Miracle-dz/UniFAR-FTUs huggingface dataset:
Occurrence and Diversity of CTX-M-Producing Escherichia coli From the Seine River

CTX-M-producing Escherichia coli are spreading since 1999 both in clinical and in community settings. Environmental samples such as rivers have also been pointed out as being vectors for ESBL producers. In this report, we have investigated the presence and the diversity of CTX-M-producing E. coli isolates in two samplings of the Seine River (next to Notre Dame), Paris France, performed in June 2016 and 2017. The total number of bacteria growing on the selective ChromID ESBL agar was 3.1 × 105 cfu/L (23.8% of all growing bacteria) in 2016, whereas it was 100-fold lower in 2017 (3 × 103 cfu/L; 8.3% of all growing bacteria). However, among them, the prevalence of ESBL-producing E. coli increased from <0.1 to 1.1% in one-year. ESBLs were exclusively of the CTX-M-type: CTX-M-1 (n = 5), CTX-M-15 (n = 7), CTX-M-14 (n = 1), and CTX-M-27 (n = 2). The isolates belonged to several multi locus sequence types, and a wide diversity of incompatibility groups of plasmids were identified in those E. coli isolates. The occurrence and diversity of E. coli isolates belonging to many clones and producing many CTX-M-variants have been identified in our study. The presence of these bacteria in rivers that are open again for recreational usage (swimming) is worrying as it may contribute to further dissemination of ESBL producers in the community.
More Than Expected From Old Sponge Samples: A Natural Sampler DNA Metabarcoding Assessment of Marine Fish Diversity in Nha Trang Bay (Vietnam)

Sponges have recently been proposed as ideal candidates to act as natural samplers for environmental DNA due to their efficiency in filtering water. However, validation of the usefulness of DNA recovered from sponges to reveal vertebrate biodiversity patterns in Marine Protected Areas is still needed. Additionally, nothing is known about how different sponge species and morphologies influence the capture of environmental DNA and whether biodiversity patterns obtained from sponges are best described by quantitative or qualitative measures. In this study, we amplified and sequenced a vertebrate specific 12S barcode with a set of universal PCR primers (MiFish) for metabarcoding environmental DNA from fishes, to unveil fine-scale patterns of fish communities from natural-sampler DNA retrieved from 64 sponges (16 species) located in eutrophic and well-preserved coral reefs in Nha Trang Bay (central Vietnam). Ninety tropical fish species were identified from the sponges, corresponding to one third of the total local ichthyofauna reported from previous extensive conventional surveys. Significant differentiation in fish communities between eutrophic and well-preserved environments was observed, albeit eutrophication only explained a modest proportion of the variation between fish communities. Differences in efficiency of capturing fish environmental DNA among sponge species or morphologies were not observed. Overall, the majority of detected fish species corresponded to reef-associated small-sized species, as expected in coral reefs environments. Remarkably, pelagic, migratory, and deep-sea fish species were also recovered from sponge tissues, pointing out the ability of sponge natural sampled DNA to detect fishes that were not permanently associated to the biomes where the sponges were sampled. These results highlight the suitability of natural samplers as a cost-effective way to assess vertebrate diversity in hyper-diverse environments.
Risk Factors for Adult Depression: Adverse Childhood Experiences and Personality Functioning

Background: Depressive disorder is one of the main health problems worldwide. Many risk factors have been associated with this pathology. However, while the association between risks factors and adult depression is well established, the mechanisms behind its impact remains poorly understood. A possible, yet untested explanation is the mediating impact of levels of personality functioning, i.e., impairments with regard to self and interpersonal. Method: Around 162 patients were assessed at the beginning of their therapy, with regard to risk factors, such as sociodemographic, physical, hereditary (Information Form), and adverse childhood experiences (ACE; CTQ). Depressive symptoms (Beck Depression Inventory, BDI) and personality functioning (OPD-SQ) were also measured. Associations between the related variables as well as other possible covariates were examined by means of zero-order correlations and bootstrapping-based mediation analysis. Results: Of all the risk factors taken into account, level of education and physical illness were associated with depression. On the other hand, the most significant predictor of depressive symptomatology was ACE, and this relationship was mediated by personality functioning. This indicates that patients presenting adverse childhood experiences are more likely to develop deficiencies in personality functioning, which in turn increases their likelihood of developing depressive symptomatology. Conclusion: These results reaffirm the importance of incorporating risk and vulnerability factors such as personality functioning in understanding depression.
Profiles of Parents’ Beliefs About Their Child’s Intelligence and Self-Regulation: A Latent Profile Analysis

This study examined parents’ implicit theories of intelligence and self-regulation from a person-centered perspective using latent profile analysis. First, we explored whether different belief profiles exist. Second, we examined if the emergent belief profiles (1) differ by demographic variables (e.g., age, education, child’s self-regulation) and (2) are related to parents’ failure beliefs, goal orientation (i.e., learning goals, performance-approach goals, performance-avoidance goals), and co-regulatory strategies (i.e., mastery-oriented and helpless-oriented strategies). Data were collected from N = 137 parents of preschoolers who answered an online survey comprising their implicit theories about the malleability and relevance of the domains (a) intelligence and (b) self-regulation. We identified three belief profiles: profile 1 (9% of the sample) displayed an entity theory, profile 2 (61% of the sample) showed a balanced pattern of both domains of implicit theories, and profile 3 (30% of the sample) was characterized by high incremental self-regulation theories. Analyses showed that parents differed significantly in education and their perception of child self-regulatory competence depending on profile membership, with parents in profile 1 having the lowest scores compared to parents of the other profiles. Differences in parents’ failure beliefs, goal orientation, and co-regulatory strategies were also found depending on profile membership. Parents in profile 3 reported failure-is-enhancing mindsets, and mastery-oriented strategies significantly more often than parents in profiles 1 and 2. The results provide new insights into the interplay of important domains of implicit theories, and their associations with parents’ failure beliefs, goal orientation, and co-regulatory strategies.
External Debt Distress in South Asia: Evidence from Panel Data Analysis

This study is an attempt to explore social and economic determinants of external debt distress in five selected South Asian countries, that is, Bangladesh, India, Nepal, Pakistan and Sri Lanka, from 1980 to 2018, by using the contemporary panel fixed effect model and system generalized methods of moments. The findings revealed that the major determinants of external debt distress in selected South Asian countries are large and increasing current account deficits, lower gross capital formation, foreign direct investment and large military expenditures. Among selected socio-economic variables, the increase in life expectancy increases external debt distress, whereas urbanization reduces it considerably. The study urges selected South Asian countries to correct highly unfavourable current account balance, resolve regional conflicts leading to the reduction of the arms race and make the macroeconomic environment friendly for domestic and foreign investment to reduce exploding external debt distress. JEL Classification: C33, E22, F32, H63
Physico-chemical Characteristics and Pyrolysis Behavior of Klason Lignins Isolated from Agro-industrial Biomass

Klason lignins lab-isolated from two lignocellulosic biomasses emerging from the processing of agro-industrial products, Aspidosperma australe wood sawdust and Bertholletia excelsa nutshells, with different contents of lignin (27 and 57 wt%, respectively), are characterized. Characterization includes determination of ash content, elemental composition, Fourier-transform infrared spectra, and surface morphological features by scanning electronic microscopy. Pyrolysis behavior of the isolated lignins as well as of the parent biomasses from which they are extracted is comparatively examined by non-isothermal thermogravimetric analysis from room temperature up to 1000°C. The lignins exhibit different ash contents and elemental compositions, as well as noticeable differences in their pyrolytic behavior depending on the botanical origin of the bio-resource and with respect to that determined for the untreated parent biomasses. Overall, the lignin isolated from the nutshells is more resistant to degrade than the sawdust-derived lignin, likely due to a more condensed chemical structure.
Overview of the 7th Workshop on Asian Translation

This paper presents the results of the shared tasks from the 7th workshop on Asian translation (WAT2020). For the WAT2020, 20 teams participated in the shared tasks and 14 teams submitted their translation results for the human evaluation. We also received 12 research paper submissions out of which 7 were accepted. About 500 translation results were submitted to the automatic evaluation server, and selected submissions were manually evaluated.
Community-Based Social Marketing in Theory and Practice: Five Case Studies of Water Efficiency Programs in Canada

Background: Community-based social marketing (CBSM) offers a pragmatic five-step approach to developing a program that fosters sustainable behaviour. However, how the CBSM theoretical framework has been implemented into practice remains largely under-evaluated. To help address this gap, Lynes et al. developed 21 benchmarks to assess CBSM programs. This research builds upon these benchmarks by using both the benchmarks and additional assessment criteria to assess five Canadian programs that have used CBSM principles. Focus: This paper is related to research and evaluation of community-based social marketing. Research Question: How has the CBSM theoretical framework been implemented in practice at the community level? Importance to the Social Marketing Field: By exploring how five Canadian programs have implemented CBSM, this paper enables practitioners to align their programs with CBSM principles more closely. It also contributes to the literature on CBSM effectiveness. Methods: Five qualitative case studies were assessed, each featuring a Canadian community program seeking to influence residential water efficiency behaviour. In order to systematically assess each program’s adherence to the CBSM theoretical framework, a CBSM benchmark assessment tool that proposes additional assessment criteria to Lynes et al.’s 21 benchmarks was developed. The assessment tool allowed for replicable benchmark assessments across multiple programs. Triangulation of data from both primary (survey and interview) and secondary (peer-reviewed literature, gray literature, and online reporting) data sources informed the assessment of each case study. Results: On average, over the five case studies, just over half of the 21 benchmark criteria were fully integrated into the programs, whereas just under a third were partially integrated, and approximately one fifth were not integrated at all. Recommendations for Research or Practice: While the benchmarks were fairly well integrated overall, this paper outlines several recommendations that programs may consider to improve alignment with the CBSM theoretical framework and benchmarks. Recommendations for future research to explore CBSM effectiveness are also made. Limitations: Lack of generalizability due to small sample size, unable to make assessments of programmatic success, and inherent limitations of the benchmark assessment tool.
Towards a Standardized Dataset on Indonesian Named Entity Recognition

In recent years, named entity recognition (NER) tasks in the Indonesian language have undergone extensive development. There are only a few corpora for Indonesian NER; hence, recent Indonesian NER studies have used diverse datasets. Although an open dataset is available, it includes only approximately 2,000 sentences and contains inconsistent annotations, thereby preventing accurate training of NER models without reliance on pre-trained models. Therefore, we re-annotated the dataset and compared the two annotations’ performance using the Bidirectional Long Short-Term Memory and Conditional Random Field (BiLSTM-CRF) approach. Fixing the annotation yielded a more consistent result for the organization tag and improved the prediction score by a large margin. Moreover, to take full advantage of pre-trained models, we compared different feature embeddings to determine their impact on the NER task for the Indonesian language.
MRC Examples Answerable by BERT without a Question Are Less Effective in MRC Model Training

Models developed for Machine Reading Comprehension (MRC) are asked to predict an answer from a question and its related context. However, there exist cases that can be correctly answered by an MRC model using BERT, where only the context is provided without including the question. In this paper, these types of examples are referred to as “easy to answer”, while others are as “hard to answer”, i.e., unanswerable by an MRC model using BERT without being provided the question. Based on classifying examples as answerable or unanswerable by BERT without the given question, we propose a method based on BERT that splits the training examples from the MRC dataset SQuAD1.1 into those that are “easy to answer” or “hard to answer”. Experimental evaluation from a comparison of two models, one trained only with “easy to answer” examples and the other with “hard to answer” examples demonstrates that the latter outperforms the former.
Compressing Pre-trained Language Models by Matrix Decomposition

Large pre-trained language models reach state-of-the-art results on many different NLP tasks when fine-tuned individually; They also come with a significant memory and computational requirements, calling for methods to reduce model sizes (green AI). We propose a two-stage model-compression method to reduce a model’s inference time cost. We first decompose the matrices in the model into smaller matrices and then perform feature distillation on the internal representation to recover from the decomposition. This approach has the benefit of reducing the number of parameters while preserving much of the information within the model. We experimented on BERT-base model with the GLUE benchmark dataset and show that we can reduce the number of parameters by a factor of 0.4x, and increase inference speed by a factor of 1.45x, while maintaining a minimal loss in metric performance.
The adult multidisciplinary respiratory neuromuscular clinic

Many neuromuscular disorders (NMD) are complicated by respiratory failure. These patients are best managed in a multidisciplinary outpatient clinic to provide timely access to the various disciplines they require. The key mainstay of treatment of respiratory failure in patients with NMD is noninvasive ventilation, supported by secretion clearance, speech and language therapy, optimisation of nutrition and the maintenance of mobility. Patients with specific conditions may also require cardiology, neurology, orthopaedics, urology and psychological services. The respiratory NMD multidisciplinary team should also provide access to palliative care, and caregiver health and wellbeing should also be reviewed at clinical reviews. The future of care for the respiratory NMD patient will increasingly involve home services and telehealth and the clinic should be equipped and resourced to deliver these. Although not all health systems will be able to provide all elements of the multidisciplinary team discussed here, this review provides the “ideal” recipe for the adult multidisciplinary team and the evidence base underpinning this from which a clinic can be developed. Educational aims To provide an overview of the care of an adult neuromuscular disorder patient presenting to the multidisciplinary respiratory clinic. To provide the evidence base for establishing the different elements of the multidisciplinary respiratory clinic. Care for neuromuscular-related respiratory failure is complex and is best delivered in a multidisciplinary context. The future will increasingly involve home services and telehealth, and their burden needs to be considered when establishing this service. https://bit.ly/33fNsMT
A New Equation of State for Dense Hydrogen–Helium Mixtures

We present a new equation of state (EOS) for dense hydrogen/helium mixtures that covers a range of densities from 10−8 to , pressures from 10−9 to 1013 GPa, and temperatures from 102 to 108 K. The calculations combine the EOS of Saumon, Chabrier & van Horn in the low-density, low-temperature molecular/atomic domain, the EOS of Chabrier & Potekhin in the high-density, high-temperature fully ionized domain, the limits of which differ for H and He, and ab initio quantum molecular dynamics calculations in the regime of intermediate density and temperature, characteristic of pressure dissociation and ionization. The EOS for the H/He mixture is based on the so-called additive volume law and thus does not take into account the interactions between the two species. A major improvement of the present calculations over existing ones is that we calculate the entropy over the entire density–temperature domain, a necessary quantity for calculations of stellar or planetary evolution. The EOS results are compared with existing experimental data, namely Hugoniot shock experiments for pure H and He, and with first-principles numerical simulations for both the single elements and the mixture. This new EOS covers a wide range of physical and astrophysical conditions, from Jovian planets to solar-type stars, and recovers the existing relativistic EOS at very high densities, in the domains of white dwarfs and neutron stars. All the tables are made publicly available.
The 287,403 bp Mitochondrial Genome of Ectomycorrhizal Fungus Tuber calosporum Reveals Intron Expansion, tRNA Loss, and Gene Rearrangement

In the present study, the mitogenome of Tuber calosporum was assembled and analyzed. The mitogenome of T. calosporum comprises 15 conserved protein-coding genes, two rRNA genes, and 14 tRNAs, with a total size of 287,403 bp. Fifty-eight introns with 170 intronic open reading frames were detected in the T. calosporum mitogenome. The intronic region occupied 69.41% of the T. calosporum mitogenome, which contributed to the T. calosporum mitogenome significantly expand relative to most fungal species. Comparative mitogenomic analysis revealed large-scale gene rearrangements occurred in the mitogenome of T. calosporum, involving gene relocations and position exchanges. The mitogenome of T. calosporum was found to have lost several tRNA genes encoding for cysteine, aspartate, histidine, etc. In addition, a pair of fragments with a total length of 32.91 kb in both the nuclear and mitochondrial genomes of T. calosporum was detected, indicating possible gene transfer events. A total of 12.83% intragenomic duplications were detected in the T. calosporum mitogenome. Phylogenetic analysis based on mitochondrial gene datasets obtained well-supported tree topologies, indicating that mitochondrial genes could be reliable molecular markers for phylogenetic analyses of Ascomycota. This study served as the first report on mitogenome in the family Tuberaceae, thereby laying the groundwork for our understanding of the evolution, phylogeny, and population genetics of these important ectomycorrhizal fungi.
The Role of Eryptosis in the Pathogenesis of Renal Anemia: Insights From Basic Research and Mathematical Modeling

Red blood cells (RBC) are the most abundant cells in the blood. Despite powerful defense systems against chemical and mechanical stressors, their life span is limited to about 120 days in healthy humans and further shortened in patients with kidney failure. Changes in the cell membrane potential and cation permeability trigger a cascade of events that lead to exposure of phosphatidylserine on the outer leaflet of the RBC membrane. The translocation of phosphatidylserine is an important step in a process that eventually results in eryptosis, the programmed death of an RBC. The regulation of eryptosis is complex and involves several cellular pathways, such as the regulation of non-selective cation channels. Increased cytosolic calcium concentration results in scramblase and floppase activation, exposing phosphatidylserine on the cell surface, leading to early clearance of RBCs from the circulation by phagocytic cells. While eryptosis is physiologically meaningful to recycle iron and other RBC constituents in healthy subjects, it is augmented under pathological conditions, such as kidney failure. In chronic kidney disease (CKD) patients, the number of eryptotic RBC is significantly increased, resulting in a shortened RBC life span that further compounds renal anemia. In CKD patients, uremic toxins, oxidative stress, hypoxemia, and inflammation contribute to the increased eryptosis rate. Eryptosis may have an impact on renal anemia, and depending on the degree of shortened RBC life span, the administration of erythropoiesis-stimulating agents is often insufficient to attain desired hemoglobin target levels. The goal of this review is to indicate the importance of eryptosis as a process closely related to life span reduction, aggravating renal anemia.
Incorporation of a Cooperative Learning Technique in Organic Chemistry

The integration of a cooperative learning technique (Student Team Achievement Divisions or STAD) into a sophomore-level organic chemistry course is described. Students were assigned to Learning Teams according to their performance in the two terms of general chemistry and on a General Chemistry Review Sheet written by the author and administered on the first day of the organic chemistry class. Extra credit points applied to the students' exam scores were earned by Learning Team members if all members improved on their own past performance. The methods used to assign students to Learning Teams and to determine the amount of extra credit earned are presented. Student opinion surveys indicate that students support the use of the technique in organic chemistry.