bluuebunny/crossref_metadata_2025_split huggingface dataset:
Neural pattern similarity differentially affects memory performance of younger and older adults: Age differences in neural similarity and memory
Authors: Sommer Verena R. , Fandakova Yana , Grandy Thomas H. , Shing Yee Lee , Werkle-Bergner Markus , Sander Myriam C. 
Published: January 2019

AbstractAge-related memory decline is associated with changes in neural functioning but little is known about how aging affects the quality of information representation in the brain. Whereas a long-standing hypothesis of the aging literature links cognitive impairments to less distinct neural representations in old age, memory studies have shown that high similarity between activity patterns benefits memory performance for the respective stimuli. Here, we addressed this apparent conflict by investigating between-item representational similarity in 50 younger (19–27 years old) and 63 older (63–75 years old) human adults (male and female) who studied scene-word associations using a mnemonic imagery strategy while electroencephalography was recorded. We compared the similarity of spatiotemporal frequency patterns elicited during encoding of items with different subsequent memory fate. Compared to younger adults, older adults’ memory representations were more similar to each other but items that elicited the most similar activity patterns early in the encoding trial were those that were best remembered by older adults. In contrast, young adults’ memory performance benefited from decreased similarity between earlier and later periods in the encoding trials, which might reflect their better success in forming unique memorable mental images of the joint picture–word pair. Our results advance the understanding of the representational properties that give rise to memory quality as well as how these properties change in the course of aging.Significance statementDeclining memory abilities are one of the most evident limitations for humans when growing older. Despite recent advances of our understanding of how the brain represents and stores information in distributed activation patterns, little is known about how the quality of information representation changes during aging and thus affects memory performance. We investigated how the similarity between neural representations relates to subsequent memory quality in younger and older adults. We present novel evidence that the interaction of pattern similarity and memory performance differs between age groups: Older adults benefited from increased similarity during early encoding whereas young adults benefited from decreased similarity between early and later encoding. These results provide insights into the nature of memory and age-related memory deficits.
DNA-foraging bacteria in the seafloor
Authors: Wasmund Kenneth , Pelikan Claus , Watzka Margarete , Richter Andreas , Noel Amy , Hubert Casey R.J. , Rattei Thomas , Hofmann Thilo , Herbold Craig W. , Loy Alexander 
Published: January 2019

AbstractExtracellular DNA is a major macromolecule in global element cycles, and is a particularly crucial phosphorus as well as nitrogen and carbon source for microorganisms in the seafloor. Nevertheless, the identities, ecophysiology and genetic features of key DNA-foraging microorganisms in marine sediments are completely unknown. Here we combined microcosm experiments, stable isotope probing and genome-centric metagenomics to study microbial catabolism of DNA and its sub-components in anoxic marine sediments.13C-DNA added to sediment microcosms was degraded within ten days and mineralised to13CO2. Stable isotope probing showed that diverseCandidatusIzemoplasma,Lutibacter, Shewanella, FusibacteraceaeandNitrincolaceaeincorporated DNA-derived13C-carbon. Genomes representative of the13C-labelled taxa were recovered and all encoded enzymatic repertoires for catabolism of DNA. Comparative genomics indicated that DNA can be digested by diverse members of the orderCandidatusIzemoplasmatales (formerTenericutes), which appear to be specialised DNA-degraders that encode multiple extracellular nucleases.Fusibacteraceaelacked genes for extracellular nucleases but utilised various individual purine- and pyrimidine-based molecules, suggesting they ‘cheated’ on liberated sub-components of DNA. Close relatives of the DNA-degrading taxa are globally distributed in marine sediments, suggesting that these poorly understood taxa contribute widely to the key ecosystem function of degrading and recycling DNA in the seabed.
An MRI Atrophy Biomarker Predicts Global Prognosis in Early De Novo Parkinson’s Disease
Authors: Zeighami Yashar , Fereshtehnejad Seyed-Mohammad , Dadar Mahsa , Collins D. Louis , Postuma Ronald B. , Dagher Alain 
Published: January 2019

ABSTRACTBackgroundCommonly used neuroimaging biomarkers in Parkinson’s disease (PD) are useful for diagnosis but poor at predicting outcomes. We explored whether an atrophy pattern from whole-brain structural MRI, measured in the drug-naïve early stage, could predict PD prognosis.Methods362 de novo PD patients with T1-weighted MRI (n=222 for the main analysis, 140 for the validation analysis) were recruited from the Parkinson’s Progression Markers Initiative (PPMI). We investigated a previously identified PD-specific network atrophy pattern as a potential biomarker of disease severity and prognosis. Progression trajectories of motor function (MDS-UPDRS-part III), cognition (Montreal Cognitive Assessment (MoCA)), and a global composite outcome measure were compared between atrophy tertiles using mixed effect models. The prognostic value of the MRI atrophy measure was compared with 123I ioflupane single photon emission computed tomography, the postural-instability-gait-disturbance score, and cerebrospinal fluid markers.FindingsAfter 4.5 years follow-up, PD-specific atrophy network score at baseline significantly predicted change in UPDRS-part III (r=-0.197, p=0.003), MoCA (r=0.253, p=0.0002) and global composite outcome (r=-0.249, p=0.0002). Compared with the 3rd tertile (i.e. least atrophy), the tertile with the highest baseline atrophy (i.e. the 1st tertile) had a 3-point annual faster progression in UPDRS-part III (p=0.012), faster worsening of posture-instability gait scores (+0.21 further annual increase, p<0.0001), faster decline in MoCA (−0.74 further annual decline in MoCA, p=0.0372) and a +0.38 (p=0.0029) faster annual increase in the global composite z-score. All findings were replicated in a validation analysis using 1.5T MRI. By comparison, the other biomarkers were limited in their ability to predict prognosis either in the main or validation analysis.InterpretationA PD-specific network atrophy pattern predicts progression of motor, cognitive, and global outcome in PD, and is a stronger predictor of prognosis than any of the other tested biomarkers. Therefore, it has considerable potential as a prognostic biomarker for clinical trials of early PD.
A Silk-Expressed Pectin Methylesterase Confers Cross-Incompatibility Between Wild and Domesticated Strains of Zea mays
Authors: Lu Yongxian , Hokin Samuel A. , Kermicle Jerry L. , Evans Mathew M. S. 
Published: January 2019

AbstractDespite being members of the same species, some strains of wild teosinte maintain themselves as a distinct breeding population by blocking fertilization by pollen from neighboring maize plants. These teosinte strains may be in the process of evolving into a separate species, since reproductive barriers that block gene flow are critical components in speciation. This trait is conferred by the Teosinte crossing barrier1-s (Tcb1-s) haplotype, making Tcb1 a speciation gene candidate. Tcb1-s contains a female gene that blocks non-self-type pollen and a male function that enables self-type pollen to overcome that block. The Tcb1-female gene encodes a Pectin Methylesterase, implying that modification of the pollen cell wall by the pistil is a key mechanism by which these teosinte females reject foreign (but closely related) pollen.One sentence summaryThe Tcb1-female gene encodes a Pectin Methylesterase that in teosinte silks prevents fertilization by maize pollen.
Selection for antibiotic resistance is reduced when embedded in a natural microbial community
Authors: Klümper Uli , Recker Mario , Zhang Lihong , Yin Xiaole , Zhang Tong , Buckling Angus , Gaze William 
Published: January 2019

AbstractAntibiotic resistance has emerged as one of the most pressing, global threats to public health. In single-species experiments selection for antibiotic resistance occurs at very low antibiotic concentrations. However, it is unclear how far these findings can be extrapolated to natural environments, where species are embedded within complex communities. We competed isogenic strains of Escherichia coli, differing exclusively in a single chromosomal resistance determinant, in the presence and absence of a pig fecal microbial community across a gradient of antibiotic concentration for two relevant antibiotics: gentamicin and kanamycin. We show that the minimal selective concentration was increased by more than one order of magnitude for both antibiotics when embedded in the community. We identified two general mechanisms were responsible for the increase in minimal selective concentration: an increase in the cost of resistance and a protective effect of the community for the susceptible phenotype. These findings have implications for our understanding of the evolution and selection of antibiotic resistance, and can inform future risk assessment efforts on antibiotic concentrations.
Intracortical neural activity distal to seizure-onset-areas predicts human focal seizures
Authors: Proix Timothée , Aghagolzadeh Mehdi , Madsen Joseph R , Cosgrove Rees , Eskandar Emad , Hochberg Leigh R. , Cash Sydney S. , Truccolo Wilson 
Published: January 2019

AbstractThe apparent unpredictability of epileptic seizures has a major impact in the quality of life of people with pharmacologically resistant seizures. Here, we present initial results and a proof-of-concept of how focal seizures can be predicted early in advance based on intracortical signals recorded from small neocortical patches away from identified seizure onset areas. We show that machine learning algorithms can discriminate between interictal and preictal periods based on multiunit activity (i.e. thresholded action potential counts) and multi-frequency band local field potentials recorded via 4 X 4 mm2microelectrode arrays. Microelectrode arrays were implanted in 5 patients undergoing neuromonitoring for resective surgery. Post-implant analysis revealed arrays were outside the seizure onset areas. Preictal periods were defined as the 1-hour period leading to a seizure. A 5-minute gap between the preictal period and the putative seizure onset was enforced to account for potential errors in the determination of actual seizure onset times. We used extreme gradient boosting and long short-term memory networks for prediction. Prediction accuracy based on the area under the receiver operating characteristic curves reached 90% for at least one feature type in each patient. Importantly, successful prediction could be achieved based exclusively on multiunit activity. This result indicates that preictal activity in the recorded neocortical patches involved not only subthreshold postsynaptic potentials, perhaps driven by the distal seizure onset areas, but also neuronal spiking in distal recurrent neocortical networks. Beyond the commonly identified seizure onset areas, our findings point to the engagement of large-scale neuronal networks in the neural dynamics building up toward a seizure. Our initial results obtained on currently available human intracortical recordings warrant new studies on larger datasets, and open new perspectives for seizure prediction and control by emphasizing the contribution of multiscale neural signals in large-scale neuronal networks.
Long-term fish assemblages of the Ohio River: altered trophic and life history strategies with hydrologic alterations and landuse modifications
Authors: Pyron Mark , Mims Meryl C. , Minder Mario M. , Shields Robert C. , Chodkowski Nicole , Artz Caleb C. 
Published: January 2019

AbstractLong-term monitoring of species assemblages provides a unique opportunity to test hypotheses regarding environmentally-induced directional trajectories of freshwater species assemblages. We used 57 years of lockchamber fish rotenone and boat electrofishing survey data (1957-2014) collected by the Ohio River Valley Water Sanitation Commission (ORSANCO) to test for directional trajectories in taxonomy, trophic classifications, and life history strategies of freshwater fish assemblages in the Ohio River Basin. We found significant changes in taxonomic and trophic composition of freshwater fishes in the Ohio River Basin. Annual species richness varied from 31 to 90 species and generally increased with year. Temporal trajectories were present for taxonomic and trophic assemblages. Assemblage structure based on taxonomy was correlated with land use change (decrease in agriculture and increase in forest). Taxonomic assemblage structure was also correlated with altered hydrology variables of increased minimum discharge, decreased fall rate, and increased rise rate. Trophic composition of fish catch correlated with land use change (decrease in agriculture and increase in forest) and altered hydrology. Altered hydrology of increased minimum discharge, increased fall discharge, decreased base flows, and increased number of high pulse events was correlated with increased counts of herbivore-detritivores and decreased counts of piscivores and planktivores. We did not find directional changes in life history composition. We hypothesized a shift occurred from benthic to phytoplankton production throughout the basin that may have decreased secondary production of benthic invertebrates. This may also be responsible for lower trophic position of invertivore and piscivore fishes observed in other studies.
An analytical solution for consolidation of PVD-installed deposit considering nonlinear distribution of hydraulic conductivity and compressibility
Authors: Nguyen Ba-Phu , Kim Yun-Tae 
Published: January 2019

PurposeIt is well known that the prefabricated vertical drain (PVD) installation process generates a significant soil disturbance around PVD. This disturbed zone significantly affects the rate of settlement and excess pore pressure dissipation. However, the characteristics of these zones were still uncertain and difficult to quantify; there remains large discrepancy among researchers. This study aims to develop a simple analytical solution for radial consolidation analysis of PVD-installed deposit considering mandrel-induced disturbance.Design/methodology/approachThe proposed solution takes into account the nonlinear distributions of both horizontal hydraulic conductivity and compressibility toward the drain. The proposed solution was applied to analyze field behavior of test embankment in New South Wales, Australia.FindingsBoth effects significantly increased the time required to achieve a certain degree of consolidation. The effect of hydraulic conductivity on the consolidation rate was more significant than the effect of compressibility variation. And, the increased compressibility in the soil-disturbed zone due to mandrel installation significantly increased vertical strain of the PVD-improved soil deposit. The predicted results using the proposed analytical solution were in good agreement with the field measurements.Practical implicationsA geotechnical engineer could use the proposed analytical solution to predict consolidation behavior of drainage-installed ground.Originality/valueConsolidation behavior of PVD-installed ground could be reasonably predicted by using the proposed solution with considering variations of both hydraulic conductivity and compressibility due to PVD installation.
Cytosolic DNA‐sensing immune response and viral infection
Authors: Abe Takayuki , Marutani Yuki , Shoji Ikuo 
Published: January 2019

AbstractHow host cells recognize many kinds of RNA and DNA viruses and initiate innate antiviral responses against them has not yet been fully elucidated. Over the past decade, investigations into the mechanisms underlying these antiviral responses have focused extensively on immune surveillance sensors that recognize virus‐derived components (such as lipids, sugars and nucleic acids). The findings of these studies have suggested that antiviral responses are mediated by cytosolic or intracellular compartment sensors and their adaptor molecules (e.g., TLR, myeloid differentiation primary response 88, retinoic acid inducible gene‐I, IFN‐β promoter stimulator‐1, cyclic GMP‐AMP synthase and stimulator of IFN genes axis) for the primary sensing of virus‐derived nucleic acids, leading to production of type I IFNs, pro‐inflammatory cytokines and chemokines by the host cells. Thus, host cells have evolved an elaborate host defense machinery to recognize and eliminate virus infections. In turn, to achieve sustained viral infection and induce pathogenesis, viruses have also evolved several counteracting strategies for achieving immune escape by targeting immune sensors, adaptor molecules, intracellular kinases and transcription factors. In this review, we discuss recent discoveries concerning the role of the cytosolic nucleic acid‐sensing immune response in viral recognition and control of viral infection. In addition, we consider the regulatory machinery of the cytosolic nucleic acid‐sensing immune response because these immune surveillance systems must be tightly regulated to prevent aberrant immune responses to self and non‐self‐nucleic acids.
Dominance of wine Saccharomyces cerevisiae strains over S. kudriavzevii in industrial fermentation competitions is related to an acceleration of nutrient uptake and utilization
Authors: Alonso‐del‐Real Javier , Pérez‐Torrado Roberto , Querol Amparo , Barrio Eladio 
Published: January 2019

SummaryGrape must is a sugar‐rich habitat for a complex microbiota which is replaced by Saccharomyces cerevisiae strains during the first fermentation stages. Interest on yeast competitive interactions has recently been propelled due to the use of alternative yeasts in the wine industry to respond to new market demands. The main issue resides in the persistence of these yeasts due to the specific competitive activity of S. cerevisiae. To gather deeper knowledge of the molecular mechanisms involved, we performed a comparative transcriptomic analysis during fermentation carried out by a wine S. cerevisiae strain and a strain representative of the cryophilic S. kudriavzevii, which exhibits high genetic and physiological similarities to S. cerevisiae, but also differences of biotechnological interest. In this study, we report that transcriptomic response to the presence of a competitor is stronger in S. cerevisiae than in S. kudriavzevii. Our results demonstrate that a wine S. cerevisiae industrial strain accelerates nutrient uptake and utilization to outcompete the co‐inoculated yeast, and that this process requires cell‐to‐cell contact to occur. Finally, we propose that this competitive phenotype evolved recently, during the adaptation of S. cerevisiae to man‐manipulated fermentative environments, since a non‐wine S. cerevisiae strain, isolated from a North American oak, showed a remarkable low response to competition.
Reframing health and illness: a collaborative autoethnography on the experience of health and illness transformations in the life course
Authors: Nowakowski Alexandra C.H. , Sumerau J.E. 
Published: January 2019

AbstractIn this collaborative autoethnography, we examine the processes whereby people may reframe their interpretations and understandings of health and illness as a result of new diagnostic information. In so doing, we utilise the first author's experience receiving a conclusive diagnosis of cystic fibrosis after years of misdiagnosis to outline some ways changes in diagnosis facilitate shifts in illness management, the nature of health and illness and the experience of the self in relation to health and medicine. Furthermore, we discuss the ways this case reveals the importance of examining and comparing the social construction and transformation of health and illness within and between different individual and collective lived experiences over time. In closing, we draw out theoretical and empirical implications for understanding transformations in the nature of health and illness over the life course as well as future directions for research investigating shifts in illness management and understanding over time (A virtual abstract of this paper is available to view at:https://www.youtube.com/channel/UC_979cmCmR9rLrKuD7z0ycA).
Ethanol Extract of Chinese Propolis Attenuates Early Diabetic Retinopathy by Protecting the Blood–Retinal Barrier in Streptozotocin‐Induced Diabetic Rats
Authors: Shi Yi‐zhen , Liu Yi‐chen , Zheng Yu‐fei , Chen Yi‐fan , Si Juan‐juan , Chen Min‐li , Shou Qi‐yang , Zheng Huo‐qing , Hu Fu‐liang 
Published: January 2019

AbstractPropolis has been shown to reduce the level of blood glucose and suppress the histopathological changes in diabetics. However, it still remains unknown if propolis has a similar effect on diabetic retinopathy (DR). Our study aimed to evaluate the effect of the ethanol extract of Chinese propolis (EECP) on early DR in streptozotocin (STZ)‐induced diabetic rats. EECP was given to diabetic rats by oral intubation for 12 weeks. The concentrations of fasting blood glucose (FBG), glycated hemoglobin (HbA1c), malondialdehyde (MDA), reactive oxygen species (ROS), and reactive nitrogen species (RNS) were measured. Pathological examinations, including hematoxylin and eosin (HE) staining, transmission electron microscopy (TEM), and immunofluorescence, were also conducted to provide further evidence of EECP's effect on early DR. EECP was able to attenuate diabetes via directly decreasing the levels of FBG and HbA1c, which also resulted in the reduction of MDA, ROS, and RNS. Furthermore, EECP could protect against the damages of photoreceptor cells, as well as retinal thickening. And the inhibition of blood–retinal barrier (BRB) leakage was also observed in EECP‐treated diabetic rats, along with the inhibition the loss of tight junction proteins (occludin, ZO‐1). These results suggest that EECP has an ameliorating effect on early DR by inhibition of blood–retinal barrier breakdown.Practical ApplicationThis study sheds light on the protective effect of the ethanol extract of Chinese propolis on early diabetic retinopathy and the molecular actions underlying the inhibition of blood–retinal barrier breakdown. Our study suggests that ethanol extract of Chinese propolis can be considered as a potential therapeutic agent in the treatment of early diabetic retinopathy.