vimentin between different cell lines suggest that while progression of some metastatic adenocacinomas like those similar to MCF7 type may be treated with mitochondrial protein knockdown, this will result in promoting aggressiveness in other categories of breast tumors.
The Argonaute Family of Genes in Caenorhabditis Elegans: a Dissertation

Members of the Argonaute family of proteins, which interact with small RNAs, are the key players of RNAi and other related pathways. The C. elegans genome encodes 27 members of the Argonaute family. During this thesis research, we sought to understand the functions of the members of this gene family in C. elegans. Among the Argonaute family members, rde-1 and alg-1/2 have previously been shown to be essential for RNAi and development, respectively. In this work, we wanted to assign functions to the remaining members of this large family of proteins. Here, we describe the phenotype of 31 deletion alleles representing all of the previously uncharacterized Argonaute members. In addition to rde-1, our analysis revealed that two other Argonaute members csr-1 and prg-1 are also essential for development. csr-1 is partially required for RNAi, and essential for proper chromosome segregation. prg-1, a member of PIWI subfamily of Argonaute genes, exhibits reduced brood size and temperature-sensitive sterile phenotype, implicating that it is required for germline maintenance. Additionally, we showed that RDE-1 interacts with trigger-derived sense and antisense siRNAs (primary siRNAs) to initiate RNAi, while several other Argonaute proteins, SAGO-1, SAGO-2, and perhaps others, functioning redundantly, interact with amplified siRNAs (secondary siRNAs) to mediate downstream silencing. Moreover, our analysis uncovered that another member of Argonaute gene family, ergo-1, is essential for the endogenous RNAi pathway.
Work Intention as Mediator in the Relationship between Work Passion and Organizational Commitment among Teachers in Malaysia

Organizational commitment among employees is important to determine organizational effectiveness as employees with higher organizational commitment have higher motivation to stay with their organization. In recent years, previous studies have shown that the teachers’ organizational commitment are low and moderate. Therefore, this study focuses on the effect of work passion toward organizational commitment with work intention as the mediator. The objectives of this study was to determine the effect of work passion on work intention and organizational commitment among teachers and to determine the role of work intention as a mediator in the effect of work passion on organizational commitment among teachers. This study employed a cross-sectional survey involving 355 school teachers in Malaysia through multi-stage cluster sampling technique. Data were analyzed using descriptive analysis, while confirmatory factor analysis (CFA) and structural equation modeling (SEM) were used to determine the fitness of the model with the data. Findings showed that organizational commitment and work passion among school teachers were moderate, while work intention was at a higher level. SEM analysis showed that the model has a good fit with CMIN/df= 3.22, GFI = 0.95, CFI=0.97, TLI=0.95, RMSEA=0.08. In addition, job factors have a significant direct effect on work intention and organizational commitment. Results also showed that work intention mediated the relationship between work passion and organizational commitment. The results of this imply the importance of work passion and work intention in enhancing organizational commitment among teachers in Malaysia.
Molecular mechanisms of bacterial infection via the gut

Functional Morphology of the Gastrointestinal Tract. - Vibrio cholerae Interactions with the Gastrointestinal Tract: Lessons from Animal Studies. - Interaction of Yersinia with the Gut: Mechanisms of Pathogenesis and Immune Evasion. - Molecular Mechanisms of Salmonella Virulence and Host Resistance. - Virulence Mechanisms and Persistence Strategies of the Human Gastric Pathogen Helicobacter pylori. - Listeria as an Enteroinvasive Gastrointestinal Pathogen. - Molecular Mechanisms of Campylobacter Infection. - Shigella Infection of Intestinal Epithelium and Circumvention of the Host Innate Defense System.
Effects of Moringa oleifera leaf and probiotics mixed fermented extract on the egg production and cholesterol contents in egg of laying hens

The present study conducted to determine inclusion of drinking water supplementation with extract fermented Moringa oleifera by probiotics Saccharomyces spp (MLF) on egg production and cholesterol contents in egg of laying hens up to 70 weeks old. A total of 180 laying hens with homogenuous body weight were randomly allotted into three drinking water treatments. The dringking water treatments included: drinking without MLF extract (A); drinking water with 2% MLF extract (B); and drinking water with 2% MLF extract (C), respectively. Result showed that the MLF drinking water treatment had improved total weight eggs and egg production compared with control treatments (P<.05). The egg mass in MLF extract treatments B and C were greater than that in control treatment (P<.05). Moreover, MSF extract decreased significantly (P<.05) feed efficiencies of birds. In conclusion, fermented Moringa oleifera leaf by Saccharomyces spp extract supplementation improved egg productions and decreased cholesterol contents in eggs of laying hens.
Influence des facteurs de risque vasculaire sur l’apparition et la toxicité des microhémorragies cérébrales

Les microhemorragies cerebrales (MHC) sont caracterisees par une rupture des petits vaisseaux intracerebraux, conduisant a des epanchements sanguins d’un diametre inferieur a 5 mm chez l’Homme, et considerees sans gravite. Malgre leur dimension microscopique et leur caractere silencieux, elles sont de plus en plus prises en compte par les cliniciens car elles peuvent representer une fragilite vasculaire et refleter la severite d’une pathologie neurovasculaire sous-jacente. Leur toxicite pour le tissu cerebral est souvent speculee mais n’a jamais ete demontree, laissant planer le doute a propos de leur impact potentiel sur l’apparition ou la precipitation d’un declin cognitif. De plus, il est difficile de connaitre les effets propres des MHC car elles sont souvent associees a une pathologie dont les caracteristiques viennent influencer les effets observes. C’est dans ce contexte que nous avons developpe une nouvelle methode d’induction de MHC disseminees chez la souris saine. En plus de l’etude de l’impact de ces lesions au niveau histologique et comportemental a court et a long terme, nous avons evalue l’influence de facteurs de risque vasculaires (par un traitement anticoagulant oral) et metaboliques (par le biais d’une alimentation riche en gras) sur leur severite. Nos investigations ont permis de montrer que la presence de MHC disseminees dans un contexte sain est responsable de l’apparition progressive d’une alteration de la memoire de reconnaissance visuelle chez la souris. L’ajout d’un traitement anticoagulant oral augmente la severite des lesions mais qui restent cependant silencieuses a court terme, hormis pour la warfarine responsable de transformations hemorragiques mortelles. De meme, la presence de troubles metaboliques n’a que peu d’impact sur la gravite des poids microhemorragiques observes. Dans les deux cas, la presence de MHC ne provoque pas de precipitation ou d’aggravation du declin cognitif induit a long terme. Ainsi, les facteurs de risque vasculaires et metaboliques ne semblent pas avoir d’influence directe sur la toxicite induite par les MHC dans un contexte d’alteration cognitive non neurodegenerative.
Handbook of Immune Response Genes

Genes of the Major Histocompatibility Complex. Components of Antigen Processing Pathways. T Lymphocytes. Immunoglobulins and the B Cell Receptor. Autoimmune Disorders: HLA, Genetic Predisposition and the Immune System. Ncoplasias Involving Antigen Receptor Genes. Immune Response Cytokines. A List of CD Antigens. Index.
An Approach to Emulate and Validate the Effects of Single Event Upsets using the PREDICT FUTRE Hardware Integrated Framework

Due to the advances in electronics design automation industry, worldwide, the integrated approach to model and emulate the single event effects due to cosmic radiation, in particular single event upsets or single event transients is gaining momentum. As of now, no integrated methodology to inject the fault in parallel to functional test vectors or to estimate the effects of radiation for a selected function in system on chip at design phase exists. In this paper, a framework, PRogrammable single Event effects Demonstrator for dIgital Chip Technologies (PREDICT) failure assessment for radiation effects is developed using a hardware platform and aided by genetic algorithms addressing all the above challenges. A case study is carried out to evaluate the frameworks capability to emulate the effects of radiation using the co-processor as design under test (DUT) function. Using the ML605 and Virtex-6 evaluation board for single and three particle simulations with the layered atmospheric conditions, the proposed framework consumes approximately 100 min and 300 min, respectively; it consumes 600 min for 3 particle random atmospheric conditions, using the 64 GB RAM, 64-bit operating system with 3.1 GHz processor based workstation. The framework output transforms the 4 MeVcm2/mg linear energy transfer to a single event transient pulse width of 2 μs with 105 amplification factor for visualisation, which matches well with the existing experimental results data. Using the framework, the effects of radiation for the co-processing module are estimated during the design phase and the success rate of the DUT is found to be 48 per cent.
NUMERICAL STUDY ON THE IMPORTANCE OF THE MIXED CONVECTION AND THE IMPACT OF THE COOLING RATE ON THE SOLIDIFICATION OF A PURE MATERIAL

The present paper investigates numerically the solidification process of a pure metal, injected inside a channel, aiming to overview theoretically this complex phase change process, using COMSOL Multiphysics. The study is based on the Voller and Prakash model with fixed grid technique [1]. Results interpretation have been steered toward guessing the effect on the whole process of a varying entrance melt velocity; having proven that melt flow has a negative effect on the solidification rate. Also, the decreasing mid values of temperature transition (MVTT) would give fine numerical solution because it offers less thick mushy zone; this allows a good understanding to the solidification rate, mushy zone spreading and flow structure nearby solid region. Then, two different variable cooling rates functions were suggested comparing them to constant heat flux case. Results indicate that linear function cooling heat flux is the best function in terms of economy of cooling costs.
APLIKASI ECOMMERCE BERBASIS BUSINESS to CONSUMER SEBAGAI PENJUALAN PRODUK MAKANAN RINGAN KHAS PRINGSEWU

Electronic Commerce is an extension of e-commerce by exploiting electronic media. as electronic advances are increasingly advanced, it will force SMEs to evolve from manual to digital, this is because the existence of the internet as electronic media (e-commerce) has its own positive and negative impacts. The positive impact is the presence of the internet as a medium for selling marketing systems to become wider, simple and detailed. While the negative impact is when traditional business people will be displaced by the times due to lack of knowledge. The system to be built is a typical web-based sale of Pringsewu snacks, this website can display complete catalogs and catalogs with prices and types of food online also providing shopping process services. The result of designing this application is the development of applications from the sale of Pringsewu's specialty snacks online, buyers can easily find and see Pringsewu's specialty snacks and make it easier to carry out the process of buying and selling food.
Prediction of Medical Concepts in Electronic Health Records: Similar Patient Analysis

Background Medicine 2.0—the adoption of Web 2.0 technologies such as social networks in health care—creates the need for apps that can find other patients with similar experiences and health conditions based on a patient’s electronic health record (EHR). Concurrently, there is an increasing number of longitudinal EHR data sets with rich information, which are essential to fulfill this need. Objective This study aimed to evaluate the hypothesis that we can leverage similar EHRs to predict possible future medical concepts (eg, disorders) from a patient’s EHR. Methods We represented patients’ EHRs using time-based prefixes and suffixes, where each prefix or suffix is a set of medical concepts from a medical ontology. We compared the prefixes of other patients in the collection with the state of the current patient using various interpatient distance measures. The set of similar prefixes yields a set of suffixes, which we used to determine probable future concepts for the current patient’s EHR. Results We evaluated our methods on the Multiparameter Intelligent Monitoring in Intensive Care II data set of patients, where we achieved precision up to 56.1% and recall up to 69.5%. For a limited set of clinically interesting concepts, specifically a set of procedures, we found that 86.9% (353/406) of the true-positives are clinically useful, that is, these procedures were actually performed later on the patient, and only 4.7% (19/406) of true-positives were completely irrelevant. Conclusions These initial results indicate that predicting patients’ future medical concepts is feasible. Effectively predicting medical concepts can have several applications, such as managing resources in a hospital.
CUDA-Parttree : estratégia paralela em GPU para alinhamento múltiplo heurístico de milhares de sequências

Biological sequence alignment is a very important task in Bioinformatics and it may be done between two (pairwise alignment) or more sequences (multiple sequence alignment). Multiple sequence alignment is an NP -complete problem and the dynamic programming algorithm that obtains the optimal alignment is used only for small sequence sets (up to 30 sequences). As such, heuristic algorithms are used for obtaining alignments with acceptable accuracy in a timely manner. For sets with tens of thousands of sequences, algorithms specifically designed for such sizes are necessary. Parttree is a state-of-the-art heuristic algorithm for multiple sequence alignment of tens of thousands os sequences. In this MSc dissertation, we propose and evaluate CUDA-Parttree, a parallel strategy that executes the first phase of Parttree (distance matrix calculation with 6mers) partially on GPU. Using this strategy, we were able to reduce the execution time of the distance calculation between all sequences compared to Parttree. CUDA-Parttree was used to align 6 real sequence sets, ranging from 25,534 to 151,443 sequences, and 4 synthetic sets, ranging from 10,000 to 100,000 CUDA-Parttree obtained a speedup of 6.10x on the distance matrix calculation for the Cyclodex_gly_tran (50,280 sequences) set, reducing the execution time from 33.94s to 5.57s. Nevertheless, the data transformation required for the GPU calculation and to return the distance matrix to Parttree reduced the speedup to 2.59x. With the sequence set Syn_100000 (100, 000 sequences), a speedup of 4.46x was attained, reducing execution time from 209.54s to 47.00s.
Impact of soil use on aggregate stability and its relationship with soil organic carbon at two different altitudes in the Colombian Andes

The stability of soil aggregates depends on the organic matter, and the soil use and management can affect the soil organicmatter (SOM) content. Therefore, it is necessary to know therelationship between aggregate stability and the content of SOMin different types of soil use at two different altitudes of theColombian Andes. This study examined the conditions of soilaggregate stability expressed as a distribution of the size classes of stable aggregates (SA) and of the mean weighted diameter of the stable aggregates (MWD). To correlate these characteristics with the soil organic carbon (OC), we measured the particulate organic matter pool (POC), the OC associated with the mineral organic matter pool (HOC), the total organic carbon content (TOC), and the humification rate (HR). Soils were sampled at two altitudes: 1) Humic Dystrudepts in a cold tropical climate (CC) with three plots: tropical mountain rainforest, pastures, and crops; 2) Fluvaquentic Dystrudepts in a warm tropical climate (WC) with three plots: tropical rainforest, an association of oil palm and pastures, and irrigated rice. Soils were sampled at three depths: 0-5, 5-10 and 10-20 cm. The physical properties, mineral particle size distribution, and bulk density were measured. The content of SA with size>2.36 mm was higher in the CC soil (51.48%) than in the WC soil (9.23%). The SA with size 1.18-2.36 mm was also higher in the CC soil (7.78%) than in the WC soil (0.62%). The SA with size 0.60-1.18 mm resulted indifferent. The SA with size between 0.30 and 0.60 mm were higher in the WC soil (13.95%) than in the CC soil (4.67%). The SA<0.30 mm was higher in the WC soil (72.56%) than in the CC soil (32.15%). It was observed that MWD and the SA>2.36 mm increased linearly with a higher POC, but decreased linearly with a higher HR. For the SA<0.30 mm, a linear decrease was observed at a higher POC, while it increased at a higher HR.