bluuebunny/crossref_metadata_2025_split huggingface dataset:
Splicing factor BUD31 promotes ovarian cancer progression through sustaining the expression of anti-apoptotic BCL2L12
Authors: Wang Zixiang , Wang Shourong , Qin Junchao , Zhang Xiyu , Lu Gang , Liu Hongbin , Guo Haiyang , Wu Ligang , Shender Victoria O. , Shao Changshun , Kong Beihua , Liu Zhaojian 
Published: October 2022

AbstractDysregulated expression of splicing factors has important roles in cancer development and progression. However, it remains a challenge to identify the cancer-specific splicing variants. Here we demonstrate that spliceosome component BUD31 is increased in ovarian cancer, and its higher expression predicts worse prognosis. We characterize the BUD31-binding motif and find that BUD31 preferentially binds exon-intron regions near splicing sites. Further analysis reveals that BUD31 inhibition results in extensive exon skipping and a reduced production of long isoforms containing full coding sequence. In particular, we identify BCL2L12, an anti-apoptotic BCL2 family member, as one of the functional splicing targets of BUD31. BUD31 stimulates the inclusion of exon 3 to generate full-length BCL2L12 and promotes ovarian cancer progression. Knockdown of BUD31 or splice-switching antisense oligonucleotide treatment promotes exon 3 skipping and results in a truncated isoform of BCL2L12 that undergoes nonsense-mediated mRNA decay, and the cells subsequently undergo apoptosis. Our findings reveal BUD31-regulated exon inclusion as a critical factor for ovarian cancer cell survival and cancer progression.
WASH activation controls endosomal recycling and EGFR and Hippo signaling during tumor-suppressive cell competition
Authors: Liu Dan , Tsarouhas Vasilios , Samakovlis Christos 
Published: October 2022

AbstractCell competition is a conserved homeostatic mechanism whereby epithelial cells eliminate neighbors with lower fitness. Cell communication at the interface of wild-type “winner” cells and polarity-deficient (scrib−/−) “losers” is established through Sas-mediated Ptp10D activation in polarity-deficient cells. This tumor-suppressive cell competition restrains EGFR and Hippo signaling and enables Eiger-JNK mediated apoptosis inscrib−/−clones. Here, we show that the activation state of the endosomal actin regulator WASH is a central node linking EGFR and Hippo signaling activation. The tyrosine kinase Btk29A and its substrate WASH are required downstream of Ptp10D for “loser” cell elimination. Constitutively active, phosphomimetic WASH is sufficient to induce both EGFR and Yki activation leading to overgrowth. On the mechanistic level we show that Ptp10D is recycled by the WASH/retromer complex, while EGFR is recycled by the WASH/retriever complex. Constitutive WASH activation selectively interferes with retromer function leading to Ptp10D mistargeting while promoting EGFR recycling and signaling activation. Phospho-WASH also activates aberrant Arp2/3 actin polymerization, leading to cytoskeletal imbalance, Yki activation and reduced apoptosis. Selective manipulation of WASH phosphorylation on sorting endosomes may restrict epithelial tumorous growth.
Behavioural phenotypes of intrinsic motivation in schizophrenia determined by cluster analysis of objectively quantified real-world performance
Authors: Siddiqui Ishraq , Remington Gary , Saperia Sarah , Da Silva Susana , Fletcher Paul J. , Voineskos Aristotle N. , Zakzanis Konstantine K. , Foussias George 
Published: October 2022

AbstractIntrinsic motivation deficits are a prominent feature of schizophrenia that substantially impacts functional outcome. This study used cluster analysis of innate real-world behaviours captured during two open-field tasks to dimensionally examine heterogeneity in intrinsic motivation in schizophrenia patients (SZ) and healthy controls (HC). Wireless motion capture quantified participants’ behaviours aligning with distinct aspects of intrinsic motivation: exploratory behaviour and effortful activity in the absence of external incentive. Cluster analysis of task-derived measures identified behaviourally differentiable subgroups, which were compared across standard clinical measures of general amotivation, cognition, and community functioning. Among 45 SZ and 47 HC participants, three clusters with characteristically different behavioural phenotypes emerged: low exploration (20 SZ, 19 HC), low activity (15 SZ, 8 HC), and high exploration/activity (10 SZ, 20 HC). Low performance in either dimension corresponded with similar increased amotivation. Within-cluster discrepancies emerged for amotivation (SZ > HC) within the low exploration and high performance clusters, and for functioning (SZ < HC) within all clusters, increasing from high performance to low activity to low exploration. Objective multidimensional characterization thus revealed divergent behavioural expression of intrinsic motivation deficits that may be conflated by summary clinical measures of motivation and overlooked by unidimensional evaluation. Deficits in either aspect may hinder general motivation and functioning particularly in SZ. Multidimensional phenotyping may help guide personalized remediation by discriminating between intrinsic motivation impairments that require amelioration versus unimpaired tendencies that may facilitate remediation.
Moderate to severe SARS-CoV-2 infection primes vaccine-induced immunity more effectively than asymptomatic or mild infection
Authors: Holder Kayla A. , Ings Danielle P. , Harnum Debbie O. A. , Russell Rodney S. , Grant Michael D. 
Published: October 2022

AbstractHybrid immunity induced by vaccination following recovery from SARS-CoV-2 infection is more robust than immunity induced by either infection or vaccination alone. To investigate how infection severity influenced the strength and character of subsequent vaccine-induced humoral or cellular immune responses against SARS-CoV-2, we assessed humoral and cellular immune responses against SARS-CoV-2 following recovery from infection, vaccine dose 1 and vaccine dose 2 in 35 persons recovered from COVID-19. Persons with polymerase chain reaction or serologically confirmed SARS-CoV-2 infection were recruited into a study of immunity against SARS-CoV-2. Self-reported symptoms categorized them as experiencing asymptomatic, mild, moderate or severe infection based on duration, intensity and need for hospitalization. Whole blood was obtained before vaccination and after first and second doses. Humoral immunity was assessed by ELISA and cellular immunity by ELISpot and intracellular flow cytometry. Responses were compared between groups recovered from either asymptomatic/mild (n = 14) or moderate/severe (n = 21) infection. Most subjects experienced robust increases in humoral and cellular immunity against SARS-CoV-2 spike (S) protein following 1 vaccination. Quantitative responses to second vaccination were marginal when measured 2.5 months afterwards and moderate or severe infection maintained stronger responses. Polyfunctional CD8+T cell responses were largely restricted to subjects recovered from moderate or severe infection. One vaccine dose triggered stronger immune responses than in a comparable group never infected with SARS-CoV-2, while the second dose produced only minor lasting increases in humoral or cellular responses. Infection history should be considered in planning COVID-19 vaccine administration.
CT and cone-beam CT of ablative radiation therapy for pancreatic cancer with expert organ-at-risk contours
Authors: Hong Jun , Reyngold Marsha , Crane Christopher , Cuaron John , Hajj Carla , Mann Justin , Zinovoy Melissa , Yorke Ellen , LoCastro Eve , Apte Aditya P. , Mageras Gig 
Published: October 2022

AbstractWe describe a dataset from patients who received ablative radiation therapy for locally advanced pancreatic cancer (LAPC), consisting of computed tomography (CT) and cone-beam CT (CBCT) images with physician-drawn organ-at-risk (OAR) contours. The image datasets (one CT for treatment planning and two CBCT scans at the time of treatment per patient) were collected from 40 patients. All scans were acquired with the patient in the treatment position and in a deep inspiration breath-hold state. Six radiation oncologists delineated the gastrointestinal OARs consisting of small bowel, stomach and duodenum, such that the same physician delineated all image sets belonging to the same patient. Two trained medical physicists further edited the contours to ensure adherence to delineation guidelines. The image and contour files are available in DICOM format and are publicly available from The Cancer Imaging Archive (https://doi.org/10.7937/TCIA.ESHQ-4D90, Version 2). The dataset can serve as a criterion standard for evaluating the accuracy and reliability of deformable image registration and auto-segmentation algorithms, as well as a training set for deep-learning-based methods.
High-resolution crop yield and water productivity dataset generated using random forest and remote sensing
Authors: Cheng Minghan , Jiao Xiyun , Shi Lei , Penuelas Josep , Kumar Lalit , Nie Chenwei , Wu Tianao , Liu Kaihua , Wu Wenbin , Jin Xiuliang 
Published: October 2022

AbstractAccurate and high-resolution crop yield and crop water productivity (CWP) datasets are required to understand and predict spatiotemporal variation in agricultural production capacity; however, datasets for maize and wheat, two key staple dryland crops in China, are currently lacking. In this study, we generated and evaluated a long-term data series, at 1-km resolution of crop yield and CWP for maize and wheat across China, based on the multiple remotely sensed indicators and random forest algorithm. Results showed that MOD16 products are an accurate alternative to eddy covariance flux tower data to describe crop evapotranspiration (maize and wheat RMSE: 4.42 and 3.81 mm/8d, respectively) and the proposed yield estimation model showed accuracy at local (maize and wheat rRMSE: 26.81 and 21.80%, respectively) and regional (maize and wheat rRMSE: 15.36 and 17.17%, respectively) scales. Our analyses, which showed spatiotemporal patterns of maize and wheat yields and CWP across China, can be used to optimize agricultural production strategies in the context of maintaining food security.
Long-term monitoring dataset of fish assemblages in rocky tidepools on the southern coast of Taiwan
Authors: Ho Lin-Tai , Wang Shen-Chih , Shao Kwang-Tsao , Chen I-Shiung , Chen Hungyen 
Published: October 2022

AbstractLong-term data of fish assemblages collected in the rocky intertidal zone provides a valuable resource for elucidating the temporal variations in species diversity and intertidal ecosystems. In this study, we describe a long-term time-series dataset of fish collected by counting the number of anesthetized fish at sampling stations in the rocky tidepools on the southern coast of Taiwan. The species assemblages were monitored seasonally at the two stations for 16 y (2000–2008 and 2012–2018). In total, 86 samples containing 5137 individuals belonging to 82 species were recorded. Our data can be used for elucidating the temporal variations in fish assemblages and intertidal ecosystems and as background information for the resilience of the fish community conservation in coastal areas. The current study presents valuable data for researchers to understand the temporal and spatial variations in species abundance, richness, diversity, and composition in relation to climate change, environmental factors, and human activities.
Machine learning models for identifying predictors of clinical outcomes with first-line immune checkpoint inhibitor therapy in advanced non-small cell lung cancer
Authors: Li Ying , Brendel Matthew , Wu Ning , Ge Wenzhen , Zhang Hao , Rietschel Petra , Quek Ruben G. W. , Pouliot Jean-Francois , Wang Fei , Harnett James 
Published: October 2022

AbstractImmune checkpoint inhibitors (ICIs) are standard-of-care as first-line (1L) therapy for advanced non-small cell lung cancer (aNSCLC) without actionable oncogenic driver mutations. While clinical trials demonstrated benefits of ICIs over chemotherapy, variation in outcomes across patients has been observed and trial populations may not be representative of clinical practice. Predictive models can help understand heterogeneity of treatment effects, identify predictors of meaningful clinical outcomes, and may inform treatment decisions. We applied machine learning (ML)-based survival models to a real-world cohort of patients with aNSCLC who received 1L ICI therapy extracted from a US-based electronic health record database. Model performance was evaluated using metrics including concordance index (c-index), and we used explainability techniques to identify significant predictors of overall survival (OS) and progression-free survival (PFS). The ML model achieved c-indices of 0.672 and 0.612 for OS and PFS, respectively, and Kaplan–Meier survival curves showed significant differences between low- and high-risk groups for OS and PFS (both log-rank test p < 0.0001). Identified predictors were mostly consistent with the published literature and/or clinical expectations and largely overlapped for OS and PFS; Eastern Cooperative Oncology Group performance status, programmed cell death-ligand 1 expression levels, and serum albumin were among the top 5 predictors for both outcomes. Prospective and independent data set evaluation is required to confirm these results.
Fluctuating insect diversity, abundance and biomass across agricultural landscapes
Authors: Hausmann Axel , Ulrich Werner , Segerer Andreas H. , Greifenstein Thomas , Knubben Johannes , Morinière Jerôme , Bozicevic Vedran , Doczkal Dieter , Günter Armin , Müller Jörg , Habel Jan Christian 
Published: October 2022

AbstractHabitat destruction and deterioration of habitat quality caused a severe decline of biodiversity, such as insect diversity. In this study, we analyze insect diversity and biomass across agro-environments. We collected flying insects with 20 malaise traps across a landscape mosaic consisting of organic (eight traps) and conventional (four traps) farmland, as well as across agricultural land that has been recently converted from conventional to organic farming (eight traps). Sampling was conducted over 2 years, in 2019 and 2020, with in total 340 sampling events. We measured the dry weight of the captured organisms and identified species diversity by analyzing Operational Taxonomic Units (OTUs) and Barcode Index Numbers (BINs) via metabarcoding. The results obtained show temporal dynamics. The number of OTUs were always higher than the number of BINs. OTUs and BINs were moderately to highly correlated, while the number of OTUs and BINs were only moderately positively correlated with dry biomass. OTUs and BINs as well as biomass were highest in the recently transformed farmland if compared with pure organic and conventional farmland sites, which showed no significant differences in respect of insect diversity. OTU and BIN numbers but not the OTU/BIN ratio significantly decreased with increasing distance from the nearest forest fringe. The numbers of OTUs, BINs and the OTU/BIN proportion, as well as OTU and BIN/biomass proportions varied strongly over seasons, irrespective of agricultural practice. Based on our findings, we suggest to combine data on insect species richness and biomass measured over a period of time, to derive a largely complete and meaningful assessment of biodiversity for a specific region.
Effect of exogenous amino acids application on the biochemical, antioxidant, and nutritional value of some leafy cabbage cultivars
Authors: Haghighi Maryam , Barzegar Sadeghabad Amir , Abolghasemi Reza 
Published: October 2022

AbstractUsing organic fertilizer as part of plant nutrition for decreasing using chemical fertilizer and increasing plants’ nutritional value is scientists’ concern. Treatments were three concentrations of a mixture of 16 different AAs (amino acid) (0, 150 and 300 mg/L), sprayed every 7 days for 2 months on 4 leafy cabbages. Results showed 300 mg/L AAs increased anthocyanin, flavonoids, phenol, protein and proline. The SOD, POX and APX rose upon AAs usage. The application of AA significantly increased the total chlorophyll, proline, carotenoid, anthocyanin, phenol, protein and flavonoids compared to control plants. The levels of glucosinolate were increased especially in the treatment of 300 mg/L of AAs and glucobrassicin and gluconapin, both of these together represent more than 50% of the total glucosinolate contents. The highest levels of phenolic and flavonoids mostly belonged to quercetin and catechin. Total AAs and total non-essential AAs showed the highest amounts in all treatments in leaves. AAs with different concentrations by foliar application in “Ka- scotch” variety were effective in growth, physiological parameters such as plant height and shoot dry weight, while AA changes were effective in most of the biochemical and nutritional traits of “Ka-red” variety. Conclusively, the glucosinolate, phenolic and flavonoid contents and AAs varied between four cabbage cultivars. Exogenous AAs application at 300 mg/L could be recommended for cabbage cultivation to improve growth, biochemical traits, productivity and nutritional value.
The association between the restriction of daily life and depression during the COVID-19 pandemic in Korea: a nationwide based survey
Authors: Cho Sunwoo , Ju Hyo Rim , Oh Hyoungseok , Choi Eun-Suk , Lee Jung Ah 
Published: October 2022

AbstractThe coronavirus (COVID-19) pandemic has led to substantial daily life changes for people worldwide. We investigated the association between daily life restrictions and depression during the COVID-19 pandemic based on the Korea Community Health Survey. Daily life restrictions were evaluated using a questionnaire to population into three restriction categories: no/slightly, moderately, and severely. Depression was assessed by the Korean version of the Patient Health Questionnaire-9 (PHQ-9). Chi-square tests and Fisher’s exact tests were used to compare the demographic characteristics of individuals with and without depression. Logistic regression was used to assess the association between the severity of daily life restrictions and the prevalence of depression. The prevalence of depression was 2.4% in the total population: 5.7% in the severely restricted group and 2.7% in the moderately restricted group. After adjusting for age, sex, educational level, income, marital status, and employment status, the severely restricted group was more likely to have depression than was the no change/slightly restricted group (OR = 2.40, 95% CI 2.16–2.67, p < 0.001). Employers with severely restricted daily life exhibited a higher OR for depression compared to the no/slightly restricted group (OR = 3.24, 95% CI 2.37–4.45, p < 0.001). It is necessary to consider the mental health of vulnerable affected by the COVID-19 pandemic.
The complete mitochondrial genome of the woodwasp Euxiphydria potanini (Hymenoptera, Xiphydrioidea) and phylogenetic implications for symphytans
Authors: Park Bia , Hwang Ui Wook 
Published: October 2022

AbstractThe long-necked woodwasp superfamily Xiphydrioidea belongs to the suborder Symphyta (Hymenoptera). Here we newly characterize the complete mitochondrial genome of the South Korean Euxiphydria potanini (Xiphydriidae) using next-generation sequencing: 16,500 bp long with 84.27% A + T content and 37 typical mitochondrial genes including those encoding 13 PCGs, 2 rRNAs, 22 tRNAs, and one A + T rich region. We compare the patterns of symphytan mitochondrial gene arrangement with those of an ancestral insect form and found some synapomorphic rearrangements in phylogenetic context. We use a variety of nucleotide and amino acid sequence alignments (thirteen mtPCGs and/or eight nDNAs) alongside step-by-step exclusions of long-branched taxa to elucidate the phylogenetic position of Xiphydrioidea and phylogenetic relationships among the seven symphytan superfamilies, except for Anaxyeloidea of which no mtgenome was available. The monophyly of symphytan superfamilies (with weak support for Pamphilioidea), sister-group relationship of Xiphydrioidea and Cephoidea, and Symphyta being paraphyletic to Apocrita, etc. are consistently supported by maximum likelihood and Bayesian inference trees. We also discuss the problematic phylogenetic positions of Orussoidea and Siricoidea and propose a hypothetical scenario of morphological character transition during hymenopteran evolution based on morphological key characteristics, such as the cenchrus and the wasp-waist.
Macrophage Gal/GalNAc lectin 2 (MGL2)+ peritoneal antigen presenting cells during Fasciola hepatica infection are essential for regulatory T cell induction
Authors: Costa Monique , da Costa Valeria , Lores Pablo , Landeira Mercedes , Rodríguez-Zraquia Santiago A. , Festari María Florencia , Freire Teresa 
Published: October 2022

AbstractFasciola hepatica, one of the agents that causes fasciolosis, modulates the host immune system to allow parasite survival in the host. F. hepatica expresses carbohydrate-containing glycoconjugates that are decoded by C-type lectin receptors, such as Dectin-1, mannose receptor, DC-SIGN and MGL, that are mainly present on myeloid antigen presenting cells (APCs) and can mediate immunoregulatory properties on T cells. In particular, Macrophage Gal/GalNAc lectin 2 (MGL2) expands modified Th2 immune responses, while suppressing Th1 polarization, upon recognition of GalNAc-glycosylated parasite components. In this study, by using MGL2-DTR transgenic mice that encode human diphtheria toxin receptor in MGL2+ cells, we demonstrate the role of peritoneal APCs during F. hepatica infection in favoring parasite survival. This process might be mediated by the induction of splenic Tregs in vivo, since the depletion of MGL2+ cells conferred mice with partial resistance to the infection and abrogated the increase of CD4+/CD25+ FoxP3+ Tregs induced by the parasite. Therefore, MGL2+ cells are critical determinants of F. hepatica infection and could constitute immune checkpoints to control parasite infection.
Cannabidiol improves Nile tilapia cichlid fish welfare
Authors: Camargo-dos-Santos Bruno , Bellot Marina Sanson , Guermandi Isabela Inforzato , Favero-Neto João , da Silva Rodrigues Maira , da Costa Daniel Fernandes , Nóbrega Rafael Henrique , Filev Renato , Gonçalves-de-Freitas Eliane , Giaquinto Percília Cardoso 
Published: October 2022

AbstractCannabidiol (CBD) is a substance derived from Cannabis sativa, widely studied in medicine for controlling neural diseases in humans. Besides the positive effects on humans, it also presents anxiolytic proprieties and decreases aggressiveness and stress in mammals. Therefore, CBD has the potential to increase welfare in reared animals, as it seems to reduce negative states commonly experienced in artificial environments. Here, we tested the effect of different CBD doses (0, 1, 10 and 20 mg/kg) on aggressiveness, stress and reproductive development of the Nile tilapia (Oreochromis niloticus) a fish reared worldwide for farming and research purposes. CBD mixed with fish food was offered to isolated fish for 5 weeks. The 10 mg/kg dose decreased fish’s aggressiveness over time, whereas 20 mg/kg attenuated non-social stress. Both doses decreased the baseline cortisol level of fish and increased the gonadosomatic index. However, CBD 1 and 10 mg/kg doses decreased the spermatozoa number. No CBD dose affected feeding ingestion and growth variables, showing that it is not harmful to meat production amount. Despite the effect on spermatozoa, CBD supplementation exhibits high potential to benefit animals’ lives in artificial environments. Therefore, we showed for the first time that CBD could be used as a tool to increase non-mammal welfare, presenting a great potential to be explored in other husbandry and captivity species.