bluuebunny/crossref_metadata_2025_split huggingface dataset:
Deficiency of lung-specific claudin-18 leads to aggravated infection with Cryptococcus deneoformans through dysregulation of the microenvironment in lungs
Authors: Sato Ko , Matsumoto Ikumi , Suzuki Koya , Tamura Atsushi , Shiraishi Aki , Kiyonari Hiroshi , Kasamatsu Jun , Yamamoto Hideki , Miyasaka Tomomitsu , Tanno Daiki , Miyahara Anna , Zong Tong , Kagesawa Takafumi , Oniyama Akiho , Kawamura Kotone , Kitai Yuki , Umeki Aya , Kanno Emi , Tanno Hiromasa , Ishii Keiko , Tsukita Sachiko , Kawakami Kazuyoshi 
Published: October 2021

AbstractCryptococcus deneoformans is an opportunistic fungal pathogen that infects the lungs via airborne transmission and frequently causes fatal meningoencephalitis. Claudins (Cldns), a family of proteins with 27 members found in mammals, form the tight junctions within epithelial cell sheets. Cldn-4 and 18 are highly expressed in airway tissues, yet the roles of these claudins in respiratory infections have not been clarified. In the present study, we analyzed the roles of Cldn-4 and lung-specific Cldn-18 (luCldn-18) in host defense against C. deneoformans infection. luCldn-18-deficient mice exhibited increased susceptibility to pulmonary infection, while Cldn-4-deficient mice had normal fungal clearance. In luCldn-18-deficient mice, production of cytokines including IFN-γ was significantly decreased compared to wild-type mice, although infiltration of inflammatory cells including CD4+ T cells into the alveolar space was significantly increased. In addition, luCldn-18 deficiency led to high K+ ion concentrations in bronchoalveolar lavage fluids and also to alveolus acidification. The fungal replication was significantly enhanced both in acidic culture conditions and in the alveolar spaces of luCldn-18-deficient mice, compared with physiological pH conditions and those of wild-type mice, respectively. These results suggest that luCldn-18 may affect the clinical course of cryptococcal infection indirectly through dysregulation of the alveolar space microenvironment.
Flexible sensor with electrophoretic polymerized graphene oxide/PEDOT:PSS composite for voltammetric determination of dopamine concentration
Authors: Ko Seung Hyeon , Kim Seung Wook , Lee Yi Jae 
Published: October 2021

AbstractWe demonstrate a novel, flexible sensor with graphene oxide/PEDOT:PSS (GO/PEDOT:PSS) composite for voltammetric determination of selective low levels of dopamine. The well-distributed GO and EDOT:PSS suspension in water were deposited simply and polymerized. Consequently, the EDOT:PSS provided a strong interaction between GO and PEDOT:PSS, and it also had well-tailored interfacial properties that allowed the highly selective and sensitive determination of DA. Since the interfacial net charge is well-constructed, the sensor satisfies both the requirements of selectivity and the highly sensitive detection of low amounts of DA. In the results, the sensor with the GO/PEDOT:PSS composite exhibited a low interfacial impedance of about 281.46 ± 30.95 Ω at 100 Hz and a high charge storage capacity (53.94 ± 1.08 µC/cm2) for the detection of dopamine. In addition, the interference from ascorbic acid was reduced effectively to a minimum by electrostatic charge repelling of the AA and the distinct difference for the oxidation peak of the UA. Due to the fact that the GO/PEDOT:PSS composite had a net negative charge and, enhanced interfacial properties, the sensor showed a dopamine detection limit of 0.008 μM and a sensitivity of 69.3 µA/µMcm2.
Spin–orbit torques in normal metal/Nb/ferromagnet heterostructures
Authors: Lee Min Hyeok , Go Gyungchoon , Kim Yong Jin , Cha In Ho , Kim Gyu Won , Kim Taehyun , Lee Kyung-Jin , Kim Young Keun 
Published: October 2021

AbstractQuantifying the spin–orbit torque (SOT) efficiency with changing the layer thickness is crucial for understanding the physical background of SOT. This study investigates the Nb-thickness-dependent SOT efficiency of two types of layered heterostructures: Ta/Nb/CoFeB and Pt/Nb/CoFeB. We find that the Nb thickness dependence of the SOT efficiency in the two samples is quite different. In the Pt/Nb series, the SOT sign changes according to the thickness variation because Pt and Nb have different spin–orbit coupling signs. We observe the resulting reversal in switching polarity through current-induced SOT switching experiments. However, due to the same spin–orbit coupling signs of Ta and Nb, no such polarity reversal was observed in Ta/Nb series. Further, we extract the spin diffusion length of Nb in each heterostructure. These results provide a systematic understanding of the material- and thickness-dependent SOT characteristics.
A multi-proxy approach to exploring Homo sapiens’ arrival, environments and adaptations in Southeast Asia
Authors: Bacon Anne-Marie , Bourgon Nicolas , Welker Frido , Cappellini Enrico , Fiorillo Denis , Tombret Olivier , Thi Mai Huong Nguyen , Anh Tuan Nguyen , Sayavonkhamdy Thongsa , Souksavatdy Viengkeo , Sichanthongtip Phonephanh , Antoine Pierre-Olivier , Duringer Philippe , Ponche Jean-Luc , Westaway Kira , Joannes-Boyau Renaud , Boesch Quentin , Suzzoni Eric , Frangeul Sébastien , Patole-Edoumba Elise , Zachwieja Alexandra , Shackelford Laura , Demeter Fabrice , Hublin Jean-Jacques , Dufour Élise 
Published: October 2021

AbstractThe capability of Pleistocene hominins to successfully adapt to different types of tropical forested environments has long been debated. In order to investigate environmental changes in Southeast Asia during a critical period for the turnover of hominin species, we analysed palaeoenvironmental proxies from five late Middle to Late Pleistocene faunas. Human teeth discoveries have been reported at Duoi U’Oi, Vietnam (70–60 ka) and Nam Lot, Laos (86–72 ka). However, the use of palaeoproteomics allowed us to discard the latter, and, to date, no human remains older than ~ 70 ka are documented in the area. Our findings indicate that tropical rainforests were highly sensitive to climatic changes over that period, with significant fluctuations of the canopy forests. Locally, large-bodied faunas were resilient to these fluctuations until the cooling period of the Marine Isotope Stage 4 (MIS 4; 74–59 ka) that transformed the overall biotope. Then, under strong selective pressures, populations with new phenotypic characteristics emerged while some other species disappeared.We argue that this climate-driven shift offered new foraging opportunities for hominins in a novel rainforest environment and was most likely a key factor in the settlement and dispersal of our species during MIS 4 in SE Asia.
Habitat geometry in artificial microstructure affects bacterial and fungal growth, interactions, and substrate degradation
Authors: Arellano-Caicedo Carlos , Ohlsson Pelle , Bengtsson Martin , Beech Jason P. , Hammer Edith C. 
Published: October 2021

AbstractMicrohabitat conditions determine the magnitude and speed of microbial processes but have been challenging to investigate. In this study we used microfluidic devices to determine the effect of the spatial distortion of a pore space on fungal and bacterial growth, interactions, and substrate degradation. The devices contained channels differing in bending angles and order. Sharper angles reduced fungal and bacterial biomass, especially when angles were repeated in the same direction. Substrate degradation was only decreased by sharper angles when fungi and bacteria were grown together. Investigation at the cellular scale suggests that this was caused by fungal habitat modification, since hyphae branched in sharp and repeated turns, blocking the dispersal of bacteria and the substrate. Our results demonstrate how the geometry of microstructures can influence microbial activity. This can be transferable to soil pore spaces, where spatial occlusion and microbial feedback on microstructures is thought to explain organic matter stabilization.
Cavity vat photopolymerisation for additive manufacturing of polymer-composite 3D objects
Authors: Bachmann Joel , Obst Philip , Knorr Lukas , Schmölzer Stefan , Fruhmann Gabriele , Witt Gerd , Osswald Tim , Wudy Katrin , Hinrichsen Olaf 
Published: October 2021

AbstractVat photopolymerisation describes resin-based additive manufacturing processes in which ultraviolet light is used to layer-wise solidify liquid resin into a desired 3D shape. If the starting resin is a dual-curing formulation the object is also thermally cured to attain its final properties, obtaining either an elastomer or a thermoset. Here, we introduce cavity vat photopolymerisation, in which one photopolymer resin produces a composite material of an elastomer and thermoset. Cavities of any geometry are purposefully designed in the solid object and then filled with liquid resin during printing due to negative pressure. Thermal curing then solidifies the resin in the cavities into an elastomer, forming a distinct interface held together by strong covalent bonds. Hybrid specimens indicate improved damping, reduced fragmentation upon fracture and increased local elasticity, and we suggest several hard-shell/soft-core applications that might benefit.
Sulfur-doping tuning oxygen vacancies in ultrathin 2D Ni–V mixed metal oxides for exceptional oxidase mimic and antibacterial applications
Authors: Wang Yi , Chen Chao , Zhang Dun 
Published: October 2021

Sulfur-doping ultrathin 2D Ni–V MMO nanosheets can be derived from LDHs. The obtained 2NiV-S-400 with rich oxygen vacancy exhibits the best OXD/POD-like and antibacterial activity by generating of ˙OH and ˙O2− radical with low level of H2O2.
Verbal reduplication as an aspectual marker and manifestation of cultural values in Amondawa (Brazil, Amazon)
Authors: Sampaio Wany Bernardete de Araujo , Camargos Quesler Fagundes , Amondawa Arikam 
Published: October 2021

AbstractIn this paper we analyse verbal reduplication in the Amondawa language, focusing on the aspectual function. We argue that verbal reduplication may be linked to Amondawa’s cultural values, such as the counting system and the event-based concept of time. We analysed 100 verbal predicates, considering: (i) transitivity (active and stative intransitive and transitive), (ii) semantic properties (state, activity, achievements and accomplishments); and (iii) morphological structure. The results suggest that, for the Amondawa, verbal reduplication presents notions of pluractionality, notably aspectual, and reflects cultural values related to their ways of counting things in the world and their conception of time. Thus, in this language/culture, it is preferable to say that this phenomenon evidences a decomposition of the event into micro-events, rather than verbal plurality. In this sense, reduplication works as a kind of aspectual marker and not as a plural mark, in the strict sense, whether in nouns or verbs.
Optional agreement as successful/failed Agree
Authors: Lyskawa Paulina , Ranero Rodrigo 
Published: October 2021

AbstractWe investigate optional predicate agreement in Santiago Tz’utujil (Mayan). Several generalizations emerge: (i) inanimate arguments base-generated as complements control agreement optionally; (ii) some animate arguments base-generated as complements control agreement optionally; (iii) all arguments base-generated as specifiers control full agreement obligatorily. We propose that two conditions must be met for the operation Agreeto succeed, resulting in the exponence of all the features of the agreement controller. First, a goal must be visible (bear the right feature). Second, a goal must be accessible (be in the right structural position). If one or both conditions are not met, Agreefails, but the derivation converges and 3sgagreement is exponed. While Agreeis deterministic, surface optionality arises when the operation fails. We use optional agreement to diagnose the syntactic structure of understudied constructions in Mayan (nominalizations, Agent Focus). We discuss microvariation, highlighting methodological considerations that arise when assuming an I-language approach.
Investigation of the interaction between emotion and working memory load using spatiotemporal pattern similarity analysis
Authors: Zhang Yuanyuan , Liu Baolin , Gao Xiaorong 
Published: October 2021

Abstract

Objective. Accumulating evidence has revealed that emotions can be provided with the modulatory effect on working memory (WM) and WM load is an important factor for the interaction between emotion and WM. However, it remains controversial whether emotions inhibit or facilitate WM and the interaction between cognitive task, processing load and emotional processing remains unclear. Approach. In this study, we used a change detection paradigm wherein memory items have four different load sizes and emotion videos to induce three emotions (negative, neutral, and positive). We performed an event-related spectral perturbation (ERSP) analysis and a spatiotemporal pattern similarity (STPS) analysis on the electroencephalography data. Main results. The ERSP results indicated that alpha and beta oscillations can reflect the difference among WM load sizes and also can reflect the difference among emotions under middle high WM load over posterior brain region in the maintenance stage. Moreover, the STPS results demonstrated a significant interaction between emotion and WM load size in the posterior region and found significantly higher similarity indexes for the negative emotion to the neutral emotion under the middle high WM load during WM maintenance. In addition, The STPS results also revealed that both positive emotion and negative emotion could interfere with the distinction of load sizes. Significance. The consistence of the behavioral, ERSP and STPS results suggested that when the memory load approaches the limit of WM capacity, negative emotion could facilitate WM through the top–down attention modulation promoting the most relevant information storage during WM maintenance.
Objective-Subjective Sound Quality Correlation Performance Comparison of Genetic Algorithm Based Regression Models and Neural Network Based Approach
Authors: Jamali Reza , Battista Gianmarco , Martarelli Milena , Chiariotti Paolo , Shriram Kunte Deepti , Colangeli Claudio , Castellini Paolo 
Published: October 2021

Abstract
Every product is growingly being evaluated in terms of acoustic characteristics. The most accurate way to rate sound quality is by performing jury tests; however, jury tests require a lot of time and human resources. To overcome this problem, jury tests results can be correlated to objective sound quality metrics owing to the fact that objective metrics could be easily obtained from sound data. In this study, advanced techniques for feature identification are explored to correlate objective metrics to subjective perception retrieved from jury tests. The data set refers to the interior noise of a regional propeller aircraft. Artificial Neural Network and two regression models (i.e. linear and quadratic regression models) have been chosen to predict subjective metrics according to the objective data. To obtain the optimized model parameters for the regression models, a Genetic Algorithm has been used as optimization strategy. In each modelling, 85 percent of sound sample data have been utilized to perform the model and remaining 15 percent have been reserved for testing the models. The results showed that the Artificial Neural Network can provide better prediction.
Bioinspired translation of classical music into de novo protein structures using deep learning and molecular modeling
Authors: Milazzo Mario , Anderson Grace I , Buehler Markus J 
Published: October 2021

Abstract
Architected biomaterials, as well as sound and music, are constructed from small building blocks that are assembled across time- and length-scales. Here we present a novel deep learning-enabled integrated algorithmic workflow to merge the two concepts for radical discovery of de novo protein materials, exploiting musical creativity as the foundation, and extrapolating through a recursive method to increase protein complexity by successively injecting protein chemistry into the process. Indeed, music is one of the few universal expressions that can create bridges between cultures, find associations between seemingly unrelated concepts, and can be used as a novel way to generate bio-inspired designs that derive functions from the imaginations of the creative mind. Earlier work has offered a pathway to convert proteins into sound, and sound into proteins. Here we build on this paradigm and translate a piece of classical music into matter. Based on Bach’s Goldberg variations, we offer a series of case studies to convert the musical data imagined by the composer into protein design, and folded into a 3D structure using deep learning. The quest we seek to address is to identify semblances, or memories, or information content in such musical creation, that offers new insights into pattern relationships between distinct manifestations of information. Using basic local alignment search tool analysis, we find that several fragments of the new proteins display similarities to existing protein sequences found in proteobacteria among other organisms, especially in regions of low complexity and repetitive motifs. The resulting protein forms the basis for iterative musical composition, and an evolutionary paradigm that defines a variational pathway for melodic development, complementing conventional creative or mathematical methods. This paper broadens the concept of what is understood as bio-inspiration to include a broad array of systems created by humans, animals, or other natural mechanisms.
Dual crosslinked pullulan–gelatin cryogel scaffold for chondrocyte-mediated cartilage repair: synthesis, characterization and in vitro evaluation
Authors: Anand Resmi , Nimi N , Sivadas V P , Merlin Rajesh Lal L P , Nair Prabha D 
Published: October 2021

Abstract
Cryogels, a subset of hydrogels, have recently drawn attention for cartilage tissue engineering due to its inherent microporous architecture and good mechanical properties. In this study a dual crosslinked pullulan–gelatin cryogel (PDAG) scaffold was synthesized by crosslinking gelatin with oxidized pullulan by Schiff’s base reaction followed by cryogelation. Chondrocytes seeded within the PDAG scaffolds and cultured for 21 d in vitro demonstrated enhanced cell proliferation, enhanced production of cartilage-specific extracellular matrix and up-regulated sulfated glycosaminoglycan without altering the articular chondrocyte phenotype. Quantitative reverse transcription-polymerase chain reaction-based gene expression studies, immunofluorescence, and histological studies demonstrated that the PDAG scaffold significantly enhanced the expression of chondrogenic marker genes such as type II collagen, aggrecan, and SOX9. Taken together, these results demonstrated that PDAG scaffold prepared by sequential Schiff’s base reaction and cryogelation would be a promising cell-responsive scaffold for cartilage tissue engineering applications.
Modes of wide-aperture acousto-optic diffraction in a uniaxial birefringent crystal
Authors: Machikhin Alexander , Gorevoy Alexey , Batshev Vladislav , Pozhar Vitold 
Published: October 2021

Abstract
Acousto-optic (AO) anisotropic interaction in uniaxial birefringent crystals is a widespread and versatile approach to tunable spectral filtration of light. Its principal constraints are limited values of spectral and angular bandwidth restricting the light transmission and imaging performance of AO filters. A way to overcome these drawbacks is simultaneous Bragg diffraction of two or more light beams. In this paper, we discuss and compare the main features of four available modes of anisotropic wide-aperture AO interactions in uniaxial birefringent crystals. We calculate the angular aperture, spectral resolution and other parameters and estimate the spectral image quality features related to each one. Theoretical consideration and computational modeling are carried out for tellurium dioxide (TeO2)—the main AO crystal. Derived results are important for the development of AO imaging devices, particularly multi-channel AO tunable filters.
Improving readout in quantum simulations with repetition codes
Authors: Günther Jakob M , Tacchino Francesco , Wootton James R , Tavernelli Ivano , Barkoutsos Panagiotis Kl 
Published: October 2021

Abstract
Near term quantum computers suffer from the presence of different noise sources. In order to mitigate for this effect and acquire results with significantly better accuracy, there is the urge of designing efficient error correction or error mitigation schemes. The cost of such techniques is usually high in terms of resource requirements, either in hardware or at the algorithmic level. In this work, we follow a pragmatic approach and we use repetition codes as scalable schemes with the potential to provide more accurate solutions to problems of interest in quantum chemistry and physics. We investigate different repetition code layouts and we propose a circular repetition scheme with connectivity requirements that are native on IBM Quantum hardware. We showcase our approach in multiple IBM Quantum devices and validate our results using a simplified theoretical noise model. We highlight the effect of using the proposed scheme in an electronic structure variational quantum eigensolver calculation and in the simulation of time evolution for a quantum Ising model.
The Woman Writer on Film and the #MeToo Literary Biopic
Authors: Bekers Katrijn , Willems Gertjan 
Published: October 2021

Abstract
This article focuses on the representation of female authors’ lives in English-language literary biopics and how these representations relate to feminist contexts. Departing from previous research on biopics focusing on women (particularly women writers), this article identifies four categories of such films: the patriarchal literary biopic, in which the representation of an author’s life is related to patriarchal values, the second-wave feminist literary biopic, which is related to second-wave feminism, the postfeminist literary biopic, which is related to postfeminism, and finally the #MeToo literary biopic, a new category of films that has recently begun to emerge. By analyzing the films Colette (Wash Westmoreland, 2018) and Wild Nights with Emily (Madeleine Olnek, 2019), this article shows how these films correspond to the #MeToo movement. The #MeToo literary biopic is characterized by (a) excessive attention to difficult publication processes and the disclosure of women’s words, (b) emphasizing the persistent censoring of women’s words, (c) deconstructing the myths surrounding female authors, and (d) underscoring (female) solidarity and empowerment.
iRice-MS: An integrated XGBoost model for detecting multitype post-translational modification sites in rice
Authors: Lv Hao , Zhang Yang , Wang Jia-Shu , Yuan Shi-Shi , Sun Zi-Jie , Dao Fu-Ying , Guan Zheng-Xing , Lin Hao , Deng Ke-Jun 
Published: October 2021

AbstractPost-translational modification (PTM) refers to the covalent and enzymatic modification of proteins after protein biosynthesis, which orchestrates a variety of biological processes. Detecting PTM sites in proteome scale is one of the key steps to in-depth understanding their regulation mechanisms. In this study, we presented an integrated method based on eXtreme Gradient Boosting (XGBoost), called iRice-MS, to identify 2-hydroxyisobutyrylation, crotonylation, malonylation, ubiquitination, succinylation and acetylation in rice. For each PTM-specific model, we adopted eight feature encoding schemes, including sequence-based features, physicochemical property-based features and spatial mapping information-based features. The optimal feature set was identified from each encoding, and their respective models were established. Extensive experimental results show that iRice-MS always display excellent performance on 5-fold cross-validation and independent dataset test. In addition, our novel approach provides the superiority to other existing tools in terms of AUC value. Based on the proposed model, a web server named iRice-MS was established and is freely accessible at http://lin-group.cn/server/iRice-MS.