bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of long noncoding RNAs involved in resistance to downy mildew in Chinese cabbage
Authors: Zhang Bin , Su Tongbing , Li Peirong , Xin Xiaoyun , Cao Yunyun , Wang Weihong , Zhao Xiuyun , Zhang Deshuang , Yu Yangjun , Li Dayong , Yu Shuancang , Zhang Fenglan 
Published: March 2021

AbstractBrassica downy mildew, a severe disease caused by Hyaloperonospora brassicae, can cause enormous economic losses in Chinese cabbage (Brassica rapa L. ssp. pekinensis) production. Although some research has been reported recently concerning the underlying resistance to this disease, no studies have identified or characterized long noncoding RNAs involved in this defense response. In this study, using high-throughput RNA sequencing, we analyzed the disease-responding mRNAs and long noncoding RNAs in two resistant lines (T12–19 and 12–85) and one susceptible line (91–112). Clustering and Gene Ontology analysis of differentially expressed genes (DEGs) showed that more DEGs were involved in the defense response in the two resistant lines than in the susceptible line. Different expression patterns and proposed functions of differentially expressed long noncoding RNAs among T12–19, 12–85, and 91–112 indicated that each has a distinct disease response mechanism. There were significantly more cis- and trans-functional long noncoding RNAs in the resistant lines than in the susceptible line, and the genes regulated by these RNAs mostly participated in the disease defense response. Furthermore, we identified a candidate resistance-related long noncoding RNA, MSTRG.19915, which is a long noncoding natural antisense transcript of a MAPK gene, BrMAPK15. Via an agroinfiltration-mediated transient overexpression system and virus-induced gene silencing technology, BrMAPK15 was indicated to have a greater ability to defend against pathogens. MSTRG.19915-silenced seedlings showed enhanced resistance to downy mildew, probably because of the upregulated expression of BrMAPK15. This research identified and characterized long noncoding RNAs involved in resistance to downy mildew, laying a foundation for future in-depth studies of disease resistance mechanisms in Chinese cabbage.
Cavity-enhanced microwave readout of a solid-state spin sensor
Authors: Eisenach Erik R. , Barry John F. , O’Keeffe Michael F. , Schloss Jennifer M. , Steinecker Matthew H. , Englund Dirk R. , Braje Danielle A. 
Published: March 2021

AbstractOvercoming poor readout is an increasingly urgent challenge for devices based on solid-state spin defects, particularly given their rapid adoption in quantum sensing, quantum information, and tests of fundamental physics. However, in spite of experimental progress in specific systems, solid-state spin sensors still lack a universal, high-fidelity readout technique. Here we demonstrate high-fidelity, room-temperature readout of an ensemble of nitrogen-vacancy centers via strong coupling to a dielectric microwave cavity, building on similar techniques commonly applied in cryogenic circuit cavity quantum electrodynamics. This strong collective interaction allows the spin ensemble’s microwave transition to be probed directly, thereby overcoming the optical photon shot noise limitations of conventional fluorescence readout. Applying this technique to magnetometry, we show magnetic sensitivity approaching the Johnson–Nyquist noise limit of the system. Our results pave a clear path to achieve unity readout fidelity of solid-state spin sensors through increased ensemble size, reduced spin-resonance linewidth, or improved cavity quality factor.
Degradable polymeric vehicles for postoperative pain management
Authors: Brigham Natasha C. , Ji Ru-Rong , Becker Matthew L. 
Published: March 2021

AbstractEffective control of pain management has the potential to significantly decrease the need for prescription opioids following a surgical procedure. While extended release products for pain management are available commercially, the implementation of a device that safely and reliably provides extended analgesia and is sufficiently flexible to facilitate a diverse array of release profiles would serve to advance patient comfort, quality of care and compliance following surgical procedures. Herein, we review current polymeric systems that could be utilized in new, controlled post-operative pain management devices and highlight where opportunities for improvement exist.
Cells recognize osmotic stress through liquid–liquid phase separation lubricated with poly(ADP-ribose)
Authors: Watanabe Kengo , Morishita Kazuhiro , Zhou Xiangyu , Shiizaki Shigeru , Uchiyama Yasuo , Koike Masato , Naguro Isao , Ichijo Hidenori 
Published: March 2021

AbstractCells are under threat of osmotic perturbation; cell volume maintenance is critical in cerebral edema, inflammation and aging, in which prominent changes in intracellular or extracellular osmolality emerge. After osmotic stress-enforced cell swelling or shrinkage, the cells regulate intracellular osmolality to recover their volume. However, the mechanisms recognizing osmotic stress remain obscured. We previously clarified that apoptosis signal-regulating kinase 3 (ASK3) bidirectionally responds to osmotic stress and regulates cell volume recovery. Here, we show that macromolecular crowding induces liquid-demixing condensates of ASK3 under hyperosmotic stress, which transduce osmosensing signal into ASK3 inactivation. A genome-wide small interfering RNA (siRNA) screen identifies an ASK3 inactivation regulator, nicotinamide phosphoribosyltransferase (NAMPT), related to poly(ADP-ribose) signaling. Furthermore, we clarify that poly(ADP-ribose) keeps ASK3 condensates in the liquid phase and enables ASK3 to become inactivated under hyperosmotic stress. Our findings demonstrate that cells rationally incorporate physicochemical phase separation into their osmosensing systems.
Photocatalysis-mediated drug-free sustainable cancer therapy using nanocatalyst
Authors: Zhao Bin , Wang Yingshuai , Yao Xianxian , Chen Danyang , Fan Mingjian , Jin Zhaokui , He Qianjun 
Published: March 2021

AbstractDrug therapy unavoidably brings toxic side effects and drug content-limited therapeutic efficacy although many nanocarriers have been developed to improve them to a certain extent. In this work, a concept of drug-free therapeutics is proposed and defined as a therapeutic methodology without the use of traditional toxic drugs, without the consumption of therapeutic agents during treatment but with the inexhaustible therapeutic capability to maximize the benefit of treatment, and a Z-scheme SnS1.68-WO2.41 nanocatalyst is developed to achieve near infrared (NIR)-photocatalytic generation of oxidative holes and hydrogen molecules for realizing combined hole/hydrogen therapy by the drug-free therapeutic strategy. Without the need of any drug and other therapeutic agent assistance, the nanocatalyst oxidizes/consumes intratumoral over-expressed glutathione (GSH) by holes and simultaneously generates hydrogen molecules in a lasting and controllable way under NIR irradiation. Mechanistically, generated hydrogen molecules and GSH consumption inhibit cancer cell energy and destroy intratumoral redox balance, respectively, to synergistically damage DNA and induce tumor cell apoptosis. High efficacy and biosafety of combined hole/hydrogen therapy of tumors are achieved by the nanocatalyst. The proposed catalysis-based drug-free therapeutic strategy breaks a pathway to realize high efficacy and low toxicity of cancer treatment.
S-Trimer, a COVID-19 subunit vaccine candidate, induces protective immunity in nonhuman primates
Authors: Liang Joshua G. , Su Danmei , Song Tian-Zhang , Zeng Yilan , Huang Weijin , Wu Jinhua , Xu Rong , Luo Peiwen , Yang Xiaofang , Zhang Xiaodong , Luo Shuangru , Liang Ying , Li Xinglin , Huang Jiaju , Wang Qiang , Huang Xueqin , Xu Qingsong , Luo Mei , Huang Anliang , Luo Dongxia , Zhao Chenyan , Yang Fan , Han Jian-Bao , Zheng Yong-Tang , Liang Peng 
Published: March 2021

AbstractSARS-CoV-2 is the underlying cause for the COVID-19 pandemic. Like most enveloped RNA viruses, SARS-CoV-2 uses a homotrimeric surface antigen to gain entry into host cells. Here we describe S-Trimer, a native-like trimeric subunit vaccine candidate for COVID-19 based on Trimer-Tag technology. Immunization of S-Trimer with either AS03 (oil-in-water emulsion) or CpG 1018 (TLR9 agonist) plus alum adjuvants induced high-level of neutralizing antibodies and Th1-biased cellular immune responses in animal models. Moreover, rhesus macaques immunized with adjuvanted S-Trimer were protected from SARS-CoV-2 challenge compared to vehicle controls, based on clinical observations and reduction of viral loads in lungs. Trimer-Tag may be an important platform technology for scalable production and rapid development of safe and effective subunit vaccines against current and future emerging RNA viruses.
Observation of magnetic adatom-induced Majorana vortex and its hybridization with field-induced Majorana vortex in an iron-based superconductor
Authors: Fan Peng , Yang Fazhi , Qian Guojian , Chen Hui , Zhang Yu-Yang , Li Geng , Huang Zihao , Xing Yuqing , Kong Lingyuan , Liu Wenyao , Jiang Kun , Shen Chengmin , Du Shixuan , Schneeloch John , Zhong Ruidan , Gu Genda , Wang Ziqiang , Ding Hong , Gao Hong-Jun 
Published: March 2021

AbstractBraiding Majorana zero modes is essential for fault-tolerant topological quantum computing. Iron-based superconductors with nontrivial band topology have recently emerged as a surprisingly promising platform for creating distinct Majorana zero modes in magnetic vortices in a single material and at relatively high temperatures. The magnetic field-induced Abrikosov vortex lattice makes it difficult to braid a set of Majorana zero modes or to study the coupling of a Majorana doublet due to overlapping wave functions. Here we report the observation of the proposed quantum anomalous vortex with integer quantized vortex core states and the Majorana zero mode induced by magnetic Fe adatoms deposited on the surface. We observe its hybridization with a nearby field-induced Majorana vortex in iron-based superconductor FeTe0.55Se0.45. We also observe vortex-free Yu-Shiba-Rusinov bound states at the Fe adatoms with a weaker coupling to the substrate, and discover a reversible transition between Yu-Shiba-Rusinov states and Majorana zero mode by manipulating the exchange coupling strength. The dual origin of the Majorana zero modes, from magnetic adatoms and external magnetic field, provides a new single-material platform for studying their interactions and braiding in superconductors bearing topological band structures.
The TOPAZ study: a home-based trial of zoledronic acid to prevent fractures in neurodegenerative parkinsonism
Authors: Tanner Caroline M. , Cummings Steven R. , Schwarzschild Michael A. , Brown Ethan G. , Dorsey E. Ray , Espay Alberto J. , Galifianakis Nicholas B. , Goldman Samuel M. , Litvan Irene , Luthra Nijee , McFarland Nikolaus R. , Mitchell Kyle T. , Standaert David G. , Bauer Douglas C. , Greenspan Susan L. , Beck James C. , Lyles Kenneth W. 
Published: March 2021

AbstractThe Trial of Parkinson’s And Zoledronic acid (TOPAZ, https://clinicaltrials.gov/ct2/show/NCT03924414) is a unique collaboration between experts in movement disorders and osteoporosis to test the efficacy of zoledronic acid, an FDA-approved parenteral treatment for osteoporosis, for fracture prevention in people with neurodegenerative parkinsonism. Aiming to enroll 3,500 participants age 65 years or older, TOPAZ is one of the largest randomized, placebo-controlled clinical trials ever attempted in parkinsonism. The feasibility of TOPAZ is enhanced by its design as a U.S.- wide home-based trial without geographical limits. Participants receive information from multiple sources, including specialty practices, support groups and websites. Conducting TOPAZ in participants’ homes takes advantage of online consent technology, the capacity to confirm diagnosis using telemedicine and the availability of research nursing to provide screening and parenteral therapy in homes. Home-based clinical research may provide an efficient, convenient, less expensive method that opens participation in clinical trials to almost anyone with parkinsonism.
Reduced cortical gyrification in the posteromedial cortex in unaffected relatives of schizophrenia patients with high genetic loading
Authors: Park Inkyung , Kim Minah , Lee Tae Young , Hwang Wu Jeong , Bin Kwak Yoo , Oh Sanghoon , Lho Silvia Kyungjin , Moon Sun-Young , Kwon Jun Soo 
Published: March 2021

AbstractAlthough abnormal cortical gyrification has been consistently reported in patients with schizophrenia, whether gyrification abnormalities reflect a genetic risk for the disorder remains unknown. This study investigated differences in cortical gyrification between unaffected relatives (URs) with high genetic loading for schizophrenia and healthy controls (HCs) to identify potential genetic vulnerability markers. A total of 50 URs of schizophrenia patients and 50 matched HCs underwent T1-weighted magnetic resonance imaging to compare whole-brain gyrification using the local gyrification index (lGI). Then, the lGI clusters showing significant differences were compared between the UR subgroups based on the number of first-degree relatives with schizophrenia to identify the effect of genetic loading on cortical gyrification changes. The URs exhibited significantly lower cortical gyrification than the HCs in clusters including medial parieto-occipital and cingulate regions comprising the bilateral precuneus, cuneus, pericalcarine, lingual, isthmus cingulate, and posterior cingulate gyri. Moreover, URs who had two or more first-degree relatives with schizophrenia showed greater gyrification reductions in these clusters than those who had at least one first-degree relative with schizophrenia. Our findings of reduced gyrification in URs, which are consistent with accumulated evidence of hypogyria observed in regions showing patient-control differences in previous studies, highlight that such hypogyria in posteromedial regions may serve as a genetic vulnerability marker and reflect early neurodevelopmental abnormalities resulting from a genetic risk for schizophrenia.
Pairing of white wine made with shade-grown grapes and Japanese cuisine
Authors: Takahashi Takuji , Nakano Kumiko , Yamashita Machiko , Yamazaki Hanae , Fushiki Tohru 
Published: March 2021

AbstractThis study investigated the effect of pairing of wine vinified from shade-grown grapes before onset of ripening on the palatability of sashimi, a typical Japanese cuisine. GC-MS analyses of volatile chemicals revealed that shading reduced phenolic compounds and terpenoids, and added fatty acid ethyl esters which are also known to contribute to the flavor of Japanese sake. When the pairing of sashimi with wine was evaluated by individuals who regularly drink Japanese sake during meals, shade wine was more highly rated than wine made from normally-grown grapes.
Hierarchical deep learning models using transfer learning for disease detection and classification based on small number of medical images
Authors: An Guangzhou , Akiba Masahiro , Omodaka Kazuko , Nakazawa Toru , Yokota Hideo 
Published: March 2021

AbstractDeep learning is being employed in disease detection and classification based on medical images for clinical decision making. It typically requires large amounts of labelled data; however, the sample size of such medical image datasets is generally small. This study proposes a novel training framework for building deep learning models of disease detection and classification with small datasets. Our approach is based on a hierarchical classification method where the healthy/disease information from the first model is effectively utilized to build subsequent models for classifying the disease into its sub-types via a transfer learning method. To improve accuracy, multiple input datasets were used, and a stacking ensembled method was employed for final classification. To demonstrate the method’s performance, a labelled dataset extracted from volumetric ophthalmic optical coherence tomography data for 156 healthy and 798 glaucoma eyes was used, in which glaucoma eyes were further labelled into four sub-types. The average weighted accuracy and Cohen’s kappa for three randomized test datasets were 0.839 and 0.809, respectively. Our approach outperformed the flat classification method by 9.7% using smaller training datasets. The results suggest that the framework can perform accurate classification with a small number of medical images.
Novel gene signatures for stage classification of the squamous cell carcinoma of the lung
Authors: Juarez-Flores Angel , Zamudio Gabriel S. , José Marco V. 
Published: March 2021

AbstractThe squamous cell carcinoma of the lung (SCLC) is one of the most common types of lung cancer. As GLOBOCAN reported in 2018, lung cancer was the first cause of death and new cases by cancer worldwide. Typically, diagnosis is made in the later stages of the disease with few treatment options available. The goal of this work was to find some key components underlying each stage of the disease, to help in the classification of tumor samples, and to increase the available options for experimental assays and molecular targets that could be used in treatment development. We employed two approaches. The first was based in the classic method of differential gene expression analysis, network analysis, and a novel concept known as network gatekeepers. The second approach was using machine learning algorithms. From our combined approach, we identified two sets of genes that could function as a signature to identify each stage of the cancer pathology. We also arrived at a network of 55 nodes, which according to their biological functions, they can be regarded as drivers in this cancer. Although biological experiments are necessary for their validation, we proposed that all these genes could be used for cancer development treatments.
A fast-growing basal troodontid (Dinosauria: Theropoda) from the latest Cretaceous of Europe
Authors: Sellés Albert G. , Vila Bernat , Brusatte Stephen L. , Currie Philip J. , Galobart Àngel 
Published: March 2021

AbstractA characteristic fauna of dinosaurs and other vertebrates inhabited the end-Cretaceous European archipelago, some of which were dwarves or had other unusual features likely related to their insular habitats. Little is known, however, about the contemporary theropod dinosaurs, as they are represented mostly by teeth or other fragmentary fossils. A new isolated theropod metatarsal II, from the latest Maastrichtian of Spain (within 200,000 years of the mass extinction) may represent a jinfengopterygine troodontid, the first reported from Europe. Comparisons with other theropods and phylogenetic analyses reveal an autapomorphic foramen that distinguishes it from all other troodontids, supporting its identification as a new genus and species,Tamarro insperatus. Bone histology shows that it was an actively growing subadult when it died but may have had a growth pattern in which it grew rapidly in early ontogeny and attained a subadult size quickly. We hypothesize that it could have migrated from Asia to reach the Ibero-Armorican island no later than Cenomanian or during the Maastrichtian dispersal events.
Ultrafast evolution of bulk, surface and surface resonance states in photoexcited $$\hbox {Bi}_{2}\hbox {Te}_{3}$$
Authors: Hedayat Hamoon , Bugini Davide , Yi Hemian , Chen Chaoyu , Zhou Xingjiang , Cerullo Giulio , Dallera Claudia , Carpene Ettore 
Published: March 2021

AbstractWe use circular dichroism (CD) in time- and angle-resolved photoemission spectroscopy (trARPES) to measure the femtosecond charge dynamics in the topological insulator (TI) $$\hbox {Bi}_{2}\hbox {Te}_{3}$$

Bi
2

Te
3

. We detect clear CD signatures from topological surface states (TSS) and surface resonance (SR) states. In time-resolved measurements, independently from the pump polarization or intensity, the CD shows a dynamics which provides access to the unexplored electronic evolution in unoccupied states of $$\hbox {Bi}_{2}\hbox {Te}_{3}$$

Bi
2

Te
3

. In particular, we are able to disentangle the unpolarized electron dynamics in the bulk states from the spin-textured TSS and SR states on the femtosecond timescale. Our study demonstrates that photoexcitation mainly involves the bulk states and is followed by sub-picosecond transport to the surface. This provides essential details on intra- and interband scattering in the relaxation process of TSS and SR states. Our results reveal the significant role of SRs in the subtle ultrafast interaction between bulk and surface states of TIs.
Pili and other surface proteins influence the structure and the nanomechanical properties of Lactococcus lactis biofilms
Authors: Drame Ibrahima , Lafforgue Christine , Formosa-Dague Cecile , Chapot-Chartier Marie-Pierre , Piard Jean-Christophe , Castelain Mickaël , Dague Etienne 
Published: March 2021

AbstractLactic acid bacteria, in particular Lactococcus lactis, are widely used in the food industry, for the control and/or the protection of the manufacturing processes of fermented food. While L. lactis has been reported to form compact and uniform biofilms it was recently shown that certain strains able to display pili at their surface form more complex biofilms exhibiting heterogeneous and aerial structures. As the impact of those biofilm structures on the biomechanical properties of the biofilms is poorly understood, these were investigated using AFM force spectroscopy and imaging. Three types of strains were used i.e., a control strain devoid of pili and surface mucus-binding protein, a strain displaying pili but no mucus-binding proteins and a strain displaying both pili and a mucus-binding protein. To identify potential correlations between the nanomechanical measurements and the biofilm architecture, 24-h old biofilms were characterized by confocal laser scanning microscopy. Globally the strains devoid of pili displayed smoother and stiffer biofilms (Young Modulus of 4–100 kPa) than those of piliated strains (Young Modulus around 0.04–0.1 kPa). Additional display of a mucus-binding protein did not affect the biofilm stiffness but made the biofilm smoother and more compact. Finally, we demonstrated the role of pili in the biofilm cohesiveness by monitoring the homotypic adhesion of bacteria to the biofilm surface. These results will help to understand the role of pili and mucus-binding proteins withstanding external forces.