bluuebunny/crossref_metadata_2025 huggingface dataset:
Algorithms for Competitive Division of Chores
Authors: Brânzei Simina , Sandomirskiy Fedor
Published: May 2023

We study the problem of allocating divisible bads (chores) among multiple agents with additive utilities when monetary transfers are not allowed. The competitive rule is known for its remarkable fairness and efficiency properties in the case of goods. This rule was extended to chores by Bogomolnaia, Moulin, Sandomirskiy, and Yanovskaya. For both goods and chores, the rule produces Pareto optimal and envy-free allocations. In the case of goods, the outcome of the competitive rule can be easily computed. Competitive allocations solve the Eisenberg-Gale convex program; hence the outcome is unique and can be approximately found by standard gradient methods. An exact algorithm that runs in polynomial time in the number of agents and goods was given by Orlin. In the case of chores, the competitive rule does not solve any convex optimization problem; instead, competitive allocations correspond to local minima, local maxima, and saddle points of the Nash social welfare on the Pareto frontier of the set of feasible utilities. The Pareto frontier may contain many such points and, consequently, the outcome of the competitive rule is no longer unique. In this paper, we show that all the outcomes of the competitive rule for chores can be computed in strongly polynomial time if either the number of agents or the number of chores is fixed. The approach is based on a combination of three ideas: all consumption graphs of Pareto optimal allocations can be listed in polynomial time; for a given consumption graph, a candidate for a competitive utility profile can be constructed via an explicit formula; each candidate can be checked for competitiveness and the allocation can be reconstructed using a maximum flow computation. Our algorithm immediately gives an approximately-fair allocation of indivisible chores by the rounding technique of Barman and Krishnamurthy.

Funding: This work was supported by National Science Foundation (CNS 1518941); Lady Davis Fellowship Trust, Hebrew University of Jerusalem; H2020 European Research Council (740435); Linde Institute at Caltech.
A mapping review on preoperative prognostic factors and outcome measures of revision total knee arthroplasty
Authors: Belt Maartje , Robben Bart , Smolders José M. H. , Schreurs B. W. , Hannink Gerjon , Smulders Katrijn
Published: May 2023

Aims

To map literature on prognostic factors related to outcomes of revision total knee arthroplasty (rTKA), to identify extensively studied factors and to guide future research into what domains need further exploration.

Methods

We performed a systematic literature search in MEDLINE, Embase, and Web of Science. The search string included multiple synonyms of the following keywords: "revision TKA", "outcome" and "prognostic factor". We searched for studies assessing the association between at least one prognostic factor and at least one outcome measure after rTKA surgery. Data on sample size, study design, prognostic factors, outcomes, and the direction of the association was extracted and included in an evidence map.

Results

After screening of 5,660 articles, we included 166 studies reporting prognostic factors for outcomes after rTKA, with a median sample size of 319 patients (30 to 303,867). Overall, 50% of the studies reported prospectively collected data, and 61% of the studies were performed in a single centre. In some studies, multiple associations were reported; 180 different prognostic factors were reported in these studies. The three most frequently studied prognostic factors were reason for revision (213 times), sex (125 times), and BMI (117 times). Studies focusing on functional scores and patient-reported outcome measures as prognostic factor for the outcome after surgery were limited (n = 42). The studies reported 154 different outcomes. The most commonly reported outcomes after rTKA were: re-revision (155 times), readmission (88 times), and reinfection (85 times). Only five studies included costs as outcome.

Conclusion

Outcomes and prognostic factors that are routinely registered as part of clinical practice (e.g. BMI, sex, complications) or in (inter)national registries are studied frequently. Studies on prognostic factors, such as functional and sociodemographic status, and outcomes as healthcare costs, cognitive and mental function, and psychosocial impact are scarce, while they have been shown to be important for patients with osteoarthritis.

Cite this article: Bone Jt Open 2023;4(5):338–356.
Advanced inter-spacecraft offset frequency setting strategy for the Taiji program based on a two-stage optimization algorithm
Authors: Zhang Jiafeng , Ma Xiaoshan , Zhao Mengyuan , Peng Xiaodong , Gao Chen , Yang Zhen
Published: May 2023

For space-based gravitational wave (GW) detection, the continuity of detection data acquisition is crucial to the inversion of wave sources and the realization of scientific goals. To control the inter-spacecraft beat-note frequency in an appropriate range for continuous gravitational wave detection and to reduce the upper bound of the beat-note frequency for improving the detection capability, a two-stage optimization algorithm is proposed to solve the offset frequency setting strategy in the Taiji program. The optimization objectives are the maximum offset frequency duration and minimum upper bound of the beat-note frequency. Considering all feasible phase-locked schemes, Doppler frequency shift, and the bandwidth of the phasemeter, a series of offset frequency setting strategies satisfying the conditions was obtained. The solution results show that the upper bound can be reduced to 16 MHz and, in this case, the offset frequency changes nine times with a minimum and maximum offset frequency duration of 90 days and 713 days, respectively. If the Doppler frequency shift is constrained, the minimum upper bound can be reduced to 14 MHz. When the minimum duration is increased, the minimum upper bound is increased. These results show that, by varying the offset frequency a limited number of times, the data continuity requirements of the Taiji program can be satisfied, and the phasemeter development difficulty and detection capability can be balanced, and may provide a reference for the phasemeter design, the setting of phase-locking schemes, and inter-spacecraft offset frequency in the Taiji program.
Four-band terahertz metamaterial absorber based on Dirac semimetal for a refractive index sensing application
Authors: Jiang Jieying , Xu Wei , Wu Yangkuan , Duan Guiyuan , Xu Chongyang , Zhao Qingguo , Zhu Huaxin , Zhang Xiangyang , Wang Ben-Xin
Published: May 2023

We design a four-band narrow-band near-perfect absorber based on bulk Dirac semimetal (BDS) metamaterial in the terahertz region. The absorber has a top-to-bottom three-layer structure of a BDS layer, an insulating dielectric slab, and a gold layer. The BDS is flexible and tunable, allowing the Fermi energy level to be adjusted by changing the applied bias voltage, thus changing the absorption characteristics of the absorber. We use the time-domain finite-difference method to simulate the absorption characteristics of the absorber, which could achieve four discrete near-perfect absorption peaks at 0.98 THz, 1.70 THz, 2.02 THz, and 2.36 THz. The absorber is polarization sensitive, and the conversion between four-band absorption and three-band absorption is achieved by changing the incident polarization angle. We also change the structure of the absorber to study the absorption characteristics and break the structural symmetry to achieve a larger number of absorption peaks. Besides, the sensing performance of four-band narrow-band absorption is analyzed, and the maximum sensitivity of the absorber is 112.78 GHz/RIU. The device should have vast application prospects for bio-detection and high-sensitivity biosensing detection.
Method of depth simulation imaging and depth image super-resolution reconstruction for a 2D/3D compatible CMOS image sensor
Authors: Guo Shijie , Chen Quanmin , Zhao Zhe , Xu Jiangtao , Nie Kaiming
Published: May 2023

This paper presents a depth simulation imaging and depth image super-resolution (SR) method for two-dimensional/three-dimensional compatible CMOS image sensors. A depth perception model is established to analyze the effects of depth imaging parameters and evaluate the real imaging effects. We verify its validity by analyzing the depth error, imaging simulation, and auxiliary physical verification. By means of the depth simulation images, we then propose a depth SR reconstruction algorithm to recover the low-resolution depth maps to the high-resolution depth maps in two types of datasets. With the best situation in depth accuracy kept, the root mean square error (RMSE) of Middlebury dataset images are 0.0156, 0.0179, and 0.0183 m. The RMSE of RGB-D dataset images are 0.0223 and 0.0229 m. Compared with other listed conventional algorithms, our algorithm reduces the RMSE by more than 16.35%, 17.19%, and 23.90% in the Middlebury dataset images. Besides, our algorithm reduces the RMSE by more than 9.71% and 8.76% in the RGB-D dataset images. The recovery effects achieve optimized results.
Design for a low-cost heterodyne frequency domain-diffuse optical spectroscopy system
Authors: Majeski Joseph B. , Ching-Roa Vincent D. , Giacomelli Michael G. , Choe Regine
Published: May 2023

A design for a low-cost, heterodyne, frequency domain-diffuse optical spectroscopy system is presented and validated. The system uses a single wavelength of 785 nm and a single detector to illustrate the capability, but is built in a modular fashion to make it easily expandable to additional wavelengths and detectors. The design incorporates methods to allow software-based control over the system operating frequency, laser diode output amplitude, and detector gain. Validation methods include characterization of electrical designs as well as determination of the system stability and accuracy using tissue-mimicking optical phantoms. The system requires only basic equipment for its construction and can be built for under $600.
Frequency-modulation stimulated Raman scattering microscopy with an acousto-optic tunable filter
Authors: Grassi Elisa , Laptenok Sergey P. , Genchi Luca , Serdaroglu Alperen , Liberale Carlo
Published: May 2023

Stimulated Raman scattering (SRS) microscopy is increasingly employed for highly specific, label-free, and high-speed bioimaging. Despite its benefits, SRS is susceptible to spurious background signals caused by competing effects, which lower the possible imaging contrast and sensitivity. An efficient approach to suppress these undesired background signals is frequency-modulation (FM) SRS, which exploits the competing effects’ weak spectral dependence compared to the SRS signal’s high spectral specificity. We propose an FM-SRS scheme realized with an acousto-optic tunable filter, which presents a few advantages compared to other solutions presented in the literature. In particular, it can perform automated measurements from the fingerprint to the CH-stretching region of the vibrational spectrum without any manual adjustment of the optical setup. Moreover, it allows simple all-electronic control of the spectral separation and relative intensities of the pair of probed wavenumbers.
Fiber-coupled plug-and-play heralded single photon source based on Ti:LiNbO3 and polymer technology
Authors: Kießler Christian , Conradi Hauke , Kleinert Moritz , Quiring Viktor , Herrmann Harald , Silberhorn Christine
Published: May 2023

A reliable, but cost-effective generation of single-photon states is key for practical quantum communication systems. For real-world deployment, waveguide sources offer optimum compatibility with fiber networks and can be embedded in hybrid integrated modules. Here, we present what we believe to be the first chip-size fully integrated fiber-coupled heralded single photon source (HSPS) module based on a hybrid integration of a nonlinear lithium niobate waveguide into a polymer board. Photon pairs at 810 nm (signal) and 1550 nm (idler) are generated via parametric down-conversion pumped at 532 nm in the LiNbO3 waveguide. The pairs are split in the polymer board and routed to separate output ports. The module has a size of (2 × 1) cm2 and is fully fiber-coupled with one pump input fiber and two output fibers. We measure a heralded second-order correlation function of g
h
(2)=0.05 with a heralding efficiency of η
h
=3.5% at low pump powers.
Transmission grating couples and enhances the second harmonic of the electron beam to generate tunable high-power terahertz radiation
Authors: Chang Shaojie , Wu Zhenhua , Liu Diwei , Zhong Renbin , Duan Zhaoyun , Wei Yanyu , Gong Yubin , Hu Min
Published: May 2023

Vacuum electronic devices utilizing free-electron-based mechanisms are a crucial class of terahertz radiation sources that operate by modulating electron beams. In this study, we introduce what we believe is a novel approach to enhance the second harmonic of electron beams and substantially increase the output power at higher frequencies. Our method employs a planar grating for fundamental modulation and a transmission grating operating in the backward region to augment the harmonic coupling. The outcome is a high power output of the second harmonic signal. Contrasting with traditional linear electron beam harmonic devices, the proposed structure can achieve an output power increase of an order of magnitude. We have investigated this configuration computationally within the G-band. Our findings indicate that an electron beam density of 50 A/cm2 at 31.5 kV can produce a 0.202 THz center frequency signal with an output power of 4.59 W. As the electron beam voltage is adjusted from 23 kV to 38.5 kV, the output signal frequency shifts from 0.195 THz to 0.205 THz, generating several watts of power output. The starting oscillation current density at the center frequency point is 28 A/cm2, which is significantly lower in the G-band compared to conventional electron devices. This reduced current density has substantial implications for the advancement of terahertz vacuum devices.
Integrated programmable spectral filter for frequency-multiplexed neuromorphic computers
Authors: Jonuzi Tigers , Lupo Alessandro , Soriano Miguel C. , Massar Serge , Domenéch J. D.
Published: May 2023

Artificial neural networks (ANN) are a groundbreaking technology massively employed in a plethora of fields. Currently, ANNs are mostly implemented through electronic digital computers, but analog photonic implementations are very interesting mainly because of low power consumption and high bandwidth. We recently demonstrated a photonic neuromorphic computing system based on frequency multiplexing that executes ANNs algorithms as reservoir computing and Extreme Learning Machines. Neuron signals are encoded in the amplitude of the lines of a frequency comb, and neuron interconnections are realized through frequency-domain interference. Here we present an integrated programmable spectral filter designed to manipulate the optical frequency comb in our frequency multiplexing neuromorphic computing platform. The programmable filter controls the attenuation of 16 independent wavelength channels with a 20 GHz spacing. We discuss the design and the results of the chip characterization, and we preliminary demonstrate, through a numerical simulation, that the produced chip is suitable for the envisioned neuromorphic computing application.
Hard X-ray stereographic microscopy for single-shot differential phase imaging
Authors: Bellucci Valerio , Zdora Marie-Christine , Mikeš Ladislav , Birnšteinová Šarlota , Oberta Peter , Romagnoni Marco , Mazzolari Andrea , Villanueva-Perez Pablo , Mokso Rajmund , David Christian , Makita Mikako , Cipiccia Silvia , Uličný Jozef , Meents Alke , Mancuso Adrian P. , Chapman Henry N. , Vagovič Patrik
Published: May 2023

The characterisation of fast phenomena at the microscopic scale is required for the understanding of catastrophic responses of materials to loads and shocks, the processing of materials by optical or mechanical means, the processes involved in many key technologies such as additive manufacturing and microfluidics, and the mixing of fuels in combustion. Such processes are usually stochastic in nature and occur within the opaque interior volumes of materials or samples, with complex dynamics that evolve in all three dimensions at speeds exceeding many meters per second. There is therefore a need for the ability to record three-dimensional X-ray movies of irreversible processes with resolutions of micrometers and frame rates of microseconds. Here we demonstrate a method to achieve this by recording a stereo phase-contrast image pair in a single exposure. The two images are combined computationally to reconstruct a 3D model of the object. The method is extendable to more than two simultaneous views. When combined with megahertz pulse trains of X-ray free-electron lasers (XFELs) it will be possible to create movies able to resolve 3D trajectories with velocities of kilometers per second.
Selectively reflective edge detection system based on cholesteric liquid crystal: publisher’s note
Authors: Zeng Tibin , Xie Jin , Zhou Yingjie , Fan Fan , Wen Shuangchun
Published: May 2023

This publisher’s note contains corrections to Opt. Lett. 48, 795 (2023)10.1364/OL.481980.
Subsea Fiber: Into the Deep
Authors: Curtis Susan
Published: May 2023

Scientists and engineers are hard at work finding ways to boost
the capacity of submarine fiber networks—and to press the fiber into
extra service for global environmental sensing.
Entanglement generation using cryogenic integrated four-wave mixing
Authors: Feng Lan-Tian , Cheng Yu-Jie , Qi Xiao-Zhuo , Zhou Zhi-Yuan , Zhang Ming , Dai Dao-Xin , Guo Guang-Can , Ren Xi-Feng
Published: May 2023

Cryogenic integrated nonlinear photonics can provide fundamental building blocks for scalable photonic quantum computing and optical interfacing among different platforms. Here, we investigate the spontaneous four-wave mixing effect in an integrated silicon waveguide with cryogenic operating conditions (4 K) and employ the system to generate the entangled photon-pair source, one of the key elements of photonic quantum information applications. We experimentally prove that even at cryogenic temperatures, the four-wave mixing effect in silicon waveguides is still an effective method to generate quantum photonic sources. The cryogenic photon-pair source is verified over multiple frequency channels within a bandwidth of  ∼2THz. Furthermore, the source is used to generate high-quality frequency-multiplexed energy–time entangled states. Our results will advance the development of cryogenic nonlinear photonics and scalable integrated photonics for quantum information processing.
Re-thinking cluster policies: the role of shared vision and Place Leadership on the development of resilient clusters
Authors: Ganske Patricia , Carbon Claus-Christian
Published: May 2023

Facing increasing interregional and international competition, the need for innovating economic and socio-institutional structures is virulent. One possibility is establishing clusters to promote the idea that developing a network of companies with a mix of cooperative and competitive practices leads to competitive advantages for the respective area. Organizing clusters means developing a cluster culture, a communication strategy and a selection criterion for creating the desired mix of companies. We base our opinion paper on an extensive literature review of scientific sources about clusters, cluster policy and Place Leadership. We reveal that the prevailing cluster policy often does not lead to sustainably successful clusters. We conclude that we need a shared vision among cluster members to develop resilient clusters. Shared visions create a sense of belonging, social identity, and internalization of values and attitudes. This way, it is possible that a sustainable and trust-oriented network structure can develop, and knowledge spillovers within the cluster, necessary for resilient clusters, can occur. True Place Leadership is crucial to deal with the needed diversity of actors and stakeholders, some of whom are in competition, inspiring, motivating, and guiding shared, cooperative, and collaborative ways of working. Employing Place Leadership can outperform current policy measures in other regional, industrial and structural areas and might even make them redundant.
Factors associated with use of wearable technology to support activity, well-being, or a healthy lifestyle in the adult population and among older adults
Authors: Kyytsönen Maiju , Vehko Tuulikki , Anttila Heidi , Ikonen Jonna
Published: May 2023

The use of wearable technology, which is often acquired to support well-being and a healthy lifestyle, has become popular in Western countries. At the same time, healthcare is gradually taking the first steps to introduce wearable technology into patient care, even though on a large scale the evidence of its’ effectiveness is still lacking. The objective of this study was to identify the factors associated with use of wearable technology to support activity, well-being, or a healthy lifestyle in the Finnish adult population (20–99) and among older adults (65–99). The study utilized a cross-sectional population survey of Finnish adults aged 20 and older (n = 6,034) to analyse non-causal relationships between wearable technology use and the users’ characteristics. Logistic regression models of wearable technology use were constructed using statistically significant sociodemographic, well-being, health, benefit, and lifestyle variables. Both in the general adult population and among older adults, wearable technology use was associated with getting aerobic physical activity weekly according to national guidelines and with marital status. In the general adult population, wearable technology use was also associated with not sleeping enough and agreeing with the statement that social welfare and healthcare e-services help in taking an active role in looking after one’s own health and well-being. Younger age was associated with wearable technology use in the general adult population but for older adults age was not a statistically significant factor. Among older adults, non-use of wearable technology went hand in hand with needing guidance in e-service use, using a proxy, or not using e-services at all. The results support exploration of the effects of wearable technology use on maintaining an active lifestyle among adults of all ages.
Impact of DREAMS interventions on experiences of violence among adolescent girls and young women: Findings from population-based cohort studies in Kenya and South Africa
Authors: Wambiya Elvis Omondi Achach , Gourlay Annabelle J. , Mulwa Sarah , Magut Faith , Mthiyane Nondumiso , Orindi Benedict , Chimbindi Natsayi , Kwaro Daniel , Shahmanesh Maryam , Floyd Sian , Birdthistle Isolde , Ziraba Abdhalah
Published: May 2023

DREAMS aims to reduce HIV incidence among adolescent girls and young women (AGYW) by tackling drivers of HIV risk including gender-based violence. We evaluate the impact of DREAMS on recent experiences of violence perpetuated by men against AGYW. AGYW cohorts were randomly selected from demographic platforms in South Africa (rural KwaZulu-Natal) and Kenya (Nairobi informal settlements and rural Gem sub-county). AGYW aged 13–22 years were enrolled in 2017 (Nairobi, KwaZulu-Natal) or 2018 (Gem), with annual follow-up to 2019. We described proportions of AGYW who self-reported experiences of violence perpetrated by males in the 12 months preceding the interview, overall and by form (physical, sexual, emotional). We investigated associations with DREAMS (invitation to participate during 2017–2018) through multivariable propensity score-adjusted logistic regression and estimated the causal effect of DREAMS on experiences of violence, under counter-factual scenarios in which all versus no AGYW were DREAMS beneficiaries. Among 852, 1018 and 1712 AGYW followed-up in 2019 in Nairobi, Gem and KZN, respectively, proportions reporting any violence in 2019 were higher in Nairobi (29%) than Gem (18%) and KwaZulu-Natal (19%). By sub-type, emotional and physical violence were more frequently reported than sexual violence. We found no evidence of an impact attributable to DREAMS on overall levels of violence, in any setting. Nor was there evidence of impact on sub-types of violence, with one exception: an increase in physical violence in Nairobi if all, versus no, AGYW were DREAMS beneficiaries (16% vs 11%; +5% difference [95% CI: +0.2%, +10.0%]). Experiences of gender-based violence were common among AGYW, especially in urban settings, and DREAMS had no measurable impact on reducing violence within three years of implementation. Violence prevention programming that reaches more men and the broader community, sustained for longer periods, may yield greater gains in violence reduction than AGYW-focused programming. Additionally, more investment in implementation research is needed to bridge trial-based study findings from efficacy to population-level effectiveness.
Variability of tissue mechanical response in Sus Domesticus porcine models from in vivo to ex vivo conditions
Authors: Malik Faizan A. , Drahos Bradley A. , Safdari Amer M. , Mazzeo Mark V. , Norfleet Jack E. , Sweet Robert M. , Kowalewski Timothy M.
Published: May 2023

Background

Healthcare simulators have been demonstrated to be a valuable resource for training several technical and nontechnical skills. A gap in the fidelity of tissues has been acknowledged as a barrier to application for current simulators; especially for interventional procedures. Inaccurate or unrealistic mechanical response of a simulated tissue to a given surgical tool motion may result in negative training transfer and/or prevents the “suspension of disbelief” necessary for a trainee to engage in the activity. Thus, where it is relevant to training outcomes, there should be an effort to create healthcare simulators with simulated tissue mechanical responses that match or represent those of biological tissues. Historically, this data is most often gathered from preserved (post mortem) tissue; however, there is a concern that the mechanical properties of preserved tissue, that lacks blood flow, may lack adequate accuracy to provide the necessary training efficacy of simulators.

Methods and findings

This work explores the effect of the “state” of the tissue testing status on liver and peritoneal tissue by using a customized handheld grasper to measure the mechanical responses of representative porcine (Sus domesticus) tissues in n = 5 animals across five test conditions: in vivo, post mortem (in-situ), ex vivo (immediately removed from fresh porcine cadaver), post-refrigeration, and post-freeze-thaw cycle spanning up to 72 hours after death. No statistically significant difference was observed in the mechanical responses due to grasping between in vivo and post-freeze conditions for porcine liver and peritoneum tissue samples (p = 0.05 for derived stiffness at grasping force values F = 5N and 6.5N). Furthermore, variance between in vivo and post-freeze conditions within each animal, was comparable to the variance of the in vivo condition between animals.

Conclusions

Results of this study further validate the use of preserved tissue in the design of medical simulators via observing tissue mechanical responses of post-freeze tissue comparable to in vivo tissue. Therefore, the use of thawed preserved tissue for the further study and emulation of mechanical perturbation of the liver and peritoneum can be considered. Further work in this area should investigate these trends further, particularly in regard to other tissues and the potential effects varying preservation methods may yield.
Spatial scale of non-target effects of cotton insecticides
Authors: Bordini Isadora , Naranjo Steven E. , Fournier Alfred , Ellsworth Peter C.
Published: May 2023

Plot size is of practical importance in any integrated pest management (IPM) study that has a field component. Such studies need to be conducted at a scale relevant to species dynamics because their abundance and distribution in plots might vary according to plot size. An adequate plot size is especially important for researchers, technology providers and regulatory agencies in understanding effects of various insect control technologies on non-target arthropods. Plots that are too small might fail to detect potential harmful effects of these technologies due to arthropod movement and redistribution among plots, or from untreated areas and outside sources. The Arizona cotton system is heavily dependent on technologies for arthropod control, thus we conducted a 2-year replicated field experiment to estimate the optimal plot size for non-target arthropod studies in our system. Experimental treatments consisted of three square plot sizes and three insecticides in a full factorial. We established three plot sizes that measured 144 m2, 324 m2 and 576 m2. For insecticide treatments, we established an untreated check, a positive control insecticide with known negative effects on the arthropod community and a selective insecticide. We investigated how plot size impacts the estimation of treatment effects relative to community structure (27 taxa), community diversity, individual abundance, effect sizes, biological control function of arthropod taxa with a wide range of mobility, including Collops spp., Orius tristicolor, Geocoris spp., Misumenops celer, Drapetis nr. divergens and Chrysoperla carnea s.l.. Square 144 m2 plots supported similar results for all parameters compared with larger plots, and are thus sufficiently large to measure insecticidal effects on non-target arthropods in cotton.

Our results are applicable to cotton systems with related pests, predators or other fauna with similar dispersal characteristics. Moreover, these results also might be generalizable to other crop systems with similar fauna.
A validated protocol to UV-inactivate SARS-CoV-2 and herpesvirus-infected cells
Authors: Soh Timothy K. , Pfefferle Susanne , Wurr Stephanie , von Possel Ronald , Oestereich Lisa , Rieger Toni , Uetrecht Charlotte , Rosenthal Maria , Bosse Jens B.
Published: May 2023

Downstream analysis of virus-infected cell samples, such as reverse transcription polymerase chain reaction (RT PCR) or mass spectrometry, often needs to be performed at lower biosafety levels than their actual cultivation, and thus the samples require inactivation before they can be transferred. Common inactivation methods involve chemical crosslinking with formaldehyde or denaturing samples with strong detergents, such as sodium dodecyl sulfate. However, these protocols destroy the protein quaternary structure and prevent the analysis of protein complexes, albeit through different chemical mechanisms. This often leads to studies being performed in over-expression or surrogate model systems. To address this problem, we generated a protocol that achieves the inactivation of infected cells through ultraviolet (UV) irradiation. UV irradiation damages viral genomes and crosslinks nucleic acids to proteins but leaves the overall structure of protein complexes mostly intact. Protein analysis can then be performed from intact cells without biosafety containment. While UV treatment protocols have been established to inactivate viral solutions, a protocol was missing to inactivate crude infected cell lysates, which heavily absorb light. In this work, we develop and validate a UV inactivation protocol for SARS-CoV-2, HSV-1, and HCMV-infected cells. A fluence of 10,000 mJ/cm2 with intermittent mixing was sufficient to completely inactivate infected cells, as demonstrated by the absence of viral replication even after three sequential passages of cells inoculated with the treated material. The herein described protocol should serve as a reference for inactivating cells infected with these or similar viruses and allow for the analysis of protein quaternary structure from bona fide infected cells.
Stress, coping, and quality of life in the United States during the COVID-19 pandemic
Authors: Wakeel Fathima , Hannah Jacelyn , Gorfinkel Leah
Published: May 2023

While research has widely explored stress, coping, and quality of life (QOL) individually and the potential links between them, a critical dearth exists in the literature regarding these constructs in the context of the COVID-19 pandemic. Our study aims to identify the salient stressors experienced, describe the coping strategies used, and examine the relationships between stressors, coping, and QOL among individuals during the pandemic. Data are from a sample of 1,004 respondents who completed an online survey. Key measures included stressful life events (SLEs), coping strategies, and the physical and psychological health domains of QOL. Staged multivariate linear regression analyses examined the relationships between SLEs and the two QOL domains, controlling for sociodemographic and pre-existing health conditions and testing for the effects of coping strategies on these relationships. The most common SLEs experienced during the pandemic were a decrease in financial status, personal injury or illness, and change in living conditions. Problem-focused coping (β = 0.42, σ = 0.13, p < 0.001 for physical QOL; β = 0.57, σ = 0.12, p < 0.001 for psychological QOL) and emotion-focused coping (β = 0.86, σ = 0.13, p < 0.001 for psychological QOL) were significantly related to higher levels of QOL, whereas avoidant coping (β = –0.93, σ = 0.13, p < 0.001 for physical QOL; β = -1.33, σ = 0.12, p < 0.001 for psychological QOL) was associated with lower QOL. Avoidant coping partially mediated the relationships between experiencing SLEs and lower physical and psychological QOL. Our study informs clinical interventions to help individuals adopt healthy behaviors to effectively manage stressors, especially large-scale, stressful events like the pandemic. Our findings also call for public health and clinical interventions to address the long-term impacts of the most prevalent stressors experienced during the pandemic among vulnerable groups.
Lipidomics-based tissue heterogeneity in specimens of luminal breast cancer revealed by clustering analysis of mass spectrometry imaging: A preliminary study
Authors: Aramaki Shuhei , Tsuge Shogo , Islam Ariful , Eto Fumihiro , Sakamoto Takumi , Oyama Soho , Li Wenxin , Zhang Chi , Yamaguchi Shinichi , Takatsuka Daiki , Hosokawa Yuko , Waliullah A. S. M. , Takahashi Yutaka , Kikushima Kenji , Sato Tomohito , Koizumi Kei , Ogura Hiroyuki , Kahyo Tomoaki , Baba Satoshi , Shiiya Norihiko , Sugimura Haruhiko , Nakamura Katsumasa , Setou Mitsutoshi
Published: May 2023

Cancer tissues reflect a greater number of pathological characteristics of cancer compared to cancer cells, so the evaluation of cancer tissues can be effective in determining cancer treatment strategies. Mass spectrometry imaging (MSI) can evaluate cancer tissues and even identify molecules while preserving spatial information. Cluster analysis of cancer tissues’ MSI data is currently used to evaluate the phenotype heterogeneity of the tissues. Interestingly, it has been reported that phenotype heterogeneity does not always coincide with genotype heterogeneity in HER2-positive breast cancer. We thus investigated the phenotype heterogeneity of luminal breast cancer, which is generally known to have few gene mutations. As a result, we identified phenotype heterogeneity based on lipidomics in luminal breast cancer tissues. Clusters were composed of phosphatidylcholine (PC), triglycerides (TG), phosphatidylethanolamine, sphingomyelin, and ceramide. It was found that mainly the proportion of PC and TG correlated with the proportion of cancer and stroma on HE images. Furthermore, the number of carbons in these lipid class varied from cluster to cluster. This was consistent with the fact that enzymes that synthesize long-chain fatty acids are increased through cancer metabolism. It was then thought that clusters containing PCs with high carbon counts might reflect high malignancy. These results indicate that lipidomics-based phenotype heterogeneity could potentially be used to classify cancer for which genetic analysis alone is insufficient for classification.
The introduction and spread of rye (Secale cereale) in the Iberian Peninsula
Authors: Seabra Luís , Teira-Brión Andrés , López-Dóriga Inés , Martín-Seijo María , Almeida Rubim , Tereso João Pedro
Published: May 2023

Some of the earliest Western European macroremains of rye (Secale cereale) have been recently recovered in Northwest Iberia. However, the chronological and cultural contexts of these remains have not been yet exhaustively analysed. To address this gap of research, previous and unpublished assemblages have been reviewed and analysed through an analytical set of methods: biometry, radiocarbon dates and integrating the remains of rye in the broad archaeobotanical record of the region. Results show the earliest macroremains of rye in the Iberian Peninsula date to a period between the 3rdcentury and the first half of the 1stcentury BCE. Rye was usually found in assemblages dominated by spelt and other cereals, in whose fields it was likely acting as a weed. There is no record of rye for about the two following centuries, after which it is probably reintroduced, now as a crop. It is found in several sites from the 3rd-4thcenturies CE onwards, suggesting it is a staple crop as in other regions in Europe. Significant differences in grain size are only recorded in a 10th-11thcentury settlement, suggesting few changes in grain morphometry before Medieval times.
Metabolomics during canine pregnancy and lactation
Authors: Arlt Sebastian P. , Ottka Claudia , Lohi Hannes , Hinderer Janna , Lüdeke Julia , Müller Elisabeth , Weber Corinna , Kohn Barbara , Bartel Alexander
Published: May 2023

During pregnancy and parturition, female dogs have to cope with various challenges such as providing nutrients for the growth of the fetuses, hormonal changes, whelping, nursing, milk production, and uterine involution. Metabolomic research has been used to characterize the influence of several factors on metabolism such as inter- and intra-individual factors, feeding, aging, inter-breed differences, drug action, behavior, exercise, genetic factors, neuter status, and pathologic processes. Aim of this study was to identify metabolites showing specific changes in blood serum at the different phases of pregnancy and lactation. In total, 27 privately owned female dogs of 21 different breeds were sampled at six time points: during heat, in early, mid and late pregnancy, at the suspected peak of lactation and after weaning. A validated and highly automated canine-specific NMR metabolomics technology was utilized to quantitate 123 measurands. It was evaluated which metabolite concentrations showed significant changes between the different time points. Metabolites were then grouped into five clusters based on concentration patterns and biochemical relationships between the metabolites: high in mid-pregnancy, low in mid-pregnancy, high in late pregnancy, high in lactation, and low in lactation. Several metabolites such as albumin, glycoprotein acetyls, fatty acids, lipoproteins, glucose, and some amino acids show similar patterns during pregnancy and lactation as shown in humans. The patterns of some other parameters such as branched-chain amino acids, alanine and histidine seem to differ between these species. For most metabolites, it is yet unstudied whether the observed changes arise from modified resorption from the intestines, modified production, or metabolism in the maternal or fetal tissues. Hence, further species-specific metabolomic research may support a broader understanding of the physiological changes caused by pregnancy that are likely to be key for the normal fetal growth and development. Our findings provide a baseline of normal metabolic changes during healthy canine pregnancy and parturition. Combined with future metabolomics findings, they may help monitor vital functions of pre-, intra-, and post-partum bitches and may allow early detection of illness.
Seasonal patterns of bird and bat collision fatalities at wind turbines
Authors: Lloyd John D. , Butryn Ryan , Pearman-Gillman Schuyler , Allison Taber D.
Published: May 2023

Information on when birds and bats die from collisions with wind turbines can help refine efforts to minimize fatalities via curtailment of energy productions and can offer insight into the risk factors associated with collision fatalities. Using data pooled from 114 post-construction monitoring studies conducted at wind facilities across the United States, we described seasonal patterns of fatalities among birds and bats. Bat fatalities peaked in the fall. Silver-haired bat (Lasionycteris noctivagans), a long-distance migrant, and Mexican free-tailed bat (Tadarida brasiliensis) both showed maximum fatality counts later in the year–October and November, respectively–than any other bat species. The other common species in our sample–hoary bat (Aeorestes cinereus), Eastern red bat (Lasiurus borealis), and big brown bat (Eptesicus fuscus)–showed broadly overlapping peaks of fatality counts in August. Fatalities of silver-haired bat showed a smaller spring peak in some ecoregions; no other bat species exhibited this pattern. Seasonal patterns of bird fatalities varied among guilds. Woodland birds, many of which were long-distance migrants, showed two peaks in fatalities corresponding to spring and fall migration. Grassland birds and soaring birds, most of which were resident or short-distance migrants, did not exhibit strong seasonal peaks in fatalities. Species in these guilds tend to inhabit regions with extensive wind-energy development year-round, which may explain the more consistent numbers of fatalities that we observed. Our results highlight the value of pooling data to develop science-based solutions to reduce conflicts between wind-energy development and wildlife but also emphasize the need for more extensive data and standardization of post-construction monitoring to support more robust inferences regarding wind-wildlife interactions and collision risk.
Comparative genomic analysis of Methylocystis sp. MJC1 as a platform strain for polyhydroxybutyrate biosynthesis
Authors: Naizabekov Sanzhar , Hyun Seung Woon , Na Jeong-Geol , Yoon Sukhwan , Lee Ok Kyung , Lee Eun Yeol
Published: May 2023

Biodegradable polyhydroxybutyrate (PHB) can be produced from methane by some type II methanotroph such as the genus Methylocystis. This study presents the comparative genomic analysis of a newly isolated methanotroph, Methylocystis sp. MJC1 as a biodegradable PHB-producing platform strain. Methylocystis sp. MJC1 accumulates up to 44.5% of PHB based on dry cell weight under nitrogen-limiting conditions. To facilitate its development as a PHB-producing platform strain, the complete genome sequence of Methylocystis sp. MJC1 was assembled, functionally annotated, and compared with genomes of other Methylocystis species. Phylogenetic analysis has shown that Methylocystis parvus to be the closest species to Methylocystis sp. MJC1. Genome functional annotation revealed that Methylocystis sp. MJC1 contains all major type II methanotroph biochemical pathways such as the serine cycle, EMC pathway, and Krebs cycle. Interestingly, Methylocystis sp. MJC1 has both particulate and soluble methane monooxygenases, which are not commonly found among Methylocystis species. In addition, this species also possesses most of the RuMP pathway reactions, a characteristic of type I methanotrophs, and all PHB biosynthetic genes. These comparative analysis would open the possibility of future practical applications such as the development of organism-specific genome-scale models and application of metabolic engineering strategies to Methylocystis sp. MJC1.
Heterozygosity for ADP-ribosylation factor 6 suppresses the burden and severity of atherosclerosis
Authors: Gogulamudi Venkateswara R. , Islam Md Torikul , Durrant Jessica R. , Adeyemo Adelola O. , Trott Daniel W. , Hyuhn Mi Ho , Zhu Weiquan , Donato Anthony J. , Walker Ashley E. , Lesniewski Lisa A.
Published: May 2023

Atherosclerosis is the root cause of major cardiovascular diseases (CVD) such as myocardial infarction and stroke. ADP-ribosylation factor 6 (Arf6) is a ubiquitously expressed GTPase known to be involved in inflammation, vascular permeability and is sensitive to changes in shear stress. Here, using atheroprone, ApoE-/- mice, with a single allele deletion of Arf6 (HET) or wildtype Arf6 (WT), we demonstrate that reduction in Arf6 attenuates atherosclerotic plaque burden and severity. We found that plaque burden in the descending aorta was lower in HET compared to WT mice (p˂0.001) after the consumption of an atherogenic Paigen diet for 5 weeks. Likewise, luminal occlusion, necrotic core size, plaque grade, elastic lamina breaks, and matrix deposition were lower in the aortic root atheromas of HET compared to WT mice (all p≤0.05). We also induced advanced human-like complex atherosclerotic plaque in the left carotid artery using partial carotid ligation surgery and found that atheroma area, plaque grade, intimal necrosis, intraplaque hemorrhage, thrombosis, and calcification were lower in HET compared to WT mice (all p≤0.04). Our findings suggest that the atheroprotection afforded by Arf6 heterozygosity may result from reduced immune cell migration (all p≤0.005) as well as endothelial and vascular smooth muscle cell proliferation (both p≤0.001) but independent of changes in circulating lipids (all p≥0.40). These findings demonstrate a critical role for Arf6 in the development and severity of atherosclerosis and suggest that Arf6 inhibition can be explored as a novel therapeutic strategy for the treatment of atherosclerotic CVD.
Bayesian composite quantile regression for the single-index model
Authors: Yuan Xiaohui , Xiang Xuefei , Zhang Xinran
Published: May 2023

By using a Gaussian process prior and a location-scale mixture representation of the asymmetric Laplace distribution, we develop a Bayesian analysis for the composite quantile single-index regression model. The posterior distributions for the unknown parameters are derived, and the Markov chain Monte Carlo sampling algorithms are also given. The proposed method is illustrated by three simulation examples and a real dataset.
Transcriptomic and biochemical analyses of drought response mechanism in mung bean (Vignaradiata (L.) Wilczek) leaves
Authors: Guo Yaning , Zhang Siyu , Ai Jing , Zhang Panpan , Yao Han , Liu Yunfei , Zhang Xiong
Published: May 2023

Drought is a major factor that limiting mung bean development. To clarify the molecular mechanism of mung bean in response to drought stress, 2 mung bean groups were established, the experimental group (drought-treated) and the control group (normal water management). With prominent difference of 2 groups in stomatal conductance, relative water content and phenotype, leaf samples were collected at 4 stages, and the physiological index of MDA, POD, chlorophyll, and soluble proteins were estimated. RNA-seq was used to obtain high quality data of samples, and differentially expressed genes were identified by DESeq2. With GO and KEGG analysis, DEGs were enriched into different classifications and pathways. WGCNA was used to detect the relationship between physiological traits and genes, and qPCR was performed to confirm the accuracy of the data. We obtained 169.49 Gb of clean data from 24 samples, and the Q30 of each date all exceeded 94%. In total, 8963 DEGs were identified at 4 stages between the control and treated samples, and the DEGs were involved in most biological processes. 1270 TFs screened from DEGs were clustered into 158 TF families, such as AP2, RLK-Pelle-DLSVA, and NAC TF families. Genes related to physiological traits were closely related to plant hormone signaling, carotenoid biosynthesis, chlorophyll metabolism, and protein processing. This paper provides a large amount of data for drought research in mung bean.