bluuebunny/crossref_metadata_2025 huggingface dataset:
Pore‐Scale Visualization of Methane Hydrate‐Bearing Sediments With Micro‐CT
Authors: Lei Liang , Seol Yongkoo , Jarvis Karl
Published: May 2018

X‐ray computed tomography (CT) has become a critical technique in the study of porous media. It has attracted growing attention for analyzing hydrate‐bearing sediment, but this has been done using surrogates (Xe/Kr) only due to difficulties in distinguishing methane hydrate from water. This study presents the successful imaging of methane hydrate coexisting with pore liquid, gas, and sediments. We used potassium iodide (KI) solutions and in‐line propagation‐based phase‐contrast CT analysis of X‐ray attenuation and diffraction to distinguish the four materials. Thus, consideration for CT‐related X‐ray physics was necessary to optimize KI concentrations, improve material separation with X‐ray propagation, and properly interpret artifacts within the images. The images clearly show methane hydrate in the pore space of sand (~250 μm) coexisting with KI solution and gas. Following this, X‐ray CT can now be used to visualize pore habits of natural methane hydrate in sediment cores.
The Impact of Drought on Native Southern California Vegetation: Remote Sensing Analysis Using MODIS‐Derived Time Series
Authors: Okin Gregory S. , Dong Chunyu , Willis Katherine S. , Gillespie Thomas W. , MacDonald Glen M.
Published: May 2018

Ecosystems in Mediterranean climates are adapted to seasonal drought. Multiannual drought, however, may significantly affect Mediterranean ecosystems and, further, may affect their constituent communities in different ways with differences in responses emerging during severe drought and over the course of long‐term climate change. This study investigates the response to recent prolonged drought of two important Mediterranean‐climate vegetation types: chaparral and coastal sage scrub. Their greenness was monitored from 2000 to 2017 using the Normalized Difference Vegetation Index (NDVI) derived from the Moderate Resolution Imaging Spectroradiometer. A bootstrapped multiple regression of NDVI anomalies against Palmer Drought Severity Index was used to assess the response of vegetation to drought. The results suggest that drought had a greater effect on chaparral‐dominated ecosystems than coastal sage over the entire region. Shallow‐rooted coastal sage scrub displayed higher interannual variability in NDVI than chaparral but had a lower correlation with Palmer Drought Severity Index. This suggests that this vegetation community is generally less responsive to drought on longer timescales than chaparral, which may be more sensitive to soil water depletion in a prolonged drought. Soil texture plays a critical role in affecting the community sensitivity to drought. For chaparral communities, elevation is negatively correlated with drought sensitivity, suggesting the role of temperature‐related water stress on their long‐term response to drought. Future predicted climate change in the form of increased temperature and drought hazards in Southern California will influence the native ecosystems in nonuniform ways. Long‐term trends in soil moisture depletion and temperature may be particularly important in chaparral‐dominated areas.
A new quantum speed-meter interferometer: measuring speed to search for intermediate mass black holes
Authors: Danilishin Stefan L. , Knyazev Eugene , Voronchev Nikita V. , Khalili Farid Ya. , Gräf Christian , Steinlechner Sebastian , Hennig Jan-Simon , Hild Stefan
Published: May 2018

The recent discovery of gravitational waves (GW) by Advanced LIGO (Laser Interferometric Gravitational-wave Observatory) has impressively launched the novel field of gravitational astronomy and allowed us to glimpse exciting objects about which we could previously only speculate. Further sensitivity improvements at the low-frequency end of the detection band of future GW observatories must rely on quantum non-demolition (QND) methods to suppress fundamental quantum fluctuations of the light fields used to readout the GW signal. Here we present a novel concept of how to turn a conventional Michelson interferometer into a QND speed-meter interferometer with coherently suppressed quantum back-action noise. We use two orthogonal polarizations of light and an optical circulator to couple them. We carry out a detailed analysis of how imperfections and optical loss influence the achievable sensitivity. We find that the proposed configuration significantly enhances the low-frequency sensitivity and increases the observable event rate of binary black-hole coalescences in the range of $$10^2 - 10^3\,M_ \odot$$
1

0

2

-
1

0

3

M

⊙

by a factor of up to ~300.
Fermentative Spirochaetes mediate necromass recycling in anoxic hydrocarbon-contaminated habitats
Authors: Dong Xiyang , Greening Chris , Brüls Thomas , Conrad Ralf , Guo Kun , Blaskowski Svenja , Kaschani Farnusch , Kaiser Markus , Laban Nidal Abu , Meckenstock Rainer U
Published: May 2018

Spirochaetes are frequently detected in anoxic hydrocarbon- and organohalide-polluted groundwater, but their role in such ecosystems has remained unclear. To address this, we studied a sulfate-reducing, naphthalene-degrading enrichment culture, mainly comprising the sulfate reducer Desulfobacterium N47 and the rod-shaped Spirochete Rectinema cohabitans HM. Genome sequencing and proteome analysis suggested that the Spirochete is an obligate fermenter that catabolizes proteins and carbohydrates, resulting in acetate, ethanol, and molecular hydrogen (H2) production. Physiological experiments inferred that hydrogen is an important link between the two bacteria in the enrichment culture, with H2 derived from fermentation by R. cohabitans used as reductant for sulfate reduction by Desulfobacterium N47. Differential proteomics and physiological experiments showed that R. cohabitans utilizes biomass (proteins and carbohydrates) released from dead cells of Desulfobacterium N47. Further comparative and community genome analyses indicated that other Rectinema phylotypes are widespread in contaminated environments and may perform a hydrogenogenic fermentative lifestyle similar to R. cohabitans. Together, these findings indicate that environmental Spirochaetes scavenge detrital biomass and in turn drive necromass recycling at anoxic hydrocarbon-contaminated sites and potentially other habitats.
Taxonomic diversity of fungi deposited from the atmosphere
Authors: Woo Cheolwoon , An Choa , Xu Siyu , Yi Seung-Muk , Yamamoto Naomichi
Published: May 2018

Fungi release spores into the global atmosphere. The emitted spores are deposited to the surface of the Earth by sedimentation (dry deposition) and precipitation (wet deposition), and therefore contribute to the global cycling of substances. However, knowledge is scarce regarding the diversities of fungi deposited from the atmosphere. Here, an automatic dry and wet deposition sampler and high-throughput sequencing plus quantitative PCR were used to observe taxonomic diversities and flux densities of atmospheric fungal deposition. Taxon-specific fungal deposition velocities and aerodynamic diameters (da) were determined using a collocated cascade impactor for volumetric, particle-size-resolved air sampling. Large multicellular spore-producing dothideomycetes (da ≥ 10.0 μm) were predominant in dry deposition, with a mean velocity of 0.80 cm s−1 for all fungal taxa combined. Higher taxonomic richness was observed in fungal assemblages in wet deposition than in dry deposition, suggesting the presence of fungal taxa that are deposited only in wet form. In wet deposition, agaricomycetes, including mushroom-forming fungi, and sordariomycetes, including plant pathogenic species, were enriched, indicating that such fungal spores serve as nuclei in clouds, and/or are discharged preferentially during precipitation. Moreover, this study confirmed that fungal assemblage memberships and structures were significantly different between dry and wet deposition (P-test, p < 0.001). Overall, these findings suggest taxon-specific involvement of fungi in precipitation, and provide important insights into potential links between environmental changes that can disturb regional microbial communities (e.g., deforestation) and changes in precipitation patterns that might be mediated by changes in microbial communities in the atmosphere.
mGluR5 mediates post-radiotherapy fatigue development in cancer patients
Authors: Feng Li Rebekah , Fernández-Martínez Juan Luis , Zaal Kristien J.M. , deAndrés-Galiana Enrique J , Wolff Brian S. , Saligan Leorey N.
Published: May 2018

Cancer-related fatigue (CRF) is a common burden in cancer patients and little is known about its underlying mechanism. The primary aim of this study was to identify gene signatures predictive of post-radiotherapy fatigue in prostate cancer patients. We employed Fisher Linear Discriminant Analysis (LDA) to identify predictive genes using whole genome microarray data from 36 men with prostate cancer. Ingenuity Pathway Analysis was used to determine functional networks of the predictive genes. Functional validation was performed using a T lymphocyte cell line, Jurkat E6.1. Cells were pretreated with metabotropic glutamate receptor 5 (mGluR5) agonist (DHPG), antagonist (MPEP), or control (PBS) for 20 min before irradiation at 8 Gy in a Mark-1 γ-irradiator. NF-κB activation was assessed using a NF-κB/Jurkat/GFP Transcriptional Reporter Cell Line. LDA achieved 83.3% accuracy in predicting post-radiotherapy fatigue. “Glutamate receptor signaling” was the most significant (p = 0.0002) pathway among the predictive genes. Functional validation using Jurkat cells revealed clustering of mGluR5 receptors as well as increased regulated on activation, normal T cell expressed and secreted (RANTES) production post irradiation in cells pretreated with DHPG, whereas inhibition of mGluR5 activity with MPEP decreased RANTES concentration after irradiation. DHPG pretreatment amplified irradiation-induced NF-κB activation suggesting a role of mGluR5 in modulating T cell activation after irradiation. These results suggest that mGluR5 signaling in T cells may play a key role in the development of chronic inflammation resulting in fatigue and contribute to individual differences in immune responses to radiation. Moreover, modulating mGluR5 provides a novel therapeutic option to treat CRF.
Two novel VCP missense variants identified in Japanese patients with multisystem proteinopathy
Authors: Inoue Michio , Iida Aritoshi , Hayashi Shinichiro , Mori-Yoshimura Madoka , Nagaoka Atsushi , Yoshimura Shunsuke , Shiraishi Hirokazu , Tsujino Akira , Takahashi Yuji , Nonaka Ikuya , Hayashi Yukiko K. , Noguchi Satoru , Nishino Ichizo
Published: May 2018

VCP mutations were first associated with inclusion body myopathy with Paget’s disease of bone and frontotemporal dementia (IBMPFD) but was later associated with amyotrophic lateral sclerosis and Charcot–Marie–Tooth disease. Now, a new name, “multisystem proteinopathy (MSP)”, is proposed for this condition. VCP encodes valosin-containing protein, which is involved in protein degradation in the ubiquitin proteasome system. We report here two MSP patients with two novel heterozygous missense variants in VCP: c.259G>T (p.Val87Phe) and c.376A>G (p.Ile126Val).
Upconversion nanocomposite for programming combination cancer therapy by precise control of microscopic temperature
Authors: Zhu Xingjun , Li Jiachang , Qiu Xiaochen , Liu Yi , Feng Wei , Li Fuyou
Published: May 2018

Combinational administration of chemotherapy (CT) and photothermal therapy (PTT) has been widely used to treat cancer. However, the scheduling of CT and PTT and how it will affect the therapeutic efficacy has not been thoroughly investigated. The challenge is to realize the sequence control of these two therapeutic modes. Herein, we design a temperature sensitive upconversion nanocomposite for CT-PTT combination therapy. By monitoring the microscopic temperature of the nanocomposite with upconversion luminescence, photothermal effect can be adjusted to achieve thermally triggered combination therapy with a sequence of CT, followed by PTT. We find that CT administered before PTT results in better therapeutic effect than other administration sequences when the dosages of chemodrug and heat are kept at the same level. This work proposes a programmed method to arrange the process of combination cancer therapy, which takes full advantage of each therapeutic mode and contributes to the development of new cancer therapy strategies.
Variable number of TMC1-dependent mechanotransducer channels underlie tonotopic conductance gradients in the cochlea
Authors: Beurg Maryline , Cui Runjia , Goldring Adam C. , Ebrahim Seham , Fettiplace Robert , Kachar Bechara
Published: May 2018

Functional mechanoelectrical transduction (MET) channels of cochlear hair cells require the presence of transmembrane channel-like protein isoforms TMC1 or TMC2. We show that TMCs are required for normal stereociliary bundle development and distinctively influence channel properties. TMC1-dependent channels have larger single-channel conductance and in outer hair cells (OHCs) support a tonotopic apex-to-base conductance gradient. Each MET channel complex exhibits multiple conductance states in ~50 pS increments, basal MET channels having more large-conductance levels. Using mice expressing fluorescently tagged TMCs, we show a three-fold increase in number of TMC1 molecules per stereocilium tip from cochlear apex to base, mirroring the channel conductance gradient in OHCs. Single-molecule photobleaching indicates the number of TMC1 molecules per MET complex changes from ~8 at the apex to ~20 at base. The results suggest there are varying numbers of channels per MET complex, each requiring multiple TMC1 molecules, and together operating in a coordinated or cooperative manner.
Author Correction: Spatial fidelity of workers predicts collective response to disturbance in a social insect
Authors: Crall James D. , Gravish Nick , Mountcastle Andrew M. , Kocher Sarah D. , Oppenheimer Robert L. , Pierce Naomi E. , Combes Stacey A.
Published: May 2018

The original version of the Article contained incorrect citation information in reference 67. The reference should read “Russell, A. L., Morrison, S. J., Moschonas, E. H. & Papaj, D. R. Patterns of pollen and nectar foraging specialization by bumblebees over multiple timescales using RFID. Sci. Rep. 7, 1–13 (2017).” This error has now been corrected in the PDF and HTML versions of the Article.
Mapping higher-order relations between brain structure and function with embedded vector representations of connectomes
Authors: Rosenthal Gideon , Váša František , Griffa Alessandra , Hagmann Patric , Amico Enrico , Goñi Joaquín , Avidan Galia , Sporns Olaf
Published: May 2018

Connectomics generates comprehensive maps of brain networks, represented as nodes and their pairwise connections. The functional roles of nodes are defined by their direct and indirect connectivity with the rest of the network. However, the network context is not directly accessible at the level of individual nodes. Similar problems in language processing have been addressed with algorithms such as word2vec that create embeddings of words and their relations in a meaningful low-dimensional vector space. Here we apply this approach to create embedded vector representations of brain networks or connectome embeddings (CE). CE can characterize correspondence relations among brain regions, and can be used to infer links that are lacking from the original structural diffusion imaging, e.g., inter-hemispheric homotopic connections. Moreover, we construct predictive deep models of functional and structural connectivity, and simulate network-wide lesion effects using the face processing system as our application domain. We suggest that CE offers a novel approach to revealing relations between connectome structure and function.
Gut vagal sensory signaling regulates hippocampus function through multi-order pathways
Authors: Suarez Andrea N. , Hsu Ted M. , Liu Clarissa M. , Noble Emily E. , Cortella Alyssa M. , Nakamoto Emily M. , Hahn Joel D. , de Lartigue Guillaume , Kanoski Scott E.
Published: May 2018

The vagus nerve is the primary means of neural communication between the gastrointestinal (GI) tract and the brain. Vagally mediated GI signals activate the hippocampus (HPC), a brain region classically linked with memory function. However, the endogenous relevance of GI-derived vagal HPC communication is unknown. Here we utilize a saporin (SAP)-based lesioning procedure to reveal that selective GI vagal sensory/afferent ablation in rats impairs HPC-dependent episodic and spatial memory, effects associated with reduced HPC neurotrophic and neurogenesis markers. To determine the neural pathways connecting the gut to the HPC, we utilize monosynaptic and multisynaptic virus-based tracing methods to identify the medial septum as a relay connecting the medial nucleus tractus solitarius (where GI vagal afferents synapse) to dorsal HPC glutamatergic neurons. We conclude that endogenous GI-derived vagal sensory signaling promotes HPC-dependent memory function via a multi-order brainstem–septal pathway, thereby identifying a previously unknown role for the gut–brain axis in memory control.
Author Correction: Structural analysis of human ARS2 as a platform for co-transcriptional RNA sorting
Authors: Schulze Wiebke Manuela , Stein Frank , Rettel Mandy , Nanao Max , Cusack Stephen
Published: May 2018

The previously published version of this Article contained an error in Figure 1. In panel d, the Arabidopsis SERRATE protein was incorrectly labelled ‘Human SERRATE’ and should have been labelled ‘SERRATE’. The error has been corrected in both the PDF and HTML versions of the Article.
Valley dependent anisotropic spin splitting in silicon quantum dots
Authors: Ferdous Rifat , Kawakami Erika , Scarlino Pasquale , Nowak Michał P. , Ward D. R. , Savage D. E. , Lagally M. G. , Coppersmith S. N. , Friesen Mark , Eriksson Mark A. , Vandersypen Lieven M. K. , Rahman Rajib
Published: May 2018

Spin qubits hosted in silicon (Si) quantum dots (QD) are attractive due to their exceptionally long coherence times and compatibility with the silicon transistor platform. To achieve electrical control of spins for qubit scalability, recent experiments have utilized gradient magnetic fields from integrated micro-magnets to produce an extrinsic coupling between spin and charge, thereby electrically driving electron spin resonance (ESR). However, spins in silicon QDs experience a complex interplay between spin, charge, and valley degrees of freedom, influenced by the atomic scale details of the confining interface. Here, we report experimental observation of a valley dependent anisotropic spin splitting in a Si QD with an integrated micro-magnet and an external magnetic field. We show by atomistic calculations that the spin-orbit interaction (SOI), which is often ignored in bulk silicon, plays a major role in the measured anisotropy. Moreover, inhomogeneities such as interface steps strongly affect the spin splittings and their valley dependence. This atomic-scale understanding of the intrinsic and extrinsic factors controlling the valley dependent spin properties is a key requirement for successful manipulation of quantum information in Si QDs.
Temperature dependence of the superconducting energy gaps in Ca9.35La0.65(Pt3As8)(Fe2As2)5 single crystal
Authors: Seo Yu-il , Choi Woo-jae , Ahmad D. , Kimura Shin-ichi , Kwon Yong Seung
Published: May 2018

We measured the optical reflectivity R(ω) for an underdoped (Ca0.935La0.065)10(Pt3As8)(Fe2As2)5 single crystal and obtained the optical conductivity $${\sigma }_{1}(\omega )$$

σ

1

(
ω
)

using the K-K transformation. The normal state $${\sigma }_{1}(\omega )$$

σ

1

(
ω
)

at 30 K is well fitted by a Drude-Lorentz model with two Drude components (ωp1 = 1446 cm−1 and ωp2 = 6322 cm−1) and seven Lorentz components. Relative reflectometry was used to accurately determine the temperature dependence of the superconducting gap at various temperatures below Tc. The results clearly show the opening of a superconducting gap with a weaker second gap structure; the magnitudes for the gaps are estimated from the generalized Mattis-Bardeen model to be Δ1 = 30 and Δ2 = 50 cm−1, respectively, at T = 8 K, which both decrease with increasing temperature. The temperature dependence of the gaps was not consistent with one-band BCS theory but was well described by a two-band (hence, two gap) BCS model with interband interactions. The temperature dependence of the superfluid density is flat at low temperatures, indicating an s-wave full-gap superconducting state.
Attraction of posture and motion-trajectory elements of conspecific biological motion in medaka fish
Authors: Shibai Atsushi , Arimoto Tsunehiro , Yoshinaga Tsukasa , Tsuchizawa Yuta , Khureltulga Dashdavaa , Brown Zuben P. , Kakizuka Taishi , Hosoda Kazufumi
Published: May 2018

Visual recognition of conspecifics is necessary for a wide range of social behaviours in many animals. Medaka (Japanese rice fish), a commonly used model organism, are known to be attracted by the biological motion of conspecifics. However, biological motion is a composite of both body-shape motion and entire-field motion trajectory (i.e., posture or motion-trajectory elements, respectively), and it has not been revealed which element mediates the attractiveness. Here, we show that either posture or motion-trajectory elements alone can attract medaka. We decomposed biological motion of the medaka into the two elements and synthesized visual stimuli that contain both, either, or none of the two elements. We found that medaka were attracted by visual stimuli that contain at least one of the two elements. In the context of other known static visual information regarding the medaka, the potential multiplicity of information regarding conspecific recognition has further accumulated. Our strategy of decomposing biological motion into these partial elements is applicable to other animals, and further studies using this technique will enhance the basic understanding of visual recognition of conspecifics.
Publisher Correction: Experimental identification of non-classicality of noisy twin beams and other related two-mode states
Authors: Arkhipov Ievgen I. , Peřina Jan
Published: May 2018

A correction to this article has been published and is linked from the HTML and PDF versions of this paper. The error has been fixed in the paper.
Association of circulating metabolites with healthy diet and risk of cardiovascular disease: analysis of two cohort studies
Authors: Akbaraly Tasnime , Würtz Peter , Singh-Manoux Archana , Shipley Martin J. , Haapakoski Rita , Lehto Maili , Desrumaux Catherine , Kähönen Mika , Lehtimäki Terho , Mikkilä Vera , Hingorani Aroon , Humphries Steve E. , Kangas Antti J. , Soininen Pasi , Raitakari Olli , Ala-Korpela Mika , Kivimäki Mika
Published: May 2018

Diet may modify metabolomic profiles towards higher or lower cardiovascular disease (CVD) risk. We aimed to identify metabolite profiles associated with high adherence to dietary recommendations - the Alternative Healthy Eating Index (AHEI) - and the extent to which metabolites associated with AHEI also predict incident CVD. Relations between AHEI score and 80 circulating lipids and metabolites, quantified by nuclear magnetic resonance metabolomics, were examined using linear regression models in the Whitehall II study (n = 4824, 55.9 ± 6.1 years, 28.0% women) and were replicated in the Cardiovascular Risk in Young Finns Study (n = 1716, 37.7 ± 5.0 years, 56.3% women). We used Cox models to study associations between metabolites and incident CVD over the 15.8-year follow-up in the Whitehall II study. After adjustment for confounders, higher AHEI score (indicating healthier diet) was associated with higher degree of unsaturation of fatty acids (FA) and higher ratios of polyunsaturated FA, omega-3 and docosahexaenoic acid relative to total FA in both Whitehall II and Young Finns studies. A concordance of associations of metabolites with higher AHEI score and lower CVD risk was observed in Whitehall II. Adherence to healthy diet seems to be associated with specific FA that reduce risk of CVD.
Pomegranate action in curbing the incidence of liver injury triggered by Diethylnitrosamine by declining oxidative stress via Nrf2 and NFκB regulation
Authors: Husain Hadiya , Latief Uzma , Ahmad Riaz
Published: May 2018

Unearthing and employment of healthy substitutes is now in demand to tackle a number of diseases due to the excessive repercussions of synthetic drugs. In this frame of reference pomegranate juice (PGJ) is a boon comprising of anthocyanins and hydrolysable tannins, known for its anti-oxidant and anti-inflammatory properties. Despite various documented roles of PGJ, there are no studies on antifibrotic potential in NDEA-induced mammalian liver fibrotic model. Hepatic fibrosis in rats was induced by the intra-peritoneal injection of NDEA (10 mlkg−1b.wt. of 1% NDEA) in two weeks. Biochemical, histopathological and ultra-structural studies were carried out on control, fibrotic and treated rats. The liver function indices and LPO were increased significantly by intoxication of NDEA. The antioxidant status was disturbed with the decrease in SOD, GST and catalase in the liver and membrane-ATPases as well. Histopathological observations by H&E, M&T, picro-sirius and ultra-structural scrutiny by SEM and TEM indicated liver damage and increase in COX2 and α-SMA by NDEA which was successfully rectified by the supplementation of PGJ. PGJ abrogates liver fibrosis instigated by NDEA in Wistar rats by declining oxidative stressviaregulation of Nrf2 and NFκB. These findings point towards pomegranate as a potential and efficacious therapeutic agent against liver fibrosis.
Hit-Gel: Streamlining in-gel protein digestion for high-throughput proteomics experiments
Authors: Swart Corné , Martínez-Jaime Silvia , Gorka Michal , Zander Kerstin , Graf Alexander
Published: May 2018

In-gel digestion has been used as a standard method for the preparation of protein samples for mass spectrometry analysis for over 25 years. Traditional in gel-digestion procedures require extensive sample handling, are prone to contamination and not compatible with high-throughput sample preparation. To address these shortcomings, we have modified the conventional in-gel digestion procedure for high-throughput proteomics studies. The modified method, termed “High Throughput in Gel digestion” (HiT-Gel), is based on a 96-well plate format which results in a drastic reduction in labour intensity and sample handling. Direct comparison revealed that HiT-Gel reduces technical variation and significantly decreases sample contamination over the conventional in-gel digestion method. HiT-Gel also produced superior results when a single protein band was excised from a gel and processed by in-gel digestion. Moreover, we applied Hit-Gel for a mass spectrometry analysis of Arabidopsis thaliana protein complexes separated by native PAGE in 24 fractions and four biological replicates. We show that the high throughput capacity of HiT-Gel facilitates large scale studies with high sample replication or detailed fractionation. Our method can easily be implemented as it does not require specialised laboratory equipment.
Linking organismal growth, coping styles, stress reactivity, and metabolism via responses against a selective serotonin reuptake inhibitor in an insect
Authors: Krams Indrikis , Trakimas Giedrius , Kecko Sanita , Elferts Didzis , Krams Ronalds , Luoto Severi , Rantala Markus J. , Mänd Marika , Kuusik Aare , Kekäläinen Jukka , Jõers Priit , Kortet Raine , Krama Tatjana
Published: May 2018

Evidence suggests that brain serotonin (5-HT) is one of the central mediators of different types of animal personality. We tested this assumption in field crickets Gryllus integer using a selective serotonin reuptake inhibitor (SSRI). Crickets were selected for slow and rapid development and tested for their coping styles under non-stressful conditions (time spent exploring a novel object). Resting metabolic rate, maximum metabolic rate and latency to resume activity were measured under stressful conditions (stress reactivity). Measurements were taken (i) before and (ii) during the SSRI treatment. Before the SSRI treatment, a strong negative correlation was observed between coping style and stress reactivity, which suggests the existence of a behavioral syndrome. After the SSRI treatment, the syndrome was no longer evident. The results of this study show that 5-HT may be involved in regulating behavior not only along a stress reactivity gradient but also along a coping styles axis. The relationship between personality and the strength and direction of 5-HT treatment on observed behaviors indicates trait-like individual differences in 5-HT signaling. Overall, these findings do not support recent ideas arising from the pace-of-life syndrome (POLS) hypothesis, which predict higher exploration and metabolic rates in rapidly developing bold animals.
Multidrug resistant pathogens respond differently to the presence of co-pathogen, commensal, probiotic and host cells
Authors: Chan Agnes P. , Choi Yongwook , Brinkac Lauren M. , Krishnakumar Radha , DePew Jessica , Kim Maria , Hinkle Mary K. , Lesho Emil P. , Fouts Derrick E.
Published: May 2018

In light of the ongoing antimicrobial resistance crisis, there is a need to understand the role of co-pathogens, commensals, and the local microbiome in modulating virulence and antibiotic resistance. To identify possible interactions that influence the expression of virulence or survival mechanisms in both the multidrug-resistant organisms (MDROs) and human host cells, unique cohorts of clinical isolates were selected for whole genome sequencing with enhanced assembly and full annotation, pairwise co-culturing, and transcriptome profiling. The MDROs were co-cultured in pairwise combinations either with: (1) another MDRO, (2) skin commensals (Staphylococcus epidermidis and Corynebacterium jeikeium), (3) the common probiotic Lactobacillus reuteri, and (4) human fibroblasts. RNA-Seq analysis showed distinct regulation of virulence and antimicrobial resistance gene responses across different combinations of MDROs, commensals, and human cells. Co-culture assays demonstrated that microbial interactions can modulate gene responses of both the target and pathogen/commensal species, and that the responses are specific to the identity of the pathogen/commensal species. In summary, bacteria have mechanisms to distinguish between friends, foe and host cells. These results provide foundational data and insight into the possibility of manipulating the local microbiome when treating complicated polymicrobial wound, intra-abdominal, or respiratory infections.
Protection of Thiol Groups on the Surface of Magnetic Adsorbents and Their Application for Wastewater Treatment
Authors: Melnyk Inna V. , Pogorilyi Roman P. , Zub Yuriy L. , Vaclavikova Miroslava , Gdula Karolina , Dąbrowski Andrzej , Seisenbaeva Gulaim A. , Kessler Vadim G.
Published: May 2018

The magnetite nanoparticles were functionalized with silica shells bearing mercaptopropyl (monofunctional) and mercaptopropyl-and-alkyl groups (bifunctional) by single-step sol-gel technique. The influence of synthetic conditions leading to increased amounts of active functional groups on the surface and improved capacity in the uptake of Ag(I), Cd(II), Hg(II), and Pb(II) cations was revealed. The physicochemical properties of obtained magnetic nanocomposites were investigated by FTIR, Raman, XRD, TEM, SEM, low-temperature nitrogen ad-/desorption measurements, TGA, and chemical microanalysis highlighting the efficiency of functionalization and mechanisms of the preparation procedures. The removal of the main group of heavy metal cations was studied in dependence from the pH, contact time and equilibrium concentration to analyze the complexes composition for the large scale production of improved adsorbents. It was demonstrated that introduction of the alkyl groups into the surface layer prevents the formation of the disulfide bonds between adjacent thiol groups. The obtained adsorbents were employed to treat real wastewater from Ruskov, Slovakia with concentration of Fe 319 ng/cm3, Cu 23.7 ng/cm3, Zn 36 ng/cm3, Mn 503 ng/cm3, Al 21 ng/cm3, As 34 ng/cm3, Pb 5.8 ng/cm3, Ni 35 ng/cm3, Co 4.2 ng/cm3, Cr 9.4 ng/cm3, Sb 6 ng/cm3, Cd 5 ng/cm3. These materials proved to be highly effective in the removal of 50% of all metal ions, espeсially Zn, Cd, and Pb ions from it and turned recyclable, opening for their sustainable use in water purification.
MCC950, a specific small molecule inhibitor of NLRP3 inflammasome attenuates colonic inflammation in spontaneous colitis mice
Authors: Perera Agampodi Promoda , Fernando Ruchira , Shinde Tanvi , Gundamaraju Rohit , Southam Benjamin , Sohal Sukhwinder Singh , Robertson Avril A. B. , Schroder Kate , Kunde Dale , Eri Rajaraman
Published: May 2018

MCC950 a potent, highly specific small molecule inhibitor of canonical and noncanonical activation of NLRP3 inflammasome has been evaluated in a multitude of NLRP3 driven inflammatory diseases. However, the effect of MCC950 on colonic inflammation has not yet been reported. In the present study we investigated the effect of MCC950 in a spontaneous chronic colitis mouse model Winnie, which mimics human ulcerative colitis. Oral administration of 40 mg/kg MCC950 commencing at Winnie week seven for three weeks significantly improved body weight gain, colon length, colon weight to body weight ratio, disease activity index and histopathological scores. MCC950 significantly suppressed release of proinflammatory cytokines IL-1β, IL-18, IL1-α, IFNγ, TNF-α, IL6, IL17, chemokine MIP1a and Nitric Oxide in colonic explants. Moreover, MCC950 resulted in a significant decrease of IL-1β release and activation of caspase-1 in colonic explants and macrophage cells isolated from Winnie. Complete inhibition with MCC950 in Winnie colonic explants shows, for the first time, the contribution of inflammatory effects resulting exclusively from canonical and noncanonical NLRP3 inflammasome activation in colitis. Taken together, our results illustrate the efficacy of MCC950 in the treatment of murine ulcerative colitis and provides avenue for a potential novel therapeutic agent for human inflammatory bowel diseases.
Comprehensive analysis of CTNNB1 in adrenocortical carcinomas: Identification of novel mutations and correlation to survival
Authors: Maharjan Rajani , Backman Samuel , Åkerström Tobias , Hellman Per , Björklund Peyman
Published: May 2018

The Wnt/β-Catenin signaling pathway is one of the most frequently altered pathways in adrenocortical carcinomas (ACCs). The aim of this study was to investigate the status of Wnt/β-Catenin signaling pathway by analyzing the expression level of β-Catenin and the mutational status of APC, AXIN2, CTNNB1, and ZNRF3 in ACCs. Mutations in APC, CTNNB1, ZNRF3 and homozygous deletions in ZNRF3 were observed in 3.8% (2/52), 11.5% (6/52), 1.9% (1/52) and 17.3% (9/52) of the cohort respectively. Novel interstitial deletions in CTNNB1 spanning intron 1 to exon 3/intron 3 were also found in 7.7% (4/52) of the tumours. All the observed alterations were mutually exclusive. Nuclear accumulation of β-Catenin, increased expression of Cyclin D1 and significantly higher expression of AXIN2 (p = 0.0039), ZNRF3 (p = 0.0032) and LEF1(p = 0.0090) observed in the tumours harbouring the deletion in comparison to tumours without CTNNB1 mutation demonstrates that the truncated β-Catenin is functionally active and erroneously activates the downstream targets. Significantly lower overall survival rate in patients with tumours harbouring alterations in APC/CTNNB1/ZNRF3 in comparison to those without mutation was observed. In conclusion, the discovery of novel large deletions in addition to the point mutations in CTNNB1 infers that activation of Wnt/β-Catenin pathway via alterations in CTNNB1 occurs frequently in ACCs. We also confirm that alterations in Wnt/β-Catenin signaling pathway members have a negative effect on overall survival of patients.
Intermittent fasting uncovers and rescues cognitive phenotypes in PTEN neuronal haploinsufficient mice
Authors: Cabral-Costa J. V. , Andreotti D. Z. , Mello N. P. , Scavone C. , Camandola S. , Kawamoto E. M.
Published: May 2018

Phosphatase and tensin homolog (PTEN) is an important protein with key modulatory functions in cell growth and survival. PTEN is crucial during embryogenesis and plays a key role in the central nervous system (CNS), where it directly modulates neuronal development and synaptic plasticity. Loss of PTEN signaling function is associated with cognitive deficits and synaptic plasticity impairment. Accordingly, Pten mutations have a strong link with autism spectrum disorder. In this study, neuronal Pten haploinsufficient male mice were subjected to a long-term environmental intervention – intermittent fasting (IF) – and then evaluated for alterations in exploratory, anxiety and learning and memory behaviors. Although no significant effects on spatial memory were observed, mutant mice showed impaired contextual fear memory in the passive avoidance test – an outcome that was effectively rescued by IF. In this study, we demonstrated that IF modulation, in addition to its rescue of the memory deficit, was also required to uncover behavioral phenotypes otherwise hidden in this neuronal Pten haploinsufficiency model.
Baroreflex Impairment Precedes Cardiometabolic Dysfunction in an Experimental Model of Metabolic Syndrome: Role of Inflammation and Oxidative Stress
Authors: Bernardes Nathalia , da Silva Dias Danielle , Stoyell-Conti Filipe Fernandes , de Oliveira Brito-Monzani Janaina , Malfitano Christiane , Caldini Elia Garcia , Ulloa Luis , Llesuy Susana Francisca , Irigoyen Maria-Cláudia , De Angelis Kátia
Published: May 2018

This study analyzes whether autonomic dysfunction precedes cardiometabolic alterations in spontaneously hypertensive rats (SHR) with fructose overload. Animals were randomly distributed into three groups: control, hypertensive and hypertensive with fructose overload. Fructose overload (100 g/L) was initiated at 30 days old, and the animals (n = 6/group/time) were evaluated after 7, 15, 30 and 60 days of fructose consumption. Fructose consumption reduced baroreflex sensitivity by day 7, and still induced a progressive reduction in baroreflex sensitivity over the time. Fructose consumption also increased TNFα and IL-6 levels in the adipose tissue and IL-1β levels in the spleen at days 15 and 30. Fructose consumption also reduced plasmatic nitrites (day 15 and 30) and superoxide dismutase activity (day 15 and 60), but increased hydrogen peroxide (day 30 and 60), lipid peroxidation and protein oxidation (day 60). Fructose consumption increased arterial pressure at day 30 (8%) and 60 (11%). Fructose consumption also induced a late insulin resistance at day 60, but did not affect glucose levels. In conclusion, the results show that baroreflex sensitivity impairment precedes inflammatory and oxidative stress disorders, probably by inducing hemodynamic and metabolic dysfunctions observed in metabolic syndrome.
Characterization of the electrical conductivity of bone and its correlation to osseous structure
Authors: Balmer Thomas Wyss , Vesztergom Soma , Broekmann Peter , Stahel Andreas , Büchler Philippe
Published: May 2018

The interaction of osseous tissue with electric fields is an important subject. The electrical stimulation of bone promotes osteogenesis, while bone impedance has been proposed as a measure of osteoporosis, to follow fracture healing, or as a method to improve safety of surgical procedures. However, a deeper understanding of the electrical properties of bone and their relation to the architecture of osseous tissue is required to extend the range of use of electrical measurements to clinical studies. In this paper we apply electrical impedance spectroscopy to study the conductivity of fresh bovine tibia and we correlate the measured conductivities with its structural properties. Impedance was measured using a custom-made cell and a potentiostat. Bone conductivity was determined at 100 kHz, where the phase shift was negligible. A good agreement (R2 = 0.83) was found between the measured conductivity and the bone volume fraction, determined on microCT images. Based on this relationship, an equivalent circuit model was created for bone samples. The results of this ex-vivo study are comparable to previous in-vivo observations reporting bone resistivity as a function of bone density. This information can be used to construct a map of the tissue resistivity directly derived from clinical images.
Screening and characterisation of sex differentiation-related long non-coding RNAs in Chinese soft-shell turtle (Pelodiscus sinensis)
Authors: Zhang Jun , Yu Peng , Zhou Qinyan , Li Xilei , Ding Shuquan , Su Shiping , Zhang Xiaohua , Yang Xiaoli , Zhou Weishang , Wan Quan , Gui Jian-Fang
Published: May 2018

Long non-coding RNAs (lncRNAs) perform distinct functions in various biological processes in mammals, including sex differentiation. However, the roles of lncRNAs in other vertebrates, especially in the Chinese soft-shell turtle (Pelodiscus sinensis), remain to be clarified. In this study, we performed genome-wide analysis of the lncRNA expression profiles in gonad tissues and screened numerous sex-specific lncRNAs in the Chinese soft-shell turtle. Of the 363,310,650 clean reads obtained, 5,994 sequences were typed as lncRNAs, of which 4,463 were novel. A selection of sex-specific lncRNAs (♀ 932, ♂ 449) from female ovaries and male testis were shown to act on target genes in cis and in trans, and most were involved in gonad differentiation based on Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis. Furthermore, interactions among the differentially expressed lncRNA-mRNAs and protein coding genes were identified by construction of correlation networks. Overall, our systematic analysis of lncRNA expression profiles in gonad tissues revealed numerous sex-specific lncRNAs in P. sinensis. Thereby, these findings provide new insights into the function of lncRNAs in sex differentiation and highlight a group of candidate lncRNAs for future studies.
Rapamycin attenuates pathological hypertrophy caused by an absence of trabecular formation
Authors: Fleming Nicole D. , Samsa Leigh A. , Hassel David , Qian Li , Liu Jiandong
Published: May 2018

Cardiac trabeculae are mesh-like muscular structures within ventricular walls. Subtle perturbations in trabeculation are associated with many congenital heart diseases (CHDs), and complete failure to form trabeculae leads to embryonic lethality. Despite the severe consequence of an absence of trabecular formation, the exact function of trabeculae remains unclear. Since ErbB2 signaling plays a direct and essential role in trabecular initiation, in this study, we utilized the erbb2 zebrafish mutant as a model to address the function of trabeculae in the heart. Intriguingly, we found that the trabeculae-deficient erbb2 mutant develops a hypertrophic-like (HL) phenotype that can be suppressed by inhibition of Target of Rapamycin (TOR) signaling in a similar fashion to adult mammalian hearts subjected to mechanical overload. Further, cell transplantation experiments demonstrated that erbb2 mutant cells in an otherwise wildtype heart did not undergo hypertrophy, indicating that erbb2 mutant HL phenotypes are due to a loss of trabeculae. Together, we propose that trabeculae serve to enhance contractility and that defects in this process lead to wall-stress induced hypertrophic remodeling.
Ccl2 deficiency protects against chronic renal injury in murine renovascular hypertension
Authors: Kashyap Sonu , Osman Mazen , Ferguson Christopher M. , Nath Meryl C. , Roy Bhaskar , Lien Karen R. , Nath Karl A. , Garovic Vesna D. , Lerman Lilach O. , Grande Joseph P.
Published: May 2018

Inflammation plays an important role in the pathogenesis of renal and cardiovascular disease in renovascular hypertension (RVH). Ccl2 is an important mediator of inflammation, and is induced within 24 hours following surgery to establish RVH in the murine 2 kidney 1 clip model, a time prior to onset of interstitial inflammation, fibrosis, or tubular atrophy. We tested the hypothesis that Ccl2 deficiency protects the stenotic kidney (STK) from development of chronic renal damage in mice with renovascular hypertension due to renal artery stenosis (RAS). RAS surgery was performed on wild type (WT) and Ccl2 knock out (KO) mice; animals were studied for four weeks. Renal blood flow was reduced to similar extent in both WT and Ccl2 KO mice with RVH. Perfusion of the stenotic kidney was significantly reduced in Ccl2 KO mice as assessed by magnetic resonance imaging (MRI). Stenotic kidney volume in WT, but not in Ccl2 KO mice, was significantly reduced following surgery. Cortical hypoxia was observed in the stenotic kidney of Ccl2 KO mice, as assessed by blood oxygen level-dependent MRI (BOLD-MRI). Ccl2 KO mice showed less cortical atrophy than WT RAS mice. Ccl2 deficiency reduced the number of infiltrating mononuclear cells and expression ofCcl5,Ccl7,Ccl8,Ccr2andCd206. We conclude that Ccl2 is a critical mediator of chronic renal injury in RVH.
Reinforcement magnitudes modulate subthalamic beta band activity in patients with Parkinson’s disease
Authors: Schroll Henning , Horn Andreas , Runge Joachim , Lipp Axel , Schneider Gerd-Helge , Krauss Joachim K. , Hamker Fred H. , Kühn Andrea A.
Published: May 2018

We set out to investigate whether beta oscillations in the human basal ganglia are modulated during reinforcement learning. Based on previous research, we assumed that beta activity might either reflect the magnitudes of individuals’ received reinforcements (reinforcement hypothesis), their reinforcement prediction errors (dopamine hypothesis) or their tendencies to repeat versus adapt responses based upon reinforcements (status-quo hypothesis). We tested these hypotheses by recording local field potentials (LFPs) from the subthalamic nuclei of 19 Parkinson’s disease patients engaged in a reinforcement-learning paradigm. We then correlated patients’ reinforcement magnitudes, reinforcement prediction errors and response repetition tendencies with task-related power changes in their LFP oscillations. During feedback presentation, activity in the frequency range of 14 to 27 Hz (beta spectrum) correlated positively with reinforcement magnitudes. During responding, alpha and low beta activity (6 to 18 Hz) was negatively correlated with previous reinforcement magnitudes. Reinforcement prediction errors and response repetition tendencies did not correlate significantly with LFP oscillations. These results suggest that alpha and beta oscillations during reinforcement learning reflect patients’ observed reinforcement magnitudes, rather than their reinforcement prediction errors or their tendencies to repeat versus adapt their responses, arguing both against an involvement of phasic dopamine and against applicability of the status-quo theory.