bluuebunny/crossref_metadata_2025_split huggingface dataset:
Draft Genome Sequence of
Brevibacillus
reuszeri
Strain NIT02, Isolated from a Laundered Rental Cloth Hot Towel
Authors: Sano Ken-Ichi , Anraku Asuka 
Published: January 2018

ABSTRACT

Brevibacillus reuszeri
is a Gram-positive spore-forming bacterium. Here, we present the draft genome sequence of
Brevibacillus reuszeri
strain NIT02, which was isolated from a laundered rental cloth hot towel.
Draft Genome Sequence of
Prochlorococcus marinus
Strain XMU1401, Isolated from the Western Tropical North Pacific Ocean
Authors: Yan Wei , Zhang Rui , Wei Shuzhen , Zeng Qinglu , Xiao Xilin , Wang Qiong , Yan Hanrui , Jiao Nianzhi 
Published: January 2018

ABSTRACT

Prochlorococcus marinus
is the most abundant photosynthetic organism in the tropical and subtropical oceans. Here, we report the draft genome sequence of
Prochlorococcus marinus
XMU1401, which was isolated from the Western Tropical North Pacific Ocean.
Genome Sequences of
Acholeplasma laidlawii
Strains with Increased Resistance to Tetracycline and Melittin
Authors: Baranova Natalia B. , Malygina Tatyana Y. , Medvedeva Elena S. , Boulygina Eugenia A. , Siniagina Maria N. , Dramchini Mohamed Amine , Prottoy Reshad Akbor , Mouzykantov Alexey A. , Davydova Marina N. , Chernova Olga A. , Chernov Vladislav M. 
Published: January 2018

ABSTRACT

Acholeplasma laidlawii
is a well-suited model for studying the molecular basis for adapting mollicutes to environmental conditions. Here, we present the whole-genome sequences of two strains of
A. laidlawii
with increased resistance to tetracycline and melittin.
Draft Genome Sequence of
Lactobacillus fermentum
NCDC 400, Isolated from a Traditional Indian Dairy Product
Authors: Azmal Ali Syed , Kumar Sudarshan , Mohanty Ashok Kumar , Behare Pradip 
Published: January 2018

ABSTRACT

We announce here the draft genome sequence of
Lactobacillus fermentum
NCDC 400, a potential probiotic strain isolated from a traditional Indian dairy product. The genome size of
Lactobacillus fermentum
NCDC 400 is 1.89 Mb, and the assembled sequence consists of 185 contigs joined into 138 scaffolds.
Efficacy of intensive multidisciplinary rehabilitation in Parkinson’s disease: a randomised controlled study
Authors: Ferrazzoli Davide , Ortelli Paola , Zivi Ilaria , Cian Veronica , Urso Elisa , Ghilardi Maria Felice , Maestri Roberto , Frazzitta Giuseppe 
Published: January 2018

ObjectiveTo evaluate whether a 4-week multidisciplinary, aerobic, motor-cognitive and intensive rehabilitation treatment (MIRT) improves the quality of life (QoL) of patients with Parkinson’s disease (PD), in the short-term and long-term period.MethodsThis is a prospective, parallel-group, single-centre, single-blind, randomised clinical trial (ClinicalTrials.gov NCT02756676). 186 patients with PD, assigned to experimental group, underwent MIRT; conversely, 48 patients, assigned to control group, did not receive rehabilitation. Parkinson’s Disease Questionnaire-39 was assessed 2 (T0), 10 (T1) and 18 (T2, only experimental group) weeks after the enrolment. We compared T1 versus T0 scores within subjects and delta scores (T1–T0) between subjects. To investigate the long-term effects, we compared T2 and T0 scores in the experimental group.ResultsAt T0, no between-group differences in the Global Index Score (GBI) were observed (experimental group: 43.6±21.4, controls: 41.6±22.9, P=0.50). At T1, we did not find significant changes in controls (delta score: 1.2±9.9, P=0.23), and we found an improvement in GBI in the experimental group (delta score: −8.3±18.0, P<0.0001), significant also between subjects (P<0.0001). Comparing T2 versus T0 in the experimental group, the GBI maintained a significant improvement (delta score: −4.8±17.5, P<0.0001).ConclusionsA rehabilitation treatment such as MIRT could improve QoL in patients with PD in the short-term and long-term period. Even though the single-blind design and the possible role of the placebo effect on the conclusive results must be considered as limitations of this study, the improvement in outcome measure, also maintained after a 3-month follow-up period, suggests the effectiveness of MIRT on the QoL.Clinical trial registrationNCT02756676: Pre-results.
Open-source column
Authors: Rossetto Luca , Giangreco Ivan , Gasser Ralph , Schuldt Heiko 
Published: January 2018

URL: https://vitrivr.org/
vitrivr is an open source retrieval system capable of processing multimedia documents such as images, videos, music, and 3D-models. It supports a wealth of content based features for multiple modalities and comes with a ready-to-use Docker image and user interface. We focus on the vitrivr stack in its second version, comprised of ADAMPro 2.0.0, Cineast 2.0.0, and the user interface Vitrivr NG 1.0.0. All components of vitrivr are available under an MIT license.
Propagation of beta/gamma rhythms in the cortico-basal ganglia circuits of the parkinsonian rat
Authors: West Timothy O. , Berthouze Luc , Halliday David M. , Litvak Vladimir , Sharott Andrew , Magill Peter J. , Farmer Simon F. 
Published: January 2018

Much of the motor impairment associated with Parkinson’s disease is thought to arise from pathological activity in the networks formed by the basal ganglia (BG) and motor cortex. To evaluate several hypotheses proposed to explain the emergence of pathological oscillations in parkinsonism, we investigated changes to the directed connectivity in BG networks following dopamine depletion. We recorded local field potentials (LFPs) in the cortex and basal ganglia of rats rendered parkinsonian by injection of 6-hydroxydopamine (6-OHDA) and in dopamine-intact controls. We performed systematic analyses of the networks using a novel tool for estimation of directed interactions (nonparametric directionality, NPD). We used a “conditioned” version of the NPD analysis that reveals the dependence of the correlation between two signals on a third reference signal. We find evidence of the dopamine dependency of both low-beta (14–20 Hz) and high-beta/low-gamma (20–40 Hz) directed network interactions. Notably, 6-OHDA lesions were associated with enhancement of the cortical “hyperdirect” connection to the subthalamic nucleus (STN) and its feedback to the cortex and striatum. We find that pathological beta synchronization resulting from 6-OHDA lesioning is widely distributed across the network and cannot be located to any individual structure. Furthermore, we provide evidence that high-beta/gamma oscillations propagate through the striatum in a pathway that is independent of STN. Rhythms at high beta/gamma show susceptibility to conditioning that indicates a hierarchical organization compared with those at low beta. These results further inform our understanding of the substrates for pathological rhythms in salient brain networks in parkinsonism. NEW & NOTEWORTHY We present a novel analysis of electrophysiological recordings in the cortico-basal ganglia network with the aim of evaluating several hypotheses concerning the origins of abnormal brain rhythms associated with Parkinson’s disease. We present evidence for changes in the directed connections within the network following chronic dopamine depletion in rodents. These findings speak to the plausibility of a “short-circuiting” of the network that gives rise to the conditions from which pathological synchronization may arise.
The reactive leg drop: a simple and novel sensory-motor assessment to predict fall risk in older individuals
Authors: Magrini Mitchel A. , Thiele Ryan M. , Colquhoun Ryan J. , Barrera-Curiel Alejandra , Blackstock Taryn S. , DeFreitas Jason M. 
Published: January 2018

There is need for a functional ability test that appropriately assesses the rapid integration of the sensory and motor systems required for older adults to recover from a slip. The purpose of this study was to assess the efficacy and reliability of a novel test, the reactive leg drop, for assessing sensory-motor function in older adults. Fourteen young (YW; mean age = 20 yr) and 11 older women (OW; mean age = 76 yr) participated in this study. For each drop, the leg was passively moved to full extension and then released. The subjects had to recognize their leg was free-falling and reactively kick up as quickly as possible during varying sensory conditions. To assess the leg drop’s reliance on proprioception, other proprioceptive tests (e.g., patellar tendon reflexes and balance) were separately performed. Leg drops performed with the eyes closed ( P = 0.011) and with a blocked view of the leg ( P = 0.033) showed significant differences in drop angle between YW and OW. Significant relationships between leg drop conditions and balance were observed in OW that were not present within YW. When collapsed across groups, reflex latency was correlated with drop angle when the eyes were closed. The reactive leg drop was age sensitive, reliable, and likely reliant on proprioception, as shown by relationships to other sensory-motor assessments, such as balance and the patellar reflex. Although more research is needed, we propose that the reactive leg drop is an effective tool to assess sensory-motor integration in a manner that may mimic fall recovery. NEW & NOTEWORTHY The reactive leg drop was age sensitive and was significantly related to other sensory-motor assessments. The ability to accurately assess sensory-motor integration may aid clinicians, practitioners, and researchers in developing new interventions. The reactive leg drop presented in the current study is a potentially effective tool to assess sensory and motor integration in a manner that may mimic fall recovery.
3D topology of orientation columns in visual cortex revealed by functional optical coherence tomography
Authors: Nakamichi Yu , Kalatsky Valery A. , Watanabe Hideyuki , Sato Takayuki , Rajagopalan Uma Maheswari , Tanifuji Manabu 
Published: January 2018

Orientation tuning is a canonical neuronal response property of six-layer visual cortex that is encoded in pinwheel structures with center orientation singularities. Optical imaging of intrinsic signals enables us to map these surface two-dimensional (2D) structures, whereas lack of appropriate techniques has not allowed us to visualize depth structures of orientation coding. In the present study, we performed functional optical coherence tomography (fOCT), a technique capable of acquiring a 3D map of the intrinsic signals, to study the topology of orientation coding inside the cat visual cortex. With this technique, for the first time, we visualized columnar assemblies in orientation coding that had been predicted from electrophysiological recordings. In addition, we found that the columnar structures were largely distorted around pinwheel centers: center singularities were not rigid straight lines running perpendicularly to the cortical surface but formed twisted string-like structures inside the cortex that turned and extended horizontally through the cortex. Looping singularities were observed with their respective termini accessing the same cortical surface via clockwise and counterclockwise orientation pinwheels. These results suggest that a 3D topology of orientation coding cannot be fully anticipated from 2D surface measurements. Moreover, the findings demonstrate the utility of fOCT as an in vivo mesoscale imaging method for mapping functional response properties of cortex in the depth axis. NEW & NOTEWORTHY We used functional optical coherence tomography (fOCT) to visualize three-dimensional structure of the orientation columns with millimeter range and micrometer spatial resolution. We validated vertically elongated columnar structure in iso-orientation domains. The columnar structure was distorted around pinwheel centers. An orientation singularity formed a string with tortuous trajectories inside the cortex and connected clockwise and counterclockwise pinwheel centers in the surface orientation map. The results were confirmed by comparisons with conventional optical imaging and electrophysiological recordings.
Acute and Chronic Increases of Circulating FSTL1 Normalize Energy Substrate Metabolism in Pacing-Induced Heart Failure
Authors: Seki Mitsuru , Powers Jeffery C. , Maruyama Sonomi , Zuriaga Maria A. , Wu Chia-Ling , Kurishima Clara , Kim Lydia , Johnson Jesse , Poidomani Anthony , Wang Tao , Muñoz Eric , Rajan Sudarsan , Park Joon Y. , Walsh Kenneth , Recchia Fabio A. 
Published: January 2018

Background
FSTL1 (follistatin-like protein 1) is an emerging cardiokine/myokine that is upregulated in heart failure (HF) and is found to be cardioprotective in animal models of cardiac injury. We tested the hypothesis that circulating FSTL1 can affect cardiac function and metabolism under baseline physiological conditions and in HF.

Methods and Results

FSTL1 was acutely (10 minutes) or chronically (2 weeks) infused to attain clinically relevant blood levels in conscious dogs with cardiac tachypacing-induced HF. Dogs with no cardiac pacing and FSTL1 infusion served as control.
3
H-oleate and
14
C-glucose were infused to track the metabolic fate of free fatty acids and glucose. Cardiac uptake of lactate and ketone bodies and systemic respiratory quotient were also measured. HF caused a shift from prevalent cardiac and systemic fat to carbohydrate oxidation. Although acute FSTL1 administration caused minimal hemodynamic changes at baseline, in HF dogs it enhanced cardiac oxygen consumption and transiently reversed the changes in free fatty acid and glucose oxidation and systemic respiratory quotient. In HF, chronic FSTL1 infusion stably normalized cardiac free fatty acid, glucose, ketone body consumption, and systemic respiratory quotient, while moderately improving diastolic and contractile function. Consistently, FSTL1 prevented the downregulation of medium-chain acyl-CoA dehydrogenase—a representative enzyme of the free fatty acid oxidation pathway. Complementary in vitro experiments in primary cardiac and skeletal muscle myocytes showed that FSTL1 stimulated oxygen consumption through AMPK (AMP-activated kinase) activation.

Conclusions
These findings support a novel function for FSTL1 and provide the first direct evidence that a circulating cardiokine/myokine can alter myocardial and systemic energy substrate metabolism, in vivo.
Improving Temporal Trends in Survival and Neurological Outcomes After Out-of-Hospital Cardiac Arrest
Authors: Buick Jason E. , Drennan Ian R. , Scales Damon C. , Brooks Steven C. , Byers Adams , Cheskes Sheldon , Dainty Katie N. , Feldman Michael , Verbeek P. Richard , Zhan Cathy , Kiss Alex , Morrison Laurie J. , Lin Steve , Chan Tim , Dorian Paul , Hutchison Jamie , Ko Dennis , Nascimiento Barto , Rizoli Sandro , Swartz Rick 
Published: January 2018

Background
Considerable effort has gone into improving outcomes from out-of-hospital cardiac arrest (OHCA). Studies suggest that survival is improving; however, prior studies had insufficient data to pursue the relationship between markers of guideline compliance and temporal trends. The objective of the study was to evaluate trends in OHCA survival over an 8-year period that included the implementation of the 2005 and 2010 international cardiopulmonary resuscitation (CPR) guidelines.

Methods and Results

This was a population-based cohort study of all consecutive treated OHCA patients of presumed cardiac cause between 2006 and 2013 in the City of Toronto, Canada, and surrounding regions. Temporal changes were measured by χ
2
trend test. The association between year of the OHCA and survival was evaluated using logistic regression and joinpoint analysis. A total of 23 619 patients with OHCA met study inclusion criteria. During the study period, survival to hospital discharge doubled (4.8% in 2006 to 9.4% in 2013;
P
<0.0001), and survival with good neurological outcome increased (6.2% in 2010 to 8.5% in 2013;
P
=0.005). Improvements occurred in the rates of bystander CPR and automated external defibrillator application, high-quality CPR metrics, and in-hospital targeted temperature management. After adjusting for the Utstein variables, survival to hospital discharge (odds ratio, 1.12; 95% confidence interval, 1.09–1.15) and survival with good neurological outcome (odds ratio, 1.13; 95% confidence interval, 1.05–1.22) increased with each year of study.

Conclusions
Survival after OHCA has improved over time. This trend was associated with improved rates of bystander CPR, automated external defibrillator use, high-quality CPR metrics, and in-hospital targeted temperature management. The results suggest that multiple factors, each improving over time, may have contributed to the observed increase in survival.
Neighborhood Deprivation Predicts Heart Failure Risk in a Low-Income Population of Blacks and Whites in the Southeastern United States
Authors: Akwo Elvis A. , Kabagambe Edmond K. , Harrell Frank E. , Blot William J. , Bachmann Justin M. , Wang Thomas J. , Gupta Deepak K. , Lipworth Loren 
Published: January 2018

Background
Recent data suggest that neighborhood socioeconomic environment predicts heart failure (HF) hospital readmissions. We investigated whether neighborhood deprivation predicts risk of incident HF beyond individual socioeconomic status in a low-income population.

Methods and Results

Participants were 27 078 whites and blacks recruited during 2002 to 2009 in the SCCS (Southern Community Cohort Study), who had no history of HF and were using Centers for Medicare or Medicaid Services. Incident HF diagnoses through December 31, 2010, were ascertained using
International Classification of Diseases
, Ninth Revision, codes 428.x via linkage with Centers for Medicare or Medicaid Services research files. Participant residential information was geocoded and census tract determined by a spatial join to the US Census Bureau TIGER/Line Shapefiles. The neighborhood deprivation index was constructed using principal components analysis based on census tract-level socioeconomic variables. Cox models with Huber–White cluster sandwich estimator of variance were used to investigate the association between neighborhood deprivation index and HF risk. The study sample was predominantly middle aged (mean, 55.5 years), black (69%), female (63%), low income (70% earned <$15 000/y), and >50% of participants lived in the most deprived neighborhoods (third neighborhood deprivation index tertile). Over median follow-up of 5.2 years, 4300 participants were diagnosed with HF. After adjustment for demographic, lifestyle, and clinical factors, a 1 interquartile increase in neighborhood deprivation index was associated with a 12% increase in risk of HF (hazard ratio, 1.12; 95% confidence interval, 1.07–1.18), and 4.8% of the variance in HF risk (intraclass correlation coefficient, 4.8; 95% confidence interval, 3.6–6.4) was explained by neighborhood deprivation.

Conclusions
In this low-income population, scant neighborhood resources compound the risk of HF above and beyond individual socioeconomic status and traditional cardiovascular risk factors. Improvements in community resources may be a significant axis for curbing the burden of HF.
Retrospective Methods Analysis of Semiautomated Intracerebral Hemorrhage Volume Quantification From a Selection of the STICH II Cohort (Early Surgery Versus Initial Conservative Treatment in Patients With Spontaneous Supratentorial Lobar Intracerebral Haematomas)
Authors: Haley Mark D. , Gregson Barbara A. , Mould W. Andrew , Hanley Daniel F. , Mendelow Alexander David 
Published: January 2018

Background and Purpose—
The ABC/2 method for calculating intracerebral hemorrhage (ICH) volume has been well validated. However, the formula, derived from the volume of an ellipse, assumes the shape of ICH is elliptical. We sought to compare the agreement of the ABC/2 formula with other methods through retrospective analysis of a selection of the STICH II cohort (Early Surgery Versus Initial Conservative Treatment in Patients With Spontaneous Supratentorial Lobar Intracerebral Haematomas).

Methods—
From 390 patients, 739 scans were selected from the STICH II image archive based on the availability of a CT scan compatible with OsiriX DICOM viewer. ICH volumes were calculated by the reference standard semiautomatic segmentation in OsiriX software and compared with calculated arithmetic methods (ABC/2, ABC/2.4, ABC/3, and 2/3SC) volumes. Volumes were compared by difference plots for specific groups: randomization ICH (n=374), 3- to 7-day postsurgical ICH (n=206), antithrombotic-associated ICH (n=79), irregular-shape ICH (n=703) and irregular-density ICH (n=650). Density and shape were measured by the Barras ordinal shape and density groups (1–5).

Results—
The ABC/2.4 method had the closest agreement to the semiautomatic segmentation volume in all groups, except for the 3- to 7-day postsurgical ICH group where the ABC/3 method was superior.

Conclusions—
Although the ABC/2 formula for calculating elliptical ICH is well validated, it must be used with caution in ICH scans where the elliptical shape of ICH is a false assumption. We validated the adjustment of the ABC/2.4 method in randomization, antithrombotic-associated, heterogeneous-density, and irregular-shape ICH.

Clinical Trial Registration—

URL:
http://www.isrctn.com/ISRCTN22153967
. Unique identifier: ISRCTN22153967.
Associations Between Collateral Status and Thrombus Characteristics and Their Impact in Anterior Circulation Stroke
Authors: Alves Heitor C. , Treurniet Kilian M. , Dutra Bruna G. , Jansen Ivo G. H. , Boers Anna M.M. , Santos Emilie M.M. , Berkhemer Olvert A. , Dippel Diederik W.J. , van der Lugt Aad , van Zwam Wim H. , van Oostenbrugge Robert J. , Lingsma Hester F. , Roos Yvo B.W.E.M. , Yoo Albert J. , Marquering Henk A. , Majoie Charles B.L.M. 
Published: January 2018

Background and Purpose—
Thrombus characteristics and collateral score are associated with functional outcome in patients with acute ischemic stroke. It has been suggested that they affect each other. The aim of this study is to evaluate the association between clot burden score, thrombus perviousness, and collateral score and to determine whether collateral score influences the association of thrombus characteristics with functional outcome.

Methods—
Patients with baseline thin-slice noncontrast computed tomography and computed tomographic angiography images from the MR CLEAN trial (Multicenter Randomized Clinical Trial of Endovascular Treatment of Acute Ischemic Stroke in the Netherlands) were included (n=195). Collateral score and clot burden scores were determined on baseline computed tomographic angiography. Thrombus attenuation increase was determined by comparing thrombus density on noncontrast computed tomography and computed tomographic angiography using a semiautomated method. The association of collateral score with clot burden score and thrombus attenuation increase was evaluated with linear regression. Mediation and effect modification analyses were used to assess the influence of collateral score on the association of clot burden score and thrombus attenuation increase with functional outcome.

Results—
A higher clot burden score (B=0.063; 95% confidence interval, 0.008–0.118) and a higher thrombus attenuation increase (B=0.014; 95% confidence interval, 0.003–0.026) were associated with higher collateral score. Collateral score mediated the association of clot burden score with functional outcome. The association between thrombus attenuation increase and functional outcome was modified by the collateral score, and this association was stronger in patients with moderate and good collaterals.

Conclusions—
Patients with lower thrombus burden and higher thrombus perviousness scores had higher collateral score. The positive effect of thrombus perviousness on clinical outcome was only present in patients with moderate and high collateral scores.

Clinical Trial Registration—

URL:
http://www.trialregister.nl
. Unique identifier: NTR1804 and URL:
http://www.controlled-trials.com
Unique identifier: ISRCTN10888758.