bluuebunny/crossref_metadata_2025_split huggingface dataset:
The effects of road transportation with or without homeopathic remedy supplementation on growth performance, apparent nutrient digestibility, fecal microbiota, and serum cortisol and superoxide dismutase levels in growing pigs
Authors: Dang De Xin , Kim In Ho 
Published: March 2021

AbstractThe specialization of swine production and the market demand for pigs at different growth stages makes road transportation inevitable. However, road transportation usually causes a stress response in pigs. It is reported that homeopathic remedies supplementation could alleviate the stress response in pigs. This study investigated the effects of road transportation with or without homeopathic remedy (Convermax) supplementation on growth performance, nutrient digestibility, fecal microbiota, and serum cortisol and superoxide dismutase (SOD) concentrations in growing pigs. A total of 180 crossbred 49-d-old growing pigs [(Yorkshire × Landrace) × Duroc] with an initial body weight of 13.17 ± 0.02 kg were randomly allotted to 2 groups based on the initial body weight, containing 18 replicates with 5 pigs (mixed sex) in each. The pigs were fed dietary supplementation of a homeopathic remedy (Convermax) (0 or 200 mg/kg of feed, as-fed) for 35 d. On day 21, 45 pigs (70-d old; 25.25 ± 0.37 kg) were randomly selected from each group and assigned to either 2 hr of road transportation or no road transportation, resulting in a 2 × 2 factorial design. We found that road transportation led to an increase in the fecal coliform bacteria counts (P = 0.023) and serum cortisol concentration (P = 0.039) and a decrease in the serum SOD concentration (P &lt; 0.001). However, supplementing homeopathic remedy (Convermax) to the diet of growing pigs increased gain to feed ratio (P = 0.042), apparent nitrogen digestibility (P = 0.019), and serum SOD concentration (P = 0.007), whereas decreased serum cortisol concentration (P = 0.022). In brief, road transportation induced stress response for growing pigs and increased harmful bacteria counts in their intestines. Dietary supplementation of homeopathic remedy (Convermax) alleviated stress response, improved apparent nitrogen digestibility, and increased gain to feed ratio. However, no significant interactive effects between road transportation with or without dietary homeopathic remedy (Convermax) levels were observed on the detected parameters in growing pigs.
Structural analysis and reaction mechanism of malate dehydrogenase from Geobacillus stearothermophilus
Authors: Shimozawa Yuya , Himiyama Tomoki , Nakamura Tsutomu , Nishiya Yoshiaki 
Published: March 2021

Abstract
Malate dehydrogenase (MDH) catalyzes the reversible reduction of oxaloacetate (OAA) to L-malate using nicotinamide adenine dinucleotide hydrogen. MDH has two characteristic loops, the mobile loop and the catalytic loop, in the active site. On binding to the substrate, the enzyme undergoes a structural change from the open-form, with an open conformation of the mobile loop, to the closed-form, with the loop in a closed conformation. In this study, three crystals of MDH from a moderate thermophile, Geobacillus stearothermophilus (gs-MDH) were used to determine four different enzyme structures (resolutions, 1.95–2.20 Å), each of which was correspondingly assigned to its four catalytic states. Two OAA-unbound structures exhibited the open-form, while the other two OAA-bound structures exhibited both the open- and closed-form. The structural analysis suggested that the binding of OAA to the open-form gs-MDH promotes conformational change in the mobile loop and simultaneously activates the catalytic loop. The mutations on the key amino acid residues involving the proposed catalytic mechanism significantly affected the gs-MDH activity, supporting our hypothesis. These findings contribute to the elucidation of the detailed molecular mechanism underlying the substrate recognition and structural switching during the MDH catalytic cycle.
Muḥammad Bahjat al-Bīṭār and the Decline of Modernist Salafism in Twentieth-Century Syria
Authors: Weismann Itzchak , Adawi Rokaya 
Published: March 2021

Abstract
The Salafī version of the Islamic Modernist trend emerged in the late nineteenth century among middle-ranked ulema-cum-intellectuals in the major Arab urban centres of the Ottoman Empire. Modernist Salafīs strove to strike a balance between modernization along Western lines and an authenticity based on the model of the pious ancestors (al-salaf al-ṣāliḥ). They differed from other early modernists such as the Young Ottomans and the celebrated Jamāl al-Dīn al-Afghānī and Muḥammad ʿAbduh by drawing their inspiration from the teachings of the medieval theologian Aḥmad Ibn Taymiyya and his early modern successors, the Wahhābīs and the Indian Ahl-i Ḥadīth. The major components of the quasi-liberal and open religious reform they professed were adherence to the Qurʾān and Sunna, denunciation of saint worship, reasoned ijtihād, selective adoption of Western innovations, revival of the Arab-Islamic civilization, and opposition to autocratic rule.
When More is Less: Mosquito Population Suppression Using Sterile, Incompatible and Genetically Modified Male Mosquitoes
Authors: Dobson Stephen L 
Published: March 2021

Abstract
The current review of the Sterile Insect Technique (SIT) is motivated by new technologies and the recent renaissance of male release field trials, which is driving an evolution in mosquito control and regulation. Practitioners that are releasing male mosquitoes would do well to learn from past successes and failures, including political and public engagement complications. With examples that include nuanced integrations of the different technologies, e.g., combinations of Wolbachia and irradiation, it is critical that scientists understand and communicate accurately about the technologies, including their evolving management by different regulatory agencies in the USA. Some male release approaches are considered ‘pesticides’ and regulated by federal and state agencies, while other male release approaches are unregulated. It is important to consider how the new technologies fit with the more ‘traditional’ chemical applications of adulticides and larvicides. The economics of male release programs are substantially different from traditional control costs, which can be a challenge to their adoption by abatement districts. However, there is substantial need to overcome these complications and challenges, because the problem with invasive mosquitoes grows ever worse with factors that include insecticide resistance, globalization and climate change.
Effect of Parental Photoperiod on Body Size and Developmental Time ofAedes aegypti(Diptera: Culicidae) in Buenos Aires City
Authors: Loetti Verónica , De Majo María Sol , Campos Raúl E , Di Battista Cristian M , Fischer Sylvia 
Published: March 2021

AbstractMany insects use photoperiod as a signal to anticipate upcoming unfavorable conditions. Photoperiod sensitivity may be a relevant factor in Aedes (Stegomyia) aegypti (L.) populations at the cool margins of the species’ range, where winter conditions have a strong effect on population dynamics. In this study, we evaluated the effect of parental photoperiod on preimaginal survival and developmental time, and on wing length for the first generation of Ae. aegypti from a temperate region (Buenos Aires City, Argentina). Our experiment started with eggs from parents exposed to short-day (SD; 10:14 [L:D]) or long-day (LD; 14:10 [L:D]) photoperiods during their entire life span. Eggs were stored under the same photoperiod (SD or LD) as their parents for 91 d, until immersion. After hatching, larvae were reared until adult emergence in thermal baths at one of two constant temperatures (17 or 23°C), at a photoperiod of 12:12 (L:D) h and fed ad libitum. Survival from larva I to adult emergence was not affected either by parental photoperiod or rearing temperature. At a rearing temperature of 23°C, female offspring from the SD parental photoperiod developed faster and had shorter wings compared with those from the LD parental photoperiod. No effect of parental photoperiod was observed on female offspring reared at 17°C. In male offspring, parental photoperiod had no effect on developmental time and wing length, independently of the rearing temperature. Results indicate that the parental photoperiod may affect some offspring traits. This effect may be a characteristic of Ae. aegypti populations in temperate regions to deal with the winter conditions.
Diversity of Culturable Bacteria Isolated From the Feces of Wild Anopheles darlingi (Diptera: Culicidae) Mosquitoes From the Brazilian Amazon
Authors: Arruda Andrelisse , Ferreira Gabriel E M , Santos Júnior Antônio , Matos Najla B , Carvalho Tatiane S , Ozaki Luiz S , Stabeli Rodrigo G , Silva Alexandre A E 
Published: March 2021

Abstract
Microorganisms living in the midgut of Anopheles mosquitoes have been studied to fight vector-borne diseases, such as malaria. Studies on the microbiota of the Neotropical Anopheles darlingi, the most important Brazilian vector for malaria, have been reported for the same purpose. Our aims were to isolate and identify culturable bacteria from An. darlingi mosquito guts through their feces and to estimate the species richness and the frequency distribution of the sampled bacteria. Sixty wild females of An. darlingi mosquitoes were captured at two rural locations, near Porto Velho, Rondônia, Brazil. Bacteria were isolated from mosquito feces, which were collected using cages which permit the collection of feces on LB nutrient agar plates. Sixty bacterial colonies were isolated and stored in glycerol at −80°C. Bacteria were identified by sequencing their 16S rRNA gene obtained using PCR and Sanger sequencing. To aid in species identification, MALDI-TOF, VITEK2, and BBL Crystal were used as complementary protocols. The sequences obtained from the 60 bacterial isolates were compared to sequences deposited in GenBank (NCBI) using BLAST. Homology greater than 97% between the query and the subject was used as the criteria for assigning the identity of each isolate. Fourteen species from eight different genera were identified among the 60 isolates. The most frequent species were Serratia liquefaciens (20%) and Serratia marcescens (15%). Due to their established apathogenicity and according to previous studies, we suggest Serratia and Pantoea species as suitable for paratransgenesis development to fight malaria in Brazilian Amazon.
Current Effector and Gene-Drive Developments to Engineer Arbovirus-Resistant Aedes aegypti (Diptera: Culicidae) for a Sustainable Population Replacement Strategy in the Field
Authors: Reid William R , Olson Ken E , Franz Alexander W E 
Published: March 2021

Abstract
Arthropod-borne viruses (arboviruses) such as dengue, Zika, and chikungunya viruses cause morbidity and mortality among human populations living in the tropical regions of the world. Conventional mosquito control efforts based on insecticide treatments and/or the use of bednets and window curtains are currently insufficient to reduce arbovirus prevalence in affected regions. Novel, genetic strategies that are being developed involve the genetic manipulation of mosquitoes for population reduction and population replacement purposes. Population replacement aims at replacing arbovirus-susceptible wild-type mosquitoes in a target region with those that carry a laboratory-engineered antiviral effector to interrupt arboviral transmission in the field. The strategy has been primarily developed for Aedes aegypti (L.), the most important urban arbovirus vector. Antiviral effectors based on long dsRNAs, miRNAs, or ribozymes destroy viral RNA genomes and need to be linked to a robust gene drive to ensure their fixation in the target population. Synthetic gene-drive concepts are based on toxin/antidote, genetic incompatibility, and selfish genetic element principles. The CRISPR/Cas9 gene editing system can be configurated as a homing endonuclease gene (HEG) and HEG-based drives became the preferred choice for mosquitoes. HEGs are highly allele and nucleotide sequence-specific and therefore sensitive to single-nucleotide polymorphisms/resistant allele formation. Current research efforts test new HEG-based gene-drive designs that promise to be less sensitive to resistant allele formation. Safety aspects in conjunction with gene drives are being addressed by developing procedures that would allow a recall or overwriting of gene-drive transgenes once they have been released.
Early-Onset Pancreas Cancer: Clinical Descriptors, Genomics, and Outcomes
Authors: Varghese Anna M , Singh Isha , Singh Rituraj , Kunte Siddharth , Chou Joanne F , Capanu Marinela , Wong Winston , Lowery Maeve A , Stadler Zsofia K , Salo-Mullen Erin , Saadat Lily V , Wei Alice C , Reyngold Marsha , Basturk Olca , Benayed Ryma , Mandelker Diana , Iacobuzio-Donahue Christine A , Kelsen David P , Park Wungki , Yu Kenneth H , O’Reilly Eileen M 
Published: March 2021

Abstract

Background
Recent evidence suggests a rising incidence of cancer in younger individuals. Herein, we report the epidemiologic, pathologic, and molecular characteristics of a patient cohort with early-onset pancreas cancer (EOPC).

Methods
Institutional databases were queried for demographics, treatment history, genomic results, and outcomes. Overall survival from date of diagnosis was estimated using Kaplan-Meier method.

Results
Between 2008 and 2018, 450 patients with EOPC were identified at Memorial Sloan Kettering. Median overall survival was 16.3  (95% confidence interval [CI] = 14.6 to 17.7) months in the entire cohort and 11.3  (95% CI = 10.2 to 12.2) months for patients with stage IV disease at diagnosis. Of the patients, 132 (29.3% of the cohort) underwent somatic testing; 21 of 132 (15.9%) had RAS wild-type cancers with identification of several actionable alterations, including ETV6-NTRK3, TPR-NTRK1, SCLA5-NRG1, and ATP1B1-NRG1 fusions, IDH1 R132C mutation, and mismatch repair deficiency. A total of 138 patients (30.7% of the cohort) underwent germline testing; 44 of 138 (31.9%) had a pathogenic germline variant (PGV), and 27.5% harbored alterations in cancer susceptibility genes. Of patients seen between 2015 and 2018, 30 of 193 (15.5%) had a PGV. Among 138 who underwent germline testing, those with a PGV had a reduced all-cause mortality compared with patients without a PGV controlling for stage and year of diagnosis (hazard ratio = 0.42, 95% CI = 0.26 to 0.69).

Conclusions
PGVs are present in a substantial minority of patients with EOPC. Actionable somatic alterations were identified frequently in EOPC, enriched in the RAS wild-type subgroup. These observations underpin the recent guidelines for universal germline testing and somatic profiling in pancreatic ductal adenocarcinoma.
Lymphangitis-Associated Rickettsiosis by Rickettsia sibirica mongolitimonae
Authors: Echevarría-Zubero Regina , Porras-López Elena , Campelo-Gutiérrez Carolina , Rivas-Crespo Juan Carlos , Lucas Arantxa Muñiz-De , Cobo-Vázquez Elvira 
Published: March 2021

Abstract
Rickettsia sibirica mongolitimonae is considered a rare pathogen that can cause different clinical presentations. Approximately, one-third of the patients with this infection experience lymphangitis from the inoculation eschar to the draining lymph nodes, and, in that case, the infection is named “lymphangitis-associated rickettsiosis” (LAR). There are several reports of infections by this Rickettsia but none of LAR in children. We report a case of LAR in a Spanish child, which confirms the distribution of this agent in our country, and his implication in pediatric population.
Performance Evaluation of the Siemens SARS-CoV-2 Total Antibody and IgG Antibody Test
Authors: Florin Lisa , Maelegheer Karel , Vandewal Wouter , Bernard Dirk , Robbrecht Johan 
Published: March 2021

Abstract

Objective
In this study, the performance of 2 commercially available SARS-CoV-2 antibody assays is evaluated.

Methods
The Siemens SARS-CoV-2 Total (COV2T) and IgG (COV2G) antibody tests were evaluated on a Siemens Atellica IM1300 analyzer. Imprecision was assessed with the CLSI EP15 protocol using positive controls. Ninety control group specimens were analyzed for specificity, and 175 specimens from 58 patients with polymerase chain reaction–confirmed SARS-CoV-2 were measured for the sensitivity and kinetics of the antibody response.

Results
Within-run and total imprecision were acceptable for both assays. Both tests showed a specificity of 100%. Sensitivity earlier in the disease state was greater for the COV2T assay than for the COV2G assay, but sensitivity &gt;14 days after onset of symptoms approached 100% for both. For all patients, antibody titers remained above the seroconversion cutoff for all follow-up specimens.

Conclusion
This study shows acceptable performance for both the Siemens COV2T and COV2G test, although seroconversion occurs earlier with the COV2T test.
Transient-optimized real-bogus classification with Bayesian convolutional neural networks – sifting the GOTO candidate stream
Authors: Killestein T L , Lyman J , Steeghs D , Ackley K , Dyer M J , Ulaczyk K , Cutter R , Mong Y-L , Galloway D K , Dhillon V , O’Brien P , Ramsay G , Poshyachinda S , Kotak R , Breton R P , Nuttall L K , Pallé E , Pollacco D , Thrane E , Aukkaravittayapun S , Awiphan S , Burhanudin U , Chote P , Chrimes A , Daw E , Duffy C , Eyles-Ferris R , Gompertz B , Heikkilä T , Irawati P , Kennedy M R , Levan A , Littlefair S , Makrygianni L , Mata Sánchez D , Mattila S , Maund J , McCormac J , Mkrtichian D , Mullaney J , Rol E , Sawangwit U , Stanway E , Starling R , Strøm P A , Tooke S , Wiersema K , Williams S C 
Published: March 2021

ABSTRACT
Large-scale sky surveys have played a transformative role in our understanding of astrophysical transients, only made possible by increasingly powerful machine learning-based filtering to accurately sift through the vast quantities of incoming data generated. In this paper, we present a new real-bogus classifier based on a Bayesian convolutional neural network that provides nuanced, uncertainty-aware classification of transient candidates in difference imaging, and demonstrate its application to the datastream from the GOTO wide-field optical survey. Not only are candidates assigned a well-calibrated probability of being real, but also an associated confidence that can be used to prioritize human vetting efforts and inform future model optimization via active learning. To fully realize the potential of this architecture, we present a fully automated training set generation method which requires no human labelling, incorporating a novel data-driven augmentation method to significantly improve the recovery of faint and nuclear transient sources. We achieve competitive classification accuracy (FPR and FNR both below 1 per cent) compared against classifiers trained with fully human-labelled data sets, while being significantly quicker and less labour-intensive to build. This data-driven approach is uniquely scalable to the upcoming challenges and data needs of next-generation transient surveys. We make our data generation and model training codes available to the community.
Directed Evolution of an Enhanced POU Reprogramming Factor for Cell Fate Engineering
Authors: Tan Daisylyn Senna , Chen Yanpu , Gao Ya , Bednarz Anastasia , Wei Yuanjie , Malik Vikas , Ho Derek Hoi-Hang , Weng Mingxi , Ho Sik Yin , Srivastava Yogesh , Velychko Sergiy , Yang Xiaoxiao , Fan Ligang , Kim Johnny , Graumann Johannes , Stormo Gary D. , Braun Thomas , Yan Jian , Schöler Hans R. , Jauch Ralf 
Published: March 2021

Abstract
Transcription factor-driven cell fate engineering in pluripotency induction, transdifferentiation, and forward reprogramming requires efficiency, speed, and maturity for widespread adoption and clinical translation. Here, we used Oct4, Sox2, Klf4, and c-Myc driven pluripotency reprogramming to evaluate methods for enhancing and tailoring cell fate transitions, through directed evolution with iterative screening of pooled mutant libraries and phenotypic selection. We identified an artificially evolved and enhanced POU factor (ePOU) that substantially outperforms wild-type Oct4 in terms of reprogramming speed and efficiency. In contrast to Oct4, not only can ePOU induce pluripotency with Sox2 alone, but it can also do so in the absence of Sox2 in a three-factor ePOU/Klf4/c-Myc cocktail. Biochemical assays combined with genome-wide analyses showed that ePOU possesses a new preference to dimerize on palindromic DNA elements. Yet, the moderate capacity of Oct4 to function as a pioneer factor, its preference to bind octamer DNA and its capability to dimerize with Sox2 and Sox17 proteins remain unchanged in ePOU. Compared with Oct4, ePOU is thermodynamically stabilized and persists longer in reprogramming cells. In consequence, ePOU: 1) differentially activates several genes hitherto not implicated in reprogramming, 2) reveals an unappreciated role of thyrotropin-releasing hormone signaling, and 3) binds a distinct class of retrotransposons. Collectively, these features enable ePOU to accelerate the establishment of the pluripotency network. This demonstrates that the phenotypic selection of novel factor variants from mammalian cells with desired properties is key to advancing cell fate conversions with artificially evolved biomolecules.
Persistence of antibody response to SARS-CoV-2 in a cohort of haemodialysis patients with COVID-19
Authors: Forbes Suzanne , Davari Maria , Gnanasampanthan Sahana , Roth Noam , Young Gregor , Rajakariar Ravindra , Cove-Smith Andrea , Yaqoob Muhammed Magdi , Cutino-Moguel Teresa , Mahalingasivam Viyaasan , McCafferty Kieran 
Published: March 2021

Abstract

Background
Haemodialysis (HD) patients are extremely vulnerable to coronavirus disease 2019 (COVID-19). Their immune response after infection is unclear. We have found high seroconversion rates in this population, with 95% developing antibodies. It is unclear if and how long these antibodies persist. Here we investigate this with serial antibody (Ab) testing.

Methods
We identified HD patients who had confirmedsevere acute respiratory syndrome coronavirus 2 between March and May 2020 and measured monthly antibodies (immunoglobulin G/immunoglobulin M) in those who survived. We used a semiquantitative cut-off index to create a qualitative result and plotted optical density (OD) over time. We used linear regression to examine the slope, as well as noting peak OD and time to peak OD. We correlated these against baseline demographics, markers of illness severity and comorbidities.

Results
A total of 122 patients were analysed. All remained Ab positive during follow-up for a minimum of 148 days. Seventy-one percent had a positive gradient indicating increasing Ab positivity over time. We found that age (P = 0.01), duration of polymerase chain reaction positivity (P = 0.06) and the presence of symptoms (P = 0.05) were associated with a longer time to peak OD. Immunosuppression did not alter peak OD but did lead to a non-significant increase in time to peak OD, and more patients had a subsequent decrease in Ab levels (P = 0.02). Diabetic patients were more likely to have a positive slope (odds ratio 2.26).

Conclusions
These results indicate that HD patients have a robust and sustained Ab response after confirmed COVID-19 infection with no suggestion that immunosuppression weakens this response. Although it is unclear what protection these antibodies confer, this is encouraging that HD patients should respond to vaccination.