bluuebunny/crossref_metadata_2025_split huggingface dataset:
A soybean trypsin inhibitor reduces the resistance to transgenic maize in a population of Spodoptera frugiperda (Lepidoptera: Noctuidae)
Authors: Fonseca Sandy Sousa , Santos Ana Leticia Zero , Pinto Ciro Pedro Guidotti , Marques Luiz , Santos Antonio Cesar , Bing James , Nowatzki Timothy , Sethi Amit , Rossi Guilherme Duarte 
Published: October 2023

Abstract
Lepidopteran pests have been successfully managed by the adoption of insect resistant transgenic plants expressing Cry and/or Vip insecticidal proteins derived from Bacillus thuringiensis (Bt plants). Among such pests, Spodoptera frugiperda (Smith, 1797) (Lepidoptera: Noctuidae) is highlighted for its destructive potential in maize crops and for cases of field-evolved resistance to Bt plants. Cry insecticidal proteins expressed in Bt plants are known for their interaction with insect midgut receptors and subsequent midgut cell disruption that leads to target pest death. In the midgut of lepidopteran larval pests such as S. frugiperda, serine proteases are important in dietary protein digestion and activation or degradation of insecticidal proteins. This work was conducted to evaluate if the use of a soybean trypsin inhibitor (SBTI) could disrupt the development of a Bt-susceptible and a Bt-resistant population of S. frugiperda ingesting Bt (expressing Cry1F, Cry1A.105, and Cry2Ab2 Cry proteins) and non-Bt maize plants. The SBTI was produced and purified using recombinant expression in E. coli followed by purification in Ni-Sepharose. Bioassays using non-Bt maize leaves indicated that the development of susceptible and resistant populations of S. frugiperda was not influenced by the ingestion of SBTI. However, when the resistant population consumed Bt maize plants amended with SBTI, high mortality along with a reduction in larval weight and reduced activity of digestive trypsins were observed. Although the mode of action was not elucidated, it is possible that the consumption of SBTI increased susceptibility to Bt maize in the resistant population of S. frugiperda.
The invasive margin of early-stage human colon tumors is infiltrated with neutrophils of an antitumoral phenotype
Authors: Vadillo Eduardo , Mantilla Alejandra , Aguilar-Flores Cristina , De León-Rodríguez Saraí Gisel , Vela-Patiño Sandra , Badillo Juan , Taniguchi-Ponciano Keiko , Marrero-Rodríguez Daniel , Ramírez Lourdes , León-Vega Iliana Itzel , Fuentes-Castañeda Carmen , Piña-Sánchez Patricia , Prieto-Chávez Jessica Lakshmi , Pérez-Kondelkova Vadim , Montesinos Juan José , Bonifaz Laura , Pelayo Rosana , Mayani Héctor , Schnoor Michael 
Published: October 2023

Abstract
Neutrophils infiltrate several types of cancer; however, whether their presence is associated with disease progression remains controversial. Here, we show that colon tumors overexpress neutrophil chemoattractants compared to healthy tissues, leading to their recruitment to the invasive margin and the central part of colon tumors. Of note, tumor-associated neutrophils expressing tumor necrosis factor α, which usually represents an antitumoral phenotype, were predominantly located in the invasive margin. Tumor-associated neutrophils from the invasive margin displayed an antitumoral phenotype with higher ICAM-1 and CD95 expression than neutrophils from healthy adjacent tissues. A higher neutrophil/lymphocyte ratio was found at later stages compared to the early phases of colon cancer. A neutrophil/lymphocyte ratio ≤3.5 predicted tumor samples had significantly more neutrophils at the invasive margin and the central part. Moreover, tumor-associated neutrophils at the invasive margin of early-stage tumors showed higher ICAM-1 and CD95 expression. Coculture of colon cancer cell lines with primary neutrophils induced ICAM-1 and CD95 expression, confirming our in situ findings. Thus, our data demonstrate that tumor-associated neutrophils with an antitumoral phenotype characterized by high ICAM-1 and CD95 expression infiltrate the invasive margin of early-stage colon tumors, suggesting that these cells can combat the disease at its early courses. The presence of tumor-associated neutrophils with antitumoral phenotype could help predict outcomes of patients with colon cancer.
Thyroid cancer risk after radiation exposure in adults—systematic review and meta-analysis
Authors: Mirkatouli Nafiseh Beygom , Hirota Seiko , Yoshinaga Shinji 
Published: October 2023

Abstract
Notably, the growing use of radionuclear technology, especially in diagnostic and therapeutic procedures involving radiation exposure, raises concerns about the health effects of radiation. Although epidemiological studies have provided strong evidence for elevated thyroid cancer risk after radiation exposure in childhood, the risk of thyroid cancer associated with adult exposure remains to be investigated. We conducted a systematic review and meta-analysis of relevant studies on the risk of developing thyroid cancer after radiation exposure in adulthood. The PubMed and Web of Science databases were used to select eligible articles. After screening, a total of 15 studies were identified in which estimates of the standardized incidence ratio (SIR) and the relative risk (RR) of thyroid cancer were available in 8 and 11 studies, respectively. The overall SIR estimated by the random effects model was 2.19 [95% confidence interval (CI), 1.54, 3.10]. Cochran’s Q test showed significant heterogeneity in the SIRs (Q = 178, P &lt; 0.0001). The overall RR at 10 mGy was 1.0038 (95% CI, 0.9991, 1.0085), with no significant heterogeneity (Q = 9.30, P = 0.5041). The total SIR, as well as that from each study, indicated a statistically significant excess, which could be related to screening bias. Radiation-related thyroid cancer risk was elevated in a few studies; however, the overall estimate of the RR at 10 mGy was not significant. This study demonstrates no strong epidemiological evidence for the risk of thyroid cancer in radiation exposure during adulthood; however, further research is needed.
Superior protein thermophilicity prediction with protein language model embeddings
Authors: Haselbeck Florian , John Maura , Zhang Yuqi , Pirnay Jonathan , Fuenzalida-Werner Juan Pablo , Costa Rubén D , Grimm Dominik G 
Published: October 2023

Abstract
Protein thermostability is important in many areas of biotechnology, including enzyme engineering and protein-hybrid optoelectronics. Ever-growing protein databases and information on stability at different temperatures allow the training of machine learning models to predict whether proteins are thermophilic. In silico predictions could reduce costs and accelerate the development process by guiding researchers to more promising candidates. Existing models for predicting protein thermophilicity rely mainly on features derived from physicochemical properties. Recently, modern protein language models that directly use sequence information have demonstrated superior performance in several tasks. In this study, we evaluate the usefulness of protein language model embeddings for thermophilicity prediction with ProLaTherm, a Protein Language model-based Thermophilicity predictor. ProLaTherm significantly outperforms all feature-, sequence- and literature-based comparison partners on multiple evaluation metrics. In terms of the Matthew’s correlation coefficient, ProLaTherm outperforms the second-best competitor by 18.1% in a nested cross-validation setup. Using proteins from species not overlapping with species from the training data, ProLaTherm outperforms all competitors by at least 9.7%. On these data, it misclassified only one nonthermophilic protein as thermophilic. Furthermore, it correctly identified 97.4% of all thermophilic proteins in our test set with an optimal growth temperature above 70°C.
Mean global DNA methylation serves as independent prognostic marker in IDH-wildtype glioblastoma
Authors: Eckhardt Alicia , Drexler Richard , Schoof Melanie , Struve Nina , Capper David , Jelgersma Claudius , Onken Julia , Harter Patrick N , Weber Katharina J , Divé Iris , Rothkamm Kai , Hoffer Konstantin , Klumpp Lukas , Ganser Katrin , Petersen Cordula , Ricklefs Franz , Kriegs Malte , Schüller Ulrich 
Published: October 2023

Abstract

Background
The IDH-wildtype glioblastoma (GBM) patients have a devastating prognosis. Here, we analyzed the potential prognostic value of global DNA methylation of the tumors.

Methods
DNA methylation of 492 primary samples and 31 relapsed samples, each treated with combination therapy, and of 148 primary samples treated with radiation alone were compared with patient survival. We determined the mean methylation values and estimated the immune cell infiltration from the methylation data. Moreover, the mean global DNA methylation of 23 GBM cell lines was profiled and correlated to their cellular radiosensitivity as measured by colony formation assay.

Results
High mean DNA methylation levels correlated with improved survival, which was independent from known risk factors (MGMT promoter methylation, age, extent of resection; P = 0.009) and methylation subgroups. Notably, this correlation was also independent of immune cell infiltration, as higher number of immune cells indeed was associated with significantly better OS but lower mean methylation. Radiosensitive GBM cell lines had a significantly higher mean methylation than resistant lines (P = 0.007), and improved OS of patients treated with radiotherapy alone was also associated with higher DNA methylation (P = 0.002). Furthermore, specimens of relapsed GBM revealed a significantly lower mean DNA methylation compared to the matching primary tumor samples (P = 0.041).

Conclusions
Our results indicate that mean global DNA methylation is independently associated with outcome in glioblastoma. The data also suggest that a higher DNA methylation is associated with better radiotherapy response and less aggressive phenotype, both of which presumably contribute to the observed correlation with OS.
Cooperative ligand binding to a double-stranded Ising lattice—Application to cofilin binding to actin filaments
Authors: Cao Wenxiang , Taylor Edwin W , De La Cruz Enrique M 
Published: October 2023

AbstractCooperative ligand binding to linear polymers is fundamental in many scientific disciplines, particularly biological and chemical physics and engineering. Such ligand binding interactions have been widely modeled using infinite one-dimensional (1D) Ising models even in cases where the linear polymers are more complex (e.g. actin filaments and other double-stranded linear polymers). Here, we use sequence-generating and transfer matrix methods to obtain an analytical method for cooperative equilibrium ligand binding to double-stranded Ising lattices. We use this exact solution to evaluate binding properties and features and analyze experimental binding data of cooperative binding of the regulatory protein, cofilin, to actin filaments. This analysis, with additional experimental information about the observed bound cofilin cluster sizes and filament structure, reveals that a bound cofilin promotes cooperative binding to its longitudinal nearest-neighbors but has very modest effects on lateral nearest-neighbors. The bound cofilin cluster sizes calculated from the best fit parameters from the double-stranded model are considerably larger than when calculated with the 1D model, consistent with experimental observations made by electron microscopy and fluorescence imaging. The exact solution obtained and the method for using the solution developed here can be widely used for analysis of variety of multistranded lattice systems.
Type and frequency of wild pig-domestic livestock contacts and operator concern for disease spread
Authors: McKee Sophie C , Mooney Daniel F , Miller Ryan S 
Published: October 2023

Abstract
Wild pigs (Sus scrofa) can levy substantial costs to domestic livestock operations and global supply chains due to disease introduction. Producers can take defensive action to avert these costs, but the factors influencing these decisions are not well understood. We examined survey data to characterize the type and frequency of contacts between wild pigs and domestic livestock and investigated the determinants of farm operator concern for disease introduction using an ordered logit model. We found that operators with livestock kept in buildings were more concerned about disease than those with livestock kept in fenced areas or that roam free. However, the latter are at greater risk due to more frequent reported contacts with wild pigs. Results indicate that concern is significantly associated with other characteristics of farm operations, such as operation size, perceived change in wild pig populations, and respondent demographics. Developing a better understanding of the factors influencing operator concern for disease spread can contribute to the improved design of prevention policy targeting small-scale livestock producers. This could help ensure the continued safety of livestock supply chains and reduce the risk of disease-related trade restrictions, along with continued support for disease surveillance and monitoring at the national scale, and prolonged control of domestic vectors such as invasive wild pigs, specifically in regions with the most small operations.
Rituximab, but not other biologics, impairs humoral immunity in patients with rheumatoid arthritis—a study using CoVariant protein arrays
Authors: Lin Wei-Hsun , Du Pin-Xian , Tsai Pei-Shan , Keskin Batuhan Birol , Su Wen-Yu , Lee Nan-Yao , Ko Wen-Chien , Lin Pei-Chun , Shih Hsi-Chang , Weng Meng-Yu , Syu Guan-Da 
Published: October 2023

Abstract

Objectives
RA is an autoimmune disease characterized by chronic inflammation and joint destruction. Biologics are crucial to achieving treat-to-target goals in patients with RA. The global spread and continuous variation of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) necessitate the monitoring of variant-specific humoral responses post-vaccination. The aim of this study was to investigate how different biologic treatments for vaccinated RA patients might affect their neutralizing antibodies against multiple SARS-CoV-2 variants.

Methods
We recruited RA patients who had received three doses of conventional SARS-CoV-2 vaccines and were treated with various biologics, e.g. TNF inhibitor (etanercept), IL-6 inhibitor (tocilizumab), CTLA4-Ig (abatacept) or anti-CD20 (rituximab). Serum samples were used to profile the binding and neutralizing antibodies using our own SARS-CoV-2 variant (CoVariant) protein array, developed previously.

Results
Compared with healthy controls, only RA therapy with rituximab showed a reduction in neutralizing antibodies capable of targeting spike proteins in SARS-CoV-2 wild-type and most variants. This reduction was not observed in binding antibodies against SARS-CoV-2 wild-type or its variants.

Conclusion
After receiving three doses of SARS-CoV-2 vaccination, RA patients who underwent rituximab treatment generated sufficient antibodies but exhibited lower neutralizing activities against wild-type and multiple variants, including current Omicron. Other biological DMARDs, e.g. TNF inhibitor, IL-6 inhibitor and CTLA4-Ig, did not show obvious inhibition.
Neutron dose assessment in laser-generated ultra-short pulsed fields
Authors: Olšovcová Veronika , Ambrožová Iva , Cimmino Anna , Horváth Dávid , Lefebvre Benoit , Ploc Ondřej , Stránský Vojtěch , Truneček Roman , Versaci Roberto 
Published: October 2023

Abstract
ELI Beamlines is one of the pillars of the Extreme Light Infrastructure European Research Infrastructure Consortium (ELI ERIC), the European project aiming at building the next generation of high power lasers for fundamental research and industrial applications. Several high-power lasers are hosted by the ELI Beamlines facility. Even at a power lower than the nominal one, when interacting with a target, the laser can generate mixed ionizing radiation fields of unique nature. One of the major laser systems, High-repetition-rate advanced petawatt laser system (HAPLS) was already used in commissioning experiments. Detecting the neutrons generated during these experiments has been a challenging task, since certain difficulties were faced. First, the experimental conditions were frequently altered during the commissioning phase (such as laser beam parameters, experimental geometry or target type). Next, the extremely short duration of the ionizing radiation pulse generated by the laser (~10−14 s) complicated the correct interpretation of the data provided by the detectors designed and calibrated in standard fields. Here, one commissioning experiment is described, together with the means of addressing the problem of the detection of the ionizing radiation and the lessons learned in this endeavour.
Development of a new integrated IN-VIVO counting system at the QST
Authors: Tamakuma Yuki , Naito Masayuki , Yang Guosheng , Tani Kotaro , Yajima Kazuaki , Kim Eunjoo , Kowatari Munehiko , Kurihara Osamu 
Published: October 2023

Abstract
A new in-vivo counting system that functions as both a whole-body counter (WBC) and a lung counter (LC) was developed at the QST to enhance its dose assessment capability. This paper presents an overview of this system and the results of its performance tests. For use of the system as a WBC, three high purity germanium (HPGe) detectors installed in a 20-cm-thick iron shielding chamber are linearly arrayed over a subject lying on the bed, whereas two of the three HPGe detectors are placed over the subject’s chest from side to side when using the system as an LC. The new in-vivo system was calibrated using three de-facto phantoms owned by the QST: an adult-male BOttle Manikin ABsorption (BOMAB) phantom, a Lawrence Livermore National Laboratory (LLNL) phantom and a Japan Atomic Energy Research Institute (JAERI) phantom. Monte Carlo simulations were also performed to determine an optimum location for the three detector array in the WBC mode and revealed that the peak efficiency for the BOMAB phantom (662 keV) was little varied as long as the middle detector was placed above the thorax and abdomen parts of the phantom. The calculated peak efficiencies agreed well with the observed peak efficiencies for photons with energies over 100 keV. For lung counting, a tentative Minimum Detectable Activity of 241Am was evaluated as 9.5 Bq for a counting time of 30 minutes, and a Japanese male subject with an average chest wall thinness (2.27 cm). The developed system is now ready for use.
Revision of the 21909 standard on passive personal neutron dosemeters
Authors: Chevallier Marie-Anne , Quéinnec François 
Published: October 2023

Abstract
Since 2012, International Standardization Organization TC85/SC2 Working Group 19 dealing with ‘Individual monitoring for external radiations’ has been conducting important work revising the 21909 standard on passive personal neutron dosemeters. A consensus in the community acted that the 2005 version( 1) needed to be revised for two main reasons: (1) to achieve a document applicable to all systems irrespectively to the considered techniques and (2) to reach harmonisation between performance tests and conditions of use at the workplaces. The document was completely rewritten to be binding enough to ensure that any neutron dosimetry system fulfilling the criteria would be reliable in most of the usual work situations, in terms of dose level, energy and direction distributions of the neutron fluence. This paper explains the reasons behind the revision and the new philosophy of the series published in 2021, so that Individual Monitoring Services may better understand how to apply the requirements in practice.
Latitudinal effect on the position of Regener–Pfotzer maximum investigated by balloon flight HEMERA 2019 in Sweden and balloon flights FIK in Czechia
Authors: Ambrožová Iva , Kákona Martin , Dvořák Roman , Kákona Jakub , Lužová Martina , Povišer Martin , Sommer Marek , Velychko Olena , Ploc Ondřej 
Published: October 2023

Abstract
When primary space radiation particles enter into the atmosphere of the Earth, they generate showers of secondary radiation. The intensity of secondary radiation reaches its maximum, called the Regener–Pfotzer maximum; its exact position depends on the geomagnetic effective vertical cut-off rigidity, the phase of the solar cycle and also on the type of detected particles. In this paper, several balloon flight experiments are described focusing on the study of the latitudinal effect on the position of the Regener–Pfotzer maximum. Altitude profile of ionization in the atmosphere was measured using radiation detectors flown during several flights at locations with different effective vertical cut-off rigidities (flight HEMERA over Sweden and flights FIK-5 and FIK-6 over Czech Republic). The measured results are supplemented also with simulations using EXPACS 4.11 and the variation of obtained positions of Regener–Pfotzer maximum is discussed.
Analysis of EURADOS neutron intercomparison results according to new ISO standards criteria
Authors: Chevallier M-A , Fantuzzi E , Hajek M , Mayer S , Tanner R , Thomas D J , Vanhavere F 
Published: October 2023

Abstract
The European Radiation Dosimetry Group has carried out several different types of intercomparison (IC) exercises in the past that qualify as proficiency tests for different dosimetry systems and types of radiation. The first neutron dosemeter IC was held in 2012 (IC2012n) and was followed by a second in 2017/2018 (IC2017n). In sum, 31 Individual Monitoring Services (IMSs) entered 34 dosimetry systems in IC2012n, and 32 IMSs entered 33 dosimetry systems for IC2017n. Such exercises provided a rare opportunity to see how neutron dosemeters perform. For the IC2012n exercise, there were no applicable performance standards for neutron personal dosemeters. ISO/TC85/SC2 updated the ISO Standard 14146 in 2018 (ISO 14146:2018. Radiation protection—Criteria and performance limits for the periodic evaluation of dosimetry services) to include neutron dosimetry. It was thus possible to analyse the IC2017n exercise in accordance with the requirements given by this new standard. It is now of interest to reanalyse the results of IC2012n to quantify any modifications to the conclusions.
Screening levels of TCS-172 NaI(Tl) survey meters used for direct thyroid measurements in nuclear disasters
Authors: Kim Eunjoo , Yajima Kazuaki , Tani Kotaro , Takashima Yoshio , Ishigure Nobuhito , Beaumont Tiffany , Broggio David , Kurihara Osamu 
Published: October 2023

Abstract
It is a challenging task to establish a feasible and robust method for the population monitoring of individuals’ thyroid exposure following an accidental intake of radioiodines in a nuclear emergency, because of the time restriction. The authors previously proposed a method for such monitoring to obtain as many reliable human data as possible and one of the components is simplified measurements by conventional NaI(Tl) survey meters that are intended to be used for the initial triage to identify significantly exposed individuals and get an overall picture of the exposure levels in a target population in a timely manner. This study determined screening levels (SLs) for a conventional NaI(Tl) survey meter (model TCS-172, Hitachi, Japan) using the conversion factor (131I kBq in the thyroid per μSv h−1) that were obtained from experiments and simulations with age-specific phantoms. The results demonstrated that the derived SLs for 100 mSv thyroid equivalent dose were as follows: 0.2 μSv h−1 (SL1) for the age group ≤ 5-y-olds, 0.5 μSv h−1 (SL2) for the 10- and 15-y-old age groups and 1.0 μSv h−1 (SL3) for adults. These SLs would be reasonably available within 1 week after the intake of 131I on the safe side.