bluuebunny/crossref_metadata_2025_split huggingface dataset:
Integrating the environmental and genetic architectures of mortality and aging
Authors: Argentieri M. Austin , Amin Najaf , Nevado-Holgado Alejo J. , Sproviero William , Collister Jennifer A. , Keestra Sarai M. , Doherty Aiden , Hunter David J. , Alvergne Alexandra , van Duijn Cornelia M. 
Published: March 2023

AbstractIt has long been suggested that environmental exposures (i.e., the exposome) play a dominant role in shaping trajectories of human aging and premature mortality. Here we aimed to quantify the contribution of the exposome and genome to aging and mortality. We conducted an exposome-wide analysis in the UK Biobank (n=492,567) to systematically identify exposures associated with mortality while accounting for exposure correlation and mismeasurement. We found that the exposome is a major mortality determinant irrespective of genetic disease risk via shaping distinct biological and multimorbidity patterns. We identified 41 independent exposures associated with mortality, and demonstrate that most identified exposures are associated with a common signature of age-related multimorbidity, aging biomarkers, and major cardiometabolic risk factors. Compared with age and sex, polygenic risk for 22 major diseases and aging phenotypes explained an additional 2% of mortality variation, whereas the exposome explained an additional 19%. While genetics explained the majority of variation in dementias and breast, prostate, and colorectal cancers, the exposome explained the majority of variation for diseases of the lung, heart, and liver. Our findings provide a comprehensive map of the contributions of environment and genetics to mortality and common age-related diseases.
Analyzing the amplification of Auditory sensation in visually impaired individuals and comparison with normal individuals
Authors: Desai Dev Himanshubhai 
Published: March 2023

AbstractBackgroundIt is commonly believed that if a person loses one of their basic senses like sight or hearing, other senses will be amplified to compensate the loss. It has been proven that this amplification does indeed help the person up to an extent, but this increase in the senses as compared to other individuals, who have all senses intact, has not been quantified.AimTo estimate and compare Auditory Acuity between visually impaired and normal peopleTo calculate the amount of amplification in the Auditory sense in the visually impaired individuals in compared to Normal IndividualsMethodologyA Cross Sectional Case-control Pilot Experimental Study was carried out using a method that has been developed by the authors, wherein a pure tone sound at a specific intensity was brought inwards towards the subject from multiple directions and the distance was measured where the participant could hear the sound and was noted. The same experiment was carried out in Normal Individuals with normal 6/6 vision and these measurements were compared. Positon of nose in respect to the direction of sound source was used to denote the results in angles made by the two. A pure tone of 256 Hz, of 30db was used as the sound source and the distance from the subject was measured in meters.ResultsOut of total 60 individuals in the study, 45 had some degree of blindness. In both groups, the highest sensitivity is at 0° followed by 45°-315°, then comes 90°-270° and 135°-215° to put nose position of 180° at least amount of sensitivity. A 10% amplification in the distance is present between any and all type of visually impaired individuals and normal individuals whereas totally blind individuals have around 20% amplification compared to normal individuals in the distance to appreciate the sound.ConclusionA visible difference can be seen in the distance where a total blind person can hear, which is higher than the distance at which a normal individual can hear. High loss of vision, low loss of vision and one eye blind individuals come in the range between these two. Although, the results are not statistically significant, they are clinically present, and a with a larger sample size, a better assessment of this amplification can be done.
Genome-wide association studies reveal novel loci controlling tuber flesh color and oxidative browning inDioscorea alata
Authors: Dossa Komivi , Morel Angélique , Ezékiel Houngbo Mahugnon , Mota Ana Zotta , Malédon Erick , Irep Jean-Luc , Diman Jean-Louis , Mournet Pierre , Causse Sandrine , Van Kien Nguyen , Cornet Denis , Chair Hâna 
Published: March 2023

AbstractBackgroundConsumers’ preferences for food crops are guided by quality attributes. This study aimed at deciphering the genetic basis of quality traits, especially tuber flesh color (FC) and oxidative browning (OB) inDioscorea alata, based on the genome-wide association studies (GWAS) approach. TheD. alatapanel was planted at two locations in Guadeloupe. At harvest, the FC was scored visually as white, cream, or purple on longitudinally sliced mature tubers. The OB was scored visually as the presence or absence of browning after 15 minutes of exposure of the sliced samples to ambient air.ResultsPhenotypic characterization for FC and OB of a diverse panel ofD. alatagenotypes highlighted significant variation within the panel and across two locations. The genotypes within the panel displayed a weak structure and could be classified into 3 subpopulations. GWAS identified 14 and 4 significant associations for tuber FC and OB, respectively, with phenotypic variance, explained values ranging from 7.18 to 18.04%. Allele segregation analysis at the significantly associated loci highlighted the favorable alleles for the desired traits, i.e., white FC and no OB. A total of 24 putative candidate genes were identified around the significant signals. A comparative analysis with previously reported quantitative trait loci indicated that numerous genomic regions control these traits inD. alata.ConclusionOur study provides important insights into the genetic control of tuber FC and OB inD. alata. The major and stable loci can be further utilized to improve selection in breeding programs for developing new cultivars with enhanced tuber quality.
Rab46: a novel player in mast cell function
Authors: Pedicini Lucia , Smith Jessica , Savic Sinisa , McKeown Lynn 
Published: March 2023

AbstractMast cells are infamous for mediating allergic and inflammatory diseases due to their capacity of rapidly releasing a wide range of inflammatory mediators stored in cytoplasmic granules. However, mast cells also have several important physiological roles that involves selective and agonist-specific release of these active mediators. Whilst a filtering mechanism at the plasma membrane could regulate selective release of some cargo, the plethora of stored cargo and the diversity of mast cell functions suggests the existence of granule subtypes with distinct trafficking pathways. The molecular mechanisms underlying differential trafficking and exocytosis of these granules are not known, neither is it clear how granule trafficking is coupled to the stimulus. In endothelial cells, a Rab GTPase, Rab46, responds to histamine but not thrombin signals, and this regulates the trafficking of a subpopulation of endothelial-specific granules. Here, we sought to explore if Rab46 has a similar function in mast cells. We demonstrate, for the first time, that Rab46 is highly expressed in human and murine mast cells and Rab46 genetic deletion has an effect on mast cell degranulation that depends on both stimuli and mast cell developmental stage. Rab46 could therefore be an important regulator of stimuli-coupled responses in mast cells and future studies will seek to understand these mechanisms in order to develop novel and specific therapeutic targets for treatment of the diverse pathologies mediated by mast cells.
Zobellia alginoliquefacienssp. nov., a new flavobacteria isolated from the epibiota of the brown algaEricaria zosteroides(C.Agardh) Molinari & Guiry 2020
Authors: Barbeyron Tristan , Le Duff Nolwenn , Duchaud Eric , Thomas François 
Published: March 2023

AbstractStrain LLG6346-3.1T, isolated from the thallus of the brown algaEricaria zosteroidescollected in Mediterranean Sea near Bastia in Corsica, France, was characterized using a polyphasic method. Cells were Gram-stain-negative, strictly aerobic, non-flagellated, motile by gliding, rod-shaped and grew optimally at 30-33 °C, at pH 8-8.5 and with 4-5 % NaCl. Strain LLG6346-3.1Tused the seaweed polysaccharide alginic acid as sole carbon source which was vigorously liquefied. Phylogenetic analyses showed that the bacterium is affiliated to the genusZobellia(familyFlavobacteriaceae, classFlavobacteriia). Strain LLG6346-3.1Texhibited 16S rRNA gene sequence similarity values of 98.5 and 98.3 % to the type strains ofZobellia russelliiandZobellia roscoffensisrespectively, and of 97.4-98.2 % to other species of the genusZobellia. The DNA G+C content of strain LLG6346-3.1Twas determined to be 38.28 mol%. Digital DNA-DNA hybridization predictions by the ANI and GGDC methods between strain LLG6346-3.1Tand other members of the genusZobelliashowed values of 76-88 %, and below 37 %, respectively. The phenotypic, phylogenetic and genomic analyses show that strain LLG6346-3.1Tis distinct from species of the genusZobelliawith validly published names and that it represents a novel species of the genusZobellia, for which the nameZobellia alginoliquefacienssp. nov. is proposed. The type strain is LLG6346-3.1T(RCC 7657T= LLG 32918T).
An ancient gene regulatory network sets the position of the forebrain in chordates
Authors: Gattoni Giacomo , Keitley Daniel , Sawle Ashley , Benito-Gutiérrez Elia 
Published: March 2023

AbstractThe evolutionary origin of the vertebrate brain is still a major subject of debate. Its distinctive dorsal position and development from a tubular neuroepithelium are unique to the chordate phylum. Conversely, apical organs (AO) are larval sensory/neurosecretory centers found in many invertebrate taxa, including in animals without a brain. Previous studies have shown that AOs are specified by a conserved set of genes under the influence of Wnt signalling. Although most of these genes are expressed in chordate nervous systems (including vertebrates), no AOs have ever been described in this group of animals. Here we have exploited single-cell genomic approaches to characterize cells showing AO profiles in sea urchin (ambulacrarian), amphioxus (invertebrate chordate) and zebrafish (vertebrate chordate). This, in combination with co-expression analysis in amphioxus embryos, has allowed us to identify an active and dynamic anterior Gene Regulatory Network (aGRN) in the three deuterostome species. We have further discovered that as well as controlling AO specification in sea urchin, this aGRN is involved in the formation of the hypothalamic region in amphioxus and zebrafish. Using a functional approach, we find that the aGRN is controlled by Wnt signalling in amphioxus, and that suppression of the aGRN by Wnt overactivation leads to a loss of forebrain cell types. The loss of the forebrain does not equate to a reduction of neuronal tissue, but to a loss of identity, suggesting a new role for Wnt in amphioxus in specifically positioning the forebrain. We thus propose that the aGRN is conserved throughout bilaterians and that in the chordate lineage was incorporated into the process of neurulation to position the brain, thereby linking the evolution of the AO to that of the chordate forebrain.
Distribution of malaria parasite-derived phosphatidylcholine in the infected erythrocyte
Authors: Vallintine Tansy , van Ooij Christiaan 
Published: March 2023

ABSTRACTMalaria parasites modify their host erythrocyte in multiple ways, leading to changes in the deformability, adhesiveness and permeability of the host erythrocyte. Most of these changes are mediated by proteins exported from the parasite to the host erythrocyte, where these proteins interact with the host cell cytoskeleton or form complexes in the plasma membrane of the infected erythrocyte. In addition, malaria parasites induce the formation of membranous compartments – the parasitophorous vacuole, the tubovesicular network, the Maurer’s clefts and small vesicles – within the infected erythrocyte, a cell that is normally devoid of internal membranes. After infection, changes also occur in the composition and asymmetry of the erythrocyte plasma membrane. Although many aspects of the mechanism of export of parasite proteins have become clear, the mechanism by which these membranous compartments are formed and expanded is almost entirely unknown. To determine whether parasite-derived phospholipids play a part in these processes, we applied a metabolic labelling technique that allows phosphatidylcholine to be labelled with a fluorophore. As the host erythrocyte cannot synthesize phospholipids, within infected erythrocytes, only parasite-derived phosphatidylcholine will be labelled with this technique. The results revealed that phosphatidylcholine produced by the parasite is distributed throughout the infected erythrocyte, including the TVN and the erythrocyte plasma membrane, but not Maurer’s clefts. Interestingly, labelled phospholipids were also detected in the erythrocyte plasma membrane very soon after invasion of the parasites, indicating that the parasite may add phospholipids to the host erythrocyte during invasion.
Dihydroartemisinin inhibits EMT of glioma via gene BASP1 in extrachromosomal DNA
Authors: Zhongyou Que , Zhiwei Zhou , Sheng Liu , Wenhua Zheng , Bingxi Lei 
Published: March 2023

AbstractThe mechanism of dihydroartemisinin (DHA) inhibiting the migration and invasion of glioma in an ROS-DSB-dependent manner has been revealed. Extrachromosomal DNAs (ecDNAs) which are generated by DNA damage have great potential in glioma treatment. However, the role of ecDNAs in DHA’s pharmacological mechanisms in glioma is still unknown. In this study, DHA was found to inhibit proliferative activity, increase ROS levels and promote apoptosis in U87 and U251 cells. Migration and invasion have also been suppressed. ecDNA expression profiles were found in gliomas. EcDNA-BASP1 was found, by means of bioinformatics analysis, to be present in GBM tissues and positively correlated with patient prognosis. Proliferation, migration and invasion were upregulated after knockdown of ecDNA-BASP1. The expression of vimentin and N-cadherin also had the same tendency. Finally, we found that the ecDNA-BASP1 content in nude mouse transplant tumors was significantly increased after DHA treatment, which might exert a better suppressive effect on glioma. The upregulation of tumor suppressor ecDNA-BASP1 played an important role in the suppression of glioma progression induced by DHA. EcDNA-BASP1 may inhibit glioma migration and invasion through repressing epithelial–mesenchymal transition (EMT).
Asymmetric evolution of protein domains in the leucine-rich repeat receptor-like kinase (LRR-RLK) family of plant developmental coordinators
Authors: Man Jarrett , Harrington Thomas , Lally Kyra , Bartlett Madelaine E. 
Published: March 2023

AbstractThe coding sequences of developmental genes are expected to be conserved over deep time, withcis-regulatory change driving the modulation of gene function. In contrast, proteins with roles in defense are expected to evolve rapidly, in molecular arms-races with pathogens. However, some gene families include both developmental and defense genes. In these families, does the tempo and mode of evolution differ between developmental and defense genes, despite shared ancestry and structure? The leucine-rich repeat receptor-like kinase (LRR-RLKs) protein family includes many members with roles in plant development and defense, thus providing an ideal system for answering this question. LRR-RLKs are receptors that traverse plasma membranes. LRR domains bind extracellular ligands, RLK domains initiate intracellular signaling cascades in response to ligand binding. In LRR-RLKs with roles in defense, LRR domains evolve faster than RLK domains. To determine whether this asymmetry extends to developmental LRR-RLKs, we assessed evolutionary rates and tested for selection acting on eleven clades of LRR-RLK proteins, using deeply sampled protein trees. To assess functional evolution, we performed heterologous complementation assays usingArabidopsis thaliana(arabidopsis) LRR-RLK mutants. We found that the LRR domains of developmental LRR-RLK proteins evolved faster than their cognate RLK domains. LRR-RLKs with roles in development and defense had strikingly similar patterns of molecular evolution. Heterologous transformation experiments revealed that the evolution of developmental LRR-RLKs likely involves multiple mechanisms, including changes tocis-regulation, coding sequence evolution, and escape from adaptive conflict. Our results indicate similar evolutionary pressures acting on developmental and defense signaling proteins, despite divergent organismal functions. In addition, deep understanding of the molecular evolution of developmental receptors can help guide targeted genome engineering in agriculture.
Unexpected inhibition of the lipid kinase PIKfyve reveals an epistatic role for p38 MAPKs in endolysosomal fission and volume control
Authors: Wible Daric J. , Parikh Zalak , Cho Eun Jeong , Chen Miao-Der , Mukhopadhyay Somshuvra , Dalby Kevin N. , Varadarajan Shankar , Bratton Shawn B. 
Published: March 2023

ABSTRACTp38 mitogen-activated protein kinases (MAPKs) regulate early endocytic trafficking, but their effects on late endocytic trafficking remain unclear. Herein, we report that the pyridinyl imidazole p38 MAPK inhibitors, SB203580 and SB202190, induce a rapid but reversible Rab7-dependent accumulation of large cytoplasmic vacuoles. While SB203580 did not induce canonical autophagy, phosphatidylinositol 3-phosphate [PI(3)P] accumulated on vacuole membranes, and inhibition of the class III PI3-kinase (PIK3C3/VPS34) suppressed vacuolation. Ultimately, vacuolation resulted from the fusion of ER/Golgi-derived membrane vesicles with late endosomes and lysosomes (LELs), combined with an osmotic imbalance in LELs that led to severe swelling and a decrease in LEL fission. Since PIKfyve inhibitors induce a similar phenotype by preventing the conversion of PI(3)P to PI(3,5)P2, we performedin vitrokinase assays and found that PIKfyve activity was unexpectedly inhibited by SB203580 and SB202190, corresponding to losses in endogenous PI(3,5)P2 levels in treated cells. However, vacuolation was not entirely due to ‘off-target’ inhibition of PIKfyve by SB203580, as a drug-resistant p38α mutant suppressed vacuolation. Moreover, genetic deletion of both p38α and p38β rendered cells dramatically more sensitive to PIKfyve inhibitors, including YM201636 and apilimod. In subsequent ‘washout’ experiments, the rate of vacuole dissolution upon the removal of apilimod was also significantly reduced in cells treated with BIRB-796, a structurally unrelated p38 MAPK inhibitor. Thus, p38 MAPKs act epistatically to PIKfyve to promote LEL fission; and pyridinyl imidazole p38 MAPK inhibitors induce cytoplasmic vacuolation through the combined inhibition of both PIKfyve and p38 MAPKs.
A primer on integrated generalized structured component analysis
Authors: Hwang Heungsun , Sarstedt Marko , Cho Gyeongcheol , Choo Hosung , Ringle Christian M. 
Published: March 2023

Purpose
The purpose of this paper is to present integrated generalized structured component analysis (IGSCA) as a versatile approach for estimating models that contain both components and factors as statistical proxies for the constructs. The paper sets out to discuss the how-tos of using IGSCA by explaining how to specify, estimate, and evaluate different types of models. The paper’s overarching aim is to make business researchers aware of this promising structural equation modeling (SEM) method.

Design/methodology/approach
By merging works of literature from various fields of science, the paper provides an overview of the steps that are required to run IGSCA. Findings from conceptual, analytical and empirical articles are combined to derive concrete guidelines for IGSCA use. Finally, an empirical case study is used to illustrate the analysis steps with the GSCA Pro software.

Findings
Many of the principles and metrics known from partial least squares path modeling – the most prominent component-based SEM method – are also relevant in the context of IGSCA. However, there are differences in model specification, estimation and evaluation (e.g. assessment of overall model fit).

Research limitations/implications
Methodological developments associated with IGSCA are rapidly emerging. The metrics reported in this paper are useful for current applications, but researchers should follow the latest developments in the field.

Originality/value
To the best of the authors’ knowledge, this is the first paper to offer guidelines for IGSCA use and to illustrate the method's application by means of the GSCA Pro software. The recommendations and illustrations guide researchers who are seeking to conduct IGSCA studies in business research and practice.
Digital future beyond pandemic outbreak: systematic review of the impact of COVID-19 outbreak on digital psychology
Authors: Khan Mudassar , Khan Nohman , Begum Samina , Qureshi Muhammad Imran 
Published: March 2023

Purpose
The globe has experienced a devastating COVID-19 pandemic, putting the planet under lockdown and causing social alienation. The near collapse of social and economic activities is disrupting the supply chain. Customer-required products were in low supply across the world. A slew of new digital firms springs up to fill the need during this time. This study aims to reach a holistic goal by better understanding customers' digitalisation behaviour. The first step is to review existing consumer digital psychology research to map this study’s current knowledge of the pandemic's early and late phases and the impact of digital businesses on consumer behaviour. Finally, it provides lawmakers with a future agenda for limiting the digital psychology of consumers and enterprises.

Design/methodology/approach
This study used the Scopus and Web of Science databases to extract records to follow the preferred reporting items for systematic reviews and meta-analyses statement. The final 57 papers were applied after the screening process. The digital environment, psychological digitalisation and behavioural changes were recognised as three primary classes based on a comprehensive examination of the previous literature. This study identified possible difficulties in earlier literature: the scarcity of collaborative and transdisciplinary research on digital psychology, which various academics have emphasised in the past. On the other hand, these investigations were primarily conducted in the psychological surroundings of technology users.

Findings
According to this study, digital psychology has improved significantly during the pandemic and many new digital start-ups have arisen. This study also used digital research to create a framework for a pandemic strategic response plan to help minimise the current COVID-19 pandemic and prepare for future outbreaks.

Originality/value
The study mapped existing literature on digital psychology alterations because of the novel COVID-19 outbreak.