bluuebunny/crossref_metadata_2025 huggingface dataset:
An improved approximation algorithm for the reversal and transposition distance considering gene order and intergenic sizes
Authors: Brito Klairton L. , Oliveira Andre R. , Alexandrino Alexsandro O. , Dias Ulisses , Dias Zanoni
Published: December 2021

Background

In the comparative genomics field, one of the goals is to estimate a sequence of genetic changes capable of transforming a genome into another. Genome rearrangement events are mutations that can alter the genetic content or the arrangement of elements from the genome. Reversal and transposition are two of the most studied genome rearrangement events. A reversal inverts a segment of a genome while a transposition swaps two consecutive segments. Initial studies in the area considered only the order of the genes. Recent works have incorporated other genetic information in the model. In particular, the information regarding the size of intergenic regions, which are structures between each pair of genes and in the extremities of a linear genome.

Results and conclusions

In this work, we investigate the sorting by intergenic reversals and transpositions problem on genomes sharing the same set of genes, considering the cases where the orientation of genes is known and unknown. Besides, we explored a variant of the problem, which generalizes the transposition event. As a result, we present an approximation algorithm that guarantees an approximation factor of 4 for both cases considering the reversal and transposition (classic definition) events, an improvement from the 4.5-approximation previously known for the scenario where the orientation of the genes is unknown. We also present a 3-approximation algorithm by incorporating the generalized transposition event, and we propose a greedy strategy to improve the performance of the algorithms. We performed practical tests adopting simulated data which indicated that the algorithms, in both cases, tend to perform better when compared with the best-known algorithms for the problem. Lastly, we conducted experiments using real genomes to demonstrate the applicability of the algorithms.
Antitoxin EndoAI can induce disease resistance in tobacco as a protein elicitor
Authors: Yan Bo Wei , Liu Wen Zhi , Yu Wen Qing , Li Peng , Zhao Chang Jiang , Yan Feng Chao , Wang Gui Jiang , Zhang Li Guo , Xie Hong Ping , Qiu Zu Ming
Published: December 2021

Background

The antitoxin EndoAI is a TA system component that directly inhibits EndoA activity in vitro. The targeted activation of a TA system represents a potentially novel antimicrobial or antiviral strategy. However, whether the antitoxin functions alone and can induce plant disease resistance remain unknown.

Results

An endoAI was previously identified in the genome of Paenibacillus terrae NK3-4. It underwent a bioinformatics analysis, cloned and expressed in Escherichia coli. Then the functions of EndoAI inducing plant resistance to diseases as an elicitor were evaluated. The results showed that, EndoAI is a stable, alkaline, and hydrophilic protein, with a J-shaped three-dimensional structure in the absence of a ligand. It was clustered on the same branch with an antitoxin from Paenibacillus polymyxa SC2. Ectopically expressed EndoAI triggered a reactive oxygen species burst and a positive hypersensitive response (HR) in tobacco leaves. Moreover, 2 μmol EndoAI induced HR activity in tomato leaf, and it remained active after a 15-min exposure at 4–50 °C, and pH 6–8. Additionally, EndoAI induced plant systemic resistance against Alternaria alternata and tobacco mosaic virus, and the up-regulated transcription of PR genes, including PR1a, PR1b, PR5, PDF1.2, COL1, NPR1, and PAL.

Conclusions

These results imply that EndoAI may enhance the disease resistance of tobacco by promoting a series of early defense responses and up-regulating PR gene expression. These findings are relevant for future investigations on the mechanism underlying the EndoAI–plant interaction that leads to enhanced disease resistance. Furthermore, the endoAI may be useful for developing effective biocontrol agents to protect plants from diseases.

Graphical Abstract
Estimating proportion of days covered (PDC) using real-world online medicine suppliers’ datasets
Authors: Prieto-Merino David , Mulick Amy , Armstrong Craig , Hoult Helen , Fawcett Scott , Eliasson Lina , Clifford Sarah
Published: December 2021

Background

The proportion of days covered (PDC) is used to estimate medication adherence by looking at the proportion of days in which a person has access to the medication, over a given period of interest. This study aimed to adapt the PDC algorithm to allow for plausible assumptions about prescription refill behaviour when applied to data from online pharmacy suppliers.

Methods

Three PDC algorithms, the conventional approach (PDC1) and two alternative approaches (PDC2 and PDC3), were used to estimate adherence in a real-world dataset from an online pharmacy. Each algorithm has different denominators and increasing levels of complexity. PDC1, the conventional approach, is the total number of days between first dispensation and a defined end date. PDC2 counts the days until the end of supply date. PDC3 removes from the denominator specifically defined large gaps between refills, which could indicate legitimate reasons for treatment discontinuation. The distribution of the three PDCs across four different follow-up lengths was compared.

Results

The dataset included people taking ACE inhibitors (n = 65,905), statins (n = 100,362), and/or thyroid hormones (n = 30,637). The proportion of people taking ACE inhibitors with PDC ≥ 0.8 was 50–74% for PDC1, 81–91% for PDC2, and 86–100% for PDC3 with values depending on drug and length of follow-up. Similar ranges were identified in people taking statins and thyroid hormones.

Conclusion

These algorithms enable researchers and healthcare providers to assess pharmacy services and individual levels of adherence in real-world databases, particularly in settings where people may switch between different suppliers of medicines, meaning an individual supplier’s data may show temporary but legitimate gaps in access to medication. Accurately identifying problems with adherence provides the foundation for opportunities to improve experience, adherence and outcomes and to reduce medicines wastage. Research with people taking medications and prescribers is required to validate the algorithms’ assumptions.
Global impact of vaccine nationalism during COVID-19 pandemic
Authors: Riaz Mehr Muhammad Adeel , Ahmad Unaiza , Mohan Anmol , dos Santos Costa Ana Carla , Khan Hiba , Babar Maryam Salma , Hasan Mohammad Mehedi , Essar Mohammad Yasir , Zil-E-Ali Ahsan
Published: December 2021

Vaccines are the best chance to control the pandemic—unless leaders succumb to vaccine nationalism. Vaccine nationalism is a frequent recurrence, especially during a brand-new market distribution. The development of safe and effective COVID-19 vaccines in such a short space of time is a testament to modern scientific abilities. It will also test the world's political will and moral commitment to end this pandemic. As desperate as the COVID-19 pandemic, vaccine nationalism is already setting a foundation for itself and is considered socially and economically counterproductive. Vaccine equity is not just a theoretical slogan, and it protects people worldwide from new vaccine-resistant variants. Understanding and anticipating the consequences is vital, and creating a global solution approach to avoid them. This article evaluates the common issues previously faced and the plausible ones during this pandemic. A few recommendations are made to warn and accentuate the reality of this dire matter.
Post-synaptic scaffold protein TANC2 in psychiatric and somatic disease risk
Authors: Garrett Lillian , Da Silva-Buttkus Patricia , Rathkolb Birgit , Gerlini Raffaele , Becker Lore , Sanz-Moreno Adrian , Seisenberger Claudia , Zimprich Annemarie , Aguilar-Pimentel Antonio , Amarie Oana V. , Cho Yi-Li , Kraiger Markus , Spielmann Nadine , Calzada-Wack Julia , Marschall Susan , Busch Dirk , Schmitt-Weber Carsten , Wolf Eckhard , Wurst Wolfgang , Fuchs Helmut , Gailus-Durner Valerie , Hölter Sabine M. , Hrabě de Angelis Martin
Published: December 2021

Understanding the shared genetic aetiology of psychiatric and medical comorbidity in neurodevelopmental disorders (NDDs) could improve patient diagnosis, stratification and treatment options. Rare tetratricopeptide repeat, ankyrin repeat and coiled-coil containing 2 (TANC2)-disrupting variants were disease causing in NDD patients. The post-synaptic scaffold protein TANC2 is essential for dendrite formation in synaptic plasticity and plays an unclarified but critical role in development. We here report a novel homozygous-viable Tanc2-disrupted function model in which mutant mice were hyperactive and had impaired sensorimotor gating consistent with NDD patient psychiatric endophenotypes. Yet, a multi-systemic analysis revealed the pleiotropic effects of Tanc2 outside the brain, such as growth failure and hepatocellular damage. This was associated with aberrant liver function including altered hepatocellular metabolism. Integrative analysis indicates that these disrupted Tanc2 systemic effects relate to interaction with Hippo developmental signalling pathway proteins and will increase the risk for comorbid somatic disease. This highlights how NDD gene pleiotropy can augment medical comorbidity susceptibility, underscoring the benefit of holistic NDD patient diagnosis and treatment for which large-scale preclinical functional genomics can provide complementary pleiotropic gene function information.
Step Monitor Accuracy during Poststroke Physical Therapy and Simulated Activities
Authors: Henderson Christopher E. , Toth Lindsay , Kaplan Andrew , Hornby Thomas George
Published: December 2021

Introduction/Purpose

The amount of stepping activity during rehabilitation after stroke can predict walking outcomes, although the most accurate methods to evaluate stepping activity are uncertain with conflicting findings on available stepping monitors during walking assessments. Rehabilitation sessions also include nonstepping activities, and the ability of activity monitors to differentiate these activities from stepping is unclear. The objective of this study was to examine the accuracy of different activity monitors worn by individuals after stroke with variable walking speeds during clinical physical therapy (PT) and research interventions focused on walking.

Methods

In part I, 28 participants after stroke wore a StepWatch, ActiGraph with and without a low-frequency extension (LFE) filter, and Fitbit on paretic and nonparetic distal shanks at or above the ankle during clinical PT or research interventions with steps simultaneously hand counted. Mean absolute percent errors were compared between limbs and tasks performed. In part II, 12 healthy adults completed eight walking and nine nonwalking tasks observed during clinical PT or research. Data were descriptively analyzed and used to assist interpretation of part I results.

Results

Part I results indicate most devices did not demonstrate an optimal limb configuration during research sessions focused on walking, with larger errors during clinical PT on the nonparetic limb. Using the limb that minimized errors for each device, the StepWatch had smaller errors than the ActiGraph and Fitbit (P < 0.01), particularly in those who walked <0.8 m·s−1. Conversely, errors from the ActiGraph-LFE demonstrated inconsistent differences in step counts between Fitbit and ActiGraph. Part II results indicate that errors observed during different stepping and nonstepping activities were often device-specific, with nonstepping tasks frequently detected as stepping.

Conclusions

The StepWatch and ActiGraph-LFE had smaller errors than the Fitbit or ActiGraph, with greater errors in those walking at slower speeds. Inclusion of nonstepping activities affected step counts and should be considered when measuring stepping activity in individuals after stroke to predict locomotor outcomes after rehabilitation.
Exercise and PTSD Symptoms in Emergency Service and Frontline Medical Workers: A Systematic Review
Authors: McKeon Grace , Steel Zachary , Wells Ruth , Fitzpatrick Alice , Vancampfort Davy , Rosenbaum Simon
Published: December 2021

Context: Emergency service and medical frontline workers are exposed to significant occupational stressors that may confer an increased risk of poor mental health, including posttraumatic stress disorder (PTSD). Emerging evidence suggests that physical activity and its structured subset, exercise, may be effective in improving symptoms of PTSD in veterans; however, the potential efficacy for other populations at high risk of occupational trauma exposure is currently unclear. Given the potential of physical activity interventions to improve both PTSD symptoms and physical comorbidities, there has been increasing interest in the potential role in the treatment of PTSD. Objective: The purpose of this review was to investigate the associations between physical activity levels and PTSD symptoms in emergency service and frontline medical workers. Design: A systematic review was conducted by searching major electronic databases for relevant studies published from database inception until February 2021. Eligibility Criteria: Studies among traditional emergency service occupations, e.g., police officers, firefighters, paramedics, and medical frontline workers, including doctors and nurses, were included. Study Selection: Experimental and observational studies with or without control groups were eligible for inclusion. Main Outcome Measure: The primary outcome measure was symptoms of PTSD. Results: The search identified eight eligible studies (four experimental and four observational). Three of the experimental studies showed that exercise significantly reduced symptoms of PTSD in emergency service personnel, including police and nurses. Based on the results of results of three studies, physical activity may be inversely associated with PTSD symptom severity among nurses and firefighters. Conclusions: Existing research suggests that physical activity may improve symptoms of PTSD in emergency service personnel and frontline workers. Considering physical activity promotion initiatives for occupations at high risk of trauma exposure may therefore be warranted to promote mental health. The existing research has several methodological limitations, and findings should therefore be interpreted with caution until further robust studies are available.
Finally a Smoking Gun? Compensating Differentials and the Introduction of Smoking Bans
Authors: Wissmann Daniel
Published: December 2021

Using the staggered introduction of smoking bans in the German hospitality industry over 2007–2008, I find a robust 2.4 percent decline in the daily earnings of workers in bars and restaurants associated with the most comprehensive smoking ban. This effect is unlikely to be driven by a decline in hospitality revenues or hours worked but is consistent with a simple model of compensating differentials. (JEL I12, I18, J22, J31, J81, L83)
Can Information Reduce Ethnic Discrimination? Evidence from Airbnb
Authors: Laouénan Morgane , Rathelot Roland
Published: December 2021

We use data from Airbnb to identify the mechanisms underlying discrimination against ethnic minority hosts. Within the same neighborhood, hosts from minority groups charge 3.2 percent less for comparable listings. Since ratings provide guests with increasingly rich information about a listing’s quality, we can measure the contribution of statistical discrimination, building upon Altonji and Pierret (2001). We find that statistical discrimination can account for the whole ethnic price gap: ethnic gaps would disappear if all unobservables were revealed. Also, three-quarters (2.5 points) of the initial ethnic gap can be attributed to inaccurate beliefs of potential guests about hosts’ average group quality. (JEL D83, J15, L84)
How Effective Are Monetary Incentives to Vote? Evidence from a Nationwide Policy
Authors: Gonzales Mariella , León-Ciliotta Gianmarco , Martínez Luis R.
Published: December 2021

We study voters’ response to marginal changes to the fine for electoral abstention in Peru, leveraging variation from a nationwide reform. A smaller fine has a robust, negative effect on voter turnout, partly through irregular changes in voter registration. However, representation is largely unaffected, as most of the lost votes are blank or invalid. We also show that the effect of an exemption from compulsory voting is substantially larger than that of a full fine reduction, suggesting that nonmonetary incentives are the main drivers behind the effectiveness of compulsory voting. (JEL D72, K16, O17)
Proposal of the Measurement Conditions for Hanji–Determination Folding Endurance
Authors: Kim Myoung Nam , Kim Ji Won , Son Ha Nuel , Jeong Sun Wha
Published: December 2021

This study aims to optimize the measurement conditions of handmade Hanji paper to reduce the time required for measurement while meeting folding endurance standards, for various basis weights. Thirteen types were selected, including 12 types of Hanji with grammages of 17 g/m2, 30 g/m2, and 45 g/m2, and one type of 75 g/m2 copy paper, and 24 sheets were prepared in the laid and chain directions. Subsequently, folding endurance experiments at different load (14.72 N, 9.81 N, 4.91 N) and specimen width conditions (15 mm, 10 mm, 5 mm) were performed, using a 4-MIT folding endurance tester. The results showed that, for specimen widths of 15 mm and 10 mm under a load of 4.91 N, the folding endurance falls within the reference range (10∼10000 times). In particular, reduced folding endurance range and measurement time were observed at a width of 10 mm under a load of 4.91 N. Moreover, the endurance trend lines based on the average values of load and specimen width ranges enabled the prediction of the folding endurance within those ranges, according to the decreasing slope. Furthermore, for a specimen width of 15 mm under a load of 4.91 N, the folding endurance in the comparison group (35 to 17723 times) significantly exceeds the upper limit of the reference range (10∼10000 times). Therefore, the measurement conditions of 4.91 N with a specimen width of 10 mm are proposed.
A Study on the Metallurgical Characteristic of Hammer Scale Produced through Traditional Iron-making Experiments
Authors: Cho Sung Mo , Cho Nam Chul
Published: December 2021

This study attempted to investigate the metallurgical characteristic through material scientific analysis of hammer scale produced as a direct smelting method restoration experiment for each raw material of iron. To this end, four hammer scale groups were set up, respectively, by experimenting with Gyeongju-Gampo Iron sand and Yangyang Iron ore. For the analysis, principal component analysis, compound analysis, microstructure observation, and chemical composition were confirmed. As a result of principal component analysis, as forging and refining progressed, the content of Fe increased and the content of non-metallic objects decreased. As a result of compound analysis, iron oxide-based compounds were identified. As a result of confirming microstructure and chemical composition, Wüstite and Fayalite were observed overall, and agglomerated Wüstite were observed in some. Magnetite on shape of polygon and pillar was observed. In addition, it was confirmed that internal defects, impurities, and non-metallic interventions gradually decreased. In the future, it is necessary to investigate the metallurgical characteristic through material scientific analysis of hammer scale produced through restoration experiments using various raw material of iron, and compare them with those excavated from Iron manufacture ruins.
Rāṅgey Rāghav’s Literary Biographies, Loī kā tānā and Ratnā kī bāt, in the 1950s and the Debates on the Status of Indian Women and Dalits
Authors: Mangraviti Fabio
Published: December 2021

The article proposes to investigate the political and ideological uses of Hindi literary biography, with focus on two texts by Rāṅgey Rāghav, Loī kā tānā (“Loi’s Warp’’) and Ratnā kī bāt (“Ratna’s Speech”), based on lives of Kabir and Tulsīdās respectively. The relevance of Rāghav’s biographies goes beyond the merely literary and derives from the ideological and political functions played by these texts in the period they were written. Viewed by Rāghav as complementary works with a didactic and ideological value, they move away from the ‘brahmanical’ interpretations of the early modern Hindi poets by scholars of the 1920s and 1930s. To understand Rāghav’s motives and strategies, one needs to examine the ideological and political context in which he recast values linked to the main figures of the early modern devotional (bhakti) literature. As the 1950s witnessed debates on the status of Indian women and Dalit communities, the same becoming crucial to Hindi literary sphere, special attention needs to be paid to the representation, in Rāghav’s biographies, of Loī and Ratnā—Kabīr’s and Tulsīdās’ wives respectively—who embody some of the politically and ideologically progressive slogans which Rāghav projected on to these poets. The present work, based on recent studies on literary biography (Benton 2005, 2011, Middlebrook 2006, Miller 2001), is also an attempt to investigate some of the intellectual and ideological aporias which seem to have affected Hindi literary progressivism since the first decades of the postcolonial period.
Patronage over Literature, Translation and Print: Some Remarks on 1809 Edition of the Dabestān-e mazāheb Published in Print with the Support of the East India Company
Authors: Podlasiński Oskar
Published: December 2021

Dabestān-e mazāheb is an interesting example of a 17th century text on various faiths and creeds of the Indian subcontinent. The present case study looks at possible explanations for its popularity claimed for it in the editorial note found in the first printed edition (1809) while simultaneously analysing reasons behind selection of this particular text for a print publication in the light of patronage extended by the East India Company to translation and printing of selected Indian writings. The process in this case is well documented in the correspondence of British officials such as Sir William Jones, but as to the reasons for the printing even more may be deduced from the highly ornate Persian peritext appended at the end of the 1809 edition by the book’s editor, Nazar Ashraf. The note provides an interesting testimony to the evolving fusion of the long tradition of manuscript writing and the advancements in printing which the paper explores.
What Can Explain Momentum? Evidence from Decomposition
Authors: Guo Jiaqi , Li Peng , Li Youwei
Published: December 2021

This study comprehensively evaluates and ranks a large number of competing explanations for the momentum anomaly. As a benchmark for evaluation, firm fundamentals are found to be the most promising among well-known explanations of momentum, followed by prospect theory and mental accounting, and anchoring effect. Collectively, all explanations capture 31% of momentum, whereas 69% of momentum remains unexplained. This study thoroughly examines what fractions of the momentum anomaly emerge from the interaction effects between past returns and various firm characteristics. It is further found that strategies based on firm characteristics and residual momentum can significantly alleviate the severity of momentum crashes. Finally, robustness analysis is provided for choosing different formation and holding periods, excluding January observations, and analyze at the level of portfolio rather than individual stock.

This paper was accepted by David Simchi-Levi, finance.
Convexification of Permutation-Invariant Sets and an Application to Sparse Principal Component Analysis
Authors: Kim Jinhak , Tawarmalani Mohit , Richard Jean-Philippe P.
Published: December 2021

We develop techniques to convexify a set that is invariant under permutation and/or change of sign of variables and discuss applications of these results. First, we convexify the intersection of the unit ball of a permutation and sign-invariant norm with a cardinality constraint. This gives a nonlinear formulation for the feasible set of sparse principal component analysis (PCA) and an alternative proof of the K-support norm. Second, we characterize the convex hull of sets of matrices defined by constraining their singular values. As a consequence, we generalize an earlier result that characterizes the convex hull of rank-constrained matrices whose spectral norm is below a given threshold. Third, we derive convex and concave envelopes of various permutation-invariant nonlinear functions and their level sets over hypercubes, with congruent bounds on all variables. Finally, we develop new relaxations for the exterior product of sparse vectors. Using these relaxations for sparse PCA, we show that our relaxation closes 98% of the gap left by a classical semidefinite programming relaxation for instances where the covariance matrices are of dimension up to 50 × 50.
Impacts of Metering-Based Dynamic Priority Schemes
Authors: Lamotte Raphaël , de Palma André , Geroliminis Nikolas
Published: December 2021

Several works published over the last two decades have shown for a stylized set-up with homogeneous users that metering-based priority (MBP) schemes may generate Pareto improving departure time adjustments similar to those induced by congestion pricing, but without any financial transaction. We investigate whether MBP (i) still generates significant savings and (ii) remains Pareto-improving, with various sources of heterogeneity (in schedule flexibility, desired arrival time, and capacity usage). We consider two types of schemes: one where the priority status is allocated randomly (R-MBP) and another (HOV-MBP), which only prioritizes users with small capacity usage (e.g., carpoolers). We find that the relative total cost savings of R-MBP decrease with heterogeneity in flexibility, but may increase with heterogeneity in desired arrival time. It fails however to be Pareto-improving, as nonprioritized users are almost systematically worse-off. HOV-MBP circumvents this issue by generating an ordering effect and a modal shift, which both contribute to a better distribution of benefits among users. Under favorable circumstances, they may even restore a Pareto improvement. Overall, MBP appears as a realistic way to alleviate congestion, scoring well both in terms of efficiency and social acceptability.
Distributed strain and temperature fast measurement in Brillouin optical time-domain reflectometry based on double-sideband modulation
Authors: Peng Jianqin , Lu Yuangang , Zhang Yuyang , Zhang Zelin
Published: December 2021

A novel distributed strain and temperature fast measurement method in Brillouin optical time-domain reflectometry (BOTDR) system based on double-sideband (DSB) modulation is proposed. The single-wavelength probe light is modulated into dual-wavelength probe light with a fixed phase difference by using carrier suppressed DSB modulation. The interaction between the Brillouin scattering signals corresponding to dual-wavelength probe light forms a Brillouin beat spectrum (BBS). The distributed temperature and strain are obtained by only measuring the peak power trace of the BBS and one of the slope power trace of the two Brillouin gain spectrum (BGS) corresponding to dual-wavelength probe light. The proposed method does not require scanning the Brillouin spectrum and does not require using optical fibers with multiple Brillouin scattering peaks as sensing fibers, and thus features fast measurement speed and wide variety of sensing fiber types. In a proof-of-concept experiment, the temperature uncertainty of 1.3 °C and the strain uncertainty of 36.3 με are respectively achieved over a 4.5-km G.657 fiber with 3 m spatial resolution and 30 s measurement time. The experimental measurement uncertainties of temperature and strain of the proposed method are almost equivalent to that of the method by using BGS scanning and special fibers.
Photonic waveguide bundles using 3D laser writing and deep neural network image reconstruction
Authors: Panusa Giulia , Dinc Niyazi Ulas , Psaltis Demetri
Published: December 2021

In recent years, three-dimensional (3D) printing with multi-photon laser writing has become an essential tool for the manufacturing of three-dimensional optical elements. Single-mode optical waveguides are one of the fundamental photonic components, and are the building block for compact multicore fiber bundles, where thousands of single-mode elements are closely packed, acting as individual pixels and delivering the local information to a sensor. In this work, we present the fabrication of polymer rectangular step-index (STIN) optical waveguide bundles in the IP-Dip photoresist, using a commercial 3D printer. Moreover, we reduce the core-to-core spacing of the imaging bundles by means of a deep neural network (DNN) which has been trained with a large synthetic dataset, demonstrating that the scrambling of information due to diffraction and cross-talk between fiber cores can be undone. The DNN-based approach can be adopted in applications such as on-chip platforms and microfluidic systems where accurate imaging from in-situ printed fiber bundles suffer cross-talk. In this respect, we provide a design and fabrication guideline for such scenarios by employing the DNN not only as a post-processing technique but also as a design optimization tool.
Cadmium telluride waveguide for coherent MIR supercontinuum generation covering 3.5-20 µm
Authors: Long Zhe , Yang Hang , Li Yang , Wu Han , Liang Houkun
Published: December 2021

The mid-infrared (MIR) wavelength coincides with various molecular resonances. In particular, a 13–20 µm wavelength window has fingerprints of unique groups such as organometallic, halogenated, and aromatic bonds. In this work, for the first time, to the best of our knowledge, an on-chip supercontinuum generation (SCG) source based on cadmium telluride (CdTe)/ cadmium sulfide (CdS)/ silicon heterostructure is proposed to extend the on-chip SCG beyond 13 µm (spanning 3.5 to 20 µm). CdTe has an ultra-broad transparent spectral range up to 25 µm, and almost the largest third-order nonlinear coefficient (n2∼ 5×10
−
17 m2/W at 1.55 µm, 1.3×10−17 m2/W at 9 µm, several times larger than that of silicon) among the MIR materials, making CdTe an excellent candidate for long-wavelength MIR on-chip SCG. The waveguide structure is designed with CdS as the intermediate cladding layer to achieve a low waveguide loss and high mode confinement. A large-core CdTe waveguide is tailored to generate a low and flat dispersion (< 30 ps/nm/km) in a spectral range spanning from 5 to 20 µm, while balancing the large effective nonlinearity and the convenience of coupling. The simulation results solved by the nonlinear Schrödinger equation manifest that the engineered large cross-section waveguide with only 2.5-mm propagation distance broadens the MIR spectrum covering 3.5 to 20 µm pumped by a 9 µm femtosecond laser. Moreover, it is found that good coherence is achieved from the designed MIR waveguide, before severe soliton fission breaks the temporal profile. 5-fold self-compression of the pump pulse down to 1.6 optical cycles is observed while propagating inside the CdTe waveguide. The detailed simulation of the CdTe/CdS/Si waveguide design with the various waveguide parameters, polarizations, pump wavelengths, and pump power are provided. With the SC spectrum covering almost the entire fingerprint regime and the excellent coherence generated from the designed CdTe waveguide, it provides abundant new opportunities for MIR microphotonics.
Ku80 is involved in telomere maintenance but dispensable for genomic stability in Leishmania mexicana
Authors: Poláková Ester , Albanaz Amanda T. S. , Zakharova Alexandra , Novozhilova Tatiana S. , Gerasimov Evgeny S. , Yurchenko Vyacheslav
Published: December 2021

Background

Telomeres are indispensable for genome stability maintenance. They are maintained by the telomere-associated protein complex, which include Ku proteins and a telomerase among others. Here, we investigated a role of Ku80 in Leishmania mexicana. Leishmania is a genus of parasitic protists of the family Trypanosomatidae causing a vector-born disease called leishmaniasis.

Methodology/Principal findings

We used the previously established CRISPR/Cas9 system to mediate ablation of Ku80- and Ku70-encoding genes in L. mexicana. Complete knock-outs of both genes were confirmed by Southern blotting, whole-genome Illumina sequencing, and RT-qPCR. Resulting telomeric phenotypes were subsequently investigated using Southern blotting detection of terminal restriction fragments. The genome integrity in the Ku80- deficient cells was further investigated by whole-genome sequencing.

Our work revealed that telomeres in the ΔKu80 L. mexicana are elongated compared to those of the wild type. This is a surprising finding considering that in another model trypanosomatid, Trypanosoma brucei, they are shortened upon ablation of the same gene. A telomere elongation phenotype has been documented in other species and associated with a presence of telomerase-independent alternative telomere lengthening pathway. Our results also showed that Ku80 appears to be not involved in genome stability maintenance in L. mexicana.

Conclusion/Significance

Ablation of the Ku proteins in L. mexicana triggers telomere elongation, but does not have an adverse impact on genome integrity.
Association between personality traits and food stockpiling for disaster
Authors: Harada Moeka , Tsuboyama-Kasaoka Nobuyo , Oka Jun , Kobayashi Rie
Published: December 2021

This study investigated the association between personality traits and food stockpiling for disasters in predicted high-risk areas of food shortages due to the Nankai Trough Earthquake. This survey was conducted between December 18 and 20, 2019, using a web-based questionnaire. The participants were 1,200 individuals registered with an online survey company. This study analyzed the association between the Big Five personality traits and food stockpiling status (n = 1192). The Big Five personality traits assess five basic dimensions of personality (i.e., extraversion, conscientiousness, agreeableness, neuroticism, and openness). To measure theses personality traits, we used the Japanese version of the Ten-Item Personality Inventory (TIPI-J). The Mann-Whitney test and a multivariable logistic regression analysis revealed that none of the Big Five personality traits were significantly associated with having or not having stockpile food. However, interestingly, considering the stages of behavior change regarding stockpiling, high extraversion was significantly positively related to initiating stockpiling. Moreover, high neuroticism was significantly positively related to interrupted stockpiling. Therefore, it is crucial to focus on personality traits (especially low extraversion and high neuroticism) to promote food stockpiling for disasters.
Controlling forever love
Authors: Herrera de la Cruz Jorge , Rey José-Manuel
Published: December 2021

A stable and rewarding love relationship is considered a key ingredient for happiness in Western culture. Building a successful long-term relationship can be viewed as a control engineering problem, where the control variable is the effort to be made to keep the relationship alive and well. We introduce a new mathematical model for the effort control problem of a couple in love who wants to stay together forever. The problem can be naturally formulated as a dynamic game in continuous time with nonlinearities. Adopting a dynamic programming approach, a tractable computational formulation of the problem is proposed together with an accompanying algorithm to find numerical solutions of the couple’s effort problem. The computational analysis of the model is used to explore feeling trajectories, effort control paths, happiness, and stabilization mechanisms for different types of successful couples. In particular, the simulation analysis provides insight into the pattern of change of both marital quality and effort making in intact marriages and how they are affected by certain level of heterogamy in the couple.
Designing the best breeding strategy for Coffea canephora: Genetic evaluation of pure and hybrid individuals aiming to select for productivity and disease resistance traits
Authors: Alkimim Emilly Ruas , Caixeta Eveline Teixeira , Sousa Tiago Vieira , Gois Itamara Bomfim , Lopes da Silva Felipe , Sakiyama Ney Sussumu , Zambolim Laércio , Alves Rodrigo Silva , Resende Marcos Deon Vilela de
Published: December 2021

Breeding programs of the species Coffea canephora rely heavily on the significant genetic variability between and within its two varietal groups (conilon and robusta). The use of hybrid families and individuals has been less common. The objectives of this study were to evaluate parents and families from the populations of conilon, robusta, and its hybrids and to define the best breeding and selection strategies for productivity and disease resistance traits. As such, 71 conilon clones, 56 robusta clones, and 20 hybrid families were evaluated over several years for the following traits: vegetative vigor, incidence of rust and cercosporiosis, fruit ripening time, fruit size, plant height, canopy diameter, and yield per plant. Components of variance and genetic parameters were estimated via residual maximum likelihood (REML) and genotypic values were predicted via best linear unbiased prediction (BLUP). Genetic variability among parents (clones) and hybrid families was detected for most of the evaluated traits. The Mulamba-Rank index suggests potential gains up to 17% for the genotypic aggregate of traits in the hybrid population. An intrapopulation recurrent selection within the hybrid population would be the best breeding strategy because the genetic variability, narrow and broad senses heritabilities and selective accuracies for important traits were maximized in the crossed population. Besides, such strategy is simple, low cost and quicker than the concurrent reciprocal recurrent selection in the two parental populations, and this maximizes the genetic gain for unit of time.
“What does it depend on?”: Perceptions of safety related to firearms in homes and neighborhoods
Authors: Pallin Rocco , Wintemute Garen J. , Kravitz-Wirtz Nicole
Published: December 2021

Background

Though research has established that firearms in the home increase risk for injury and death, a substantial number of Americans, especially gun owners, believe that guns make their homes safer. More than half of gun owners in a nationally-representative survey said “it depends” when asked whether guns make their homes safer or more dangerous, but little is known about the factors that affect perceived safety.

Objective

To determine whether the relationship between the presence of firearms and perceived home or neighborhood safety is fixed or depends on additional factors and to identify the additional factors on which it depends.

Methods

A mixed-methods cross-sectional analysis of the 2018 state-representative California Safety and Wellbeing Survey (n = 2558, completion rate 49%), including calculation of weighted proportions and qualitative analysis of write-in responses.

Findings

One in six respondents (17.2%, 95% CI 14.9% to 19.7%) reported “it depends” when asked whether a gun in their home made the home a safer or more dangerous place to be (“the home scenario”). One in six (16.6%, 95% CI 14.3% to 19.2%) reported “it depends” when asked whether the neighborhood would be safer if all neighbors had guns in the home (“the neighborhood scenario”). For the home scenario, 28.3% (95% CI 21.9% to 35.7%) cited firearm owner characteristics (e.g., training and proficiency, temperament, and mental health), 28.4% (95% CI 22.3% to 35.5%) cited firearm storage and access, and 28.0% (95% CI 21.5% to 35.7%) cited intended use for guns as factors affecting perceived safety. For the neighborhood scenario, respondents overwhelmingly cited gun owner characteristics (72.1%, 95% CI 63.4% to 79.3%). Factors on which “it depends” varied by gun ownership status.

Conclusion

Perceived safety when firearms are in the home depends on numerous factors. Understanding these factors may inform tailored, targeted messaging and interventions for firearm injury prevention.
Implications of salinity normalization of seawater total alkalinity in coral reef metabolism studies
Authors: Courtney Travis A. , Cyronak Tyler , Griffin Alyssa J. , Andersson Andreas J.
Published: December 2021

Salinity normalization of total alkalinity (TA) and dissolved inorganic carbon (DIC) data is commonly used to account for conservative mixing processes when inferring net metabolic modification of seawater by coral reefs. Salinity (S), TA, and DIC can be accurately and precisely measured, but salinity normalization of TA (nTA) and DIC (nDIC) can generate considerable and unrecognized uncertainties in coral reef metabolic rate estimates. While salinity normalization errors apply to nTA, nDIC, and other ions of interest in coral reefs, here, we focus on nTA due to its application as a proxy for net coral reef calcification and the importance for reefs to maintain calcium carbonate production under environmental change. We used global datasets of coral reef TA, S, and modeled groundwater discharge to assess the effect of different volumetric ratios of multiple freshwater TA inputs (i.e., groundwater, river, surface runoff, and precipitation) on nTA. Coral reef freshwater endmember TA ranged from -2 up to 3032 μmol/kg in hypothetical reef locations with freshwater inputs dominated by riverine, surface runoff, or precipitation mixing with groundwater. The upper bound of freshwater TA in these scenarios can result in an uncertainty in reef TA of up to 90 μmol/kg per unit S normalization if the freshwater endmember is erroneously assumed to have 0 μmol/kg alkalinity. The uncertainty associated with S normalization can, under some circumstances, even shift the interpretation of whether reefs are net calcifying to net dissolving, or vice versa. Moreover, the choice of reference salinity for normalization implicitly makes assumptions about whether biogeochemical processes occur before or after mixing between different water masses, which can add uncertainties of ±1.4% nTA per unit S normalization. Additional considerations in identifying potential freshwater sources of TA and their relative volumetric impact on seawater are required to reduce uncertainties associated with S normalization of coral reef carbonate chemistry data in some environments. However, at a minimum, researchers should minimize the range of salinities over which the normalization is applied, precisely measure salinity, and normalize TA values to a carefully selected reference salinity that takes local factors into account.
Making sense of unfamiliar COVID-19 vaccines: How national origin affects vaccination willingness
Authors: Jensen Eric A. , Wagoner Brady , Pfleger Axel , Herbig Lisa , Watzlawik Meike
Published: December 2021

Vaccination willingness is a critical factor in pandemics, including the COVID-19 crisis. Therefore, investigating underlying drivers of vaccination willingness/hesitancy is an essential social science contribution. The present study of German residents investigates the mental shortcuts people are using to make sense of unfamiliar vaccine options by examining vaccination willingness for different vaccines using an experimental design in a quantitative survey. German vaccines were preferred over equivalent foreign vaccines, and the favorability ratings of foreign countries where COVID-19 vaccines were developed correlated with the level of vaccination willingness for each vaccine. The patterns in vaccination willingness were more pronounced when the national origin was shown along with the vaccine manufacturer label. The study shows how non-scientific factors drive everyday decision-making about vaccination. Taking such social psychological and communication aspects into account in the design of vaccination campaigns would increase their effectiveness.
Determinants of severity among hospitalised COVID-19 patients: Hospital-based case-control study, India, 2020
Authors: Zodpey Sanjay P. , Negandhi Himanshu , Kamal Vineet Kumar , Bhatnagar Tarun , Ganeshkumar Parasuraman , Athavale Arvind , Kadri Amiruddin , Patel Amit , Bhagyalaxmi A. , Khismatrao Deepak , Theranirajan E. , Banumathi Getrude , Singh Krishna , Parameshwari P. , Kshirsagar Prasita , Saxena Rita , Deshpande Sanjay G. , Satyanand Kadloor , Hadke Saurabh , Dube Simmi , Subramaniam Sudarshini , Madan Surabhi , Kadam Swapnali , Anand Tanu , Jeyashree Kathiresan , Ponnaiah Manickam , Rana Manish , Murhekar Manoj V. , Reddy DCS
Published: December 2021

Background

Risk factors for the development of severe COVID-19 disease and death have been widely reported across several studies. Knowledge about the determinants of severe disease and mortality in the Indian context can guide early clinical management.

Methods

We conducted a hospital-based case control study across nine sites in India to identify the determinants of severe and critical COVID-19 disease.

Findings

We identified age above 60 years, duration before admission >5 days, chronic kidney disease, leucocytosis, prothrombin time > 14 sec, serum ferritin >250 ng/mL, d-dimer >0.5 ng/mL, pro-calcitonin >0.15 μg/L, fibrin degradation products >5 μg/mL, C-reactive protein >5 mg/L, lactate dehydrogenase >150 U/L, interleukin-6 >25 pg/mL, NLR ≥3, and deranged liver function, renal function and serum electrolytes as significant factors associated with severe COVID-19 disease.

Interpretation

We have identified a set of parameters that can help in characterising severe COVID-19 cases in India. These parameters are part of routinely available investigations within Indian hospital settings, both public and private. Study findings have the potential to inform clinical management protocols and identify patients at high risk of severe outcomes at an early stage.
Joint Simon effect in movement trajectories
Authors: Sangati Ekaterina , Slors Marc , Müller Barbara C. N. , van Rooij Iris
Published: December 2021

In joint action literature it is often assumed that acting together is driven by pervasive and automatic process of co-representation, that is, representing the co-actor’s part of the task in addition to one’s own. Much of this research employs joint stimulus-response compatibility tasks varying the stimuli employed or the physical and social relations between participants. In this study we test the robustness of co-representation effects by focusing instead on variation in response modality. Specifically, we implement a mouse-tracking version of a Joint Simon Task in which participants respond by producing continuous movements with a computer mouse rather than pushing discrete buttons. We have three key findings. First, in a replication of an earlier study we show that in a classical individual Simon Task movement trajectories show greater curvature on incongruent trials, paralleling longer response times. Second, this effect largely disappears in a Go-NoGo Simon Task, in which participants respond to only one of the cues and refrain from responding to the other. Third, contrary to previous studies that use button pressing responses, we observe no overall effect in the joint variants of the task. However, we also detect a notable diversity in movement strategies adopted by the participants, with some participants showing the effect on the individual level. Our study casts doubt on the pervasiveness of co-representation, highlights the usefulness of mouse-tracking methodology and emphasizes the need for looking at individual variation in task performance.