bluuebunny/crossref_metadata_2025_split huggingface dataset:
Impacts of the global food system on terrestrial biodiversity from land use and climate change
Authors: Boakes Elizabeth H. , Dalin Carole , Etard Adrienne , Newbold Tim 
Published: July 2024

AbstractThe global food system is a key driver of land-use and climate change which in turn drive biodiversity change. Developing sustainable food systems is therefore critical to reversing biodiversity loss. We use the multi-regional input-output model EXIOBASE to estimate the biodiversity impacts embedded within the global food system in 2011. Using models that capture regional variation in the sensitivity of biodiversity both to land use and climate change, we calculate the land-driven and greenhouse gas-driven footprints of food using two metrics of biodiversity: local species richness and rarity-weighted species richness. We show that the footprint of land area underestimates biodiversity impact in more species-rich regions and that our metric of rarity-weighted richness places a greater emphasis on biodiversity costs in Central and South America. We find that methane emissions are responsible for 70% of the overall greenhouse gas-driven biodiversity footprint and that, in several regions, emissions from a single year’s food production are associated with global biodiversity loss equivalent to 2% or more of that region’s total land-driven biodiversity loss. The measures we present are relatively simple to calculate and could be incorporated into decision-making and environmental impact assessments by governments and businesses.
Start codon variant in LAG3 is associated with decreased LAG-3 expression and increased risk of autoimmune thyroid disease
Authors: Saevarsdottir Saedis , Bjarnadottir Kristbjörg , Markusson Thorsteinn , Berglund Jonas , Olafsdottir Thorunn A. , Halldorsson Gisli H. , Rutsdottir Gudrun , Gunnarsdottir Kristbjorg , Arnthorsson Asgeir Orn , Lund Sigrun H. , Stefansdottir Lilja , Gudmundsson Julius , Johannesson Ari J. , Sturluson Arni , Oddsson Asmundur , Halldorsson Bjarni , Ludviksson Björn R. , Ferkingstad Egil , Ivarsdottir Erna V. , Sveinbjornsson Gardar , Grondal Gerdur , Masson Gisli , Eldjarn Grimur Hjorleifsson , Thorisson Gudmundur A. , Kristjansdottir Katla , Knowlton Kirk U. , Moore Kristjan H. S. , Gudjonsson Sigurjon A. , Rognvaldsson Solvi , Knight Stacey , Nadauld Lincoln D. , Holm Hilma , Magnusson Olafur T. , Sulem Patrick , Gudbjartsson Daniel F. , Rafnar Thorunn , Thorleifsson Gudmar , Melsted Pall , Norddahl Gudmundur L. , Jonsdottir Ingileif , Stefansson Kari 
Published: July 2024

AbstractAutoimmune thyroid disease (AITD) is a common autoimmune disease. In a GWAS meta-analysis of 110,945 cases and 1,084,290 controls, 290 sequence variants at 225 loci are associated with AITD. Of these variants, 115 are previously unreported. Multiomics analysis yields 235 candidate genes outside the MHC-region and the findings highlight the importance of genes involved in T-cell regulation. A rare 5’-UTR variant (rs781745126-T, MAF = 0.13% in Iceland) in LAG3 has the largest effect (OR = 3.42, P = 2.2 × 10−16) and generates a novel start codon for an open reading frame upstream of the canonical protein translation initiation site. rs781745126-T reduces mRNA and surface expression of the inhibitory immune checkpoint LAG-3 co-receptor on activated lymphocyte subsets and halves LAG-3 levels in plasma among heterozygotes. All three homozygous carriers of rs781745126-T have AITD, of whom one also has two other T-cell mediated diseases, that is vitiligo and type 1 diabetes. rs781745126-T associates nominally with vitiligo (OR = 5.1, P = 6.5 × 10−3) but not with type 1 diabetes. Thus, the effect of rs781745126-T is akin to drugs that inhibit LAG-3, which unleash immune responses and can have thyroid dysfunction and vitiligo as adverse events. This illustrates how a multiomics approach can reveal potential drug targets and safety concerns.
Periodic spinodal decomposition in double–strengthened medium–entropy alloy
Authors: Park Hyojin , Haftlang Farahnaz , Heo Yoon–Uk , Seol Jae Bok , Wang Zhijun , Kim Hyoung Seop 
Published: July 2024

AbstractAchieving an optimal balance between strength and ductility in advanced engineering materials has long been a challenge for researchers. In the field of material strengthening, most approaches that prevent or impede the motion of dislocations involve ductility reduction. In the present study, we propose a strengthening approach based on spinodal decomposition in which Cu and Al are introduced into a ferrous medium–entropy alloy. The matrix undergoes nanoscale periodic spinodal decomposition via a simple one-step aging procedure. Chemical fluctuations within periodic spinodal decomposed structures induce spinodal hardening, leading to a doubled strengthening effect that surpasses the conventional precipitation strengthening mechanism. Notably, the periodic spinodal decomposed structures effectively overcome strain localization issues, preserving elongation and doubling their mechanical strength. Spinodal decomposition offers high versatility because it can be implemented with minimal elemental addition, making it a promising candidate for enhancing the mechanical properties of various alloy systems.
Unlocking the function promiscuity of old yellow enzyme to catalyze asymmetric Morita-Baylis-Hillman reaction
Authors: Wang Lei , Wu Yaoyun , Hu Jun , Yin Dejing , Wei Wanqing , Wen Jian , Chen Xiulai , Gao Cong , Zhou Yiwen , Liu Jia , Hu Guipeng , Li Xiaomin , Wu Jing , Zhou Zhi , Liu Liming , Song Wei 
Published: July 2024

AbstractExploring the promiscuity of native enzymes presents a promising strategy for expanding their synthetic applications, particularly for catalyzing challenging reactions in non-native contexts. In this study, we explore the promiscuous potential of old yellow enzymes (OYEs) to facilitate the Morita-Baylis-Hillman reaction (MBH reaction), leveraging substrate similarities between MBH reaction and reduction reaction. Using mass spectrometry and spectroscopic techniques, we confirm promiscuity of GkOYE in both MBH and reduction reactions. By blocking H- and H+ transfer pathways, we engineer GkOYE.8, which loses its reduction ability but enhances its MBH activity. The structural basis of MBH reaction catalyzed by GkOYE.8 is obtained through mutation studies and kinetic simulations. Furthermore, enantiocomplementary mutants GkOYE.11 and GkOYE.13 are obtained by directed evolution, exhibiting the ability to accept various aromatic aldehydes and alkenes as substrates. This study demonstrates the potential of leveraging substrate similarities to unlock enzyme functionalities, enabling the catalysis of new-to-nature reactions.
A joint diffusion/collision model for crystal growth in pure liquid metals
Authors: Men Hua 
Published: July 2024

AbstractThe kinetics of atomic attachments at the liquid/solid interface is one of the foundations of solidification theory, and to date one of the long-standing questions remains: whether or not the growth is thermal activated in pure liquid metals. Using molecular dynamics simulations and machine learning, I have demonstrated that a considerable fraction of liquid atoms at the interfaces of Al(111), (110) and (100) needs thermal activation for growth to take place while the others attach to the crystal without an energy barrier. My joint diffusion/collision model is proved to be robust in predicting the general growth behaviour of pure metals. Here, I show this model is able to quantitatively describe the temperature dependence of growth kinetics and to properly interpret some important experimental observations, and it significantly advances our understanding of solidification theory and also is useful for modelling solidification, phase change materials and lithium dendrite growth in lithium-ion battery.
The mouse multi-organ proteome from infancy to adulthood
Authors: Wang Qingwen , Ding Xinwen , Xu Zhixiao , Wang Boqian , Wang Aiting , Wang Liping , Ding Yi , Song Sunfengda , Chen Youming , Zhang Shuang , Jiang Lai , Ding Xianting 
Published: July 2024

AbstractThe early-life organ development and maturation shape the fundamental blueprint for later-life phenotype. However, a multi-organ proteome atlas from infancy to adulthood is currently not available. Herein, we present a comprehensive proteomic analysis of ten mouse organs (brain, heart, lung, liver, kidney, spleen, stomach, intestine, muscle and skin) at three crucial developmental stages (1-, 4- and 8-weeks after birth) acquired using data-independent acquisition mass spectrometry. We detect and quantify 11,533 protein groups across the ten organs and obtain 115 age-related differentially expressed protein groups that are co-expressed in all organs from infancy to adulthood. We find that spliceosome proteins prevalently play crucial regulatory roles in the early-life development of multiple organs, and detect organ-specific expression patterns and sexual dimorphism. This multi-organ proteome atlas provides a fundamental resource for understanding the molecular mechanisms underlying early-life organ development and maturation.
Tuning electronic structure of metal-free dual-site catalyst enables exclusive singlet oxygen production and in-situ utilization
Authors: Gu Chao-Hai , Wang Song , Zhang Ai-Yong , Liu Chang , Jiang Jun , Yu Han-Qing 
Published: July 2024

AbstractDeveloping eco-friendly catalysts for effective water purification with minimal oxidant use is imperative. Herein, we present a metal-free and nitrogen/fluorine dual-site catalyst, enhancing the selectivity and utilization of singlet oxygen (1O2) for water decontamination. Advanced theoretical simulations reveal that synergistic fluorine-nitrogen interactions modulate electron distribution and polarization, creating asymmetric surface electron configurations and electron-deficient nitrogen vacancies. These properties trigger the selective generation of 1O2 from peroxymonosulfate (PMS) and improve the utilization of neighboring reactive oxygen species, facilitated by contaminant enrichment at the fluorine-carbon Lewis-acid adsorption sites. Utilizing these insights, we synthesize the catalyst through montmorillonite (MMT)-assisted pyrolysis (NFC/M). This method leverages the role of MMT as an in-situ layer-stacked template, enabling controlled decomposition of carbon, nitrogen, and fluorine precursors and resulting in a catalyst with enhanced structural adaptability, reactive site accessibility, and mass-transfer capacity. The NFC/M demonstrates an impressive 290.5-fold increase in phenol degradation efficiency than the single-site analogs, outperforming most of metal-based catalysts. This work not only underscores the potential of precise electronic and structural manipulations in catalyst design but also advances the development of efficient and sustainable solutions for water purification.
Metabolic profiling reveals circulating biomarkers associated with incident and prevalent Parkinson’s disease
Authors: Hu Wenyi , Wang Wei , Liao Huan , Bulloch Gabriella , Zhang Xiayin , Shang Xianwen , Huang Yu , Hu Yijun , Yu Honghua , Yang Xiaohong , He Mingguang , Zhu Zhuoting 
Published: July 2024

AbstractThe metabolic profile predating the onset of Parkinson’s disease (PD) remains unclear. We aim to investigate the metabolites associated with incident and prevalent PD and their predictive values in the UK Biobank participants with metabolomics and genetic data at the baseline. A panel of 249 metabolites was quantified using a nuclear magnetic resonance analytical platform. PD was ascertained by self-reported history, hospital admission records and death registers. Cox proportional hazard models and logistic regression models were used to investigate the associations between metabolites and incident and prevalent PD, respectively. Area under receiver operating characteristics curves (AUC) were used to estimate the predictive values of models for future PD. Among 109,790 participants without PD at the baseline, 639 (0.58%) individuals developed PD after one year from the baseline during a median follow-up period of 12.2 years. Sixty-eight metabolites were associated with incident PD at nominal significance (P < 0.05), spanning lipids, lipid constituent of lipoprotein subclasses and ratios of lipid constituents. After multiple testing corrections (P < 9$$\times$$
×
10−4), polyunsaturated fatty acids (PUFA) and omega-6 fatty acids remained significantly associated with incident PD, and PUFA was shared by incident and prevalent PD. Additionally, 14 metabolites were exclusively associated with prevalent PD, including amino acids, fatty acids, several lipoprotein subclasses and ratios of lipids. Adding these metabolites to the conventional risk factors yielded a comparable predictive performance to the risk-factor-based model (AUC = 0.766 vs AUC = 0.768, P = 0.145). Our findings suggested metabolic profiles provided additional knowledge to understand different pathways related to PD before and after its onset.
Competition between d-wave superconductivity and magnetism in uniaxially strained Sr2RuO4
Authors: Profe Jonas B. , Beck Sophie , Kennes Dante M. , Georges Antoine , Gingras Olivier 
Published: July 2024

AbstractThe pairing symmetry of Sr2RuO4 is a long-standing fundamental question in the physics of superconducting materials with strong electronic correlations. We use the functional renormalization group to investigate the behavior of superconductivity under uniaxial strain in a two-dimensional realistic model of Sr2RuO4 obtained with density functional theory and incorporating the effect of spin-orbit coupling. We find a dominant $${d}_{{{{{\rm{x}}}}}^{2}-{{{{\rm{y}}}}}^{2}}$$

d

x

2

−

y

2

superconductor mostly hosted by the dxy-orbital, with no other closely competing superconducting state. Within this framework, we reproduce the experimentally observed enhancement of the critical temperature under strain and propose a simple mechanism driven by the density of states to explain our findings. We also investigate the competition between superconductivity and spin-density wave ordering as a function of interaction strength. By comparing theory and experiment, we discuss constraints on a possible degenerate partner of the $${d}_{{{{{\rm{x}}}}}^{2}-{{{{\rm{y}}}}}^{2}}$$

d

x

2

−

y

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superconducting state.
A voice and speech corpus of patients who underwent upper airway surgery in pre- and post-operative states
Authors: Hernández-García Estefanía , Guerrero-López Alejandro , Arias-Londoño Julián D. , Godino-Llorente Juan I. 
Published: July 2024

AbstractMany research articles have explored the impact of surgical interventions on voice and speech evaluations, but advances are limited by the lack of publicly accessible datasets. To address this, a comprehensive corpus of 107 Spanish Castilian speakers was recorded, including control speakers and patients who underwent upper airway surgeries such as Tonsillectomy, Functional Endoscopic Sinus Surgery, and Septoplasty. The dataset contains 3,800 audio files, averaging 35.51 ± 5.91 recordings per patient. This resource enables systematic investigation of the effects of upper respiratory tract surgery on voice and speech. Previous studies using this corpus have shown no relevant changes in key acoustic parameters for sustained vowel phonation, consistent with initial hypotheses. However, the analysis of speech recordings, particularly nasalised segments, remains open for further research. Additionally, this dataset facilitates the study of the impact of upper airway surgery on speaker recognition and identification methods, and testing of anti-spoofing methodologies for improved robustness.
Human manipulation strategy when changing object deformability and task properties
Authors: Mazzeo A. , Uliano M. , Mucci P. , Penzotti M. , Angelini L. , Cini F. , Craighero L. , Controzzi M. 
Published: July 2024

AbstractRobotic literature widely addresses deformable object manipulation, but few studies analyzed human manipulation accounting for different levels of deformability and task properties. We asked participants to grasp and insert rigid and deformable objects into holes with varying tolerances and depths, and we analyzed the grasping behavior, the reaching velocity profile, and completion times. Results indicated that the more deformable the object is, the nearer the grasping point is to the extremity to be inserted. For insertions in the long hole, the selection of the grasping point is a trade-off between task accuracy and the number of re-grasps required to complete the insertion. The compliance of the deformable object facilitates the alignment between the object and the hole. The reaching velocity profile when increasing deformability recalls the one observed when task accuracy and precision decrease. Identifying human strategy allows the implementation of human-inspired high-level reasoning algorithms for robotic manipulation.
Unveiling the nonlinear dynamics of player performance in China’s super league as a function of age
Authors: Cao Jun , Zhang Wei , Zhou Changjing 
Published: July 2024

AbstractTo explore the dynamics in physical and technical performance of professional football players and changes across age groups. Match statistics were collected from 1900 games across ten seasons (2012–2021) in the Chinese Super League. Generalized additive models visualized age-related trends in 12 key performance indicators including technical and physical variables. Revealed nonlinear trajectories characterized by rapid early declines, stable peak periods and accelerated late decreases. Physical indicators decreased progressively from the early 20 s before stabilizing briefly then declining further after 30. Conversely, technical metrics gradually improved into the late 20 s and early 30 s prior to decreasing again. This study provides novel evidence that football performance changes nonlinearly across age. Targeted training and development strategies should be tailored to the specific needs of different career stages.
Plasma metabolites are altered before and after diagnosis of preeclampsia or fetal growth restriction
Authors: Bartho Lucy A. , McKeating Daniel R. , Walker Susan P. , Nijagal Brunda , MacDonald Teresa M. , Pritchard Natasha , Hannan Natalie J. , Perkins Anthony V. , Tong Stephen , Kaitu’u-Lino Tu’uhevaha J. 
Published: July 2024

AbstractMetabolomics is the study of small molecules (metabolites), within cells, tissues and biofluids. Maternal metabolites can provide important insight into the health and development of both mother and fetus throughout pregnancy. This study assessed metabolic profiles in the maternal circulation prior to and at the time of diagnosis of preeclampsia and fetal growth restriction. Maternal plasma samples were collected from two independent cohorts: (1) Established disease cohort: 50 participants diagnosed with early-onset preeclampsia (< 34 weeks’ gestation), 14 with early-onset fetal growth restriction, and 25 gestation-matched controls. (2) Prospective cohort, collected at 36 weeks’ gestation before diagnosis: 17 participants later developed preeclampsia, 49 delivered infants with fetal growth restriction (birthweight < 5th centile), and 72 randomly selected controls. Metabolic evaluation was performed by Metabolomics Australia on the Agilent 6545 QTOF Mass Spectrometer. In the established disease cohort, 77 metabolites were altered in circulation from participants with preeclampsia – increased l-cysteine (3.73-fold), l-cystine (3.28-fold), l-acetylcarnitine (2.57-fold), and carnitine (1.53-fold) (p < 0.05). There were 53 metabolites dysregulated in participants who delivered a fetal growth restriction infant—including increased levulinic acid, citric acid (1.93-fold), and creatine (1.14-fold) (p < 0.05). In the prospective cohort, 30 metabolites were altered in participants who later developed preeclampsia at term – reduced glutaric acid (0.85-fold), porphobilinogen (0.77-fold) and amininohippuric acid (0.82-fold) (p < 0.05) was observed. There were 5 metabolites altered in participants who later delivered a fetal growth restriction infant – including reduced 3-methoxybenzenepropanoic acid (p < 0.05). Downstream pathway analysis revealed aminoacyl-tRNA biosynthesis to be most significantly altered in the established cohort in preeclampsia (13/48 hits, p < 0.001) and fetal growth restriction (7/48 hits, p < 0.001). The predictive cohort showed no significant pathway alterations. This study observed altered metabolites in maternal plasma collected before and after diagnosis of a preeclampsia or fetal growth restriction. While a significant number of metabolites were altered with established disease, few changes were observed in the predictive cohort. Thus, metabolites measured in this study may not be useful as predictors of preeclampsia or fetal growth restriction.
Speech's syllabic rhythm and articulatory features produced under different auditory feedback conditions identify Parkinsonism
Authors: Piña Méndez Ángeles , Taitz Alan , Palacios Rodríguez Oscar , Rodríguez Leyva Ildefonso , Assaneo M. Florencia 
Published: July 2024

AbstractDiagnostic tests for Parkinsonism based on speech samples have shown promising results. Although abnormal auditory feedback integration during speech production and impaired rhythmic organization of speech are known in Parkinsonism, these aspects have not been incorporated into diagnostic tests. This study aimed to identify Parkinsonism using a novel speech behavioral test that involved rhythmically repeating syllables under different auditory feedback conditions. The study included 30 individuals with Parkinson's disease (PD) and 30 healthy subjects. Participants were asked to rhythmically repeat the PA-TA-KA syllable sequence, both whispering and speaking aloud under various listening conditions. The results showed that individuals with PD had difficulties in whispering and articulating under altered auditory feedback conditions, exhibited delayed speech onset, and demonstrated inconsistent rhythmic structure across trials compared to controls. These parameters were then fed into a supervised machine-learning algorithm to differentiate between the two groups. The algorithm achieved an accuracy of 85.4%, a sensitivity of 86.5%, and a specificity of 84.3%. This pilot study highlights the potential of the proposed behavioral paradigm as an objective and accessible (both in cost and time) test for identifying individuals with Parkinson's disease.