bluuebunny/crossref_metadata_2025_split huggingface dataset:
Dysfunction of histone demethylase IBM1 inArabidopsiscauses autoimmunity and reshapes the root microbiome
Authors: Lv Suhui , Yang Yu , Yu Gang , Peng Li , Zheng Shuai , Singh Sunil Kumar , Vílchez Juan Ignacio , Kaushal Richa , Zi Hailing , Yi Dian , Wang Yuhua , Luo Shaofan , Wu Xiaoxuan , Zuo Ziwei , Huang Weichang , Liu Renyi , Du Jiamu , Macho Alberto P , Tang Kai , Zhang Huiming 
Published: July 2022

AbstractRoot microbiota is important for plant growth and fitness. Little is known about whether and how the assembly of root microbiota may be controlled by epigenetic regulation, which is crucial for gene transcription and genome stability. Here we show that dysfunction of the histone demethylase IBM1 (INCREASE IN BONSAI METHYLATION 1) in Arabidopsis thaliana substantially reshaped the root microbiota, with the majority of the significant amplicon sequence variants (ASVs) being decreased. Transcriptome analyses of plants grown in soil and in sterile growth medium jointly disclosed salicylic acid (SA)-mediated autoimmunity and production of the defense metabolite camalexin in the ibm1 mutants. Analyses of genome-wide histone modifications and DNA methylation highlighted epigenetic modifications permissive for transcription at several important defense regulators. Consistently, ibm1 mutants showed increased resistance to the pathogen Pseudomonas syringae DC3000 with stronger immune responses. In addition, ibm1 showed substantially impaired plant growth promotion in response to beneficial bacteria; the impairment was partially mimicked by exogenous application of SA to wild-type plants, and by a null mutation of AGP19 that is important for cell expansion and that is repressed with DNA hypermethylation in ibm1. IBM1-dependent epigenetic regulation imposes strong and broad impacts on plant-microbe interactions and thereby shapes the assembly of root microbiota.
1,2-Amino oxygenation of alkenes with hydrogen evolution reaction
Authors: Liu Shengzhang , Wang Shengchun , Wang Pengjie , Huang Zhiliang , Wang Tao , Lei Aiwen 
Published: July 2022

Abstract1,2-Amino oxygenation of alkenes has emerged as one of the most straightforward synthetic methods to produce β-amino alcohols, which are important organic building blocks. Thus, a practical synthetic strategy for 1,2-amino oxygenation is highly desirable. Here, we reported an electro-oxidative intermolecular 1,2-amino oxygenation of alkenes with hydrogen evolution, removing the requirement of extra-oxidant. Using commercial oxygen and nitrogen sources as starting materials, this method provides a cheap, scalable, and efficient route to a set of valuable β-amino alcohol derivatives. Moreover, the merit of this protocol has been exhibited by its broad substrate scope and good application in continuous-flow reactors. Furthermore, this method can be extended to other amino-functionalization of alkenes, thereby showing the potential to inspire advances in applications of electro-induced N-centered radicals (NCRs).
Cholesterol sulfate alleviates ulcerative colitis by promoting cholesterol biosynthesis in colonic epithelial cells
Authors: Xu Dongke , Ma Ruijun , Ju Yi , Song Xiaowei , Niu Baolin , Hong Wenting , Wang Rong , Yang Qin , Zhao Zhi , Zhang Yuchen , Zheng Yufan , Bai Qianming , Lv Mingfang , Sun Ning , Li Xiaobo 
Published: July 2022

AbstractCholesterol sulfate, produced by hydroxysteroid sulfotransferase 2B1 (SULT2B1), is highly abundant in the intestine. Herein, we study the functional role and underlying intestinal epithelial repair mechanisms of cholesterol sulfate in ulcerative colitis. The levels of cholesterol and cholesterol sulfate, as well as the expression of Sult2b1 and genes involved in cholesterol biosynthesis, are significantly higher in inflamed tissues from patients with ulcerative colitis than in intestinal mucosa from healthy controls. Cholesterol sulfate in the gut and circulation is mainly catalyzed by intestinal epithelial SULT2B1. Specific deletion of the Sult2b1 gene in the intestinal epithelial cells aggravates dextran sulfate sodium-induced colitis; however, dietary supplementation with cholesterol sulfate ameliorates this effect in acute and chronic ulcerative colitis in mice. Cholesterol sulfate promotes cholesterol biosynthesis by binding to Niemann-Pick type C2 protein and activating sterol regulatory element binding protein 2 in colonic epithelial cells, thereby alleviates ulcerative colitis. In conclusion, cholesterol sulfate contributes to the healing of the mucosal barrier and exhibits therapeutic efficacy against ulcerative colitis in mice.
Maladaptive positive feedback production of ChREBPβ underlies glucotoxic β-cell failure
Authors: Katz Liora S. , Brill Gabriel , Zhang Pili , Kumar Anil , Baumel-Alterzon Sharon , Honig Lee B. , Gómez-Banoy Nicolás , Karakose Esra , Tanase Marius , Doridot Ludivine , Alvarsson Alexandra , Davenport Bennett , Wang Peng , Lambertini Luca , Stanley Sarah A. , Homann Dirk , Stewart Andrew F. , Lo James C. , Herman Mark A. , Garcia-Ocaña Adolfo , Scott Donald K. 
Published: July 2022

AbstractPreservation and expansion of β-cell mass is a therapeutic goal for diabetes. Here we show that the hyperactive isoform of carbohydrate response-element binding protein (ChREBPβ) is a nuclear effector of hyperglycemic stress occurring in β-cells in response to prolonged glucose exposure, high-fat diet, and diabetes. We show that transient positive feedback induction of ChREBPβ is necessary for adaptive β-cell expansion in response to metabolic challenges. Conversely, chronic excessive β-cell-specific overexpression of ChREBPβ results in loss of β-cell identity, apoptosis, loss of β-cell mass, and diabetes. Furthermore, β-cell “glucolipotoxicity” can be prevented by deletion of ChREBPβ. Moreover, ChREBPβ-mediated cell death is mitigated by overexpression of the alternate CHREBP gene product, ChREBPα, or by activation of the antioxidant Nrf2 pathway in rodent and human β-cells. We conclude that ChREBPβ, whether adaptive or maladaptive, is an important determinant of β-cell fate and a potential target for the preservation of β-cell mass in diabetes.
RNA-binding protein RBM3 intrinsically suppresses lung innate lymphoid cell activation and inflammation partially through CysLT1R
Authors: Badrani Jana H. , Strohm Allyssa N. , Lacasa Lee , Civello Blake , Cavagnero Kellen , Haung Yung-An , Amadeo Michael , Naji Luay H. , Lund Sean J. , Leng Anthea , Kim Hyojoung , Baum Rachel E. , Khorram Naseem , Mondal Monalisa , Seumois Grégory , Pilotte Julie , Vanderklish Peter W. , McGee Heather M. , Doherty Taylor A. 
Published: July 2022

AbstractInnate lymphoid cells (ILC) promote lung inflammation in asthma through cytokine production. RNA-binding proteins (RBPs) are critical post-transcriptional regulators, although less is known about RBPs in ILC biology. Here, we demonstrate that RNA-binding motif 3 (RBM3) is highly expressed in lung ILCs and is further induced by alarmins TSLP and IL-33. Rbm3−/− and Rbm3−/−Rag2−/− mice exposed to asthma-associated Alternaria allergen develop enhanced eosinophilic lung inflammation and ILC activation. IL-33 stimulation studies in vivo and in vitro show that RBM3 suppressed lung ILC responses. Further, Rbm3−/− ILCs from bone marrow chimeric mice display increased ILC cytokine production suggesting an ILC-intrinsic suppressive function of RBM3. RNA-sequencing of Rbm3−/− lung ILCs demonstrates increased expression of type 2/17 cytokines and cysteinyl leukotriene 1 receptor (CysLT1R). Finally, Rbm3−/−Cyslt1r−/− mice show dependence on CysLT1R for accumulation of ST2+IL-17+ ILCs. Thus, RBM3 intrinsically regulates lung ILCs during allergen-induced type 2 inflammation that is partially dependent on CysLT1R.
Leveraging antigenic seniority for maternal vaccination to prevent mother-to-child transmission of HIV-1
Authors: Nelson Ashley N. , Dennis Maria , Mangold Jesse F. , Li Katherine , Saha Pooja T. , Cronin Kenneth , Cross Kaitlyn A. , Kumar Amit , Mangan Riley J. , Shaw George M. , Bar Katharine J. , Haynes Barton , Moody Anthony M. , Munir Alam S. , Pollara Justin , Hudgens Michael G. , Van Rompay Koen K. A. , De Paris Kristina , Permar Sallie R. 
Published: July 2022

AbstractThe development of a maternal HIV vaccine to synergize with current antiretroviral drug prophylaxis can overcome implementation challenges and further reduce mother-to-child transmission (MTCT) of HIV. Both the epitope-specificity and autologous neutralization capacity of maternal HIV envelope (Env)-specific antibodies have been implicated in decreased risk of MTCT of HIV. Our goal was to determine if heterologous HIV Env immunization of SHIV.C.CH505-infected, ART-suppressed female rhesus macaques (RMs) could boost autologous Env-specific antibodies. SHIV.C.CH505-infected female RMs (n = 12), began a daily ART regimen at 12 weeks post-infection (wpi), which was continued for 12 weeks. Starting 2 weeks after ART initiation, RMs received 3 monthly immunizations with HIV b.63521/1086.C gp120 or placebo (n = 6/group) vaccine with adjuvant STR8S-C. Compared to the placebo-immunized animals, Env-vaccinated, SHIV-infected RMs exhibited enhanced IgG binding, avidity, and ADCC responses against the vaccine immunogens and the autologous SHIV.C.CH505 Env. Notably, the Env-specific memory B cells elicited by heterologous vaccination were dominated by cells that recognized the SHIV.C.CH505 Env, the antigen of primary exposure. Thus, vaccination of SHIV-infected, ART-suppressed RMs with heterologous HIV Envs can augment multiple components of the antibody response against the Env antigen of primary exposure, suggesting antigenic seniority. Our results suggest that a universal maternal HIV vaccination regimen can be developed to leverage antigenic seniority in targeting the maternal autologous virus pool.
Utility-driven assessment of anonymized data via clustering
Authors: Ferrão Maria Eugénia , Prata Paula , Fazendeiro Paulo 
Published: July 2022

AbstractIn this study, clustering is conceived as an auxiliary tool to identify groups of special interest. This approach was applied to a real dataset concerning an entire Portuguese cohort of higher education Law students. Several anonymized clustering scenarios were compared against the original cluster solution. The clustering techniques were explored as data utility models in the context of data anonymization, using k-anonymity and (ε, δ﻿)-differential as privacy models. The purpose was to assess anonymized data utility by standard metrics, by the characteristics of the groups obtained, and the relative risk (a relevant metric in social sciences research). For a matter of self-containment, we present an overview of anonymization and clustering methods. We used a partitional clustering algorithm and analyzed several clustering validity indices to understand to what extent the data structure is preserved, or not, after data anonymization. The results suggest that for low dimensionality/cardinality datasets the anonymization procedure easily jeopardizes the clustering endeavor. In addition, there is evidence that relevant field-of-study estimates obtained from anonymized data are biased.
Country-level fire perimeter datasets (2001–2021)
Authors: Mahood Adam L. , Lindrooth Estelle J. , Cook Maxwell C. , Balch Jennifer K. 
Published: July 2022

AbstractFire activity is changing across many areas of the globe. Understanding how social and ecological systems respond to fire is an important topic for the coming century. But many countries do not have accessible fire history data. There are several satellite-based products available as gridded data, but these can be difficult to access and use, and require significant computational resources and time to convert into a usable product for a specific area of interest. We developed an open source software package called Fire Event Delineation for python (FIREDpy) which automatically downloads and processes all of the source files for an area of interest from the MODIS burned area product, and runs a spatiotemporal flooding algorithm that converts those hundreds of grids into a single fire perimeter shapefile. Here we present a collection of fire event perimeter datasets for every country on the globe that we created using the FIREDpy software. We will continue to improve the efficiency and flexibility of the underlying algorithm, and intend to update these datasets annually.
Using metabarcoding and droplet digital PCR to investigate drivers of historical shifts in cyanobacteria from six contrasting lakes
Authors: Picard Maïlys , Pochon Xavier , Atalah Javier , Pearman John K. , Rees Andrew , Howarth Jamie D. , Moy Christopher M. , Vandergoes Marcus J. , Hawes Ian , Khan Samiullah , Wood Susanna A. 
Published: July 2022

AbstractThe frequency and intensity of cyanobacterial blooms is increasing worldwide. Multiple factors are implicated, most of which are anthropogenic. New Zealand provides a useful location to study the impacts of human settlement on lake ecosystems. The first humans (Polynesians) arrived about 750 years ago. Following their settlement, there were marked landscape modifications which intensified after European settlement about 150 years ago. The aims of this study were to reconstruct cyanobacterial communities in six lakes over the last 1000 years and explore key drivers of change. Cyanobacterial environmental DNA was extracted from sediment cores and analysed using metabarcoding and droplet digital PCR. Cyanobacteria, including potentially toxic or bloom forming species, were already present in these lakes prior to human arrival, however their overall abundance was low. Total cyanobacteria abundance and richness increased in all lakes after European settlement but was very pronounced in four lakes, where bloom-forming taxa became dominant. These shifts occurred concomitant with land-use change. The catchment of one deteriorated lake is only moderately modified, thus the introduction of non-native fish is posited as the key factor driving this change. The paleolimnological approach used in this study has enabled new insights into timing and potential causes of changes in cyanobacterial communities.
Intravital 3D visualization and segmentation of murine neural networks at micron resolution
Authors: Lautman Ziv , Winetraub Yonatan , Blacher Eran , Yu Caroline , Terem Itamar , Chibukhchyan Adelaida , Marshel James H. , de la Zerda Adam 
Published: July 2022

AbstractOptical coherence tomography (OCT) allows label-free, micron-scale 3D imaging of biological tissues’ fine structures with significant depth and large field-of-view. Here we introduce a novel OCT-based neuroimaging setting, accompanied by a feature segmentation algorithm, which enables rapid, accurate, and high-resolution in vivo imaging of 700 μm depth across the mouse cortex. Using a commercial OCT device, we demonstrate 3D reconstruction of microarchitectural elements through a cortical column. Our system is sensitive to structural and cellular changes at micron-scale resolution in vivo, such as those from injury or disease. Therefore, it can serve as a tool to visualize and quantify spatiotemporal brain elasticity patterns. This highly transformative and versatile platform allows accurate investigation of brain cellular architectural changes by quantifying features such as brain cell bodies’ density, volume, and average distance to the nearest cell. Hence, it may assist in longitudinal studies of microstructural tissue alteration in aging, injury, or disease in a living rodent brain.
Characteristic DNA methylation profiles of chorionic villi in recurrent miscarriage
Authors: Matsumoto Yosuke , Shinjo Keiko , Mase Shoko , Fukuyo Masaki , Aoki Kosuke , Ozawa Fumiko , Yoshihara Hiroyuki , Goto Shinobu , Kitaori Tamao , Ozaki Yasuhiko , Takahashi Satoru , Kaneda Atsushi , Sugiura-Ogasawara Mayumi , Kondo Yutaka 
Published: July 2022

AbstractDysregulation of transcriptional programs that are tightly regulated by DNA methylation during placental and fetal development at different gestational stages, may cause recurrent miscarriage. Here, we examined genome-wide DNA methylation in chorionic villi and decidual tissues from patients suffering RM and from healthy women who had undergone artificial abortion (n = 5 each). We found that 13,426 and 5816 CpG sites were differentially methylated in chorionic villi and decidua, respectively. DNA methylation profiles of chorionic villi, but not decidua, in RM patients was clearly distinct from AA controls. Among the differentially methylated genes, the enhancer region of SPATS2L was significantly more highly methylated in RM patients (n = 19) than AA controls (n = 19; mean methylation level, 52.0%-vs.-28.9%, P < 0.001), resulting in reduced expression of SPATS2L protein in the former. Functionally, depletion of SPATS2L in extravillous trophoblast cells decreased their invasion and migration abilities. Our data indicate that particularly the chorionic villi in RM patients exhibit distinct DNA methylation profiles compared with normal pregnancies and that this changed DNA methylation status may impede the progression of embryo development via the altered expression of genes such as SPATS2L in the villi.
Descriptive epidemiology of soft tissue sarcomas and gastrointestinal stromal tumors in Thailand
Authors: Klangjorhor Jeerawan , Pongnikorn Donsuk , Sittiju Pattaralawan , Phanphaisarn Areerak , Chaiyawat Parunya , Teeyakasem Pimpisa , Kongdang Patiwat , Moonmuang Sutpirat , Waisri Narate , Daoprasert Karnchana , Wisanuyotin Taweechok , Santong Chalongpon , Sitthikong Siriphon , Tuntarattanapong Pakjai , Prechawittayakul Paradee , Pruksakorn Dumnoensun 
Published: July 2022

AbstractThis study aimed to analyze burden of STS and GIST in population and survival rate which represented the current situation of treatment in Thailand. The data was collected from five population-based cancer registries around the country for the period 2001 through 2015. The Segi world standard population was used to calculated age-standardized incidence rates (ASR). Standardized rate ratios (SRR) were used to compare populations. Joinpoint Trend Analysis was used to assess changes in incidence. STATA was used to examine patient survival rates. During the study period, 4080 cases of STS and 457 cases of GIST were reported. The ASR of STS and GIST was 2.14/100,000 person-years and 0.22/100,000 person-years, respectively. The most common histological types of STS were unspecified sarcoma (24.8%), leiomyosarcoma (19.0%) and liposarcoma (11.4%). The overall ASR of STS in Thailand was relatively low compared to Western countries. The five-year survival rate was 62.6% for STS and 63.4% for GIST, which was comparable to the rates reported in other countries. This is the first report of STS and GIST from PBCRs in Thailand. Based on current healthcare service, an overall survival rates of STS and GIST are comparable to those reported from others.
During the COVID-19 pandemic participants prefer settings with a face mask, no interaction and at a closer distance
Authors: Kühne K. , Fischer M. H. , Jeglinski-Mende M. A. 
Published: July 2022

AbstractPeripersonal space is the space surrounding our body, where multisensory integration of stimuli and action execution take place. The size of peripersonal space is flexible and subject to change by various personal and situational factors. The dynamic representation of our peripersonal space modulates our spatial behaviors towards other individuals. During the COVID-19 pandemic, this spatial behavior was modified by two further factors: social distancing and wearing a face mask. Evidence from offline and online studies on the impact of a face mask on pro-social behavior is mixed. In an attempt to clarify the role of face masks as pro-social or anti-social signals, 235 observers participated in the present online study. They watched pictures of two models standing at three different distances from each other (50, 90 and 150 cm), who were either wearing a face mask or not and were either interacting by initiating a hand shake or just standing still. The observers’ task was to classify the model by gender. Our results show that observers react fastest, and therefore show least avoidance, for the shortest distances (50 and 90 cm) but only when models wear a face mask and do not interact. Thus, our results document both pro- and anti-social consequences of face masks as a result of the complex interplay between social distancing and interactive behavior. Practical implications of these findings are discussed.
Stylasterid corals build aragonite skeletons in undersaturated water despite low pH at the site of calcification
Authors: Stewart Joseph A. , Strawson Ivo , Kershaw James , Robinson Laura F. 
Published: July 2022

AbstractAnthropogenic carbon emissions are causing seawater pH to decline, yet the impact on marine calcifiers is uncertain. Scleractinian corals and coralline algae strongly elevate the pH of their calcifying fluid (CF) to promote calcification. Other organisms adopt less energetically demanding calcification approaches but restrict their habitat. Stylasterid corals occur widely (extending well below the carbonate saturation horizon) and precipitate both aragonite and high-Mg calcite, however, their mode of biocalcification and resilience to ocean acidification are unknown. Here we measure skeletal boron isotopes (δ11B), B/Ca, and U/Ca to provide the first assessment of pH and rate of seawater flushing of stylasterid CF. Remarkably, both aragonitic and high-Mg calcitic stylasterids have low δ11B values implying little modification of internal pH. Collectively, our results suggest stylasterids have low seawater exchange rates into the calcifying space or rely on organic molecule templating to facilitate calcification. Thus, despite occupying similar niches to Scleractinia, Stylasteridae exhibit highly contrasting biocalcification, calling into question their resilience to ocean acidification.
Novel arthrocentesis approaches to the carpal joint of the Dromedary Camel (Camelus dromedarius)
Authors: King Fransina Christina , Aldarwich Adnan , Hammoud Maha , Barigye Robert , Shawaf Turke , Al Aiyan Ahmad 
Published: July 2022

AbstractThe knowledge gap regarding the topography and anatomy of the dromedary’s carpal joint must be bridged to improve diagnostic and treatment procedures such as ultrasonography, arthrocentesis, and arthroscopy. Thirty-five distal forelimbs were harvested from 21 dromedaries and studied through gross dissection, casting, ultrasonography, and computerized tomography. Representative three-dimensional models of the joint cavities, recesses, and pouches were obtained using various casting agents. The safety and feasibility of different arthrocentesis approaches were evaluated. This study provides a detailed description of dorsally located joint recesses and palmarly located joint pouches. The dorsomedial and dorsolateral approach is recommended for arthroscopy and arthrocentesis of the radiocarpal and intercarpal joint when the carpus is flexed. However, caution must be exercised during these approaches to prevent needle injury to the articulating cartilage. Caution is necessary to prevent the formation of inadvertent communication between the dorsally located tendon sheaths and joint cavities. Arthrocentesis via the lateral approach to the lateropalmar pouch is the most favourable approach for the radiocarpal joint. A subtendinous synovial bursa was found between the lateropalmar pouch of the radiocarpal joint and the extensor carpi ulnaris muscle. The subtendinous synovial bursa must be considered during the lateral arthrocentesis approach. The palmar approach is not recommended for arthrocentesis due to the high risk of injury to nerves, veins, and arteries located palmarly.