bluuebunny/crossref_metadata_2025_split huggingface dataset:
Gut microbiome and metabolome in a non-human primate model of chronic excessive alcohol drinking
Authors: Piacentino Daria , Grant-Beurmann Silvia , Vizioli Carlotta , Li Xiaobai , Moore Catherine F. , Ruiz-Rodado Victor , Lee Mary R. , Joseph Paule V. , Fraser Claire M. , Weerts Elise M. , Leggio Lorenzo 
Published: December 2021

AbstractA relationship between the gut microbiome and alcohol use disorder has been suggested. Excessive alcohol use produces changes in the fecal microbiome and metabolome in both rodents and humans. Yet, these changes can be observed only in a subgroup of the studied populations, and reversal does not always occur after abstinence. We aimed to analyze fecal microbial composition and function in a translationally relevant baboon model of chronic heavy drinking that also meets binge criteria (drinking too much, too fast, and too often), i.e., alcohol ~1 g/kg and blood alcohol levels (BALs) ≥ 0.08 g/dL in a 2-hour period, daily, for years. We compared three groups of male baboons (Papio anubis): L = Long-term alcohol drinking group (12.1 years); S = Short-term alcohol drinking group (2.7 years); and C = Control group, drinking a non-alcoholic reinforcer (Tang®) (8.2 years). Fecal collection took place during 3 days of Drinking (D), followed by a short period (3 days) of Abstinence (A). Fecal microbial alpha- and beta-diversity were significantly lower in L vs. S and C (p’s < 0.05). Members of the commensal families Lachnospiraceae and Prevotellaceae showed a relative decrease, whereas the opportunistic pathogen Streptococcus genus showed a relative increase in L vs. S and C (p’s < 0.05). Microbiota-related metabolites of aromatic amino acids, tricarboxylic acid cycle, and pentose increased in L vs. S and C (FDR-corrected p < 0.01), with the latter two suggesting high energy metabolism and enhanced glycolysis in the gut lumen in response to alcohol. Consistent with the long-term alcohol exposure, mucosal damage and oxidative stress markers (N-acetylated amino acids, 2-hydroxybutyrate, and metabolites of the methionine cycle) increased in L vs. S and C (FDR-corrected p < 0.01). Overall, S showed few differences vs. C, possibly due to the long-term, chronic alcohol exposure needed to alter the normal gut microbiota. In the three groups, the fecal microbiome barely differed between conditions D and A, whereas the metabolome shifted in the transition from condition D to A. In conclusion, changes in the fecal microbiome and metabolome occur after significant long-term excessive drinking and are only partially affected by acute forced abstinence from alcohol. These results provide novel information on the relationship between the fecal microbiome and metabolome in a controlled experimental setting and using a unique non-human primate model of chronic excessive alcohol drinking.
Monoclonal gammopathy of undetermined significance and COVID-19: a population-based cohort study
Authors: Rognvaldsson Saemundur , Eythorsson Elias , Thorsteinsdottir Sigrun , Vidarsson Brynjar , Onundarson Pall Torfi , Agnarsson Bjarni A. , Sigurdardottir Margret , Thorsteinsdóttir Ingunn , Olafsson Isleifur , Runolfsdottir Hrafnhildur L. , Helgason Dadi , Emilsdottir Arna R. , Agustsson Arnar S. , Bjornsson Aron H. , Kristjansdottir Gudrun , Thordardottir Asdis Rosa , Indridason Olafur Skuli , Jonsson Asbjorn , Gislason Gauti Kjartan , Olafsson Andri , Steingrimsdottir Hlif , Kampanis Petros , Hultcrantz Malin , Durie Brian G. M. , Harding Stephen , Landgren Ola , Palsson Runolfur , Love Thorvarður Jon , Kristinsson Sigurdur Yngvi 
Published: December 2021

AbstractMultiple myeloma (MM) patients have increased risk of severe coronavirus disease 2019 (COVID-19) when infected by severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Monoclonal gammopathy of undetermined significance (MGUS), the precursor of MM has been associated with immune dysfunction which may lead to severe COVID-19. No systematic data have been published on COVID-19 in individuals with MGUS. We conducted a large population-based cohort study evaluating the risk of SARS-CoV-2 infection and severe COVID-19 among individuals with MGUS. We included 75,422 Icelanders born before 1976, who had been screened for MGUS in the Iceland Screens Treats or Prevents Multiple Myeloma study (iStopMM). Data on SARS-CoV-2 testing and COVID-19 severity were acquired from the Icelandic COVID-19 Study Group. Using a test-negative study design, we included 32,047 iStopMM participants who had been tested for SARS-CoV-2, of whom 1754 had MGUS. Among these participants, 1100 participants, tested positive, 65 of whom had MGUS. Severe COVID-19 developed in 230 participants, including 16 with MGUS. MGUS was not associated with SARS-CoV-2 infection (Odds ratio (OR): 1.05; 95% confidence interval (CI): 0.81–1.36; p = 0.72) or severe COVID-19 (OR: 0.99; 95%CI: 0.52–1.91; p = 0.99). These findings indicate that MGUS does not affect the susceptibility to SARS-CoV-2 or the severity of COVID-19.
Cancer-associated fibroblast-derived exosomal miR-18b promotes breast cancer invasion and metastasis by regulating TCEAL7
Authors: Yan Ziqian , Sheng Zhimei , Zheng Yuanhang , Feng Ruijun , Xiao Qinpei , Shi Lihong , Li Hongli , Yin Chonggao , Luo Hao , Hao Chong , Wang Wenhao , Zhang Baogang 
Published: December 2021

AbstractStudies have shown that cancer-associated fibroblasts (CAFs) play an irreplaceable role in the occurrence and development of tumors. Therefore, exploring the action and mechanism of CAFs on tumor cells is particularly important. In this study, we compared the effects of CAFs-derived exosomes and normal fibroblasts (NFs)-derived exosomes on breast cancer cells migration and invasion. The results showed that exosomes from both CAFs and NFs could enter into breast cancer cells and CAFs-derived exosomes had a more enhancing effect on breast cancer cells migration and invasion than NFs-derived exosomes. Furthermore, microRNA (miR)-18b was upregulated in CAFs-derived exosomes, and CAFs-derived exosomes miR-18b can promote breast cancer cell migration and metastasis by specifically binding to the 3′UTR of Transcription Elongation Factor A Like 7 (TCEAL7). The miR-18b-TCEAL7 pathway promotes nuclear Snail ectopic activation by activating nuclear factor-kappa B (NF-κB), thereby inducing epithelial-mesenchymal transition (EMT) and promoting cell invasion and metastasis. Moreover, CAFs-derived exosomes miR-18b could promote mouse xenograft model tumor metastasis. Overall, our findings suggest that CAFs-derived exosomes miR-18b promote nuclear Snail ectopic by targeting TCEAL7 to activate the NF-κB pathway, thereby inducing EMT, invasion, and metastasis of breast cancer. Targeting CAFs-derived exosome miR-18b may be a potential treatment option to overcome breast cancer progression.
Generation and characterization of stable pig pregastrulation epiblast stem cell lines
Authors: Zhi Minglei , Zhang Jinying , Tang Qianzi , Yu Dawei , Gao Shuai , Gao Dengfeng , Liu Pengliang , Guo Jianxiong , Hai Tang , Gao Jie , Cao Suying , Zhao Zimo , Li Chongyang , Weng Xiaogang , He Mengnan , Chen Tianzhi , Wang Yingjie , Long Keren , Jiao Deling , Li Guanglei , Zhang Jiaman , Liu Yan , Lin Yu , Pang Daxin , Zhu Qianqian , Chen Naixin , Huang Jingjing , Chen Xinze , Yao Yixuan , Yang Jingcang , Xie Zicong , Huang Xianya , Liu Mengxin , Zhang Ran , Li Qiuyan , Miao Yiliang , Tian Jianhui , Huang Xingxu , Ouyang Hongsheng , Liu Bofeng , Xie Wei , Zhou Qi , Wei Hongjiang , Liu Zhonghua , Zheng Caihong , Li Mingzhou , Han Jianyong 
Published: November 2021

AbstractPig epiblast-derived pluripotent stem cells are considered to have great potential and broad prospects for human therapeutic model development and livestock breeding. Despite ongoing attempts since the 1990s, no stably defined pig epiblast-derived stem cell line has been established. Here, guided by insights from a large-scale single-cell transcriptome analysis of pig embryos from embryonic day (E) 0 to E14, specifically, the tracing of pluripotency changes during epiblast development, we developed an in vitro culture medium for establishing and maintaining stable pluripotent stem cell lines from pig E10 pregastrulation epiblasts (pgEpiSCs). Enabled by chemical inhibition of WNT-related signaling in combination with growth factors in the FGF/ERK, JAK/STAT3, and Activin/Nodal pathways, pgEpiSCs maintain their pluripotency transcriptome features, similar to those of E10 epiblast cells, and normal karyotypes after more than 240 passages and have the potential to differentiate into three germ layers. Strikingly, ultradeep in situ Hi-C analysis revealed functional impacts of chromatin 3D-spatial associations on the transcriptional regulation of pluripotency marker genes in pgEpiSCs. In practice, we confirmed that pgEpiSCs readily tolerate at least three rounds of successive gene editing and generated cloned gene-edited live piglets. Our findings deliver on the long-anticipated promise of pig pluripotent stem cells and open new avenues for biological research, animal husbandry, and regenerative biomedicine.
A DAP5/eIF3d alternate mRNA translation mechanism promotes differentiation and immune suppression by human regulatory T cells
Authors: Volta Viviana , Pérez-Baos Sandra , de la Parra Columba , Katsara Olga , Ernlund Amanda , Dornbaum Sophie , Schneider Robert J. 
Published: November 2021

AbstractRegulatory T cells (Treg cells) inhibit effector T cells and maintain immune system homeostasis. Treg cell maturation in peripheral sites requires inhibition of protein kinase mTORC1 and TGF-beta-1 (TGF-beta). While Treg cell maturation requires protein synthesis, mTORC1 inhibition downregulates it, leaving unanswered how Treg cells achieve essential mRNA translation for development and immune suppression activity. Using human CD4+ T cells differentiated in culture and genome-wide transcription and translation profiling, here we report that TGF-beta transcriptionally reprograms naive T cells to express Treg cell differentiation and immune suppression mRNAs, while mTORC1 inhibition impairs translation of T cell mRNAs but not those induced by TGF-beta. Rather than canonical mTORC1/eIF4E/eIF4G translation, Treg cell mRNAs utilize the eIF4G homolog DAP5 and initiation factor eIF3d in a non-canonical translation mechanism that requires cap-dependent binding by eIF3d directed by Treg cell mRNA 5’ noncoding regions. Silencing DAP5 in isolated human naive CD4+ T cells impairs their differentiation into Treg cells. Treg cell differentiation is mediated by mTORC1 downregulation and TGF-beta transcriptional reprogramming that establishes a DAP5/eIF3d-selective mechanism of mRNA translation.
Unravelling strong electronic interlayer and intralayer correlations in a transition metal dichalcogenide
Authors: Whitcher T. J. , Fauzi Angga Dito , Caozheng D. , Chi X. , Syahroni A. , Asmara T. C. , Breese M. B. H. , Neto A. H. Castro , Wee A. T. S. , Majidi M. Aziz , Rusydi A. 
Published: November 2021

AbstractElectronic correlations play important roles in driving exotic phenomena in condensed matter physics. They determine low-energy properties through high-energy bands well-beyond optics. Great effort has been made to understand low-energy excitations such as low-energy excitons in transition metal dichalcogenides (TMDCs), however their high-energy bands and interlayer correlation remain mysteries. Herewith, by measuring temperature- and polarization-dependent complex dielectric and loss functions of bulk molybdenum disulphide from near-infrared to soft X-ray, supported with theoretical calculations, we discover unconventional soft X-ray correlated-plasmons with low-loss, and electronic transitions that reduce dimensionality and increase correlations, accompanied with significantly modified low-energy excitons. At room temperature, interlayer electronic correlations, together with the intralayer correlations in the c-axis, are surprisingly strong, yielding a three-dimensional-like system. Upon cooling, wide-range spectral-weight transfer occurs across a few tens of eV and in-plane p–d hybridizations become enhanced, revealing strong Coulomb correlations and electronic anisotropy, yielding a two-dimensional-like system. Our result shows the importance of strong electronic, interlayer and intralayer correlations in determining electronic structure and opens up applications of utilizing TMDCs on plasmonic nanolithrography.
Cilia locally synthesize proteins to sustain their ultrastructure and functions
Authors: Hao Kai , Chen Yawen , Yan Xiumin , Zhu Xueliang 
Published: November 2021

AbstractCilia are microtubule-based hair-like organelles propelling locomotion and extracellular liquid flow or sensing environmental stimuli. As cilia are diffusion barrier-gated subcellular compartments, their protein components are thought to come from the cell body through intraflagellar transport or diffusion. Here we show that cilia locally synthesize proteins to maintain their structure and functions. Multicilia of mouse ependymal cells are abundant in ribosomal proteins, translation initiation factors, and RNA, including 18 S rRNA and tubulin mRNA. The cilia actively generate nascent peptides, including those of tubulin. mRNA-binding protein Fmrp localizes in ciliary central lumen and appears to function in mRNA delivery into the cilia. Its depletion by RNAi impairs ciliary local translation and induces multicilia degeneration. Expression of exogenous Fmrp, but not an isoform tethered to mitochondria, rescues the degeneration defects. Therefore, local translation defects in cilia might contribute to the pathology of ciliopathies and other diseases such as Fragile X syndrome.
Loss of PRC2 subunits primes lineage choice during exit of pluripotency
Authors: Loh Chet H. , van Genesen Siebe , Perino Matteo , Bark Magnus R. , Veenstra Gert Jan C. 
Published: November 2021

AbstractPolycomb Repressive Complex 2 (PRC2) is crucial for the coordinated expression of genes during early embryonic development, catalyzing histone H3 lysine 27 trimethylation. Two distinct PRC2 complexes, PRC2.1 and PRC2.2, contain respectively MTF2 and JARID2 in embryonic stem cells (ESCs). In this study, we explored their roles in lineage specification and commitment, using single-cell transcriptomics and mouse embryoid bodies derived fromMtf2andJarid2null ESCs. We observe that the loss ofMtf2results in enhanced and faster differentiation towards cell fates from all germ layers, while theJarid2null cells are predominantly directed towards early differentiating precursors, with reduced efficiency towards mesendodermal lineages. These effects are caused by derepression of developmental regulators that are poised for activation in pluripotent cells and gain H3K4me3 at their promoters in the absence of PRC2 repression. Upon lineage commitment, the differentiation trajectories are relatively similar to those of wild-type cells. Together, our results uncover a major role for MTF2-containing PRC2.1 in balancing poised lineage-specific gene activation, whereas the contribution of JARID2-containing PRC2 is more selective in nature compared to MTF2. These data explain how PRC2 imposes thresholds for lineage choice during the exit of pluripotency.
COVID-19 Flow-Maps an open geographic information system on COVID-19 and human mobility for Spain
Authors: Ponce-de-Leon Miguel , del Valle Javier , Fernandez José María , Bernardo Marc , Cirillo Davide , Sanchez-Valle Jon , Smith Matthew , Capella-Gutierrez Salvador , Gullón Tania , Valencia Alfonso 
Published: November 2021

AbstractCOVID-19 is an infectious disease caused by the SARS-CoV-2 virus, which has spread all over the world leading to a global pandemic. The fast progression of COVID-19 has been mainly related to the high contagion rate of the virus and the worldwide mobility of humans. In the absence of pharmacological therapies, governments from different countries have introduced several non-pharmaceutical interventions to reduce human mobility and social contact. Several studies based on Anonymized Mobile Phone Data have been published analysing the relationship between human mobility and the spread of coronavirus. However, to our knowledge, none of these data-sets integrates cross-referenced geo-localised data on human mobility and COVID-19 cases into one all-inclusive open resource. Herein we present COVID-19 Flow-Maps, a cross-referenced Geographic Information System that integrates regularly updated time-series accounting for population mobility and daily reports of COVID-19 cases in Spain at different scales of time spatial resolution. This integrated and up-to-date data-set can be used to analyse the human dynamics to guide and support the design of more effective non-pharmaceutical interventions.
High-energy synchrotron X-ray tomography coupled with digital image correlation highlights likely failure points inside ITER toroidal field conductors
Authors: Warr Ryan , Jewell Matthew C. , Mitchell Neil , Rack Alexander , Swanson Jack , Tronza Vladimir , Cernik Robert 
Published: November 2021

AbstractTwo sections of heat-treated (HT) and non-heat-treated (NHT) Cable-in-Conduit Conductor (CICC) of a design similar to the ITER tokomak have been imaged using very high energy X-ray tomography at the ESRF beamline ID19. The sample images were collected at four temperatures down to 77 K. These results showed a greater degree of movement, bundle distortion and touching strands in the NHT sample. The HT sample showed non-linear movements with temperature especially close to 77 K; increasing non-circularity of the superconducting fibre bundles towards the periphery of the CICC, and touching bundles throughout the CICC. The images have highlighted where future design might improve potential weakness, in particular at the outer perimeters of the conductor and the individual sub-cable, ‘petal’ wraps.
Factors associated with sunbed use among 3692 outpatients in 18 centers of the Italian Cancer League (LILT)
Authors: Mastroeni Simona , Sampogna Francesca , Salcedo Nidia Melo , Ricci Francesco , Fania Luca , Antonelli Flaminia , Abeni Damiano , Cristofolini Mario 
Published: November 2021

AbstractIndoor tanning is associated with an increased risk of skin cancer. Nonetheless, its use is still widespread. We aimed to investigate the socio-demographic and clinical characteristics of sunbed users in a group of participants in the skin cancer prevention campaign organized by the Italian Cancer League (LILT). During almost 2 years, 4409 individuals were screened in 18 centers. Participants reported having used sunbeds before the age of 15 years in 2.2% of cases, while after age 15 the prevalence of use was 22.2%. Participants with complete information were 3692. Sunbed users aged > 15 years were significantly more frequently females, young, living in Northern Italy, highly educated, and current or former smokers. They had darker phototype, more common nevi, had used sunbeds more frequently before the age of 15, reported a history of sunburns, and use of sunscreens. Indoor tanning is an important public health issue and a relevant target for primary prevention. However, not all countries have adopted the recommendations issued by the World Health Organization (WHO) on health risks associated with artificial tanning. A deeper insight into the topic may contribute to identify the best prevention strategies.
Metabarcoding analysis of trophic sources and linkages in the plankton community of the Kuroshio and neighboring waters
Authors: Kobari Toru , Tokumo Yusuke , Sato Ibuki , Kume Gen , Hirai Junya 
Published: December 2021

AbstractTrophic sources and pathways supporting early life stages are crucial for survival of forage fishes recruiting around the oligotrophic and unproductive Kuroshio. However, information is limited for the Kuroshio planktonic food web and its trophodynamics because of its high biodiversity. Here, we explore trophic sources and linkages in the Kuroshio plankton community using metabarcoding analysis of gut-content DNA for 22 mesozooplankton groups. The major prey was dinoflagellates and calanoids for omnivorous groups, and calanoids and gelatinous organisms for carnivorous groups. Larvaceans and hydrozoans were the most frequently appeared prey for both omnivores and carnivores, whereas they were minor constituents of the available prey in water samples. Although calanoids overlapped as major prey items for both omnivores and carnivores because they were the most available, contributions from phytoplankton and gelatinous prey differed among taxonomic groups. Further analysis of the metabarcoding data showed that in addition to omnivorous copepods like calanoids, gelatinous groups like larvaceans and hydrozoans were important hubs in the planktonic food web with their multiple trophic linkages to many components. These findings suggest that gelatinous organisms are important as supplementary prey and provide evidence of niche segregation on trophic sources among mesozooplankton groups in the Kuroshio.
Electromagnetohydrodynamic bioconvective flow of binary fluid containing nanoparticles and gyrotactic microorganisms through a stratified stretching sheet
Authors: Dawar Abdullah , Saeed Anwar , Islam Saeed , Shah Zahir , Kumam Wiyada , Kumam Poom 
Published: November 2021

AbstractBioconvection has recently been the subject of dispute in a number of biotechnological fields that depend on fluids and their physical properties. When mixed nanofluids are subjected to heat and mass transmission, the process of bioconvection occurs. This attempt conveys the theoretical analysis of two-dimensional electrically conducting and magnetically susceptible binary fluid containing nanoparticles and gyrotactic microorganisms past a stratified stretching surface. Furthermore binary chemical reaction, thermal radiation, and activation energy are taken into assumptions. The analytical solution based on HAM has been performed. The convergence of HAM is presented with the help of figures. The present study is compared with previously published results and has established an excessive agreement which validate the present study. It is perceived that the presence and absence of an electric field influences the variations in fluid velocities due to presence of magnetic field. The micropolar constant heightens the velocity and microrotation of the fluid flow. The buoyancy parameter and bioconvection Rayleigh number diminish the velocity function while these parameters show dual impact on microrotation function. The skin friction and couple stress escalates with the increasing buoyancy ratio parameter and bioconvection Rayleigh number.