bluuebunny/crossref_metadata_2025_split huggingface dataset:
Survival probabilities and movements of harbor seals in central California
Authors: Manugian Suzanne C. , Greig Denise , Lee Derek , Becker Benjamin H. , Allen Sarah , Lowry Mark S. , Harvey James T. 
Published: August 2016

AbstractHarbor seal numbers and population trajectories differ by location in central California. Within San Francisco Bay (SFB) counts have been relatively stable since the 1972 Marine Mammal Protection Act, but in coastal areas like Tomales Bay (TB), counts increased before stabilizing in the 1990s. Emigration, poor survival, and environmental effects have been hypothesized as contributors to differences between trajectories; however, basic demographic data were not available to evaluate these hypotheses. We monitored 32 radio‐tagged adult females (SFB n = 17, TB n = 15) for 20 mo (2011–2013), and estimated survival, resight, and movement probabilities using mark‐resight analyses and multistate mark‐resight models. Annual survival probability for both sites was 0.90 (95% CI = 0.18–0.99). Six seals were observed moving between locations resulting in an estimated probability of 0.042 (95% CI = 0.023–0.076) per month equal movement between sites. Resight probability was less in SFB relative to TB, likely due to differential haul‐out access, area surveyed, visibility, and resight effort. Because of wide confidence intervals and low precision of these first estimates of adult female harbor seal survival in California, this demographic must be further examined to dismiss its contribution to differing population trajectories. Using aerial survey data, we estimated 950 harbor seals in SFB (95% CI = 715–1,184) confirming numbers are still stable.
Transcriptomic changes inNicotiana benthamianaplants inoculated with the wild‐type or an attenuated mutant ofTobacco vein banding mosaic virus
Authors: Geng Chao , Wang Hong‐Yan , Liu Jin , Yan Zhi‐Yong , Tian Yan‐Ping , Yuan Xue‐Feng , Gao Rui , Li Xiang‐Dong 
Published: August 2016

SummaryTobacco vein banding mosaic virus(TVBMV) is a potyvirus which mainly infects solanaceous crops. The helper component proteinase (HCpro) of a potyvirus is an RNA silencing suppressor protein and determines the severity of disease symptoms caused by different potyviruses, including TVBMV. It has been shown that substitution mutations introduced into the HCpro open reading frame (ORF) in a TVBMV infectious clone result in changes of Asp189to Lys or Ile250‐Gln251to Asp‐Glu (Asp, aspartic acid; Gln, glutamine; Glu, glutamic acid; Ile, isoleucine). These amino acid changes eliminate the RNA silencing suppression activity of the mutant HCpro (HCm) and attenuate the disease symptoms caused by the mutant TVBMV (T‐HCm) inNicotiana benthamianaplants. Here, we used RNA‐sequencing technology to compare gene expression in plants inoculated with the wild‐type TVBMV (T‐WT) with that in plants inoculated with T‐HCm at 1, 2 and 10 days post‐agroinfiltration (dpai). At 1 and 2 dpai,N. benthamianagenes related to the translation machinery were up‐regulated, whereas genes related to lipid biosynthesis and metabolism or to responses to extracellular/external stimuli were down‐regulated in leaves inoculated with T‐WT or T‐HCm. At 10 dpai, T‐WT infection repressed photosynthesis‐related genes. T‐WT and T‐HCm infections differentially perturbed the genes involved in the RNA silencing pathway. The salicylic acid and ethylene signalling pathways were induced, but the jasmonic acid signalling pathway was repressed after T‐WT infection. Infections of T‐WT and T‐HCm also differentially regulated the genes involved in auxin signalling transduction, which is known to associate with the stunting phenotypes caused by TVBMV. These results illustrate the dynamic nature of TVBMV infection inN.benthamianaat the transcriptomic level.
Validation and Reliability of the Portuguese Version of the Michigan Neuropathy Screening Instrument
Authors: Barbosa Margarida , Saavedra Ana , Severo Milton , Maier Christoph , Carvalho Davide 
Published: August 2016

AbstractBackgroundDiabetic peripheral neuropathy is very common in the diabetic population. Early screening for foot pathology is of the utmost importance. The Michigan Neuropathy Screening Instrument (MNSI) is an easy, brief, and noninvasive screening tool. The aim of this study was to validate the semantics and characteristics of both sections of the Portuguese translation of the MNSI for Portuguese diabetic patients.MethodsA cross‐sectional study was performed on 87 type 1 and 2 diabetic patients at our outpatient endocrinology department. The final sample was composed of 76 patients. Nerve conduction studies were requested, but only a subsample of 42 patients agreed to participate in them.ResultsThe scale was internally consistent (Cronbach's alpha > 0.70 in section A, or a clinical history questionnaire and a physical examination [section B]), and the scores of both sections were positively correlated (r = 0.70; P < 0.001). With regard to stability, MNSI scores between test/retest showed high stability (intraclass correlation coefficient = 0.91). The receiver‐operating characteristic (ROC) demonstrated its validity, with ROC curve values for section A, section B, and sections A + B of 0.913, 0.798, and 0.906 respectively. Considering a cut off of ≥ 3 in section A and of ≥ 2 in section B, we obtained a sensitivity of 100% and 86%; a specificity of 64% and 61%; a positive predictive value of 80% and 73%; and a negative predictive value of 100% and 79%, respectively.ConclusionsThe Portuguese MNSI is a reliable and valid tool for screening diabetic neuropathy.
Insecure romantic attachment dimensions and frequency of mate retention behaviors
Authors: BARBARO NICOLE , PHAM MICHAEL N. , SHACKELFORD TODD K. , ZEIGLER‐HILL VIRGIL 
Published: August 2016

AbstractIndividual differences in attachment bonds may influence the performance of mate retention behaviors. Because anxiously attached individuals are hypervigilant to partner rejection cues, we hypothesize that individuals higher in anxious attachment will perform more frequent mate retention behaviors. Because avoidantly attached individuals evade intimacy with their partners, we hypothesize that individuals higher in avoidant attachment will perform less frequent mate retention behaviors. Participants (N = 469) in a romantic relationship completed measures of romantic attachment and mate retention behaviors. The results provide support for the study hypotheses but also reveal that avoidantly attached women perform more frequent mate retention behaviors that deter intrasexual rivals. We discuss limitations of this research and highlight directions for research on romantic attachment, mate retention behaviors, and infidelity.
Heterogeneous Change Point Inference
Authors: Pein Florian , Sieling Hannes , Munk Axel 
Published: August 2016

Summary
We propose, a heterogeneous simultaneous multiscale change point estimator called ‘H-SMUCE’ for the detection of multiple change points of the signal in a heterogeneous Gaussian regression model. A piecewise constant function is estimated by minimizing the number of change points over the acceptance region of a multiscale test which locally adapts to changes in the variance. The multiscale test is a combination of local likelihood ratio tests which are properly calibrated by scale-dependent critical values to keep a global nominal level α, even for finite samples. We show that H-SMUCE controls the error of overestimation and underestimation of the number of change points. For this, new deviation bounds for F-type statistics are derived. Moreover, we obtain confidence sets for the whole signal. All results are non-asymptotic and uniform over a large class of heterogeneous change point models. H-SMUCE is fast to compute, achieves the optimal detection rate and estimates the number of change points at almost optimal accuracy for vanishing signals, while still being robust. We compare H-SMUCE with several state of the art methods in simulations and analyse current recordings of a transmembrane protein in the bacterial outer membrane with pronounced heterogeneity for its states. An R-package is available on line.
Myeloid‐Derived Suppressor Cells in Cancers and Inflammatory Diseases: Angel or Demon?
Authors: Su Z. , Ni P. , Zhou C. , Wang J. 
Published: August 2016

AbstractMyeloid‐derived suppressor cell (MDSC) is an important heterogeneous cell population that regulates innate and adaptive immune. The immunosuppressive potentiality is widely known. However, more and more data indicated that the heterogeneous cell population had immunostimulatory activities rather than immunosuppression in some microenvironments. Chronic inflammatory conditions contribute to accumulation of MDSCs. These pathologically activated cells played critical roles in cancer and inflammatory diseases. In this review, we mainly discuss the immunoregulation potentiality of MDSCs in cancer and inflammatory diseases.
Potential serious bias in National Clinical Databases with low degree of reported follow‐up
Authors: Bjerre J. J. , Jensen P. K. , Sparsø B. H. , Krogsgaard M. R. 
Published: August 2016

We identified reasons for the low follow‐up rate in the Danish Knee ligament Reconstruction Register (DKRR) and evaluated its influence on the data quality. All 946 primary ACL‐reconstructed patients in the Capital Region of Denmark during 2012 were identified in the databases of 8 participating hospitals. We studied the patient files and compared them to figures reported to the DKRR. 92.5% of the operated patients was registered in DKRR. The 1‐year follow‐up rate reported to DKRR was 33.4%, and 14.5% filled in patient reported outcomes (KOOS and Tegner) at 1 year. Only 65% had actually been invited for follow‐up, but among the patients who had been invited 91% were seen. 41% of existing follow‐up data was not reported. Contemporary technology and structured motivation should be introduced to increase validity of data in national clinical databases. Follow‐up >90% in the DKRR is realistic if patents are invited and reported. The unreported data is potentially a serious bias. It is suggested that data from clinics with low follow‐up should not be used in studies involving outcomes based on national databases because of risk of bias.
Generating References in Naturalistic Face‐to‐Face and Phone‐Mediated Dialog Settings
Authors: Knutsen Dominique , Ros Christine , Le Bigot Ludovic 
Published: August 2016

AbstractDuring dialog, references are presented, accepted, and potentially reused (depending on their accessibility in memory). Two experiments were conducted to examine reuse in a naturalistic setting (a walk in a familiar environment). In Experiment 1, where the participants interacted face to face, self‐presented references and references accepted through verbatim repetition were reused more. Such biases persisted after the end of the interaction. In Experiment 2, where the participants interacted over the phone, reference reuse mainly depended on whether the participant could see the landmarks being referred to, although this bias seemed to be only transient. Consistent with the memory‐based approach to dialog, these results shed light on how differences in accessibility in memory (due to how these references were initially added to the common ground or the media used) affect the unfolding of the interaction.
A tracking system to calculate patient skin dose in real‐time during neurointerventional procedures using a biplane x‐ray imaging system
Authors: Rana V. K. , Rudin S. , Bednarek D. R. 
Published: August 2016

Purpose:Neurovascular interventional procedures using biplane fluoroscopic imaging systems can lead to increased risk of radiation‐induced skin injuries. The authors developed a biplane dose tracking system (Biplane‐DTS) to calculate the cumulative skin dose distribution from the frontal and lateral x‐ray tubes and display it in real‐time as a color‐coded map on a 3D graphic of the patient for immediate feedback to the physician. The agreement of the calculated values with the dose measured on phantoms was evaluated.Methods:The Biplane‐DTS consists of multiple components including 3D graphic models of the imaging system and patient, an interactive graphical user interface, a data acquisition module to collect geometry and exposure parameters, the computer graphics processing unit, and functions for determining which parts of the patient graphic skin surface are within the beam and for calculating dose. The dose is calculated to individual points on the patient graphic using premeasured calibration files of entrance skin dose per mAs including backscatter; corrections are applied for field area, distance from the focal spot and patient table and pad attenuation when appropriate. The agreement of the calculated patient skin dose and its spatial distribution with measured values was evaluated in 2D and 3D for simulated procedure conditions using a PMMA block phantom and an SK‐150 head phantom, respectively. Dose values calculated by the Biplane‐DTS were compared to the measurements made on the phantom surface with radiochromic film and a calibrated ionization chamber, which was also used to calibrate the DTS. The agreement with measurements was specifically evaluated with variation in kVp, gantry angle, and field size.Results:The dose tracking system that was developed is able to acquire data from the two x‐ray gantries on a biplane imaging system and calculate the skin dose for each exposure pulse to those vertices of a patient graphic that are determined to be in the beam. The calculations are done in real‐time with a typical graphic update time of 30 ms and an average vertex separation of 3 mm. With appropriate corrections applied, the Biplane‐DTS was able to determine the entrance dose within 6% and the spatial distribution of the dose within 4% compared to the measurements with the ionization chamber and film for the SK150 head phantom. The cumulative dose for overlapping fields from both gantries showed similar agreement.Conclusions:The Biplane‐DTS can provide a good estimate of the peak skin dose and cumulative skin dose distribution during biplane neurointerventional procedures. Real‐time display of this information should help the physician manage patient dose to reduce the risk of radiation‐induced skin injuries.
Time‐integrated activity coefficient estimation for radionuclide therapy using PET and a pharmacokinetic model: A simulation study on the effect of sampling schedule and noise
Authors: Hardiansyah Deni , Guo Wei , Kletting Peter , Mottaghy Felix M. , Glatting Gerhard 
Published: August 2016

Purpose:The aim of this study was to investigate the accuracy of PET‐based treatment planning for predicting the time‐integrated activity coefficients (TIACs).Methods:The parameters of a physiologically based pharmacokinetic (PBPK) model were fitted to the biokinetic data of 15 patients to derive assumed true parameters and were used to construct true mathematical patient phantoms (MPPs). Biokinetics of 150 MBq 68Ga‐DOTATATE‐PET was simulated with different noise levels [fractional standard deviation (FSD) 10%, 1%, 0.1%, and 0.01%], and seven combinations of measurements at 30 min, 1 h, and 4 h p.i. PBPK model parameters were fitted to the simulated noisy PET data using population‐based Bayesian parameters to construct predicted MPPs. Therapy simulations were performed as 30 min infusion of 90Y‐DOTATATE of 3.3 GBq in both true and predicted MPPs. Prediction accuracy was then calculated as relative variability vorgan between TIACs from both MPPs.Results:Large variability values of one time‐point protocols [e.g., FSD = 1%, 240 min p.i., vkidneys = (9 ± 6)%, and vtumor = (27 ± 26)%] show inaccurate prediction. Accurate TIAC prediction of the kidneys was obtained for the case of two measurements (1 and 4 h p.i.), e.g., FSD = 1%, vkidneys = (7 ± 3)%, and vtumor = (22 ± 10)%, or three measurements, e.g., FSD = 1%, vkidneys = (7 ± 3)%, and vtumor = (22 ± 9)%.Conclusions:68Ga‐DOTATATE‐PET measurements could possibly be used to predict the TIACs of 90Y‐DOTATATE when using a PBPK model and population‐based Bayesian parameters. The two time‐point measurement at 1 and 4 h p.i. with a noise up to FSD = 1% allows an accurate prediction of the TIACs in kidneys.
Genome Sequences of
Gordonia terrae
Bacteriophages Phinally and Vivi2
Authors: Pope Welkin H. , Anderson Kaitlyn C. , Arora Charu , Bortz Michael E. , Burnet George , Conover David H. , D'Incau Gina M. , Ghobrial Jonathan A. , Jonas Audrey L. , Migdal Emily J. , Rote Nicole L. , German Brian A. , McDonnell Jill E. , Mezghani Nadia , Schafer Claire E. , Thompson Paige K. , Ulbrich Megan C. , Yu Victor J. , Furbee Emily C. , Grubb Sarah R. , Warner Marcie H. , Montgomery Matthew T. , Garlena Rebecca A. , Russell Daniel A. , Jacobs-Sera Deborah , Hatfull Graham F. 
Published: August 2016

ABSTRACT

Bacteriophages Phinally and Vivi2 were isolated from soil from Pittsburgh, Pennsylvania, USA, using host
Gordonia terrae
3612. The Phinally and Vivi2 genomes are 59,265 bp and 59,337 bp, respectively, and share sequence similarity with each other and with GTE6. Fewer than 25% of the 87 to 89 putative genes have predictable functions.
Draft Genome Sequences for Seven
Streptococcus parauberis
Isolates from Wild Fish in the Chesapeake Bay
Authors: Haines Ashley , Nebergall Emily , Besong Elvira , Council Kimaya , Lambert Onaysha , Gauthier David 
Published: August 2016

ABSTRACT

Streptococcus parauberis
is a pathogen of cattle and fish, closely related
Streptococcus uberis and Streptococcus iniae
. We report the genomes of seven
S. parauberis
strains recovered from striped bass (
Morone saxatilis
) in the Chesapeake Bay. The availability of these genomes will allow comparative genomic analysis of Chesapeake Bay
S. parauberis
strains versus
S. parauberis
cultured from other animal hosts and geographic regions.
Draft Genome Sequences of
Stenotrophomonas maltophilia
Strains Sm32COP, Sm41DVV, Sm46PAILV, SmF3, SmF22, SmSOFb1, and SmCVFa1, Isolated from Different Manures in France
Authors: Bodilis Josselin , Youenou Benjamin , Briolay Jérome , Brothier Elisabeth , Favre-Bonté Sabine , Nazaret Sylvie 
Published: August 2016

ABSTRACT

Stenotrophomonas maltophilia
is a major opportunistic human pathogen responsible for nosocomial infections. Here, we report the draft genome sequences of Sm32COP, Sm41DVV, Sm46PAILV, SmF3, SmF22, SmSOFb1, and SmCVFa1, isolated from different manures in France, which provide insights into the genetic determinism of intrinsic or acquired antibiotic resistance in this species.
Complete Genome Sequence of a Novel Strain of Cyanobacterium,
Anabaena
sp. 4-3
Authors: Pfeffer Sarah , Sowa Steven , Brown R. Malcolm 
Published: August 2016

ABSTRACT

We report the complete nucleotide sequence of
Anabaena
sp. 4-3, an efficient producer of sucrose. It was isolated from salt flats near the University of Texas Marine Science Institute in Port Aransas, Texas. The genome may provide insight into the utilization of cyanobacteria as a source for biofuels.
First Genome Sequence of Wild Onion Symptomless Virus, a Novel Member of
Potyvirus
in the Turnip Mosaic Virus Phylogenetic Group
Authors: Ohshima Kazusato , Korkmaz Savas , Mitoma Shinichiro , Nomiyama Rei , Honda Yuki 
Published: August 2016

ABSTRACT

The nearly complete genome sequence of a new species of potyvirus was obtained from the symptomless wild onion (
Allium
sp.) in Turkey. This virus has less than 67% nucleotide sequence identities over the polyprotein to other known potyviruses. We propose the name wild onion symptomless virus for this novel potyvirus.
Draft Genome Sequence of
Rheinheimera
sp. Strain SA_1 Isolated from Iron Backwash Sludge in Germany
Authors: Schröder Josephin , Braun Burga , Liere Karsten , Szewzyk Ulrich 
Published: August 2016

ABSTRACT

Rheinheimera
sp. strain SA_1 is an iron-depositing bacterium for which we report a draft genome sequence. Strain SA_1 was isolated from iron backwash sludge of a waterworks in Germany. The Illumina MiSeq technique was used to sequence the genome of the strain.
Genomic Insights into
Aquimarina
sp. Strain EL33, a Bacterial Symbiont of the Gorgonian Coral
Eunicella labiata
Authors: Keller-Costa Tina , Silva Rúben , Lago-Lestón Asunción , Costa Rodrigo 
Published: August 2016

ABSTRACT

To address the metabolic potential of symbiotic
Aquimarina
spp., we report here the genome sequence of
Aquimarina
sp. strain EL33, a bacterium isolated from the gorgonian coral
Eunicella labiata
. This first-described (to our knowledge) animal-associated
Aquimarina
genome possesses a sophisticated repertoire of genes involved in drug/antibiotic resistance and biosynthesis.
Draft Genome Sequence of the Sulfate-Reducing Bacterium
Desulfotomaculum copahuensis
Strain CINDEFI1 Isolated from the Geothermal Copahue System, Neuquén, Argentina
Authors: Willis Poratti Graciana , Yaakop Amira Suriaty , Chan Chia Sing , Urbieta M. Sofía , Chan Kok-Gan , Ee Robson , Tan-Guan-Sheng Adrian , Goh Kian Mau , Donati Edgardo R. 
Published: August 2016

ABSTRACT

Desulfotomaculum copahuensis
strain CINDEFI1 is a novel spore-forming sulfate-reducing bacterium isolated from the Copahue volcano area, Argentina. Here, we present its draft genome in which we found genes related with the anaerobic respiration of sulfur compounds similar to those present in the Copahue environment.
Evidence-based clinical practice update: practice guidelines for anterior cruciate ligament rehabilitation based on a systematic review and multidisciplinary consensus
Authors: van Melick Nicky , van Cingel Robert E H , Brooijmans Frans , Neeter Camille , van Tienen Tony , Hullegie Wim , Nijhuis-van der Sanden Maria W G 
Published: August 2016

AimThe Royal Dutch Society for Physical Therapy (KNGF) instructed a multidisciplinary group of Dutch anterior cruciate ligament (ACL) experts to develop an evidence statement for rehabilitation after ACL reconstruction.DesignClinical practice guideline underpinned by systematic review and expert consensus.Data sourcesA multidisciplinary working group and steering group systematically reviewed the literature and wrote the guideline. MEDLINE and the Cochrane Library were searched for meta-analyses, systematic reviews, randomised controlled trials and prospective cohort studies published between January 1990 and June 2015.Eligibility criteria for selecting studiesIncluded literature must have addressed 1 of 9 predetermined clinical topics: (1) preoperative predictors for postoperative outcome, (2) effectiveness of physical therapy, (3) open and closed kinetic chain quadriceps exercises, (4) strength and neuromuscular training, (5) electrostimulation and electromyographic feedback, (6) cryotherapy, (7) measurements of functional performance, (8) return to play and (9) risk for reinjury.SummaryNinety studies were included as the basis for the evidence statement. Rehabilitation after ACL injury should include a prehabilitation phase and 3 criterion-based postoperative phases: (1) impairment-based, (2) sport-specific training and (3) return to play. A battery of strength and hop tests, quality of movement and psychological tests should be used to guide progression from one rehabilitation stage to the next. Postoperative rehabilitation should continue for 9–12 months. To assess readiness to return to play and the risk for reinjury, a test battery, including strength tests, hop tests and measurement of movement quality, should be used.