bluuebunny/crossref_metadata_2025_split huggingface dataset:
A brief history of ELT Journal
Authors: Smith Richard 
Published: October 2020

Abstract
This article traces the 75-year history of ELT Journal, using this as a means to cast light on trends in ELT over the same period and to acknowledge various sources of thought and practice. In the first part (1946–1971), the focus is on how the journal contributed to the establishment of a methodological orthodoxy which was relatively unaffected by academic applied linguistics but which drew sustenance, rather, from a tradition of theorized experience and practical linguistics dating back to pre-war times. In the second part (1971–1996), the focus is on tensions between this orthodoxy and newer ‘communicative’ ideas—still, though, with an emphasis on practical experience as well as academic insight, while the final phase (1996–2021) is viewed as being characterized, above all, by attempts to ‘decentre’ away from mainly UK-based expertise and towards an opening-up of professional discourse to previously neglected voices. Viewing the history of the journal in this manner reveals continuities as well as shifts in perception of how English should be defined, whose voices ‘count’ in the field, and of the value or otherwise of research and theory in relation to practical concerns.
Conservation analysis of SARS-CoV-2 spike suggests complicated viral adaptation history from bat to human
Authors: Lei Kuan Cheok , Zhang Xiaohua Douglas 
Published: October 2020

Abstract

Background
The current coronavirus disease 2019 (COVID-19) pandemic, caused by severe acute respiratory syndrome (SARS)-CoV-2, has become the most devastating public health emergency in the 21st century and one of the most influential plagues in history. Studies on the origin of SARS-CoV-2 have generally agreed that the virus probably comes from bat, closely related to a bat CoV named BCoV-RaTG13 taken from horseshoe bat (Rhinolophus affinis), with Malayan pangolin (Manis javanica) being a plausible intermediate host. However, due to the relatively low number of SARS-CoV-2-related strains available in public domain, the evolutionary history remains unclear.

Methodology
Nine hundred ninety-five coronavirus sequences from NCBI Genbank and GISAID were obtained and multiple sequence alignment was carried out to categorize SARS-CoV-2 related groups. Spike sequences were analyzed using similarity analysis and conservation analyses. Mutation analysis was used to identify variations within receptor-binding domain (RBD) in spike for SARS-CoV-2-related strains.

Results
We identified a family of SARS-CoV-2-related strains, including the closest relatives, bat CoV RaTG13 and pangolin CoV strains. Sequence similarity analysis and conservation analysis on spike sequence identified that N-terminal domain, RBD and S2 subunit display different degrees of conservation with several coronavirus strains. Mutation analysis on contact sites in SARS-CoV-2 RBD reveals that human-susceptibility probably emerges in pangolin.

Conclusion and implication
We conclude that the spike sequence of SARS-CoV-2 is the result of multiple recombination events during its transmission from bat to human, and we propose a framework of evolutionary history that resolve the relationship of BCoV-RaTG13 and pangolin coronaviruses with SARS-CoV-2.

Lay Summary
This study analyses whole-genome and spike sequences of coronavirus from NCBI using phylogenetic and conservation analyses to reconstruct the evolutionary history of severe acute respiratory syndrome (SARS)-CoV-2 and proposes an evolutionary history of spike in the progenitors of SARS-CoV-2 from bat to human through mammal hosts before they recombine into the current form.
TheGalleria mellonellainfection model as a system to investigate the virulence ofCandida aurisstrains
Authors: Romera David , Aguilera-Correa John-Jairo , García-Coca Marta , Mahillo-Fernández Ignacio , Viñuela-Sandoval Lourdes , García-Rodríguez Julio , Esteban Jaime 
Published: October 2020

ABSTRACTCandida auris is a multiresistant pathogenic yeast commonly isolated from bloodstream infections in immunocompromised patients. In this work, we infected Galleria mellonella larvae with 105 CFU of a reference strains and two clinical isolates of C. albicans and C. auris and we compared the outcomes of infection between both species. Larvae were evaluated every 24 h for a total of 120 h following the G. mellonella Health Index Scoring System, and survival, activity, melanization and cocoon formation were monitored. Our results showed that clinical isolates were significantly more pathogenic than reference strains independently of the tested species, producing lower survival and activity scores and higher melanization scores and being C. albicans strains more virulent than C. auris strains. We did not find differences in mortality between aggregative and non-aggregative C. auris strains, although non-aggregative strains produced significantly lower activity scores and higher melanization scores than aggregative ones. Survival assays using Galleria mellonella have been previously employed to examine and classify strains of this and other microbial species based on their virulence before scaling the experiments to a mammal model. Taken together, these results show how a more complete evaluation of the model can improve the study of C. auris isolates.
A historical perspective of MDR invasive pneumococcal disease in Spanish adults
Authors: Càmara Jordi , Grau Inmaculada , González-Díaz Aida , Tubau Fe , Calatayud Laura , Cubero Meritxell , Domínguez M Ángeles , Liñares Josefina , Yuste José , Pallarés Román , Ardanuy Carmen 
Published: October 2020

Abstract

Objectives
To analyse the clonal dynamics and clinical characteristics of adult invasive pneumococcal disease (IPD) caused by MDR and penicillin-non-susceptible (PNS) pneumococci in Spain.

Methods
All adult IPD episodes were prospectively collected (1994–2018). Streptococcus pneumoniae isolates were serotyped, genotyped and tested for antimicrobial susceptibility. Changes in the incidence of IPD were analysed and risk factors contributing to MDR were assessed by logistic regression.

Results
Of 2095 IPD episodes, 635 (30.3%) were caused by MDR/PNS isolates. Over the study period, the incidence of MDR/PNS-IPD decreased (IRR 0.70; 95% CI 0.53–0.93) whereas that of susceptible isolates remained stable (IRR 0.96; 95% CI 0.80–1.16). A reduction of resistance rates to penicillin (–19.5%; 95% CI –37% to 2%) and cefotaxime (–44.5%; 95% CI –64% to –15%) was observed. Two clones, Spain9V-ST156 and Denmark14-ST230, accounted for 50% of current resistant disease. Among current MDR/PNS isolates, 45.8% expressed serotypes not covered by the upcoming PCV15/PCV20 vaccines. MDR/PNS episodes were associated with older patients with comorbidities, nosocomial acquisition and higher 30 day mortality. MDR/PNS pneumococci were not independently associated with 30 day mortality in multivariate analysis [OR 0.826 (0.648–1.054)].

Conclusions
Our study shows an overall reduction of MDR/PNS isolates in adults after the introduction of pneumococcal conjugate vaccines. However, a significant proportion of current resistant isolates are not covered by any of the upcoming PCV15/PCV20 vaccines. The burden of resistant disease is related to older patients with underlying conditions and caused by two major clones. Our data show that MDR is not a statistically significant factor related to increased mortality.
Rhythmic Auditory Stimulation and Gait Training in Traumatic Brain Injury: A Pilot Study
Authors: Thompson Sarah , Hays Kaitlin , Weintraub Alan , Ketchum Jessica M , Kowalski Robert G 
Published: October 2020

Abstract
Rhythmic auditory stimulation (RAS) has been well researched with stroke survivors and individuals who have Parkinson’s disease, but little research exists on RAS with people who have experienced traumatic brain injury (TBI). This pilot study aimed to (1) assess the feasibility of the study design and (2) explore potential benefits. This single-arm clinical trial included 10 participants who had a 2-week control period between baseline and pretreatment. Participants had RAS daily for a 2-week treatment period and immediately completed post-treatment assessments. Participants then had a 1-week control period and completed follow-up assessment. The starting cadence was evaluated each day of the intervention period due to the variation in daily functioning in this population. All 10 participants were 1–20 years post-TBI with notable deviations in spatial-temporal aspects of gait including decreased velocity, step symmetry, and cadence. All participants had a high risk of falling as defined by achieving less than 22 on the Functional Gait Assessment (FGA). The outcome measures included the 10-m walk test, spatial and temporal gait parameters, FGA, and Physical Activity Enjoyment Scale. There were no adverse events during the study and gait parameters improved. After the intervention, half of the participants achieved a score of more than 22 on the FGA, indicating that they were no longer at high risk of experiencing falls.
Human Muscle Precursor Cells Form Human-Derived Myofibers in Skeletal Muscles of Nonhuman Primates: A Potential New Preclinical Setting to Test Myogenic Cells of Human Origin for Cell Therapy of Myopathies
Authors: Skuk Daniel , Tremblay Jacques P 
Published: October 2020

Abstract
This study aimed to verify if human myogenic cells could participate in muscle regeneration in macaques. This experimental setting would grant researchers a model that could better evaluate the effects of cell therapies in myopathies with a better translation to human patients. Human muscle precursor cells (MPCs) were cultured in vitro and transduced with ß-galactosidase. The cells were subsequently injected into 1-cm3 muscle regions of 6 macaques immunosuppressed with tacrolimus and dexamethasone. Allogeneic ß-galactosidase+ MPCs were injected in other regions as positive controls. Some cell-grafted regions were electroporated to induce extensive muscle regeneration. MPC-grafted regions were sampled 1 month later and analyzed by histology. There were ß-galactosidase+ myofibers in both the regions grafted with human and macaque MPCs. Electroporation increased the engraftment of human MPCs in the same way as in macaque allografts. The histological analysis (hematoxylin and eosin, CD8, and CD4 immunodetection) demonstrated an absence of cellular rejection in most MPC-grafted regions, as well as minimal lymphocytic infiltration in the regions transplanted with human MPCs in the individual with the lowest tacrolimus levels. Circulating de novo anti-donor antibodies were not detected. In conclusion, we report the successful engraftment of human myogenic cells in macaques, which was possible using tacrolimus-based immunosuppression.
Interstitial telomere sequences disrupt break-induced replication and drive formation of ectopic telomeres
Authors: Stivison Elizabeth A , Young Kati J , Symington Lorraine S 
Published: October 2020

AbstractBreak-induced replication (BIR) is a mechanism used to heal one-ended DNA double-strand breaks, such as those formed at collapsed replication forks or eroded telomeres. Instead of utilizing a canonical replication fork, BIR is driven by a migrating D-loop and is associated with a high frequency of mutagenesis. Here we show that when BIR encounters an interstitial telomere sequence (ITS), the machinery frequently terminates, resulting in the formation of an ectopic telomere. The primary mechanism to convert the ITS to a functional telomere is by telomerase-catalyzed addition of telomeric repeats with homology-directed repair serving as a back-up mechanism. Termination of BIR and creation of an ectopic telomere is promoted by Mph1/FANCM helicase, which has the capacity to disassemble D-loops. Other sequences that have the potential to seed new telomeres but lack the unique features of a natural telomere sequence, do not terminate BIR at a significant frequency in wild-type cells. However, these sequences can form ectopic telomeres if BIR is made less processive. Our results support a model in which features of the ITS itself, such as the propensity to form secondary structures and telomeric protein binding, pose a challenge to BIR and increase the vulnerability of the D-loop to dissociation by helicases, thereby promoting ectopic telomere formation.
Kidney transplantation after rescue allocation—meticulous selection yields the chance for excellent outcome
Authors: Assfalg Volker , Misselwitz Svea , Renders Lutz , Hüser Norbert , Novotny Alexander , Jäger Carsten , Büttner-Herold Maike , Amann Kerstin , Schmaderer Christoph , Heemann Uwe , Wen Ming , Haberfellner Flora , Torrez Carlos , Bachmann Quirin , Kemmner Stephan 
Published: October 2020

AbstractBackgroundThe small number of organ donors forces transplant centres to consider potentially suboptimal kidneys for transplantation. Eurotransplant established an algorithm for rescue allocation (RA) of kidneys repeatedly declined or not allocated within 5 h after procurement. Data on the outcomes and benefits of RA are scarce to date.MethodsWe conducted a retrospective 8-year analysis of transplant outcomes of RA offers based on our in-house criteria catalogue for acceptance and decline of organs and potential recipients.ResultsRA donors and recipients were both older compared with standard allocation (SA). RA donors more frequently had a history of hypertension, diabetes or fulfilled expanded criteria donor key parameters. RA recipients had poorer human leucocyte antigen (HLA) matches and longer cold ischaemia times (CITs). However, waiting time was shorter and delayed graft function, primary non-function and biopsy-proven rejections were comparable to SA. Five-year graft and patient survival after RA were similar to SA. In multivariate models accounting for confounding factors, graft survival and mortality after RA and SA were comparable as well.ConclusionsFacing relevant comorbidities and rapid deterioration with the risk of being removed from the waiting list, kidney transplantation after RA was identified to allow for earlier transplantation with excellent outcome. Data from this survey propose not to reject categorically organs from multimorbid donors with older age and a history of hypertension or diabetes to aim for the best possible HLA matching and to carefully calculate overall expected CIT.
Infectious Diseases and Advocacy: This Is our Lane
Authors: Person Anna K 
Published: October 2020

Abstract
The disparate effects of severe acute respiratory syndrome coronavirus 2 virus on communities of color, paired with disjointed federal and local responses to the pandemic and the ongoing examples of structural racism’s effects on health, highlight the need for physician advocacy on behalf of patients. The job of infectious disease physicians has always involved caring for the “whole patient,” but the need for advocacy around issues related to racism, housing, food insecurity, substance use disorders, and mental health has increased. Advocacy at all levels—local, regional, and national—can make a difference and be a profoundly rewarding part of the career of an infectious disease/HIV physician.
Trapped heart in heavily calcified pericardium
Authors: Zaimi Mohd Aizuddin , Mamat Ahmad Zuhdi , Ghazali Mohamad Ziyadi , Zakaria Andee Dzulkarnaen , Sahid Nik Amin , Hayati Firdaus 
Published: October 2020

Abstract
Constrictive pericarditis is a disabling disease of the heart, which causes cardiac diastolic dysfunction. We present a case of a 44-year-old gentleman with a history of blunt chest trauma who presented with constrictive pericarditis with right-sided heart failure. Imaging studies revealed a calcified pericardium. He underwent an uneventful pericardiectomy. Calcification is common yet rare if it involves the pericardium. It normally occurs following fibrosis and adhesion which are associated with the chronicity of the disease, hence creating more challenge to the operating surgeon in the pericardiectomy procedure.
‘Double-hit’ pegylated interferon-alpha successfully treats Hepatitis B and Hepatitis D co-infection
Authors: Bhuva Meha , Moore Marie , Sen Sambit 
Published: October 2020

Abstract
Hepatitis delta (HDV) infection is either acquired simultaneously with, or as a superinfection to, existing Hepatitis B (HBV). It leads to a serious form of chronic viral hepatitis and accelerated liver-related morbidity and mortality including hepatocellular carcinoma. Current treatment regimes propose Pegylated interferon-alpha for 48 weeks however sustained virological response (SVR) rates remain low. We report a patient who initially responded to Pegylated interferon treatment for HBV-HDV co-infection. Although initial improvement in viraemia from both virsues was seen, SVR was not achieved with ongoing progression of liver injury biochemically. However, the summative effect of a second course of Pegylated interferon 2 years later led to HDV cure (SVR 12 months post-treatment), very low level HBV carrier status (with persistently undetectable viral load) and ongoing biochemical normalization. This case illustrates a successful treatment strategy for persistent HBV-HDV co-infection where proposed treatment regimes elicit an initial response but SVR is not achieved.
An oncological curiosity of a male patient with a huge leiomyoma of the terminal ileum
Authors: Zainudin Syaza , Rajanthran Saravana Kumar , Azizan Nornazirah , Hayati Firdaus , Ginawoi Joriana , Suhaimi Khairunnisa Aini , Voo Wan Yee Lilian , Kiram Mohd Fazri , Md Jaki Muhammad Izzuddin , Abd Aziz Siti Haja , Nacathiran Subashini Thevi Nach 
Published: October 2020

AbstractLeiomyoma is a smooth muscle tumour that can arise in any part of the body especially the uterus. Even though it is traditionally linked with hormonal influence, it can also develop in extrauterine organs with a slight female predominance. It is indistinguishable with gastrointestinal stromal tumour (GIST) histologically. We report a case of a 30-year-old gentleman who presented with a huge painful mass in the right iliac fossa. Computed tomography revealed a 10 × 10 cm homogeneous mass arising from the terminal ileum; he subsequently underwent an open right hemicolectomy. Histology showed a well-circumscribed lesion composed of interlacing bundles of smooth muscle fibres of the submucosa with positive smooth muscle actin and H-Caldesmon stains but negative for DOG-1 and CD117 (c-kit) stains which were consistent with leiomyoma. Despite its rarity, this hormone-related tumour needs to be considered regardless of gender. Immunohistochemistry is paramount as it is histologically identical to GIST.
Isolated tuberculosis of the spleen presenting with fever of unknown origin in a vaccinated child
Authors: Kakaje Ameer , Mahmoud Yousef , Hosam Aldeen Osama , Hamdan Othman 
Published: October 2020

Abstract
Tuberculosis (TB) is one of the top 10 causes of death worldwide and is more common in developing countries. Isolated splenic TB is typically found in trauma, miliary TB and immunocompromised status. We present a very rare case of an immunocompetent child with an isolated primary TB in the spleen. The child only had fever of unknown origin (FUO), and mild anaemia. The diagnosis was not made until splenectomy was performed. The patient took the quadruple therapy for TB, and follow-ups showed no recurrence. This case is unique because this child was immunocompetent with no history of trauma or active TB. TB diagnosis should never be ignored in FUO as this might prevent unnecessary procedures to the patient. Although the child was vaccinated with Bacillus Calmette–Guérin that usually protects against severe TB in first 5 years of life, it did not prevent from affecting the spleen.
A case of Falciparum malaria presenting with features of functional bowel obstruction
Authors: Albashir Ahmed Abdalazim Dafallah 
Published: October 2020

Abstract
Malaria is the most common tropical disease in Sudan, which is caused by an infection with Plasmodium protozoa transmitted by an infective female Anopheles mosquito. Headache, fever, cough, fatigue, malaise, shaking chills, arthralgia and myalgia are the cardinal features of malaria, but occasionally, it has an atypical presentation. Intestinal obstruction as a complication is an extremely rare presentation. Here within, we describe a 28-year-old Sudanese man who has presented with of colicky abdominal pain, absolute constipation for two days and fever. Blood film for malaria was positive for Plasmodium falciparum. Intravenous artesunate injections have resulted in the resolution of symptoms of bowel obstruction. In conclusion, malaria should be suspected in any febrile patient with the features of bowel obstruction especially in an endemic area or if the patient has recently travelled to an endemic area with malaria. Treatment of malaria will result in the resolution of symptoms of functional bowel obstruction.
Distribution of physical parameters for 380 contact binaries in the Kepler field
Authors: Li Xu-Zhi , Liu Liang , Zhu Li-Ying 
Published: October 2020

Abstract
We present the physical parameters (p, T, q, i, f) of 380 Kepler contact binary systems (hereafter called CBs). A statistical study on the CBs is carried out based on a Kepler photometric database. Our samples were selected from the Kepler Eclipsing Binary Catalogue of EW-type eclipsing binaries with periods around 0.2–1 d and amplitudes greater than $5\%$. The physical parameters were obtained by fitting the Kepler light curves with the Wilson–Devinney eclipsing binary modeling program. Our sample of CBs contains 160 A-type and 220 W-type CBs. The fill-out factor distribution indicated that CBs generally have shallow fill-out; the proportion of CBs with fill-out factors less than $30\%$ is around $70\%$, which may be related to the formation and evolution of the CBs. The period–temperature relationship of CBs is consistent with previous studies, which is the well-known period–color relationship. The distribution between mass ratio and fill-out factor can provide some information for studying the deep, low-mass ratio contact binaries and CBs which have a large mass ratio. The mass–radius diagram shows that there is a similar linear relationship between the primary and secondary stars while the primary stars are located almost on the ZAMS line; this could be related to the internal nuclear reaction within the primary and secondary stars.