bluuebunny/crossref_metadata_2025_split huggingface dataset:
From backyard to backcountry: changes in mammal communities across an urbanization gradient
Authors: Hansen Christopher P , Kays Roland , Millspaugh Joshua J 
Published: November 2023

Abstract
Urbanization often results in biodiversity loss and homogenization, but this result is not universal and there is substantial variability in the spatiotemporal effects of urbanization on wildlife across cities and taxa. Areas with lower population and housing density are some of the fastest-growing regions in the western United States; thus, more research in these areas could offer additional insight into the effects of urbanization on wildlife and the potential importance of wild spaces in maintaining a diverse biotic community surrounding developed areas. To address this need, we conducted a study to identify the effects of urbanization (i.e. housing density) on mammals along a housing density gradient from wilderness to suburbia in Missoula, Montana. We deployed 178 motion-activated trail cameras at random sites within urban/suburban, exurban, rural, and wild regions from May to October 2019 to 2020. We identified all mammals &gt;150 g, then evaluated how housing density influenced: (i) occupancy and (ii) species richness using multispecies occupancy models; (iii) relative abundance using Poisson models; and (iv) diel activity patterns using kernel density estimation and logistic regression. Urbanization was the strongest driver of mammal distribution, with a linear decline in mammal species richness as housing density increased. Urbanization also had strong effects on occupancy and detection rates, with larger-bodied mammals generally having stronger negative associations. Overall, mammal relative abundance was highest in suburban regions; however, this effect was largely driven by White-tailed Deer. Natural environmental factors explained most changes in mammal nocturnal activity; however, urbanization strongly affected nocturnality in some species, with Black Bear and White-tailed Deer becoming more nocturnal and Red Fox and Northern Raccoon becoming less nocturnal as housing density increased. While our study confirms that some mammals can live and thrive in developed areas, it emphasizes the importance of maintaining wild areas for those species that cannot.
Comparisons of Pediatric and Adult SARS-CoV-2-Specific Antibodies up to 6 Months after Infection, Vaccination, or Hybrid Immunity
Authors: Kim Minjun , Cheng Wesley A , Congrave-Wilson Zion , Marentes Ruiz Carolyn Jennifer , Turner Lauren , Mendieta Shirley , Jumarang Jaycee , Del Valle Jennifer , Lee Yesun , Fabrizio Thomas , Allen E Kaitlynn , Thomas Paul G , Webby Richard , Gordon Aubree , Pannaraj Pia S 
Published: November 2023

Abstract

Background
Characterization of longitudinal SARS-CoV-2-specific antibody responses in children following infection and vaccination is needed to inform SARS-CoV-2 vaccine policy decisions for children, which may differ from adults.

Methods
We enrolled individuals at the time of SARS-CoV-2 infection or vaccination for longitudinal serological testing and compared SARS-CoV-2-spike-specific IgG and neutralization activity in children and adults stratified by infection and vaccination status using enzyme-linked immunosorbent and virus neutralization assays.

Results
Between June 2020 and December 2022, we collected sera from 669 participants aged 40 days to 55 years, including 330 unvaccinated individuals with laboratory-confirmed SARS-CoV-2 infection, 180 vaccinated SARS-CoV-2-naïve individuals, and 159 vaccinated previously infected individuals. Half (n = 330, 49.3%) were children. SARS-CoV-2-specific IgG and neutralization activity in children &lt; 12 years old in response to infection persisted at higher levels than those of adults through at least 6 months (spike-specific IgG levels, 2.05 [95% CI: 1.4-3.1] times higher than adults; neutralizing activity, median 88.8 vs 75.2%, respectively, p = .04). In addition, all pediatric participants had significantly higher IgG levels compared with adults at 6 months following infection or vaccination, regardless of prior infection status. Vaccine-induced SARS-CoV-2-specific IgG responses in previously infected individuals persisted at higher levels than those from infection alone at 6 months (median AUC, children 5-11 years old, 9115 vs 368; adolescents 3613 vs 475; adults 1956 vs 263, all p &lt; .001).

Conclusions
These data demonstrate the robust and persistent immunologic response of SARS-CoV-2 vaccination in children and emphasize the benefit of vaccination after SARS-CoV-2 infection.
Weakly supervised anomaly detection in the Milky Way
Authors: Pettee Mariel , Thanvantri Sowmya , Nachman Benjamin , Shih David , Buckley Matthew R , Collins Jack H 
Published: November 2023

ABSTRACT
Large-scale astrophysics data sets present an opportunity for new machine learning techniques to identify regions of interest that might otherwise be overlooked by traditional searches. To this end, we demonstrate how Classification Without Labels (CWoLa), a weakly supervised anomaly detection method, can help identify cold stellar streams within the more than one billion Milky Way stars observed by the Gaia satellite. CWoLa operates without the use of labelled streams or knowledge of astrophysical principles. Instead, it uses a classifier to distinguish between mixed samples for which the proportions of signal and background samples are unknown. As a proof of concept, we demonstrate that this computationally lightweight strategy is able to detect both simulated streams and the known stream GD-1 in data. Originally designed for high-energy collider physics, this technique may have broad applicability within astrophysics as well as other domains interested in identifying localized anomalies.
Systematic reanalysis of KMTNet microlensing events, paper I: Updates of the photometry pipeline and a new planet candidate
Authors: Yang Hongjing , Yee Jennifer C , Hwang Kyu-Ha , Qian Qiyue , Bond Ian A , Gould Andrew , Hu Zhecheng , Zhang Jiyuan , Mao Shude , Zhu Wei , Albrow Michael D , Chung Sun-Ju , Kim Seung-Lee , Park Byeong-Gon , Han Cheongho , Jung Youn Kil , Ryu Yoon-Hyun , Shin In-Gu , Shvartzvald Yossi , Cha Sang-Mok , Kim Dong-Jin , Kim Hyoun-Woo , Lee Chung-Uk , Lee Dong-Joo , Lee Yongseok , Pogge Richard W , Zang Weicheng , Abe Fumio , Barry Richard , Bennett David P , Bhattacharya Aparna , Donachie Martin , Fujii Hirosane , Fukui Akihiko , Hirao Yuki , Itow Yoshitaka , Kirikawa Rintaro , Kondo Iona , Koshimoto Naoki , Silva Stela Ishitani , Li Man Cheung Alex , Matsubara Yutaka , Muraki Yasushi , Suzuki Daisuke , Tristram Paul J , Yonehara Atsunori , Ranc Clément , Miyazaki Shota , Olmschenk Greg , Rattenbury Nicholas J , Satoh Yuki , Shoji Hikaru , Sumi Takahiro , Tanaka Yuzuru , Yamawaki Tsubasa 
Published: November 2023

ABSTRACT
In this work, we update and develop algorithms for KMTNet tender-love care (TLC) photometry in order to create a new, mostly automated, TLC pipeline. We then start a project to systematically apply the new TLC pipeline to the historic KMTNet microlensing events, and search for buried planetary signals. We report the discovery of such a planet candidate in the microlensing event MOA-2019-BLG-421/KMT-2019-BLG-2991. The anomalous signal can be explained by either a planet around the lens star or the orbital motion of the source star. For the planetary interpretation, despite many degenerate solutions, the planet is most likely to be a Jovian planet orbiting an M or K dwarf, which is a typical microlensing planet. The discovery proves that the project can indeed increase the sensitivity of historic events and find previously undiscovered signals.
MODOMICS: a database of RNA modifications and related information. 2023 update
Authors: Cappannini Andrea , Ray Angana , Purta Elżbieta , Mukherjee Sunandan , Boccaletto Pietro , Moafinejad S Naeim , Lechner Antony , Barchet Charles , Klaholz Bruno P , Stefaniak Filip , Bujnicki Janusz M 
Published: November 2023

Abstract
The MODOMICS database was updated with recent data and now includes new data types related to RNA modifications. Changes to the database include an expanded modification catalog, encompassing both natural and synthetic residues identified in RNA structures. This addition aids in representing RNA sequences from the RCSB PDB database more effectively. To manage the increased number of modifications, adjustments to the nomenclature system were made. Updates in the RNA sequences section include the addition of new sequences and the reintroduction of sequence alignments for tRNAs and rRNAs. The protein section was updated and connected to structures from the RCSB PDB database and predictions by AlphaFold. MODOMICS now includes a data annotation system, with ‘Evidence’ and ‘Estimated Reliability’ features, offering clarity on data support and accuracy. This system is open to all MODOMICS entries, enhancing the accuracy of RNA modification data representation. MODOMICS is available at https://iimcb.genesilico.pl/modomics/.
CRISPR–dCas13a system for programmable small RNAs and polycistronic mRNA repression in bacteria
Authors: Ko Sung Cheon , Woo Han Min 
Published: November 2023

Abstract
Bacterial small RNAs (sRNAs) function in post-transcriptional regulatory responses to environmental changes. However, the lack of eukaryotic RNA interference-like machinery in bacteria has limited the systematic engineering of RNA repression. Here, we report the development of clustered regularly interspaced short palindromic repeats (CRISPR)-guided dead CRIPSR-associated protein 13a (dCas13a) ribonucleoprotein that utilizes programmable CRISPR RNAs (crRNAs) to repress trans-acting and cis-acting sRNA as the target, altering regulatory mechanisms and stress-related phenotypes. In addition, we implemented a modular loop engineering of the crRNA to promote modular repression of the target gene with 92% knockdown efficiency and a single base-pair mismatch specificity. With the engineered crRNAs, we achieved targetable single-gene repression in the polycistronic operon. For metabolic application, 102 crRNAs were constructed in the biofoundry and used for screening novel knockdown sRNA targets to improve lycopene (colored antioxidant) production in Escherichia coli. The CRISPR–dCas13a system will assist as a valuable systematic tool for the discovery of novel sRNAs and the fine-tuning of bacterial RNA repression in both scientific and industrial applications.
Chaetocin-mediated SUV39H1 inhibition targets stemness and oncogenic networks of diffuse midline gliomas and synergizes with ONC201
Authors: Xin Dazhuan Eric , Liao Yunfei , Rao Rohit , Ogurek Sean , Sengupta Soma , Xin Mei , Bayat Arman Esshaghi , Seibel William L , Graham Richard T , Koschmann Carl , Lu Q Richard 
Published: November 2023

Abstract

Background
Diffuse intrinsic pontine gliomas (DIPG/DMG) are devastating pediatric brain tumors with extraordinarily limited treatment options and uniformly fatal prognosis. Histone H3K27M mutation is a common recurrent alteration in DIPG and disrupts epigenetic regulation. We hypothesize that genome-wide H3K27M-induced epigenetic dysregulation makes tumors vulnerable to epigenetic targeting.

Methods
We performed a screen of compounds targeting epigenetic enzymes to identify potential inhibitors for the growth of patient-derived DIPG cells. We further carried out transcriptomic and genomic landscape profiling including RNA-seq and CUT&RUN-seq as well as shRNA-mediated knockdown to assess the effects of chaetocin and SUV39H1, a target of chaetocin, on DIPG growth.

Results
High-throughput small-molecule screening identified an epigenetic compound chaetocin as a potent blocker of DIPG cell growth. Chaetocin treatment selectively decreased proliferation and increased apoptosis of DIPG cells and significantly extended survival in DIPG xenograft models, while restoring H3K27me3 levels. Moreover, the loss of H3K9 methyltransferase SUV39H1 inhibited DIPG cell growth. Transcriptomic and epigenomic profiling indicated that SUV39H1 loss or inhibition led to the downregulation of stemness and oncogenic networks including growth factor receptor signaling and stemness-related programs; however, D2 dopamine receptor (DRD2) signaling adaptively underwent compensatory upregulation conferring resistance. Consistently, a combination of chaetocin treatment with a DRD2 antagonist ONC201 synergistically increased the antitumor efficacy.

Conclusions
Our studies reveal a therapeutic vulnerability of DIPG cells through targeting the SUV39H1–H3K9me3 pathway and compensatory signaling loops for treating this devastating disease. Combining SUV39H1-targeting chaetocin with other agents such as ONC201 may offer a new strategy for effective DIPG treatment.
HINOTORI I: The nature of rejuvenation galaxies
Authors: Tanaka Takumi S , Shimasaku Kazuhiro , Tacchella Sandro , Ando Makoto , Ito Kei , Yesuf Hassen M , Matsui Suin 
Published: November 2023

Abstract
We present the HINOTORI (Star Formation History Investigation To Find Rejuvenation) project to reveal the nature of rejuvenation galaxies (RGs), which are galaxies that restarted their star formation after being quiescent. As the first step of HINOTORI, we construct the largest RG sample with 1071 sources. We select these RGs from 8857 MaNGA (Mapping Nearby Galaxies at APO) survey galaxies by reconstructing their star formation histories with the Prospector spectral energy distribution fitting code. Both optical spectral data and UV to IR photometric data are used for the fitting. Using mock data, we confirm that our method can detect weak rejuvenation events that form only about $0.1$% of the total stellar mass with high completeness. The RGs account for ${\sim}10$% of the whole sample, and rejuvenation events contribute on average only about $0.1$% of the total stellar mass in those galaxies but $17$% of the cosmic star formation rate density today. Our RGs have a similar mass distribution to quiescent galaxies (QGs). However, the morphology of the RGs is more disk-like than QGs, suggesting that rejuvenation may occur selectively in disk-like QGs. Our results also suggest the possibility of multiple-time rejuvenation events in a single galaxy. Further spatially resolved analyses of integral field unit data and radio observations and comparisons to simulations are needed to identify the mechanism and the role of rejuvenation in galaxy evolution.
A major role of coumarin-dependent ferric iron reduction in strategy I-type iron acquisition in Arabidopsis
Authors: Paffrath Vanessa , Tandron Moya Yudelsy A , Weber Günther , von Wirén Nicolaus , Giehl Ricardo F H 
Published: November 2023

Abstract
Many non-graminaceous species release various coumarins in response to iron (Fe) deficiency. However, the physiological relevance of these coumarins remains poorly understood. Here, we show that the three enzymes leading to sideretin biosynthesis co-exist in Arabidopsis (Arabidopsis thaliana) epidermal and cortical cells and that the shift to fraxetin at alkaline pH depends on MYB72-mediated repression of CYTOCHROME P450, FAMILY 82, SUBFAMILY C, POLYPEPTIDE 4 (CYP82C4). In vitro, only fraxetin and sideretin can reduce part of the Fe(III) that they mobilize. We demonstrate that coumarin-mediated Fe(III) reduction is critical under acidic conditions, as fraxetin and sideretin can complement the Fe(III)-chelate reductase mutant ferric reduction oxidase 2 (fro2), and disruption of coumarin biosynthesis in fro2 plants impairs Fe acquisition similar to in the Fe(II) uptake-deficient mutant iron-regulated transporter 1 (irt1). Disruption of sideretin biosynthesis in a fro2 cyp82C4-1 double mutant revealed that sideretin is the dominant chemical reductant that functions with FRO2 to mediate Fe(II) formation for root uptake. At alkaline pH, Fe(III) reduction by coumarins becomes almost negligible but fraxetin still sustains high Fe(III) mobilization, suggesting that its main function is to provide chelated Fe(III) for FRO2. Our study indicates that strategy-I plants link sideretin and fraxetin biosynthesis and secretion to external pH to recruit distinct coumarin chemical activities to maximize Fe acquisition according to prevailing soil pH conditions.
A pan-SARS-CoV-2-specific soluble angiotensin-converting enzyme 2-albumin fusion engineered for enhanced plasma half-life and needle-free mucosal delivery
Authors: Benjakul Sopisa , Anthi Aina Karen , Kolderup Anette , Vaysburd Marina , Lode Heidrun Elisabeth , Mallery Donna , Fossum Even , Vikse Elisabeth Lea , Albecka Anna , Ianevski Aleksandr , Kainov Denis , Karlsen Karine Flem , Sakya Siri Aastedatter , Nyquist-Andersen Mari , Gjølberg Torleif Tollefsrud , Moe Morten C , Bjørås Magnar , Sandlie Inger , James Leo C , Andersen Jan Terje 
Published: November 2023

Abstract
Immunocompromised patients often fail to raise protective vaccine-induced immunity against the global emergence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants. Although monoclonal antibodies have been authorized for clinical use, most have lost their ability to potently neutralize the evolving Omicron subvariants. Thus, there is an urgent need for treatment strategies that can provide protection against these and emerging SARS-CoV-2 variants to prevent the development of severe coronavirus disease 2019. Here, we report on the design and characterization of a long-acting viral entry-blocking angiotensin-converting enzyme 2 (ACE2) dimeric fusion molecule. Specifically, a soluble truncated human dimeric ACE2 variant, engineered for improved binding to the receptor-binding domain of SARS-CoV-2, was fused with human albumin tailored for favorable engagement of the neonatal fragment crystallizable receptor (FcRn), which resulted in enhanced plasma half-life and allowed for needle-free transmucosal delivery upon nasal administration in human FcRn-expressing transgenic mice. Importantly, the dimeric ACE2-fused albumin demonstrated potent neutralization of SARS-CoV-2 immune escape variants.
Probing Multiple Transplant Delivery Routes of CD+34 Stem Cells for Promoting Behavioral and Histological Benefits in Experimental Ischemic Stroke
Authors: Lee Jea-Young , Cho Justin , D’Egidio Francesco , Vignon Christine , Streefkerk Hendrik , de Kalbermatten Matthieu , Garitaonandia Ibon , Borlongan Cesar V 
Published: November 2023

Abstract
Stroke is a leading cause of death in the US and around the world but with limited treatment options. Survivors often present with long-term cognitive and neurological deficits. Stem cell-based therapy has emerged as a potential treatment for stroke. While stem cell transplantation in stroke has reached clinical trials, mostly safety outcomes have been reported with efficacy readouts warranting more studies. In an effort to optimize the stem cell regimen for stroke, here we conducted vis-a-vis comparison of different routes of transplantation, namely, intracerebral, intraarterial, and intranasal delivery of expanded human CD34 + stem cells, called ProtheraCytes, in the established stroke model of transient middle cerebral artery occlusion (MCAO) using adult Sprague-Dawley rats. After adjusting for the dose and subacute timing of cell delivery, animals were randomly assigned to receive either ProtheraCytes or vehicle. Motor and neurological assays from days 7 to 28 post-stroke revealed significant functional recovery across all 3 delivery routes of ProtheraCytes compared to vehicle-treated stroke rats. Additionally, ProtheraCytes-transplanted stroke rats displayed significantly reduced infarct size and cell loss in the peri-infarct area coupled with enhanced neurogenesis and angiogenesis compared to vehicle-treated stroke rats. These results highlight the safety and efficacy of transplanting ProtheraCytes, including via the minimally invasive intranasal route, in conferring robust and stable behavioral and histological positive outcomes in experimental stroke.
National health insurance scheme improves access and optimization of antimicrobial use in the Obafemi Awolowo University Teaching Hospitals Complex, Ile-Ife, Nigeria
Authors: Obadare Temitope O , Ogundipe Taiwo O , Adeyemo Adeyemi T , Aboderin Caleb M , Abiola Doyin R , Sule Naheemot O , Aboderin Aaron O 
Published: November 2023

Abstract

Background
Nigeria instituted the National Health Insurance Scheme (NHIS) for universal health coverage. This study compared the NHIS and out-of-pocket (OOP) antibiotic prescribing with the World Health Organization (WHO) optimal values.

Methods
A total of 2190 prescription forms from the NHIS and OOP were included in this study conducted at Obafemi Awolowo University Teaching Hospitals Complex, Nigeria from January 2021 to December 2022 and analysed using WHO drug prescribing guidelines.

Results
The average number of drugs per encounter was higher in the NHIS prescribing (χ2=58.956, p=0.00) than in OOP prescribing. The percentage of encounters with an antibiotic prescribed is higher in NHIS prescribing (χ2=46.034, p=0.000) than in OOP prescribing. The percentage of parenteral antibiotic prescribing is higher in OOP prescribing (χ2=25.413, p=0.000) than in NHIS prescribing. The percentage of antibiotic prescribed from the National Essential Medicine List is higher in NHIS prescribing (χ2=8.227, p=0.000) as well as the antibiotics prescribed from the Access category of the WHO Access, Watch and Reserve (AWaRe) Classification of antibiotics (χ2=23.946, p=0.000) when compared with OOP prescribing.

Conclusions
Prescribing indicators show better performances with NHIS antibiotic prescribing and are closer to the WHO-recommended optimal values than in OPP prescribing. Hence NHIS prescribing can be an easy target for hospital antibiotic stewardship intervention for optimal antibiotic prescribing.
Too old to be creative? An age bias in creativity judgment
Authors: Oh Ga-Eun (Grace) , Jeong Inseong , Wang Mo , North Michael S , Choi Yeeun 
Published: November 2023

Abstract
Building on prior literature on social judgment and age stereotypes, we investigate whether age bias exists in creativity judgment and, if so, how it emerges and to what extent it persists. One archival data study (Study 1) and 5 recruitment scenario experiments (Studies 2–5) provide evidence that people persistently evaluate the creativity of an older person more negatively compared to that of a younger person. This age bias in creativity judgment remained even when a creative job feature that is positively associated with older people (i.e., requiring convergent vs. divergent thinking) was highlighted (Study 3) and when a worker demonstrated creative performance (Study 4). Furthermore, by testing the moderating role of age stereotypes, we found that age stereotypes in the adaptability dimension specifically contributed to this bias: those who believe that older people are not adaptable at work tend to exhibit age-biased creativity judgments (Studies 5a and 5b). Understanding the persistence of age bias in creativity judgment and its processes helps raise awareness of it in the workplace. Our findings also call for future investigations into effective strategies to attenuate such biases in the workplace.
The NLN/Jonas Ten-Year Story: Perceptions of Nurse Educator Scholars
Authors: Patterson Barbara , Thomas Dreifuerst Kristina , McGuire Amy 
Published: November 2023

Abstract
The aim of the NLN/Jonas Scholars Program is to support doctoral nursing students whose program of research focuses on research in nursing education. As a 10-year review, 23 nursing students pursuing a doctorate participated in focus groups with the goal of describing the influence of a year-long mentoring program on their career trajectory. Analysis of the data revealed two themes: having someone believe in me and my research topic and being mentored and learning to mentor others. The findings support that being skilled in conducting pedagogical research with mentorship advances nursing education practice, scholarship, and leadership.