bluuebunny/crossref_metadata_2025_split huggingface dataset:
Relating psychiatric symptoms and self-regulation during the COVID-19 crisis
Authors: Vaghi Matilde M. , Hagen McKenzie P. , Jones Henry M. , Mumford Jeanette A. , Bissett Patrick G. , Poldrack Russell A. 
Published: July 2022

AbstractDisruptions of self-regulation are a hallmark of numerous psychiatric disorders. Here, we examine the relationship between transdiagnostic dimensions of psychopathology and changes in self-regulation in the early phase of the COVID-19 pandemic. We used a data-driven approach on a large number of cognitive tasks and self-reported surveys in training datasets. Then, we derived measures of self-regulation and psychiatric functioning in an independent population sample (N = 102) tested both before and after the onset of the COVID-19 pandemic, when the restrictions in place represented a threat to mental health and forced people to flexibly adjust to modifications of daily routines. We found independent relationships between transdiagnostic dimensions of psychopathology and longitudinal alterations in specific domains of self-regulation defined using a diffusion decision model. Compared to the period preceding the onset of the pandemic, a symptom dimension related to anxiety and depression was characterized by a more cautious behavior, indexed by the need to accumulate more evidence before making a decision. Instead, social withdrawal related to faster non-decision processes. Self-reported measures of self-regulation predicted variance in psychiatric symptoms both concurrently and prospectively, revealing the psychological dimensions relevant for separate transdiagnostic dimensions of psychiatry, but tasks did not. Taken together, our results are suggestive of potential cognitive vulnerabilities in the domain of self-regulation in people with underlying psychiatric difficulties in face of real-life stressors. More generally, they also suggest that the study of cognition needs to take into account the dynamic nature of real-world events as well as within-subject variability over time.
Distinct proteomic profiles in prefrontal subareas of elderly major depressive disorder and bipolar disorder patients
Authors: Qi Yang-Jian , Lu Yun-Rong , Shi Li-Gen , Demmers Jeroen A. A. , Bezstarosti Karel , Rijkers Erikjan , Balesar Rawien , Swaab Dick , Bao Ai-Min 
Published: July 2022

AbstractWe investigated for the first time the proteomic profiles both in the dorsolateral prefrontal cortex (DLPFC) and anterior cingulate cortex (ACC) of major depressive disorder (MDD) and bipolar disorder (BD) patients. Cryostat sections of DLPFC and ACC of MDD and BD patients with their respective well-matched controls were used for study. Proteins were quantified by tandem mass tag and high-performance liquid chromatography-mass spectrometry system. Gene Ontology terms and functional cluster alteration were analyzed through bioinformatic analysis. Over 3000 proteins were accurately quantified, with more than 100 protein expressions identified as significantly changed in these two brain areas of MDD and BD patients as compared to their respective controls. These include OGDH, SDHA and COX5B in the DLPFC in MDD patients; PFN1, HSP90AA1 and PDCD6IP in the ACC of MDD patients; DBN1, DBNL and MYH9 in the DLPFC in BD patients. Impressively, depending on brain area and distinct diseases, the most notable change we found in the DLPFC of MDD was ‘suppressed energy metabolism’; in the ACC of MDD it was ‘suppressed tissue remodeling and suppressed immune response’; and in the DLPFC of BD it was differentiated ‘suppressed tissue remodeling and suppressed neuronal projection’. In summary, there are distinct proteomic changes in different brain areas of the same mood disorder, and in the same brain area between MDD and BD patients, which strengthens the distinct pathogeneses and thus treatment targets.
Herpes simplex virus 1 infection on grey matter and general intelligence in severe mental illness
Authors: Andreou Dimitrios , Jørgensen Kjetil Nordbø , Nerland Stener , Ueland Torill , Vaskinn Anja , Haukvik Unn K. , Yolken Robert H. , Andreassen Ole A. , Agartz Ingrid 
Published: July 2022

AbstractSchizophrenia and bipolar disorder are severe mental illnesses (SMI) linked to both genetic and environmental factors. Herpes simplex virus 1 (HSV1) is a common neurotropic pathogen which after the primary infection establishes latency with periodic reactivations. We hypothesized that the latent HSV1 infection is associated with brain structural abnormalities and cognitive impairment, especially in SMI. We included 420 adult patients with SMI (schizophrenia or bipolar spectrum) and 481 healthy controls. Circulating HSV1 immunoglobulin G concentrations were measured with immunoassays. We measured the total grey matter volume (TGMV), cortical, subcortical, cerebellar and regional cortical volumes based on T1-weighted MRI scans processed in FreeSurfer v6.0.0. Intelligence quotient (IQ) was assessed with the Wechsler Abbreviated Scale of Intelligence. Seropositive patients had significantly smaller TGMV than seronegative patients (642 cm3and 654 cm3, respectively;p = 0.019) and lower IQ (104 and 107, respectively;p = 0.018). No TGMV or IQ differences were found between seropositive and seronegative healthy controls. Post-hoc analysis showed that (a) in both schizophrenia and bipolar spectrum, seropositive patients had similarly smaller TGMV than seronegative patients, whereas the HSV1-IQ association was driven by the schizophrenia spectrum group, and (b) among all patients, seropositivity was associated with smaller total cortical (p = 0.016), but not subcortical or cerebellar grey matter volumes, and with smaller left caudal middle frontal, precentral, lingual, middle temporal and banks of superior temporal sulcus regional cortical grey matter volumes. The results of this cross-sectional study indicate that HSV1 may be an environmental factor associated with brain structural abnormalities and cognitive impairment in SMI.
A super pan-genomic landscape of rice
Authors: Shang Lianguang , Li Xiaoxia , He Huiying , Yuan Qiaoling , Song Yanni , Wei Zhaoran , Lin Hai , Hu Min , Zhao Fengli , Zhang Chao , Li Yuhua , Gao Hongsheng , Wang Tianyi , Liu Xiangpei , Zhang Hong , Zhang Ya , Cao Shuaimin , Yu Xiaoman , Zhang Bintao , Zhang Yong , Tan Yiqing , Qin Mao , Ai Cheng , Yang Yingxue , Zhang Bin , Hu Zhiqiang , Wang Hongru , Lv Yang , Wang Yuexing , Ma Jie , Wang Quan , Lu Hongwei , Wu Zhe , Liu Shanlin , Sun Zongyi , Zhang Hongliang , Guo Longbiao , Li Zichao , Zhou Yongfeng , Li Jiayang , Zhu Zuofeng , Xiong Guosheng , Ruan Jue , Qian Qian 
Published: July 2022

AbstractPan-genomes from large natural populations can capture genetic diversity and reveal genomic complexity. Using de novo long-read assembly, we generated a graph-based super pan-genome of rice consisting of a 251-accession panel comprising both cultivated and wild species of Asian and African rice. Our pan-genome reveals extensive structural variations (SVs) and gene presence/absence variations. Additionally, our pan-genome enables the accurate identification of nucleotide-binding leucine-rich repeat genes and characterization of their inter- and intraspecific diversity. Moreover, we uncovered grain weight-associated SVs which specify traits by affecting the expression of their nearby genes. We characterized genetic variants associated with submergence tolerance, seed shattering and plant architecture and found independent selection for a common set of genes that drove adaptation and domestication in Asian and African rice. This super pan-genome facilitates pinpointing of lineage-specific haplotypes for trait-associated genes and provides insights into the evolutionary events that have shaped the genomic architecture of various rice species.
Ultra-sensitive monitoring of leukemia patients using superRCA mutation detection assays
Authors: Chen Lei , Eriksson Anna , Weström Simone , Pandzic Tatjana , Lehmann Sören , Cavelier Lucia , Landegren Ulf 
Published: July 2022

AbstractRare tumor-specific mutations in patient samples serve as excellent markers to monitor the course of malignant disease and responses to therapy in clinical routine, and improved assay techniques are needed for broad adoption. We describe herein a highly sensitive and selective molecule amplification technology - superRCA assays - for rapid and highly specific detection of DNA sequence variants present at very low frequencies in DNA samples. Using a standard flow cytometer we demonstrate precise, ultra-sensitive detection of single-nucleotide mutant sequences from malignant cells against up to a 100,000-fold excess of DNA from normal cells in either bone marrow or peripheral blood, to follow the course of patients treated for acute myeloid leukemia (AML). We also demonstrate that sequence variants located in a high-GC region may be sensitively detected, and we illustrate the potential of the technology for early detection of disease recurrence as a basis for prompt change of therapy.
Early crustal processes revealed by the ejection site of the oldest martian meteorite
Authors: Lagain A. , Bouley S. , Zanda B. , Miljković K. , Rajšić A. , Baratoux D. , Payré V. , Doucet L. S. , Timms N. E. , Hewins R. , Benedix G. K. , Malarewic V. , Servis K. , Bland P. A. 
Published: July 2022

AbstractThe formation and differentiation of the crust of Mars in the first tens of millions of years after its accretion can only be deciphered from incredibly limited records. The martian breccia NWA 7034 and its paired stones is one of them. This meteorite contains the oldest martian igneous material ever dated: ~4.5 Ga old. However, its source and geological context have so far remained unknown. Here, we show that the meteorite was ejected 5–10 Ma ago from the north-east of the Terra Cimmeria—Sirenum province, in the southern hemisphere of Mars. More specifically, the breccia belongs to the ejecta deposits of the Khujirt crater formed 1.5 Ga ago, and it was ejected as a result of the formation of the Karratha crater 5–10 Ma ago. Our findings demonstrate that the Terra Cimmeria—Sirenum province is a relic of the differentiated primordial martian crust, formed shortly after the accretion of the planet, and that it constitutes a unique record of early crustal processes. This province is an ideal landing site for future missions aiming to unravel the first tens of millions of years of the history of Mars and, by extension, of all terrestrial planets, including the Earth.
Base editing in human cells with monomeric DddA-TALE fusion deaminases
Authors: Mok Young Geun , Lee Ji Min , Chung Eugene , Lee Jaesuk , Lim Kayeong , Cho Sung-Ik , Kim Jin-Soo 
Published: July 2022

AbstractInter-bacterial toxin DddA-derived cytosine base editors (DdCBEs) enable targeted C-to-T conversions in nuclear and organellar DNA. DddAtox, the deaminase catalytic domain derived from Burkholderia cenocepacia, is split into two inactive halves to avoid its cytotoxicity in eukaryotic cells, when fused to transcription activator-like effector (TALE) DNA-binding proteins to make DdCBEs. As a result, DdCBEs function as pairs, which hampers gene delivery via viral vectors with a small cargo size. Here, we present non-toxic, full-length DddAtox variants to make monomeric DdCBEs (mDdCBEs), enabling mitochondrial DNA editing with high efficiencies of up to 50%, when transiently expressed in human cells. We demonstrate that mDdCBEs expressed via AAV in cultured human cells can achieve nearly homoplasmic C-to-T editing in mitochondrial DNA. Interestingly, mDdCBEs often produce mutation patterns different from those obtained with conventional dimeric DdCBEs. Furthermore, mDdCBEs allow base editing at sites for which only one TALE protein can be designed. We also show that transfection of mDdCBE-encoding mRNA, rather than plasmid, can reduce off-target editing in human mitochondrial DNA.
Nestin-dependent mitochondria-ER contacts define stem Leydig cell differentiation to attenuate male reproductive ageing
Authors: Yao Senyu , Wei Xiaoyue , Deng Wenrui , Wang Boyan , Cai Jianye , Huang Yinong , Lai Xiaofan , Qiu Yuan , Wang Yi , Guan Yuanjun , Wang Jiancheng 
Published: July 2022

AbstractMale reproductive system ageing is closely associated with deficiency in testosterone production due to loss of functional Leydig cells, which are differentiated from stem Leydig cells (SLCs). However, the relationship between SLC differentiation and ageing remains unknown. In addition, active lipid metabolism during SLC differentiation in the reproductive system requires transportation and processing of substrates among multiple organelles, e.g., mitochondria and endoplasmic reticulum (ER), highlighting the importance of interorganelle contact. Here, we show that SLC differentiation potential declines with disordered intracellular homeostasis during SLC senescence. Mechanistically, loss of the intermediate filament Nestin results in lower differentiation capacity by separating mitochondria-ER contacts (MERCs) during SLC senescence. Furthermore, pharmacological intervention by melatonin restores Nestin-dependent MERCs, reverses SLC differentiation capacity and alleviates male reproductive system ageing. These findings not only explain SLC senescence from a cytoskeleton-dependent MERCs regulation mechanism, but also suggest a promising therapy targeting SLC differentiation for age-related reproductive system diseases.
Mechanical deconditioning of the heart due to long-term bed rest as observed on seismocardiogram morphology
Authors: Hoffmann Bradley , Dehkordi Parastoo , Khosrow-Khavar Farzad , Goswami Nandu , Blaber Andrew P. , Tavakolian Kouhyar 
Published: July 2022

AbstractDuring head-down tilt bed rest (HDT) the cardiovascular system is subject to headward fluid shifts. The fluid shift phenomenon is analogous to weightlessness experienced during spaceflight microgravity. The purpose of this study was to investigate the effect of prolonged 60-day bed rest on the mechanical performance of the heart using the morphology of seismocardiography (SCG). Three-lead electrocardiogram (ECG), SCG and blood pressure recordings were collected simultaneously from 20 males in a 60-day HDT study (MEDES, Toulouse, France). The study was divided into two campaigns of ten participants. The first commenced in January, and the second in September. Signals were recorded in the supine position during the baseline data collection (BDC) before bed rest, during 6° HDT bed rest and during recovery (R), post-bed rest. Using SCG and blood pressure at the finger, the following were determined: Pulse Transit Time (PTT); and left-ventricular ejection time (LVET). SCG morphology was analyzed using functional data analysis (FDA). The coefficients of the model were estimated over 20 cycles of SCG recordings of BDC12 and HDT52. SCG fiducial morphology AO (aortic valve opening) and AC (aortic valve closing) amplitudes showed significant decrease between BDC12 and HDT52 (p < 0.03). PTT and LVET were also found to decrease through HDT bed rest (p < 0.01). Furthermore, PTT and LVET magnitude of response to bed rest was found to be different between campaigns (p < 0.001) possibly due to seasonal effects on of the cardiovascular system. Correlations between FDA and cardiac timing intervals PTT and LVET using SCG suggests decreases in mechanical strength of the heart and increased arterial stiffness due to fluid shifts associated with the prolonged bed rest.
Utilizing novel TBI-on-a-chip device to link physical impacts to neurodegeneration and decipher primary and secondary injury mechanisms
Authors: Rogers Edmond A. , Beauclair Timothy , Thyen Andrew , Shi Riyi 
Published: July 2022

AbstractWhile clinical observations have confirmed a link between the development of neurodegenerative diseases and traumatic brain injuries (TBI), there are currently no treatments available and the underlying mechanisms remain elusive. In response, we have developed an in vitro pendulum trauma model capable of imparting rapid acceleration injuries to neuronal networks grown on microelectrode arrays within a clinically relevant range of g forces, with real-time electrophysiological and morphological monitoring. By coupling a primary physical insult with the quantification of post-impact levels of known biochemical pathological markers, we demonstrate the capability of our system to delineate and investigate the primary and secondary injury mechanisms leading to post-impact neurodegeneration. Specifically, impact experiments reveal significant, force-dependent increases in the pro-inflammatory, oxidative stress marker acrolein at 24 h post-impact. The elevation of acrolein was augmented by escalating g force exposures (30–200 g), increasing the number of rapidly repeated impacts (4–6 s interval, 3, 5 and 10×), and by exposing impacted cells to 40 mM ethanol, a known comorbidity of TBI. The elevated levels of acrolein following multiple impacts could be reduced by increasing time-intervals between repeated hits. In addition, we show that conditioned media from maximally-impacted cultures can cause cellular acrolein elevation when introduced to non-impact, control networks, further solidifying acrolein’s role as a diffusive-factor in post-TBI secondary injuries. Finally, morphological data reveals post-impact acrolein generation to be primarily confined to soma, with some emergence in cellular processes. In conclusion, this novel technology provides accurate, physical insults with a unique level of structural and temporal resolution, facilitating the investigation of post-TBI neurodegeneration.
Prediction of the potential distribution of the predatory mite Neoseiulus californicus (McGregor) in China under current and future climate scenarios
Authors: Chen Lin , Jiang Chunxian , Zhang Xueyan , Song Cancan , Wang Rulin , Wang Xian , Li Qing 
Published: July 2022

AbstractNeoseiulus californicus is a predatory mite with a wide global distribution that can effectively control a variety of pest mites. In this study, MaxEnt was used to analyse the potential distribution of N. californicus in China and the BCC-CSM2-MR model was used to predict changes in the suitable areas for the mite from 2021 to 2100 under the scenarios of SSP126, SSP245 and SSP585. The results showed that (1) the average of area under curve value of the model was over 0.95, which demonstrated an excellent model accuracy. (2) Annual mean temperature (Bio1), precipitation of coldest quarter (Bio19), and precipitation of driest quarter (Bio17) were the main climatic variables that affected and controlled the potential distribution of N. californicus, with suitable ranges of 6.97–23.27 °C, 71.36–3924.8 mm, and 41.94–585.08 mm, respectively. (3) The suitable areas for N. californicus were mainly distributed in the southern half of China, with a total suitable area of 226.22 × 104 km2 in current. Under the future climate scenario, compared with the current scenario, lowly and moderately suitable areas of N. californicus increased, while highly suitable areas decreased. Therefore, it may be necessary to cultivate high-temperature resistant strains of N. californicus to adapt to future environmental changes.
Combined whole-lesion radiomic and iodine analysis for differentiation of pulmonary tumors
Authors: Azour Lea , Ko Jane P. , O’Donnell Thomas , Patel Nihal , Bhattacharji Priya , Moore William H. 
Published: July 2022

AbstractQuantitative radiomic and iodine imaging features have been explored for diagnosis and characterization of tumors. In this work, we invistigate combined whole-lesion radiomic and iodine analysis for the differentiation of pulmonary tumors on contrast-enhanced dual-energy CT (DECT) chest images. 100 biopsy-proven solid lung lesions on contrast-enhanced DECT chest exams within 3 months of histopathologic sampling were identified. Lesions were volumetrically segmented using open-source software. Lesion segmentations and iodine density volumes were loaded into a radiomics prototype for quantitative analysis. Univariate analysis was performed to determine differences in volumetric iodine concentration (mean, median, maximum, minimum, 10th percentile, 90th percentile) and first and higher order radiomic features (n = 1212) between pulmonary tumors. Analyses were performed using a 2-sample t test, and filtered for false discoveries using Benjamini–Hochberg method. 100 individuals (mean age 65 ± 13 years; 59 women) with 64 primary and 36 metastatic lung lesions were included. Only one iodine concentration parameter, absolute minimum iodine, significantly differed between primary and metastatic pulmonary tumors (FDR-adjusted p = 0.015, AUC 0.69). 310 (FDR-adjusted p = 0.0008 to p = 0.0491) radiomic features differed between primary and metastatic lung tumors. Of these, 21 features achieved AUC ≥ 0.75. In subset analyses of lesions imaged by non-CTPA protocol (n = 72), 191 features significantly differed between primary and metastatic tumors, 19 of which achieved AUC ≥ 0.75. In subset analysis of tumors without history of prior treatment (n = 59), 40 features significantly differed between primary and metastatic tumors, 11 of which achieved AUC ≥ 0.75. Volumetric radiomic analysis provides differentiating capability beyond iodine quantification. While a high number of radiomic features differentiated primary versus metastatic pulmonary tumors, fewer features demonstrated good individual discriminatory utility.
Quantifying the heritability of belief formation
Authors: Vellani Valentina , Garrett Neil , Gaule Anne , Patil Kaustubh R. , Sharot Tali 
Published: July 2022

AbstractIndividual differences in behaviour, traits and mental-health are partially heritable. Traditionally, studies have focused on quantifying the heritability of high-order characteristics, such as happiness or education attainment. Here, we quantify the degree of heritability of lower-level mental processes that likely contribute to complex traits and behaviour. In particular, we quantify the degree of heritability of cognitive and affective factors that contribute to the generation of beliefs about risk, which drive behavior in domains ranging from finance to health. Monozygotic and dizygotic twin pairs completed a belief formation task. We first show that beliefs about risk are associated with vividness of imagination, affective evaluation and learning abilities. We then demonstrate that the genetic contribution to individual differences in these processes range between 13.5 and 39%, with affect evaluation showing a particular robust heritability component. These results provide clues to which mental factors may be driving the heritability component of beliefs formation, which in turn contribute to the heritability of complex traits.