bluuebunny/crossref_metadata_2025_split huggingface dataset:
In Situ Permeability and Scale Dependence of an Active Accretionary Prism Determined From Cross‐Borehole Experiments
Authors: Kinoshita C. , Saffer D. M. 
Published: July 2018

AbstractPermeability controls fluid flow in the Earth's crust and affects a wide range of processes including advective transport and pore pressure generation. However, in situ measurements of permeability are few, especially in active tectonic settings or at scales relevant to regional flow. We analyze formation fluid pressure records from oceanic boreholes in the Nankai accretionary prism offshore southwest Japan, focusing on unexpected responses to drilling operations conducted at boreholes ~100 m to the northeast. We develop a 2‐D numerical model of transient fluid flow and conduct a parametric grid search to define hydraulic diffusivity. A value of 0.19–0.46 m2/s (corresponding to a permeability of 9.8 × 10−13 to 2.4 × 10−12 m2) yields the best fit to observed pressure responses. Together with laboratory measurements on core samples and drillstrem tests reported in previous studies, our analysis indicates a strong scale dependence of permeability, likely reflecting the presence of permeable faults and fractures.
Bilinearity in the Gutenberg‐Richter Relation Based on ML for Magnitudes Above and Below 2, From Systematic Magnitude Assessments in Parkfield (California)
Authors: Staudenmaier Nadine , Tormann Thessa , Edwards Benjamin , Deichmann Nicholas , Wiemer Stefan 
Published: July 2018

AbstractSeveral studies have shown that local magnitude, ML, and moment magnitude, M, scale differently for small earthquakes (M < ~2) than for moderate to large earthquakes. Consequently, frequency‐magnitude relations based on one or the other magnitude type cannot obey a power law with a single exponent over the entire magnitude range. Since this has serious consequences for seismic hazard assessments, it is important to establish for which magnitude type the assumption of a constant exponent is valid and for which it is not. Based on independently determined M, ML and duration magnitude, Md, estimates for 5,304 events near Parkfield, we confirm the theoretically expected difference in scaling between the magnitude types, and we show that the frequency‐magnitude distribution based on M and Md follows a Gutenberg‐Richter relation with a constant slope, whereas for ML it is bilinear. Thus, seismic hazard estimates based on ML of small earthquakes are likely to overestimate the occurrence probability of large earthquakes.
Using Earthquakes, T Waves, and Infrasound to Investigate the Eruption of Bogoslof Volcano, Alaska
Authors: Wech Aaron , Tepp Gabrielle , Lyons John , Haney Matt 
Published: July 2018

AbstractThe 2016–2017 eruption of Bogoslof volcano, a submarine stratovolcano in the Bering Sea, produced 70 discrete explosive eruptions over 8 months. With no local monitoring data, activity was seismically recorded on nearby islands 50–100 km away, limiting the detection and resolution of seismic observations. We construct a matched filter catalog of 3,199 events from 49 earthquake families, many of which occurred with hydroacoustic T waves of varying strength. We then use a 2‐D finite difference model to show that hydroacoustic amplitudes should decrease with increased source depth beneath the edifice and leverage each family's seismically recorded T wave amplitude as a proxy for source depth, which we compare to regional infrasound data. This unique combination of using P and S waves to detect events, T waves as a proxy for depth, and infrasound for precise timing of emissions allows us to interpret the dynamics and evolution of the Bogoslof eruption.
A TFEB nuclear export signal integrates amino acid supply and glucose availability
Authors: Li Linxin , Friedrichsen Hans J. , Andrews Sarah , Picaud Sarah , Volpon Laurent , Ngeow Kaochin , Berridge Georgina , Fischer Roman , Borden Katherine L. B. , Filippakopoulos Panagis , Goding Colin R. 
Published: July 2018

AbstractHow cells coordinate the response to fluctuating carbon and nitrogen availability required to maintain effective homeostasis is a key issue. Amino acid limitation that inactivates mTORC1 promotes de-phosphorylation and nuclear translocation of Transcription Factor EB (TFEB), a key transcriptional regulator of lysosome biogenesis and autophagy that is deregulated in cancer and neurodegeneration. Beyond its cytoplasmic sequestration, how TFEB phosphorylation regulates its nuclear-cytoplasmic shuttling, and whether TFEB can coordinate amino acid supply with glucose availability is poorly understood. Here we show that TFEB phosphorylation on S142 primes for GSK3β phosphorylation on S138, and that phosphorylation of both sites but not either alone activates a previously unrecognized nuclear export signal (NES). Importantly, GSK3β is inactivated by AKT in response to mTORC2 signaling triggered by glucose limitation. Remarkably therefore, the TFEB NES integrates carbon (glucose) and nitrogen (amino acid) availability by controlling TFEB flux through a nuclear import-export cycle.
The short-term impact of probiotic consumption on the oral cavity microbiome
Authors: Dassi Erik , Ferretti Pamela , Covello Giuseppina ,   HTM-CMB-2015, Speccher Alessandra , Migazzi Alice , Bosco Bartolomeo , Rajashekar Bodike , Zarbo Calogero , Ballabio Claudio , Rossetto Daniele , Maino Eleonora , Corradi Eloina , Costa Federica , Precazzini Francesca , Rashid Harun Or , Nicolussi Manuel , Bolzan Mattia , Demozzi Michele , Olivieri Michele , Zordan Nicole , Pedron Renato , Manara Serena , Rezvan Setareh , Naik Sindhu Narasimha , Khaghani Solmaz , Masella Stefania , Perli Thomas , Pierini Virginia , Bertorelli Roberto , Denti Michela A. , De Sanctis Veronica , Tett Adrian , Segata Nicola 
Published: July 2018

AbstractThe dysbiosis of the oral microbiome is associated with both localized and systemic diseases. Modulating the resident microbial communities by the dietary consumption of probiotics has become an appealing means to promote host health by either restoring host-microbe balance or preventing dysbiosis. Most probiotics strategies target the intestinal microbiome, but little is known about their impact on the oral microbiome. We analyzed here the saliva microbiome from 21 volunteers, longitudinally collected before, during, and after consumption of a commercial probiotic and a standard yoghurt using 16S amplicon sequencing. The alpha diversity of the saliva microbiome had a statistically significant increase (P-value = 0.0011) in one of the groups that consumed the probiotic. The overall structure of the microbiome was however not significantly impacted by the probiotic, although oligotyping analysis revealed that both Streptococci and Lactobacilli present in the probiotic product persisted in the saliva microbiome. In contrast, non-probiotic yoghurt consumption had a lesser impact on the overall diversity and Lactobacillus and Streptococcus persistence. Our results suggest that consumption of commercial probiotics in healthy subjects increase the overall diversity of the oral cavity microbiome in the short term, but such dietary interventions are not able to substantially modify the structure of the microbiome.
MiR-494-3p promotes PI3K/AKT pathway hyperactivation and human hepatocellular carcinoma progression by targeting PTEN
Authors: Lin Hui , Huang Zhi-Ping , Liu Jiao , Qiu Yun , Tao Yuan-ping , Wang Meng-chao , Yao Hui , Hou Ke-zhu , Gu Fang-ming , Xu Xuan-fu 
Published: July 2018

AbstractRecent studies have shown that miR-494-3p is oncogene and has a central role in many solid tumors; however, the role of miR-494-3p in the progression and prognosis of hepatocellular carcinoma (HCC) remains unknown. In this study, it was found that miR-494-3p was up-regulated in HCC tissues. The high level of miR-494-3p in HCC tumors was correlated with aggressive clinicopathological characteristics and predicted poor prognosis in HCC patients. Functional study demonstrated that miR-494-3p significantly promoted HCC cell metastasis in vitro and vivo. Since phosphoinositide 3-kinase/protein kinase-B (PI3K/AKT) signaling is a basic oncogenic driver in HCC, a potential role of miR-494-3p was explored as well as its target genes in PI3K/AKT activation. Of all the predicted target genes of miR-494-3p, the tumor-suppressor phosphatase and tensin homolog (PTEN) were identified. In conclusion, the data we collected could define an original mechanism of PI3K/AKT hyperactivation and sketch the regulatory role of miR-494-3p in suppressing the expression of PTEN. Therefore, targeting miR-494-3p could provide an effective therapeutic method for the treatment of the disease.
Pre-clinical pharmacology and mechanism of action of SG3199, the pyrrolobenzodiazepine (PBD) dimer warhead component of antibody-drug conjugate (ADC) payload tesirine
Authors: Hartley John A. , Flynn Michael J. , Bingham John P. , Corbett Simon , Reinert Halla , Tiberghien Arnaud , Masterson Luke A. , Antonow Dyeison , Adams Lauren , Chowdhury Sajidah , Williams David G. , Mao Shenlan , Harper Jay , Havenith Carin E. G. , Zammarchi Francesca , Chivers Simon , van Berkel Patrick H. , Howard Philip W. 
Published: July 2018

AbstractSynthetic pyrrolobenzodiazepine (PBD) dimers, where two PBD monomers are linked through their aromatic A-ring phenolic C8-positions via a flexible propyldioxy tether, are highly efficient DNA minor groove cross-linking agents with potent cytotoxicity. PBD dimer SG3199 is the released warhead component of the antibody-drug conjugate (ADC) payload tesirine (SG3249), currently being evaluated in several ADC clinical trials. SG3199 was potently cytotoxic against a panel of human solid tumour and haematological cancer cell lines with a mean GI50 of 151.5 pM. Cells defective in DNA repair protein ERCC1 or homologous recombination repair showed increased sensitivity to SG3199 and the drug was only moderately susceptible to multidrug resistance mechanisms. SG3199 was highly efficient at producing DNA interstrand cross-links in naked linear plasmid DNA and dose-dependent cross-linking was observed in cells. Cross-links formed rapidly in cells and persisted over 36 hours. Following intravenous (iv) administration to rats SG3199 showed a very rapid clearance with a half life as short as 8 minutes. These combined properties of cytotoxic potency, rapid formation and persistence of DNA interstrand cross-links and very short half-life contribute to the emerging success of SG3199 as a warhead in clinical stage ADCs.
Estimation of Cardiovascular Risk Predictors from Non-Invasively Measured Diametric Pulse Volume Waveforms via Multiple Measurement Information Fusion
Authors: Ghasemi Zahra , Lee Jong Chan , Kim Chang-Sei , Cheng Hao-Min , Sung Shih-Hsien , Chen Chen-Huan , Mukkamala Ramakrishna , Hahn Jin-Oh 
Published: July 2018

AbstractThis paper presents a novel multiple measurement information fusion approach to the estimation of cardiovascular risk predictors from non-invasive pulse volume waveforms measured at the body’s diametric (arm and ankle) locations. Leveraging the fact that diametric pulse volume waveforms originate from the common central pulse waveform, the approach estimates cardiovascular risk predictors in three steps by: (1) deriving lumped-parameter models of the central-diametric arterial lines from diametric pulse volume waveforms, (2) estimating central blood pressure waveform by analyzing the diametric pulse volume waveforms using the derived arterial line models, and (3) estimating cardiovascular risk predictors (including central systolic and pulse pressures, pulse pressure amplification, and pulse transit time) from the arterial line models and central blood pressure waveform in conjunction with the diametric pulse volume waveforms. Experimental results obtained from 164 human subjects with a wide blood pressure range (systolic 144 mmHg and diastolic 103 mmHg) showed that the approach could estimate cardiovascular risk predictors accurately (r ≥ 0.78). Further analysis showed that the approach outperformed a generalized transfer function regardless of the degree of pulse pressure amplification. The approach may be integrated with already available medical devices to enable convenient out-of-clinic cardiovascular risk prediction.
Leptomeningeal metastasis from solid tumors: clinical features and its diagnostic implication
Authors: Pan Zhenyu , Yang Guozi , He Hua , Yuan Tingting , Wang Yongxiang , Li Yu , Shi Weiyan , Gao Pengxiang , Dong Lihua , Zhao Gang 
Published: July 2018

AbstractIn this study, we examined the characteristics and aimed to increase the knowledge of clinical features of leptomeningeal metastasis (LM). The clinical data, including initial diagnosis and treatment of primary tumor, clinical manifestations, neuroimaging findings, cerebrospinal fluid (CSF) examination, were analyzed. For the patients with adenocarcinoma/breast cancer, the incidence of cranial lesions and cranial nerve paralysis was obviously higher than patients with small cell lung cancer. Whereas, the incidence of involvement of intravertebral canal was obviously lower than that of small cell lung cancer. Patients with adenocarcinoma/breast cancer showed more incidence of leptomeningeal enhancement compared to those with small cell lung cancer. Persistent severe headache was noticed in those with squamous carcinoma, and usually showed absence of abnormally LM-related neuroimaging and CSF cytological findings, which resulted in a challenge in the diagnosis of LM from squamous carcinoma. Patients with different primary tumors showed differential clinical features. Significant differences were observed in clinical features between patients with adenocarcinoma/breast cancer and small cell lung cancer. Our study contributes to the understanding of clinical characteristics of LM, and contributes to improvement of LM diagnosis in clinical practice.
The composition of the perinatal intestinal microbiota in cattle
Authors: Alipour Mohammad Jaber , Jalanka Jonna , Pessa-Morikawa Tiina , Kokkonen Tuomo , Satokari Reetta , Hynönen Ulla , Iivanainen Antti , Niku Mikael 
Published: July 2018

AbstractRecent research suggests that the microbial colonization of the mammalian intestine may begin before birth, but the observations are controversial due to challenges in the reliable sampling and analysis of low-abundance microbiota. We studied the perinatal microbiota of calves by sampling them immediately at birth and during the first postnatal week. The large size of the bovine newborns allows sampling directly from rectum using contamination-shielded swabs. Our 16S rDNA data, purged of potential contaminant sequences shared with negative controls, indicates the existence of a diverse low-abundance microbiota in the newborn rectal meconium and mucosa. The newborn rectal microbiota was composed of Firmicutes, Proteobacteria, Actinobacteria and Bacteroidetes. The microbial profile resembled dam oral rather than fecal or vaginal vestibular microbiota, but included typical intestinal taxa. During the first postnatal day, the rectum was invaded byEscherichia/ShigellaandClostridia, and the diversity collapsed. By 7 days, diversity was again increasing. In terms of relative abundance, Proteobacteria were replaced by Firmicutes, Bacteroidetes and Actinobacteria, includingFaecalibacterium,Bacteroides,Lactobacillus,ButyricicoccusandBifidobacterium. Our observations suggest that mammals are seeded before birth with a diverse microbiota, but the microbiota changes rapidly in the early postnatal life.
Providing reducing power by microalgal photosynthesis: a novel perspective towards sustainable biocatalytic production of bulk chemicals exemplified for aliphatic amines
Authors: Löwe Jana , Siewert Arthur , Scholpp Anna-Catharina , Wobbe Lutz , Gröger Harald 
Published: July 2018

AbstractA biotechnological process is reported, which enables an enzymatic reduction without the need for addition of an organic co-substrate for in situ-cofactor recycling. The process is based on merging the fields of enzymatic reductive amination with formate dehydrogenase-based in situ-cofactor recycling and algae biotechnology by means of the photoautotrophic microorganism Chlamydomonas reinhardtii, providing the needed formate in situ by formation from carbon dioxide, water and light. This biotransformation has been exemplified for the synthesis of various aliphatic amines known as bulk chemicals.
Tool Use and Generalized Motor Programs: We All Are Natural Born Poly-Dexters
Authors: Osiurak François , Lesourd Mathieu , Delporte Ludovic , Rossetti Yves 
Published: July 2018

AbstractFor most people, human tool use is inextricably entwined with manual dexterity. This folk belief is widespread among scientists too. In this line, human tool use is based on motor programs about how the hand interacts with tools, implying that the use of end-effectors other than the hand should generate motor control difficulties (e.g., inability to reproduce a specific tool-use action over time), because these so-called programs characterize the spatiotemporal parameters of hand movements, but not of other end-effectors. To test this, we asked participants to perform three tool-use actions (e.g., pounding a nail) with four end-effectors (i.e., right foot, right elbow, left hand, right hand). We show that participants not only spontaneously performed the tool-use actions effectively, but also crucially kept tools’ spatiotemporal parameters constant among the end-effectors. This phenomenon, which we call poly-dexterity, is at odds with the view that the human brain stores hand-centered motor programs for tool use. Poly-dexterity is instead consistent with the idea that, once the tool-use action is formed mentally, general motor programs can be applied to a variety of end-effectors. Reversing the usual evolutionary perspective, our findings support that, in the course of evolution, manual dexterity has come after tool-use skills.
Silver oxide decomposition mediated direct bonding of silicon-based materials
Authors: Matsuda Tomoki , Inami Kota , Motoyama Keita , Sano Tomokazu , Hirose Akio 
Published: July 2018

AbstractSilicon-based materials are widely promising electronic components by the combination with metals in power electronics field. However, bonding metal and silicon-based materials generally requires specific surface modification due to their different chemical bonds. Here, we demonstrate a process for directly bonding metals to silicon-based materials that does not require surface treatment, based on the in situ decomposition of Ag2O paste, forming Ag nanoparticles (AgNPs). We demonstrate sound joints of Ag/silicon-based materials at 300–500 °C with the formation of a silicon oxide interlayer containing AgNPs. We propose that Ag in the interlayer attracted other Ag particles to the interface, playing a unique role in this direct bonding process. This process is suitable for various bonding applications in electronics, as well the fabrication of conducting paths for photovoltaic and other applications.
Reversibility of a Point Mutation Induced Domain Shift: Expanding the Conformational Space of a Sucrose Phosphorylase
Authors: Kraus Michael , Grimm Clemens , Seibel Jürgen 
Published: July 2018

AbstractDespite their popularity as enzyme engineering targets structural information about Sucrose Phosphorylases remains scarce. We recently clarified that the Q345F variant of Bifidobacterium adolescentis Sucrose Phosphorylase is able to accept large polyphenolic substrates like resveratrol via a domain shift. Here we present a crystal structure of this variant in a conformation suitable for the accommodation of the donor substrate sucrose in excellent agreement with the wild type structure. Remarkably, this conformation does not feature the previously observed domain shift which is therefore reversible and part of a dynamic process rather than a static phenomenon. This crystallographic snapshot completes our understanding of the catalytic cycle of this useful variant and will allow for a more rational design of further generations of Sucrose Phosphorylase variants.
Marine forests of the Mediterranean-Atlantic Cystoseira tamariscifolia complex show a southern Iberian genetic hotspot and no reproductive isolation in parapatry
Authors: Bermejo Ricardo , Chefaoui Rosa M. , Engelen Aschwin H. , Buonomo Roberto , Neiva João , Ferreira-Costa Joana , Pearson Gareth A. , Marbà Núria , Duarte Carlos M. , Airoldi Laura , Hernández Ignacio , Guiry Michael D. , Serrão Ester A. 
Published: July 2018

AbstractClimate-driven range-shifts create evolutionary opportunities for allopatric divergence and subsequent contact, leading to genetic structuration and hybrid zones. We investigate how these processes influenced the evolution of a complex of three closely related Cystoseira spp., which are a key component of the Mediterranean-Atlantic seaweed forests that are undergoing population declines. The C. tamariscifolia complex, composed of C. tamariscifolia s.s., C. amentacea and C. mediterranea, have indistinct boundaries and natural hybridization is suspected. Our aims are to (1) infer the genetic structure and diversity of these species throughout their distribution ranges using microsatellite markers to identify ancient versus recent geographical populations, contact zones and reproductive barriers, and (2) hindcast past distributions using niche models to investigate the influence of past range shifts on genetic divergence at multiple spatial scales. Results supported a single, morphologically plastic species the genetic structure of which was incongruent with a priori species assignments. The low diversity and low singularity in northern European populations suggest recent colonization after the LGM. The southern Iberian genetic hotspot most likely results from the role of this area as a climatic refugium or a secondary contact zone between differentiated populations or both. We hypothesize that life-history traits (selfing, low dispersal) and prior colonization effects, rather than reproductive barriers, might explain the observed genetic discontinuities.
Improving porcine in vitro fertilization output by simulating the oviductal environment
Authors: Soriano-Úbeda Cristina , García-Vázquez Francisco A. , Romero-Aguirregomezcorta Jon , Matás Carmen 
Published: July 2018

AbstractDifferences between the in vitro and in vivo environment in which fertilization occurs seem to play a key role in the low efficiency of porcine in vitro fertilization (IVF). This work proposes an IVF system based on the in vivo oviductal periovulatory environment. The combined use of an IVF medium at the pH found in the oviduct in the periovulatory stage (pHe 8.0), a mixture of oviductal components (cumulus-oocyte complex secretions, follicular fluid and oviductal periovulatory fluid, OFCM) and a device that interposes a physical barrier between gametes (an inverted screw cap of a Falcon tube, S) was compared with the classical system at pHe 7.4, in a 4-well multidish (W) lacking oviduct biological components. The results showed that the new IVF system reduced polyspermy and increased the final efficiency by more than 48%. This higher efficiency seems to be a direct consequence of a reduced sperm motility and lower capacitating status and it could be related to the action of OFCM components over gametes and to the increase in the sperm intracellular pH (pHi) caused by the higher pHe used. In conclusion, a medium at pH 8.0 supplemented with OFCM reduces polyspermy and improves porcine IVF output.