bluuebunny/crossref_metadata_2025_split huggingface dataset:
Atomistic simulations of the Escherichia coli ribosome provide selection criteria for translationally active substrates
Authors: Watson Zoe L. , Knudson Isaac J. , Ward Fred R. , Miller Scott J. , Cate Jamie H. D. , Schepartz Alanna , Abramyan Ara M. 
Published: June 2023

AbstractAs genetic code expansion advances beyond l-α-amino acids to backbone modifications and new polymerization chemistries, delineating what substrates the ribosome can accommodate remains a challenge. The Escherichia coli ribosome tolerates non-l-α-amino acids in vitro, but few structural insights that explain how are available, and the boundary conditions for efficient bond formation are so far unknown. Here we determine a high-resolution cryogenic electron microscopy structure of the E. coli ribosome containing α-amino acid monomers and use metadynamics simulations to define energy surface minima and understand incorporation efficiencies. Reactive monomers across diverse structural classes favour a conformational space where the aminoacyl-tRNA nucleophile is <4 Å from the peptidyl-tRNA carbonyl with a Bürgi–Dunitz angle of 76–115°. Monomers with free energy minima that fall outside this conformational space do not react efficiently. This insight should accelerate the in vivo and in vitro ribosomal synthesis of sequence-defined, non-peptide heterooligomers.
Slowdown of Antarctic Bottom Water export driven by climatic wind and sea-ice changes
Authors: Zhou Shenjie , Meijers Andrew J. S. , Meredith Michael P. , Abrahamsen E. Povl , Holland Paul R. , Silvano Alessandro , Sallée Jean-Baptiste , Østerhus Svein 
Published: June 2023

AbstractAntarctic Bottom Water (AABW) is pivotal for oceanic heat and carbon sequestrations on multidecadal to millennial timescales. The Weddell Sea contributes nearly a half of global AABW through Weddell Sea Deep Water and denser underlying Weddell Sea Bottom Water that form on the continental shelves via sea-ice production. Here we report an observed 30% reduction of Weddell Sea Bottom Water volume since 1992, with the largest decrease in the densest classes. This is probably driven by a multidecadal reduction in dense-water production over southern continental shelf associated with a >40% decline in the sea-ice formation rate. The ice production decrease is driven by northerly wind trend, related to a phase transition of the Interdecadal Pacific Oscillation since the early 1990s, superposed by Amundsen Sea Low intrinsic variability. These results reveal key influences on exported AABW to the Atlantic abyss and their sensitivity to large-scale, multidecadal climate variability.
Extended embryo retention and viviparity in the first amniotes
Authors: Jiang Baoyu , He Yiming , Elsler Armin , Wang Shengyu , Keating Joseph N. , Song Junyi , Kearns Stuart L. , Benton Michael J. 
Published: June 2023

AbstractThe amniotic egg with its complex fetal membranes was a key innovation in vertebrate evolution that enabled the great diversification of reptiles, birds and mammals. It is debated whether these fetal membranes evolved in eggs on land as an adaptation to the terrestrial environment or to control antagonistic fetal–maternal interaction in association with extended embryo retention (EER). Here we report an oviparous choristodere from the Lower Cretaceous period of northeast China. The ossification sequence of the embryo confirms that choristoderes are basal archosauromorphs. The discovery of oviparity in this assumed viviparous extinct clade, together with existing evidence, suggests that EER was the primitive reproductive mode in basal archosauromorphs. Phylogenetic comparative analyses on extant and extinct amniotes suggest that the first amniote displayed EER (including viviparity).
A peptide triple agonist of GLP-1, neuropeptide Y1, and neuropeptide Y2 receptors promotes glycemic control and weight loss
Authors: Chichura Kylie S. , Elfers Clinton T. , Salameh Therese S. , Kamat Varun , Chepurny Oleg G. , McGivney Aelish , Milliken Brandon T. , Holz George G. , Applebey Sarah V. , Hayes Matthew R. , Sweet Ian R. , Roth Christian L. , Doyle Robert P. 
Published: June 2023

AbstractMechanisms underlying long-term sustained weight loss and glycemic normalization after obesity surgery include changes in gut hormone levels, including glucagon-like peptide 1 (GLP-1) and peptide YY (PYY). We demonstrate that two peptide biased agonists (GEP44 and GEP12) of the GLP-1, neuropeptide Y1, and neuropeptide Y2 receptors (GLP-1R, Y1-R, and Y2-R, respectively) elicit Y1-R antagonist-controlled, GLP-1R-dependent stimulation of insulin secretion in both rat and human pancreatic islets, thus revealing the counteracting effects of Y1-R and GLP-1R agonism. These agonists also promote insulin-independent Y1-R-mediated glucose uptake in muscle tissue ex vivo and more profound reductions in food intake and body weight than liraglutide when administered to diet-induced obese rats. Our findings support a role for Y1-R signaling in glucoregulation and highlight the therapeutic potential of simultaneous receptor targeting to achieve long-term benefits for millions of patients.
Experiments on real-life emotions challenge Ekman's model
Authors: Coppini Sara , Lucifora Chiara , Vicario Carmelo M. , Gangemi Aldo 
Published: June 2023

AbstractEkman's emotions (1992) are defined as universal basic emotions. Over the years, alternative models have emerged (e.g. Greene and Haidt 2002; Barrett 2017) describing emotions as social and linguistic constructions. The variety of models existing today raises the question of whether the abstraction provided by such models is sufficient as a descriptive/predictive tool for representing real-life emotional situations. Our study presents a social inquiry to test whether traditional models are sufficient to capture the complexity of daily life emotions, reported in a textual context. The intent of the study is to establish the human-subject agreement rate in an annotated corpus based on Ekman's theory (Entity-Level Tweets Emotional Analysis) and the human-subject agreement rate when using Ekman's emotions to annotate sentences that don’t respect the Ekman’s model (The Dictionary of Obscure Sorrows). Furthermore, we investigated how much alexithymia can influence the human ability to detect and categorise emotions. On a total sample of 114 subjects, our results show low within subjects agreement rates for both datasets, particularly for subjects with low levels of alexithymia; low levels of agreement with the original annotations; frequent use of emotions based on Ekman model, particularly negative one, in people with high levels of alexithymia.
Low-loss MIMO antenna wireless communication system for 5G cardiac pacemakers
Authors: Sharma Deepti , Kanaujia Binod Kumar , Kumar Sachin , Rambabu Karumudi , Matekovits Ladislau 
Published: June 2023

AbstractCardiovascular diseases (CVDs) are one of the leading causes of death globally. The Internet of things (IoT) enabled with industrial, scientific, and medical (ISM) bands (2.45 and 5.8 GHz) facilitates pacemakers to remotely share heart health data to medical professionals. For the first time, communication between a compact dual-band two-port multiple-input-multiple-output (MIMO) antenna (integrated inside the leadless pacemaker) and an outside-body dual-band two-port MIMO antenna in the ISM 2.45 and 5.8 GHz frequency bands is demonstrated in this work. The proposed communication system offers an attractive solution for cardiac pacemakers as it can operate on a 5G IoT platform while also being compatible with existing 4G standards. The experimental verification of the proposed MIMO antenna low-loss communication capability is also presented by comparing it to the existing single–input–single–output communication between the leadless pacemaker and outside body monitoring device.
Impact of COVID-19 prevention and control on tuberculosis and scarlet fever in China’s Guizhou
Authors: Zhou Jian , Chen Hui-Juan , Lu Ting-Jia , Chen Pu , Zhuang Yan , Li Jin-Lan 
Published: June 2023

AbstractChina has implemented a series of long-term measures to control the spread of COVID-19, however, the effects of these measures on other chronic and acute respiratory infectious diseases remain unclear. Tuberculosis (TB) and scarlet fever (SF) serve as representatives of chronic and acute respiratory infectious diseases, respectively. In China’s Guizhou province, an area with a high prevalence of TB and SF, approximately 40,000 TB cases and hundreds of SF cases are reported annually. To assess the impact of COVID-19 prevention and control on TB and SF in Guizhou, the exponential smoothing method was employed to establish a prediction model for analyzing the influence of COVID-19 prevention and control on the number of TB and SF cases. Additionally, spatial aggregation analysis was utilized to describe spatial changes in TB and SF before and after the COVID-19 outbreak. The parameters of the TB and SF prediction models are R2 = 0.856, BIC = 10.972 and R2 = 0.714, BIC = 5.325, respectively. TB and SF cases declined rapidly at the onset of COVID-19 prevention and control measures, with the number of SF cases decreasing for about 3–6 months and the number of TB cases remaining in decline for 7 months after the 11th month. The spatial aggregation of TB and SF did not change significantly before and after the COVID-19 outbreak but exhibited a marked decrease. These findings suggest that China’s COVID-19 prevention and control measures also reduced the prevalence of TB and SF in Guizhou. These measures may have a long-term positive impact on TB, but a short-term effect on SF. Areas with high TB prevalence may continue to experience a decline due to the implementation of COVID-19 preventive measures in the future.
The WASH-complex subunit Strumpellin regulates integrin αIIbβ3 trafficking in murine platelets
Authors: Schurr Yvonne , Reil Lucy , Spindler Markus , Nieswandt Bernhard , Machesky Laura M. , Bender Markus 
Published: June 2023

AbstractThe platelet specific integrin αIIbβ3 mediates platelet adhesion, aggregation and plays a central role in thrombosis and hemostasis. In resting platelets, αIIbβ3 is expressed on the membrane surface and in intracellular compartments. Upon activation, the number of surface-expressed αIIbβ3 is increased by the translocation of internal granule pools to the plasma membrane. The WASH complex is the major endosomal actin polymerization-promoting complex and has been implicated in the generation of actin networks involved in endocytic trafficking of integrins in other cell types. The role of the WASH complex and its subunit Strumpellin in platelet function is still unknown. Here, we report that Strumpellin-deficient murine platelets display an approximately 20% reduction in integrin αIIbβ3 surface expression. While exposure of the internal αIIbβ3 pool after platelet activation was unaffected, the uptake of the αIIbβ3 ligand fibrinogen was delayed. The number of platelet α-granules was slightly but significantly increased in Strumpellin-deficient platelets. Quantitative proteome analysis of isolated αIIbβ3-positive vesicular structures revealed an enrichment of protein markers, which are associated with the endoplasmic reticulum, Golgi complex and early endosomes in Strumpellin-deficient platelets. These results point to a so far unidentified role of the WASH complex subunit Strumpellin in integrin αIIbβ3 trafficking in murine platelets.
Factors affecting Hemoglobin A1c in the longitudinal study of the Iranian population using mixed quantile regression
Authors: Bahrampour Abbas , Haji-Maghsoudi Saiedeh 
Published: June 2023

AbstractDiabetes, a major non-communicable disease, presents challenges for healthcare systems worldwide. Traditional regression models focus on mean effects, but factors can impact the entire distribution of responses over time. Linear mixed quantile regression models (LQMMs) address this issue. A study involving 2791 diabetic patients in Iran explored the relationship between Hemoglobin A1c (HbA1c) levels and factors such as age, sex, body mass index (BMI), disease duration, cholesterol, triglycerides, ischemic heart disease, and treatments (insulin, oral anti-diabetic drugs, and combination). LQMM analysis examined the association between HbA1c and the explanatory variables. Associations between cholesterol, triglycerides, ischemic heart disease (IHD), insulin, oral anti-diabetic drugs (OADs), a combination of OADs and insulin, and HbA1c levels exhibited varying degrees of correlation across all quantiles (p < 0.05), demonstrating a positive effect. While BMI did not display significant effects in the lower quantiles (p > 0.05), it was found to be significant in the higher quantiles (p < 0.05). The impact of disease duration differed between the low and high quantiles (specifically at the quantiles of 5, 50, and 75; p < 0.05). Age was discovered to have an association with HbA1c in the higher quantiles (specifically at the quantiles of 50, 75, and 95; p < 0.05). The findings reveal important associations and shed light on how these relationships may vary across different quantiles and over time. These insights can serve as guidance for devising effective strategies to manage and monitor HbA1c levels.
Prenatal folic acid supplement/dietary folate and cognitive development in 4-year-old offspring from the Japan Environment and Children’s Study
Authors: Nishigori Hidekazu , Nishigori Toshie , Obara Taku , Suzuki Taeko , Mori Miyuki , Imaizumi Karin , Murata Tsuyoshi , Kyozuka Hyo , Ogata Yuka , Sato Akiko , Shinoki Kosei , Yasumura Seiji , Hosoya Mitsuaki , Hashimoto Koichi , Fujimori Keiya ,   The Japan Environment and Children’s Study (JECS) Group, Kamijima Michihiro , Yamazaki Shin , Ohya Yukihiro , Kishi Reiko , Yaegashi Nobuo , Hashimoto Koichi , Mori Chisato , Ito Shuichi , Yamagata Zentaro , Inadera Hidekuni , Nakayama Takeo , Sofue Tomotaka , Shima Masayuki , Nakamura Hiroshige , Suganuma Narufumi , Kusuhara Koichi , Katoh Takahiko 
Published: June 2023

AbstractWe evaluated the association between maternal prenatal folic acid supplement use/dietary folate intake and cognitive development in 4-year-old offspring (N = 3445) using data from the Japan Environment and Children’s Study. Cognitive development was evaluated using the Kyoto Scale of Psychological Development 2001. Multiple regression analysis revealed that offspring of mothers who started using folic acid supplements pre-conception had a significantly higher language-social developmental quotient (DQ) (partial regression coefficient 1.981, 95% confidence interval 0.091 to 3.872) than offspring of mothers who did not use such supplements at any time throughout their pregnancy (non-users). Offspring of mothers who started using folic acid supplements within 12 weeks of gestation had a significantly higher cognitive-adaptive (1.489, 0.312 to 2.667) and language-social (1.873, 0.586 to 3.159) DQ than offspring of non-users. Regarding daily dietary folate intake from preconception to early pregnancy, multiple regression analysis revealed that there was no significant association with any DQ area in the 200 to < 400 µg and the ≥ 400 µg groups compared with the < 200 µg group. Maternal prenatal folic acid supplementation starting within 12 weeks of gestation (but not adequate dietary folate intake from preconception to early pregnancy) is positively associated with cognitive development in 4-year-old offspring.
Full-scale network analysis reveals properties of the FV protein structure organization
Authors: Ferreira-Martins André J. , Castaldoni Rodrigo , Alencar Brenno M. , Ferreira Marcos V. , Nogueira Tatiane , Rios Ricardo A. , Lopes Tiago J. S. 
Published: June 2023

AbstractBlood coagulation is a vital process for humans and other species. Following an injury to a blood vessel, a cascade of molecular signals is transmitted, inhibiting and activating more than a dozen coagulation factors and resulting in the formation of a fibrin clot that ceases the bleeding. In this process, the Coagulation factor V (FV) is a master regulator, coordinating critical steps of this process. Mutations to this factor result in spontaneous bleeding episodes and prolonged hemorrhage after trauma or surgery. Although the role of FV is well characterized, it is unclear how single-point mutations affect its structure. In this study, to understand the effect of mutations, we created a detailed network map of this protein, where each node is a residue, and two residues are connected if they are in close proximity in the three-dimensional structure. Overall, we analyzed 63 point-mutations from patients and identified common patterns underlying FV deficient phenotypes. We used structural and evolutionary patterns as input to machine learning algorithms to anticipate the effects of mutations and anticipated FV-deficiency with fair accuracy. Together, our results demonstrate how clinical features, genetic data and in silico analysis are converging to enhance treatment and diagnosis of coagulation disorders.
Morphological and metabolomics profiling of intraspecific Arabidopsis hybrids in relation to biomass heterosis
Authors: Le Quynh Thi Ngoc , Sugi Naoya , Yamaguchi Masaaki , Hirayama Touko , Kobayashi Makoto , Suzuki Yutaka , Kusano Miyako , Shiba Hiroshi 
Published: June 2023

AbstractHeterosis contributes greatly to the worldwide agricultural yield. However, the molecular mechanism underlying heterosis remains unclear. This study took advantage ofArabidopsisintraspecific hybrids to identify heterosis-related metabolites. Forty-six intraspecific hybrids were used to examine parental effects on seed area and germination time. The degree of heterosis was evaluated based on biomass: combinations showing high heterosis of F1hybrids exhibited a biomass increase from 6.1 to 44% over the better parent value (BPV), whereas that of the low- and no-heterosis hybrids ranged from − 19.8 to 9.8% over the BPV. Metabolomics analyses of F1hybrids with high heterosis and those with low one suggested that changes in TCA cycle intermediates are key factors that control growth. Notably, higher fumarate/malate ratios were observed in the high heterosis F1hybrids, suggesting they provide metabolic support associated with the increased biomass. These hybrids may produce more energy-intensive biomass by speeding up the efficiency of TCA fluxes. However, the expression levels of TCA-process-related genes in F1hybrids were not associated with the intensity of heterosis, suggesting that the post-transcriptional or post-translational regulation of these genes may affect the productivity of the intermediates in the TCA cycle.
Negative phototaxis of jumping cocooned parasitoid wasp larvae against short wavelengths and physicochemical properties of the cocoon shell
Authors: Iwase Shun-ichiro , Tuda Midori , Sugawara Yuma , Fukuda Katsuto , Miksanek James R. , Watanabe Midori 
Published: June 2023

AbstractThe parasitoid wasp Bathyplectes anurus (Hymenoptera: Ichneumonidae: Campopleginae) is a successful biocontrol agent against the alfalfa weevil, Hypera postica. This weevil is a serious pest of beneficial fabaceous plants such as alfalfa and Chinese milk vetch. One of the possible reasons for the success of this wasp in hot climates may be the ability of its cocooned larvae to repeatedly jump and roll until they relocate themselves away from detrimental sunlight and heat. It is not yet known which wavelengths of light trigger this avoidance behavior or the microstructure of the cocoon shell that might allow light transmission. Here, the response of the cocooned larvae to different wavelengths, and the microstructure, hardness, and elemental components of the cocoon shell were studied. A population of cocooned larvae were introduced on the boundary line between illuminated and shaded areas with blue, green, red, or near-infrared light-emitting diodes. The cocoons moved away from the blue and green light. The distance from the boundary to the cocoons in the shaded area was longer under these long wavelengths, followed by the red light and shortest under the near-infrared light and nil under darkness. No difference was found in mortality between different wavelengths after three days of illumination. Scanning electron microscope observations of the surface of the cocoon shell revealed that the belt-like central ridge was porous, which likely allows ventilation and light transmission. The surface of the cocoon shell showed a uniform distribution of sulfur, potentially aiding in the capture of green wavelengths. The ridge had twice the thickness of the main body and was 1.9 times harder than the main body. These results may be applied to better understand the individual responses of this biological control agent to modifications to their environment, including light pollution.
Modeling study of divertor particle flow pattern and in–out plasma density asymmetry due to drifts with SOLPS and BOUT++
Authors: Deng Guozhong , Yu Changhui , Wang Xiaomei , Feng Wei , Liu Xiaoju , Yang Haihua 
Published: June 2023

AbstractA study of the effects of drifts on the particle flow pattern and in–out divertor plasma density asymmetry for L-mode and H-mode plasmas is carried out for EAST discharges by the edge plasma transport codes SOLPS and BOUT++ . The simulation of L-mode plasmas is done by SOLPS while the simulation of H-mode plasmas is done by BOUT++ . The toroidal magnetic field direction for the simulated discharge is artificially reversed in the codes to study the effects of different drift directions on the divertor particle flow pattern and the in–out asymmetry of divertor plasma density. The divertor particle flows induced by diamagnetic and E × B drifts are found to have similar directions in the divertor region for the same discharge. The directions of the flows induced by drifts would be reversed with the reverse of toroidal magnetic field direction. The diamagnetic drift seems to have no effect on the in–out asymmetry of divertor plasma density due to its divergence-free nature. However, the E × B drift could result in a pronounced asymmetry of plasma density between the inner and outer divertor targets. The density in–out asymmetry caused by E × B drift is reversed with the reverse of E × B drift flow direction. Detailed analysis shows that the radial component of the E × B drift flow is the main cause of density asymmetry. The results from the simulation of H-mode plasmas with BOUT++ are similar to those of the L-mode plasmas with SOLPS except that the drift effects seem to be slightly larger in the H-mode plasmas compared to the L-mode plasmas.