bluuebunny/crossref_metadata_2025_split huggingface dataset:
Estrogen associates with female predominance in Xp11.2 translocation renal cell carcinoma
Authors: Lu Yanwen , Zhu Yiqi , Ma Wenliang , Liu Ning , Dong Xiang , Shi Qiancheng , Yu Fei , Guo Hongqian , Li Dongmei , Gan Weidong 
Published: April 2023

AbstractBased on the epidemiological characteristics of susceptibility and age selectivity for women in Xp11.2 translocation renal cell carcinoma (Xp11.2 tRCC), we inferred that estrogen was to be blamed. Rad54 like 2 (Rad54l2) which might be one of key effector proteins of DNA damage mediated by estrogen was downregulated in numerous cancers, however, its role in epidemiological characteristics of Xp11.2 tRCC was needed to further study. We reviewed 1005 Xp11.2 tRCC cases and collected estrogen data and then compared the onset time of Xp11.2 tRCC cases in female with estrogen changing trend. An RNA-sequencing was performed in estrogen treated HK-2 cells and subsequently bioinformatic analysis was applied based on the Cancer Genome Atlas (TCGA) and GEO database. The male-to-female ratio of Xp11.2 tRCC was 1:1.4 and the median age of onset was 29.7 years old. The onset trend of female was similar to estrogen physiological rhythm (r = 0.67, p < 0.01). In Xp11.2 tRCC and HK-2 cells after estrogen treatment, Rad54l2 was downregulated, and GSEA showed that pathways significantly enriched in DNA damage repair and cancer related clusters after estrogen treated, as well as GO and KEGG analysis. Downregulation of Rad54l2 was in numerous cancers, including renal cell carcinoma (RCC), in which Rad54l2 expression was significantly decreased in male, age over 60 years old, T2&T3&T4 stages, pathologic SII&SIII&SIV stages as well as histologic G3&G4 grades, and cox regression analysis proved that Rad54l2 expression was a risk factor for overall survival, disease-specific survival and progression-free interval in univariate analysis. There existed female predominance in Xp11.2 tRCC and Rad54l2 might play vital role in estrogen mediating female predominance in Xp11.2 tRCC.
Investigating the domestication and early management of reindeer (Rangifer tarandus) in the Sámi archaeological context from teeth geometric morphometrics
Authors: Pelletier Maxime , Discamps Emmanuel , Bignon-Lau Olivier , Salmi Anna-Kaisa 
Published: April 2023

AbstractFor centuries, reindeer herding has been an integral part of the subsistence, lifeways, economy and cosmology of the Sámi of northern Fennoscandia. Despite its importance, the timing and details of early reindeer domestication are still highly debated. Identifying domesticated individuals in the archaeological record remains complicated due to the presence of two interbreeding subspecies in Fennoscandia and a mixed socio-economic organisation by Sámi populations, which was mainly a combination of wild reindeer hunting and small-scale reindeer herding. This study proposes methodological improvement for identifying domestic individuals using 2D landmark and sliding semi-landmark based geometric morphometrics on the isolated lower molars of 389 modern specimens, and 90 teeth from four archaeological sites in Finnish Lapland. Our results indicate that despite the significant impact of wear on overall tooth morphology, our protocol is very useful for identifying subspecies (classification accuracy of the two species is between 78 and 91% depending on the wear class) and understanding the morphological changes induced by the domestication process. We suggest that the morphological variation observable among modern populations has been impacted by recent changes in herding strategies in northern Fennoscandia, and that the archaeological domesticated reindeer populations were relatively different, probably due to selection by the Sámi. This study also highlights the importance of using other direct evidence or contextual archaeological data to better trace the early evidence of a domesticated reindeer economy in northern Fennoscandia, and aid in reconstructing the socio-economic changes in Sámi populations over time.
Evaluation of non-gastric upper gastrointestinal system polyps: an epidemiological assessment
Authors: Erdoğan Çağdaş , Arı Derya , Yeşil Bayram , Koşar Kenan , Coşkun Orhan , Tenlik İlyas , Köseoğlu Hasan Tankut , Yüksel Mahmut 
Published: April 2023

AbstractNon-gastric upper gastrointestinal system polyps are detected rarely and mostly incidentally during upper gastrointestinal endoscopy. While the majority of lesions are asymptomatic and benign, some lesions have the potential to become malignant, and may be associated with other malignancies. Between May 2010 and June 2022, a total of 127,493 patients who underwent upper gastrointestinal endoscopy were retrospectively screened. Among these patients, those who had polyps in the esophagus and duodenum and biopsied were included in the study. A total of 248 patients with non-gastric polyps were included in this study. The esophageal polyp detection rate was 80.00/100,000, while the duodenal polyp detection rate was 114.52/100,000. In 102 patients (41.1%) with esophageal polyps, the mean age was 50.6 ± 15.1, and 44.1% (n = 45) were male. The most common type of polyps was squamous papilloma (n = 61, 59.8%), followed by inflammatory papilloma (n = 18, 17.6%). In 146 patients (58.9%) with duodenal polyps, the mean age of patients was 58.3 ± 16.5, and 69.8% (n = 102) were male. Brunner's gland hyperplasia, inflammatory polyp, ectopic gastric mucosa, and adenomatous polyp were reported to be the most prevalent types of polyps in the duodenum overall (28.1%, 27.4%, 14.4%, and 13.7%, respectively). It is crucial to identify rare non-gastric polyps and create an effective follow-up and treatment plan in the era of frequently performed upper gastrointestinal endoscopies. The epidemiological assessment of non-gastric polyps, as well as a follow-up and treatment strategy, are presented in this study.
Production of Ni0.5Co0.5Fe2O4/activated carbon@chitosan magnetic nanobiocomposite as a novel adsorbent of methylene blue in aqueous solutions
Authors: Dastoom Zakaria 
Published: April 2023

AbstractMethylene blue is a cationic dye, not degraded naturally due to its aromatic rings. Accordingly, biological, chemical, and physical water treatment methods have been proposed for its removal. Adsorption is an economical and effective method in this regard. In this study, the nickel–cobalt ferrite/activated carbon@chitosan magnetic nanobiocomposite was synthesized as an adsorbent. The nano-adsorbent was evaluated with FESEM, which estimated the particle size at ~ 16.64 nm. According to EDAX analysis, the purity of particles was 99%. XRD characterization showed the successful coverage of chitosan, correct placement of nickel–cobalt ferrite, and the nono-structure of crystallites. The specific surface area was 316 m2/g using the BET theory and 285 m2/g using the Langmuir theory, and the porosity volume was 0.18 cm3/g. According to the VSM analysis, magnetic reluctance and coercive force were 1.1 emu/g and 499 Oe, respectively. The FTIR analysis showed that the reaction was successful, and methylene blue was present on the adsorbent surface. The methylene blue adsorption test indicated that 388 mg/g of the dye was adsorbed (97% dye removal), and the final concentration reached 6 mg/L after 8 h. The point of zero charge (pHpzc) was 6.8.
Effect of dietary olive (Olea europea) pomace on productive performance, and physiological and meat quality parameters in Jumbo quail
Authors: Hlatshwayo Itumeleng S. , Mnisi Caven M. , Egbu Chidozie F. 
Published: April 2023

AbstractHigh levels of dietary fiber could restrict the inclusion of olive (Olea europea L.) pomace (OP) as a source of energy and bioactive compounds in Jumbo quail (Coturnix sp.) diets. In this study, the optimum inclusion level of dietary OP on growth and carcass performance, serum biochemistry, and meat quality parameters in Jumbo quail was investigated. One-week-old Jumbo quail (350; 28.9 ± 1.29 g live-weight) were reared on a standard mash grower diet with 0 (OP0), 100 (OP10), 150 (OP15), 200 (OP20), and 250 g/kg (OP25) OP for five weeks. The experimental diets were randomly allocated to 35 pens (experimental units) with seven replicates each. Overall body weight gain in Jumbo quail fed with diets OP20 and OP25 was lower (p < 0.001) than those fed diets OP0 and OP10. Including dietary OP had no effect on the overall gain-to-feed ratio, serum biochemistry, and internal organs but linearly reduced carcass yields. Diet OP25 promoted a higher (p < 0.022) meat hue angle value than the other diets. The inclusion of OP beyond 150 g/kg compromised growth and carcass performance, and altered some meat color attributes, but had no influence on serum biochemistry, and internal organs of the Jumbo quail.
Determining the orientation of acetabular prosthesis in total hip arthroplasty by refering to the anatomical landmarker of acetabular notches
Authors: Zhang Heng , Zhou Jiansheng , Ling Xiao , Chen Haonan , Du Mingqiu , Zhao Jianning 
Published: April 2023

AbstractThe aim of this study was to explore a novel method to determine the orientation of acetabular prosthesis in total hip arthroplasty (THA) by refering to the anatomical landmarker of acetabular notches. Forty-one normal developmental hips were included in the present study. The acetabulums were reamed according to standard surgical procedures of THA on life-size 3D printing pelvis models. The inferior edge of acetabular cup were placed (1–5) mm proximal and distal to the proximal line of the anterior and posterior acetabular notches (PLAPAN) respectively to determine cup inclination. The inferior edge of acetabular cup were placed (1–5) mm pronating and supinating around the proximal point of acetabular posterior notch (PPAPN) respectively to determine cup anteversion. The pelvis plain radiographs were took and the inclination and anteversion of the acetabular cup at 22 positions were calculated. In the normal developmental hip, the mean inclination of acetabular prothesis were (35.10 ± 3.22)° and (45.90 ± 2.68)° when the inferior edge of the acetabular cup was 3 mm proximal and 1 mm distal to the PLAPAN. The optimal cup inclination could be obtained when the inferior edge of the acetabular cup was 1 mm proximal to the PLAPAN (the mean inclination was (40.71 ± 2.80)°). The mean anteversion of acetabular prothesis were (10.67 ± 4.55)° and (20.86 ± 4.44)° when the inferior edge of the acetabular cup was 1 mm pronating and 1 mm supinating around the PPAPN. The optimal cup anteversion could be obtained when the inferior edge of the acetabular cup was parallel to the PLAPAN (the mean anteversion was (18.00 ± 1.64)°). The inclination and anteversion of acetabular prosthesis could be determined by refering the anatomical landmarks of acetabular notches, which could help orthopedists to install the acetabular prosthesis quickly and safely in THA.
Cytokimera GIL-11 rescued IL-6R deficient mice from partial hepatectomy-induced death by signaling via non-natural gp130:LIFR:IL-11R complexes
Authors: Rafii Puyan , Seibel Christiane , Weitz Hendrik T. , Ettich Julia , Minafra Anna Rita , Petzsch Patrick , Lang Alexander , Floss Doreen M. , Behnke Kristina , Köhrer Karl , Moll Jens M. , Scheller Jürgen 
Published: April 2023

AbstractAll except one cytokine of the Interleukin (IL-)6 family share glycoprotein (gp) 130 as the common β receptor chain. Whereas Interleukin (IL-)11 signal via the non-signaling IL-11 receptor (IL-11R) and gp130 homodimers, leukemia inhibitory factor (LIF) recruits gp130:LIF receptor (LIFR) heterodimers. Using IL-11 as a framework, we exchange the gp130-binding site III of IL-11 with the LIFR binding site III of LIF. The resulting synthetic cytokimera GIL-11 efficiently recruits the non-natural receptor signaling complex consisting of gp130, IL-11R and LIFR resulting in signal transduction and proliferation of factor-depending Ba/F3 cells. Besides LIF and IL-11, GIL-11 does not activate receptor complexes consisting of gp130:LIFR or gp130:IL-11R, respectively. Human GIL-11 shows cross-reactivity to mouse and rescued IL-6R−/− mice following partial hepatectomy, demonstrating gp130:IL-11R:LIFR signaling efficiently induced liver regeneration. With the development of the cytokimera GIL-11, we devise the functional assembly of the non-natural cytokine receptor complex of gp130:IL-11R:LIFR.
Does AlphaFold2 model proteins’ intracellular conformations? An experimental test using cross-linking mass spectrometry of endogenous ciliary proteins
Authors: McCafferty Caitlyn L. , Pennington Erin L. , Papoulas Ophelia , Taylor David W. , Marcotte Edward M. 
Published: April 2023

AbstractA major goal in structural biology is to understand protein assemblies in their biologically relevant states. Here, we investigate whether AlphaFold2 structure predictions match native protein conformations. We chemically cross-linked proteins in situ within intact Tetrahymena thermophila cilia and native ciliary extracts, identifying 1,225 intramolecular cross-links within the 100 best-sampled proteins, providing a benchmark of distance restraints obeyed by proteins in their native assemblies. The corresponding structure predictions were highly concordant, positioning 86.2% of cross-linked residues within Cɑ-to-Cɑ distances of 30 Å, consistent with the cross-linker length. 43% of proteins showed no violations. Most inconsistencies occurred in low-confidence regions or between domains. Overall, AlphaFold2 predictions with lower predicted aligned error corresponded to more correct native structures. However, we observe cases where rigid body domains are oriented incorrectly, as for ciliary protein BBC118, suggesting that combining structure prediction with experimental information will better reveal biologically relevant conformations.
In situ visualization of opioid and cannabinoid drug effects using phosphosite-specific GPCR antibodies
Authors: Fritzwanker Sebastian , Nagel Falko , Kliewer Andrea , Stammer Viviane , Schulz Stefan 
Published: April 2023

AbstractG protein-coupled receptors (GPCRs) are important signal transducers that are phosphorylated upon activation at intracellular serine and threonine residues. Although antibodies that specifically recognize the phosphorylation state of GPCRs have been available for many years, efficient immunolocalization of phosphorylated receptors in their tissues of origin has not been possible. Here, we show that phosphorylation of receptors is highly unstable during routine immunohistochemical procedures, requiring the use of appropriate phosphatase inhibitors particular during tissue perfusion, post-fixation, and cryoprotection but not during immunostaining of tissue sections. We provide proof of concept using phosphorylation state-specific μ-opioid receptor (MOP) and cannabinoid receptor 1 (CB1) antibodies. Indeed, three of four well-characterized phosphosite-specific MOP antibodies, including pS375-MOP, pT376-MOP, and pT379-MOP, showed robust neuronal immunostaining in brain and spinal cord sections of opioid-treated mice only after inclusion of phosphatase inhibitors. We then extended this approach to the CB1 receptor and demonstrated that one of three newly-generated phosphosite-specific CB1 antibodies, namely pS425-CB1, showed striking staining of fibers and varicosities in brain slices from cannabinoid-treated mice. Although subsequent experiments showed that phospho-CB1 immunostaining was less sensitive to phosphatases, we conclude that the use of phosphatase inhibitors should always be considered in the development of immunohistochemical procedures for new phosphosite-specific GPCR antibodies. In summary, we anticipate that this improved protocol will facilitate the widespread use of phosphorylation state-specific antibodies to monitor the activation of endogenous GPCRs under physiological and pharmacological conditions. Our approach may also prove useful to confirm target engagement of GPCR drug candidates in native tissues.
Stress deficits in reward behaviour are associated with and replicated by dysregulated amygdala-nucleus accumbens pathway function in mice
Authors: Madur Lorraine , Ineichen Christian , Bergamini Giorgio , Greter Alexandra , Poggi Giulia , Cuomo-Haymour Nagiua , Sigrist Hannes , Sych Yaroslav , Paterna Jean-Charles , Bornemann Klaus D. , Viollet Coralie , Fernandez-Albert Francesc , Alanis-Lobato Gregorio , Hengerer Bastian , Pryce Christopher R. 
Published: April 2023

AbstractReduced reward interest/learning and reward-to-effort valuation are distinct, common symptoms in neuropsychiatric disorders for which chronic stress is a major aetiological factor. Glutamate neurons in basal amygdala (BA) project to various regions including nucleus accumbens (NAc). The BA-NAc neural pathway is activated by reward and aversion, with many neurons being monovalent. In adult male mice, chronic social stress (CSS) leads to reduced discriminative reward learning (DRL) associated with decreased BA-NAc activity, and to reduced reward-to-effort valuation (REV) associated, in contrast, with increased BA-NAc activity. Chronic tetanus toxin BA-NAc inhibition replicates the CSS-DRL effect and causes a mild REV reduction, whilst chronic DREADDs BA-NAc activation replicates the CSS effect on REV without affecting DRL. This study provides evidence that stress disruption of reward processing involves the BA-NAc neural pathway; the bi-directional effects implicate opposite activity changes in reward (learning) neurons and aversion (effort) neurons in the BA-NAc pathway following chronic stress.
Vimar/RAP1GDS1 promotes acceleration of brain aging after flies and mice reach middle age
Authors: Xiong Ying , Cheng Qi , Li Yajie , Han Yanping , Sun Xin , Liu Lei 
Published: April 2023

AbstractBrain aging may accelerate after rodents reach middle age. However, the endogenous mediator that promotes this acceleration is unknown. We predict that the mediator may be expressed after an organism reaches middle age and dysregulates mitochondrial function. In the neurons of wild-typeDrosophila(flies), we observed that mitochondria were fragmented in aged flies, and this fragmentation was associated with mitochondrial calcium overload. In a previous study, we found that mitochondrial fragmentation induced by calcium overload was reversed by the loss ofVimar, which forms a complex with Miro. Interestingly,Vimarexpression was increased after the flies reached middle age. Overexpression ofVimarin neurons resulted in premature aging and mitochondrial calcium overload. In contrast, downregulation ofVimarin flies older than middle age promoted healthy aging. As the mouse homolog of Vimar,RAP1GDS1expression was found to be increased after mice reached middle age;RAP1GDS1-transgenic andRAP1GDS1-knockdown mice displayed similar responses to flies with overexpressed and reducedVimarexpression, respectively. This research provides genetic evidence of a conserved endogenous mediator that promotes accelerated brain aging.
Structure and thermodynamics of water adsorption in NU-1500-Cr
Authors: Ho Ching-Hwa , Valentine Mason L. , Chen Zhijie , Xie Haomiao , Farha Omar , Xiong Wei , Paesani Francesco 
Published: April 2023

AbstractMetal-organic frameworks (MOFs) are a class of materials with diverse chemical and structural properties, and have been shown to effectively adsorb various types of guest molecules. The mechanism of water adsorption in NU-1500-Cr, a high-performance atmospheric water harvesting MOF, is investigated using a combination of molecular dynamics simulations and infrared spectroscopy. Calculations of thermodynamic and dynamical properties of water as a function of relative humidity allow for following the adsorption process from the initial hydration stage to complete filling of the MOF pores. Initial hydration begins at the water molecules that saturate the open Cr3+ sites of the framework, which is then followed by the formation of water chains that extend along the channels connecting the hexagonal pores of the framework. Water present in these channels gradually coalesces and fills the hexagonal pores sequentially after the channels are completely hydrated. The development of hydrogen-bond networks inside the MOF pores as a function of relative humidity is characterized at the molecular level using experimental and computational infrared spectroscopy. A detailed analysis of the OH-stretch vibrational band indicates that the low-frequency tail stems from strongly polarized hydrogen-bonded water molecules, suggesting the presence of some structural disorder in the experimental samples. Strategies for designing efficient water harvesting MOFs are also proposed based on the mechanism of water adsorption in NU-1500-Cr.
Second harmonic injection locking of coupled spin torque vortex oscillators with an individual phase access
Authors: Martins Leandro , Jenkins Alex S. , Borme Jérôme , Ventura João , Freitas Paulo P. , Ferreira Ricardo 
Published: April 2023

AbstractThe synchronisation of magnetic tunnel junctions in the high frequency domain has attracted significant interest in the context of novel computation paradigms, specifically neuromorphic spintronics and probabilistic computing. In this work, a design for the coupling and synchronization of spin torque vortex oscillators (STVOs) is implemented. The geometry comprises the fabrication of adjacent pairs of STVO nanopillars (MgO-based magnetic tunnel junctions), with an edge-to-edge distance down to 100 nm, together with individual top contacts that allow an independent electrical access to each device. In this geometry, the magneto-dipolar coupling promotes the synchronization of the two oscillators, at the same time as the access to the frequency and phase of each individual oscillator is possible. Both frequency and time domain measurements confirm a successful synchronization, with the coupling being controlled by the relative DC bias in each oscillator. As a proof-of-concept towards an oscillator-based Ising machine, it is also shown that the second harmonic injection locking of an STVO can be controlled by tuning the magneto-dipolar coupling to its correspondent STVO pair. These results represent a step forward for the implementation of magneto-dipolar coupled magnetic tunnel junctions, specifically in the field of unconventional computing hardware.
Evading dynamic strength and ductility trade-off in a high-entropy alloy via local chemical ordering
Authors: Wang Ruixin , Duan Dabo , Tang Yu , Lei Zhifeng , Li Shun , Chen Rong , Ma Chao , Wu Yuan , Bai Shuxin , Lu Zhaoping 
Published: April 2023

AbstractStrength-ductility trade-off in metals is sever under dynamic loading due to the strain rate effect and adiabatic shear failure. Here, we demonstrate that both strength and ductility progressively increase with increasing strain rate in a body-centered cubic TiZrNbTa refractory high-entropy alloy. We find that a prominent strain rate effect occurs, with a yield strength of 1879 ± 10 MPa at a strain rate of 6500 s−1, which is double that compared to a strain rate of 10−3 s−1. Simultaneously, Zr- and (Nb, Ta)-enriched local chemical ordering stimulates dislocation slip, enhancing homogeneous deformation capacity and adiabatic shear resistance under high strain rates. These findings suggest the importance of local chemical ordering to the dynamic properties of high-entropy alloys, and offer a way to develop metallic materials with improved dynamic mechanical properties.