bluuebunny/crossref_metadata_2025_split huggingface dataset:
Spatial contextual effects in primary visual cortex limit feature representation under crowding
Authors: Henry Christopher A. , Kohn Adam 
Published: April 2020

AbstractCrowding is a profound loss of discriminability of visual features, when a target stimulus is surrounded by distractors. Numerous studies of human perception have characterized how crowding depends on the properties of a visual display. Yet, there is limited understanding of how and where stimulus information is lost in the visual system under crowding. Here, we show that macaque monkeys exhibit perceptual crowding for target orientation that is similar to humans. We then record from neuronal populations in monkey primary visual cortex (V1). These populations show an appreciable loss of information about target orientation in the presence of distractors, due both to divisive and additive modulation of responses to targets by distractors. Our results show that spatial contextual effects in V1 limit the discriminability of visual features and can contribute substantively to crowding.
The Litsea genome and the evolution of the laurel family
Authors: Chen Yi-Cun , Li Zhen , Zhao Yun-Xiao , Gao Ming , Wang Jie-Yu , Liu Ke-Wei , Wang Xue , Wu Li-Wen , Jiao Yu-Lian , Xu Zi-Long , He Wen-Guang , Zhang Qi-Yan , Liang Chieh-Kai , Hsiao Yu-Yun , Zhang Di-Yang , Lan Si-Ren , Huang Laiqiang , Xu Wei , Tsai Wen-Chieh , Liu Zhong-Jian , Van de Peer Yves , Wang Yang-Dong 
Published: April 2020

AbstractThe laurel family within the Magnoliids has attracted attentions owing to its scents, variable inflorescences, and controversial phylogenetic position. Here, we present a chromosome-level assembly of theLitsea cubebagenome, together with low-coverage genomic and transcriptomic data for many other Lauraceae. Phylogenomic analyses show phylogenetic discordance at the position of Magnoliids, suggesting incomplete lineage sorting during the divergence of monocots, eudicots, and Magnoliids. An ancient whole-genome duplication (WGD) event occurred just before the divergence of Laurales and Magnoliales; subsequently, independent WGDs occurred almost simultaneously in the three Lauralean lineages. The phylogenetic relationships within Lauraceae correspond to the divergence of inflorescences, as evidenced by the phylogeny ofFUWA, a conserved gene involved in determining panicle architecture in Lauraceae. Monoterpene synthases responsible for production of specific volatile compounds in Lauraceae are functionally verified. Our work sheds light on the evolution of the Lauraceae, the genetic basis for floral evolution and specific scents.
Accelerated dryland expansion regulates future variability in dryland gross primary production
Authors: Yao Jingyu , Liu Heping , Huang Jianping , Gao Zhongming , Wang Guoyin , Li Dan , Yu Haipeng , Chen Xingyuan 
Published: April 2020

AbstractDrylands cover 41% of Earth’s surface and are the largest source of interannual variability in the global carbon sink. Drylands are projected to experience accelerated expansion over the next century, but the implications of this expansion on variability in gross primary production (GPP) remain elusive. Here we show that by 2100 total dryland GPP will increase by 12 ± 3% relative to the 2000–2014 baseline. Because drylands will largely expand into formerly productive ecosystems, this increase in dryland GPP may not increase global GPP. Further, GPP per unit dryland area will decrease as degradation of historical drylands outpaces the higher GPP of expanded drylands. Dryland expansion and climate-induced conversions among sub-humid, semi-arid, arid, and hyper-arid subtypes will lead to substantial changes in regional and subtype contributions to global dryland GPP variability. Our results highlight the vulnerability of dryland subtypes to more frequent and severe climate extremes and suggest that regional variations will require different mitigation strategies.
A primer on emerging field-deployable synthetic biology tools for global water quality monitoring
Authors: Thavarajah Walter , Verosloff Matthew S. , Jung Jaeyoung K. , Alam Khalid K. , Miller Joshua D. , Jewett Michael C. , Young Sera L. , Lucks Julius B. 
Published: April 2020

AbstractTracking progress towards Target 6.1 of the United Nations Sustainable Development Goals, “achieving universal and equitable access to safe and affordable drinking water for all”, necessitates the development of simple, inexpensive tools to monitor water quality. The rapidly growing field of synthetic biology has the potential to address this need by isolating DNA-encoded sensing elements from nature and reassembling them to create field-deployable “biosensors” that can detect pathogenic or chemical water contaminants. Here, we describe current water quality monitoring strategies enabled by synthetic biology and compare them to previous approaches used to detect three priority water contaminants (i.e., fecal pathogens, arsenic, and fluoride), as well as explain the potential for engineered biosensors to simplify and decentralize water quality monitoring. We conclude with an outlook on the future of biosensor development, in which we discuss their adaptability to emerging contaminants (e.g., metals, agricultural products, and pharmaceuticals), outline current limitations, and propose steps to overcome the field’s outstanding challenges to facilitate global water quality monitoring.
Targeting of radioactive platinum-bisphosphonate anticancer drugs to bone of high metabolic activity
Authors: Nadar Robin A. , Farbod Kambiz , der Schilden Karlijn Codee-van , Schlatt Lukas , Crone Barbara , Asokan Nandini , Curci Alessandra , Brand Michael , Bornhaeuser Martin , Iafisco Michele , Margiotta Nicola , Karst Uwe , Heskamp Sandra , Boerman Otto C. , van den Beucken Jeroen J. J. P. , Leeuwenburgh Sander C. G. 
Published: April 2020

AbstractPlatinum-based chemotherapeutics exhibit excellent antitumor properties. However, these drugs cause severe side effects including toxicity, drug resistance, and lack of tumor selectivity. Tumor-targeted drug delivery has demonstrated great potential to overcome these drawbacks. Herein, we aimed to design radioactive bisphosphonate-functionalized platinum (195mPt-BP) complexes to confirm preferential accumulation of these Pt-based drugs in metabolically active bone. In vitro NMR studies revealed that release of Pt from Pt BP complexes increased with decreasing pH. Upon systemic administration to mice, Pt-BP exhibited a 4.5-fold higher affinity to bone compared to platinum complexes lacking the bone-seeking bisphosphonate moiety. These Pt-BP complexes formed less Pt-DNA adducts compared to bisphosphonate-free platinum complexes, indicating that in vivo release of Pt from Pt-BP complexes proceeded relatively slow. Subsequently, radioactive 195mPt-BP complexes were synthesized using 195mPt(NO3)2(en) as precursor and injected intravenously into mice. Specific accumulation of 195mPt-BP was observed at skeletal sites with high metabolic activity using micro-SPECT/CT imaging. Furthermore, laser ablation-ICP-MS imaging of proximal tibia sections confirmed that 195mPt BP co-localized with calcium in the trabeculae of mice tibia.
Milk lactoperoxidase decreases ID1 and ID3 expression in human oral squamous cell carcinoma cell lines
Authors: Panahipour Layla , Biasi Maria De , Bokor Theresa Sophia , Thajer Alexandra , Haiden Nadja , Gruber Reinhard 
Published: April 2020

AbstractMilk consumption may modify the risk of squamous cell carcinoma. The role of milk to modulate the gene expression in oral squamous cell carcinoma cells has not been investigated so far. Here, HSC2 oral squamous carcinoma cells were exposed to an aqueous fraction of human milk and a whole-genome array was performed. Among the genes that were significantly reduced by human and cow milk were the DNA-binding protein inhibitor 1 (ID1), ID3 and Distal-Less Homeobox 2 (DLX2) in HSC2 cells. Also, in TR146 oral squamous carcinoma cells, there was a tendency towards a decreased gene expression. Upon size fractionation, lactoperoxidase but not lactoferrin and osteopontin was identified to reduce ID1 and ID3 in HSC2 cells. Dairy products and hypoallergenic infant formula failed to decrease the respective genes. These data suggest that milk can reduce the expression of transcription factors in oral squamous carcinoma cells.
Foot strike pattern during running alters muscle-tendon dynamics of the gastrocnemius and the soleus
Authors: Yong Jennifer R. , Dembia Christopher L. , Silder Amy , Jackson Rachel W. , Fredericson Michael , Delp Scott L. 
Published: April 2020

AbstractRunning is thought to be an efficient gait due, in part, to the behavior of the plantar flexor muscles and elastic energy storage in the Achilles tendon. Although plantar flexor muscle mechanics and Achilles tendon energy storage have been explored during rearfoot striking, they have not been fully characterized during forefoot striking. This study examined how plantar flexor muscle-tendon mechanics during running differs between rearfoot and forefoot striking. We used musculoskeletal simulations, driven by joint angles and electromyography recorded from runners using both rearfoot and forefoot striking running patterns, to characterize plantar flexor muscle-tendon mechanics. The simulations revealed that foot strike pattern affected the soleus and gastrocnemius differently. For the soleus, forefoot striking decreased tendon energy storage and fiber work done while the muscle fibers were shortening compared to rearfoot striking. For the gastrocnemius, forefoot striking increased muscle activation and fiber work done while the muscle fibers were lengthening compared to rearfoot striking. These changes in gastrocnemius mechanics suggest that runners planning to convert to forefoot striking might benefit from a progressive eccentric gastrocnemius strengthening program to avoid injury.
Observation of sub-wavelength phase structure of matter wave with two-dimensional optical lattice by Kapitza-Dirac diffraction
Authors: Wen Kai , Meng Zengming , Wang Pengjun , Wang Liangwei , Chen Liangchao , Huang Lianghui , Zhou Lihong , Cui Xiaoling , Zhang Jing 
Published: April 2020

AbstractWe report an experimental demonstration of generation and measurement of sub-wavelength phase structure of a Bose-Einstein condensate (BEC) with two-dimensional optical lattice. This is implemented by applying a short lattice pulse on BEC in the Kapitza-Dirac (or Raman-Nath) regime, which, in the classical picture, corresponds to phase modulation imprinted on matter wave. When the phase modulation is larger than 2π in a lattice cell, the periodicity of phase naturally forms the sub-wavelength phase structure. By converting the phase information into amplitude, we are able to measure the sub-wavelength structure through the momentum distribution of BEC via the time-of-flight absorption image. Beyond the classical treatment, we further demonstrate the importance of quantum fluctuations in the formation of sub-wavelength phase structure by considering different lattice configurations. Our scheme provides a powerful tool for exploring the fine structure of a lattice cell as well as topological defects in matter wave.
Intracellular nonequilibrium fluctuating stresses indicate how nonlinear cellular mechanical properties adapt to microenvironmental rigidity
Authors: Wei Ming-Tzo , Jedlicka Sabrina S. , Ou-Yang H. Daniel 
Published: April 2020

AbstractLiving cells are known to be in thermodynamically nonequilibrium, which is largely brought about by intracellular molecular motors. The motors consume chemical energies to generate stresses and reorganize the cytoskeleton for the cell to move and divide. However, since there has been a lack of direct measurements characterizing intracellular stresses, questions remained unanswered on the intricacies of how cells use such stresses to regulate their internal mechanical integrity in different microenvironments. This report describes a new experimental approach by which we reveal an environmental rigidity-dependent intracellular stiffness that increases with intracellular stress - a revelation obtained, surprisingly, from a correlation between the fluctuations in cellular stiffness and that of intracellular stresses. More surprisingly, by varying two distinct parameters, environmental rigidity and motor protein activities, we observe that the stiffness-stress relationship follows the same curve. This finding provides some insight into the intricacies by suggesting that cells can regulate their responses to their mechanical microenvironment by adjusting their intracellular stress.
3D Printing of Inertial Microfluidic Devices
Authors: Razavi Bazaz Sajad , Rouhi Omid , Raoufi Mohammad Amin , Ejeian Fatemeh , Asadnia Mohsen , Jin Dayong , Ebrahimi Warkiani Majid 
Published: April 2020

AbstractInertial microfluidics has been broadly investigated, resulting in the development of various applications, mainly for particle or cell separation. Lateral migrations of these particles within a microchannel strictly depend on the channel design and its cross-section. Nonetheless, the fabrication of these microchannels is a continuous challenging issue for the microfluidic community, where the most studied channel cross-sections are limited to only rectangular and more recently trapezoidal microchannels. As a result, a huge amount of potential remains intact for other geometries with cross-sections difficult to fabricate with standard microfabrication techniques. In this study, by leveraging on benefits of additive manufacturing, we have proposed a new method for the fabrication of inertial microfluidic devices. In our proposed workflow, parts are first printed via a high-resolution DLP/SLA 3D printer and then bonded to a transparent PMMA sheet using a double-coated pressure-sensitive adhesive tape. Using this method, we have fabricated and tested a plethora of existing inertial microfluidic devices, whether in a single or multiplexed manner, such as straight, spiral, serpentine, curvilinear, and contraction-expansion arrays. Our characterizations using both particles and cells revealed that the produced chips could withstand a pressure up to 150 psi with minimum interference of the tape to the total functionality of the device and viability of cells. As a showcase of the versatility of our method, we have proposed a new spiral microchannel with right-angled triangular cross-section which is technically impossible to fabricate using the standard lithography. We are of the opinion that the method proposed in this study will open the door for more complex geometries with the bespoke passive internal flow. Furthermore, the proposed fabrication workflow can be adopted at the production level, enabling large-scale manufacturing of inertial microfluidic devices.
Three novel variants identified within ECM-related genes in Chinese Han keratoconus patients
Authors: Xu Xiayan , Zhang Xin , Cui Yilei , Yang Hao , Ping Xiyuan , Wu Jing , Yu Xiaoning , Jin Xiuming , Huang Xiaodan , Shentu Xingchao 
Published: April 2020

AbstractAs the primary indication for corneal transplantation, the pathogenesis of keratoconus remains elusive. Aiming to identify whether any mutation from extracellular-matrix (ECM)-related genes contributes to the patients with sporadic cases of keratoconus (KC) from Chinese Han population, one hundred and fifty-three participants in total were enrolled in our study, including fifty-three KC patients and one hundred healthy controls. Mutational analysis of three ECM-related genes (LOX, COL5A1 and TIMP3) with next-generation sequencing and Sanger sequencing was performed. To further confirm the function of three ECM-related genes in the pathogenesis of keratoconus, we performed Real-time Quantitative PCR in vitro. Results showed that three new sequence variants (c.95 G > A in LOX, c.1372 C > T in COL5A1 and c.476 C > T in TIMP3) were identified in aforementioned ECM-related genes in KC patients without being detected among the healthy controls. According to the results of QPCR, we found that the expression levels of LOX and TIMP3 were decreased in the KC patients, while COL5A1 showed no significant difference of expression. This is the first time to screen so many ECM-related genes in Chinese keratoconus patients using next-generation sequencing. We find numerous underlying causal variants, enlarging lots of mutation spectrums and thus providing new sites for other investigators to replicate and for further research.
Platelets disrupt vasculogenic mimicry by cancer cells
Authors: Martini Carmela , Thompson Emma J. , Hyslop Stephanie R. , Cockshell Michaelia P. , Dale Brian J. , Ebert Lisa M. , Woods Anthony E. , Josefsson Emma C. , Bonder Claudine S. 
Published: April 2020

AbstractTumour vasculature supports the growth and progression of solid cancers with both angiogenesis (endothelial cell proliferation) and vasculogenic mimicry (VM, the formation of vascular structures by cancer cells themselves) predictors of poor patient outcomes. Increased circulating platelet counts also predict poor outcome for cancer patients but the influence of platelets on tumour vasculature is incompletely understood. Herein, we show with in vitro assays that platelets did not influence angiogenesis but did actively inhibit VM formation by cancer cell lines. Both platelet sized beads and the releasates from platelets were partially effective at inhibiting VM formation suggesting that direct contact maximises the effect. Platelets also promoted cancer cell invasion in vitro. B16F10 melanomas in Bcl-xPlt20/Plt20 thrombocytopenic mice showed a higher content of VM than their wildtype counterparts while angiogenesis did not differ. In a xenograft mouse model of breast cancer with low-dose aspirin to inactivate the platelets, the burden of MDA-MB-231-LM2 breast cancer cells was reduced and the gene expression profile of the cancer cells was altered; but no effect on tumour vasculature was observed. Taken together, this study provides new insights into the action of platelets on VM formation and their involvement in cancer progression.
Memristive GAN in Analog
Authors: Krestinskaya O. , Choubey B. , James A. P. 
Published: April 2020

AbstractGenerative Adversarial Network (GAN) requires extensive computing resources making its implementation in edge devices with conventional microprocessor hardware a slow and difficult, if not impossible task. In this paper, we propose to accelerate these intensive neural computations using memristive neural networks in analog domain. The implementation of Analog Memristive Deep Convolutional GAN (AM-DCGAN) using Generator as deconvolutional and Discriminator as convolutional memristive neural network is presented. The system is simulated at circuit level with 1.7 million memristor devices taking into account memristor non-idealities, device and circuit parameters. The design is modular with crossbar arrays having a minimum average power consumption per neural computation of 47nW. The design exclusively uses the principles of neural network dropouts resulting in regularization and lowering the power consumption. The SPICE level simulation of GAN is performed with 0.18 μm CMOS technology and WOx memristive devices with RON = 40 kΩ and ROFF = 250 kΩ, threshold voltage 0.8 V and write voltage at 1.0 V.
RETRACTED ARTICLE: In situ structural characterization of early amyloid aggregates in Alzheimer’s disease transgenic mice and Octodon degus
Authors: Benseny-Cases Núria , Álvarez-Marimon Elena , Aso Ester , Carmona Margarita , Klementieva Oxana , Appelhans Dietmar , Ferrer Isidre , Cladera Josep 
Published: April 2020

AbstractAmyloid plaques composed of Aβ amyloid peptides and neurofibrillary tangles are a pathological hallmark of Alzheimer’s disease. In situ identification of early-stage amyloid aggregates in Alzheimer’s disease is relevant for their importance as potential targets for effective drugs. Synchrotron-based infrared imaging is here used to identify early-stage oligomeric/granular aggregated amyloid species in situ in the brain of APP/PS1 transgenic mice and Octodon degus for the first time. Also, APP/PS1 mice show fibrillary aggregates at 6 and 12 months whereas very little formation of fibrils is found in aged Octodon degus. Finally, significant decreased burden of early-stage aggregates and fibrillary aggregates is obtained following treatment with G4-His-Mal dendrimers (a neurodegenerative protector) in 6-month-old APP/PS1 mice, thus demonstrating putative therapeutic properties of G4-His-Mal dendrimers in AD models. Identification, localization, and characterization using infrared imaging of these non-fibrillary species in the cerebral cortex at early stages of AD progression in transgenic mice point to their relevance as putative pharmacological targets. No less important, early detection of these structures may be useful in the search for markers for non-invasive diagnostic techniques.
Distinct inactivated bacterial-based immune modulators vary in their therapeutic efficacies for treating disease based on the organ site of pathology
Authors: Kalyan Shirin , Bazett Mark , Sham Ho Pan , Bosiljcic Momir , Luk Beryl , Dhanji Salim , Costa Amanda M. , Wong Stephanie W. Y. , Netea Mihai G. , Mullins David W. , Gunn Hal 
Published: April 2020

AbstractRecent developments in understanding how the functional phenotype of the innate immune system is programmed has led to paradigm-shifting views on immunomodulation. These advances have overturned two long-held dogmas: (1) only adaptive immunity confers immunological memory; and, (2) innate immunity lacks specificity. This work describes the observation that innate immune effector cells appear to be differentially recruited to specific pathological sites when mobilized by distinct inactivated bacterial-based stimuli administered subcutaneously. The studies presented suggest that the immune system, upon detecting the first signs of a potential infection by a specific pathogen, tends to direct its resources to the compartment from which that pathogen is most likely originating. The findings from this work puts forth the novel hypothesis that the immunotherapeutic efficacy of a microbial-based stimulus for innate immune mobilization depends on the correct selection of the microbial species used as the stimulant and its relationship to the organ in which the pathology is present.
Digital rock physics and laboratory considerations on a high-porosity volcanic rock
Authors: Schepp Laura L. , Ahrens Benedikt , Balcewicz Martin , Duda Mandy , Nehler Mathias , Osorno Maria , Uribe David , Steeb Holger , Nigon Benoit , Stöckhert Ferdinand , Swanson Donald A. , Siegert Mirko , Gurris Marcel , Saenger Erik H. 
Published: April 2020

AbstractDigital rock physics combines microtomographic imaging with advanced numerical simulations of effective material properties. It is used to complement laboratory investigations with the aim to gain a deeper understanding of relevant physical processes related to transport and effective mechanical properties. We apply digital rock physics to reticulite, a natural mineral with a strong analogy to synthetic open-cell foams. We consider reticulite an end-member for high-porosity materials with a high stiffness and brittleness. For this specific material, hydro-mechanical experiments are very difficult to perform. Reticulite is a pyroclastic rock formed during intense Hawaiian fountaining events. The honeycombed network of bubbles is supported by glassy threads and forms a structure with a porosity of more than 80%. Comparing experimental with numerical results and theoretical estimates, we demonstrate the high potential of in situ characterization with respect to the investigation of effective material properties. We show that a digital rock physics workflow, so far applied to conventional rocks, yields reasonable results for high-porosity rocks and can be adopted for fabricated foam-like materials with similar properties. Numerically determined porosities, effective elastic properties, thermal conductivities and permeabilities of reticulite show a fair agreement to experimental results that required exeptionally high experimental efforts.