bluuebunny/crossref_metadata_2025_split huggingface dataset:
Assessment and comparison of probiotic potential of four Lactobacillus species isolated from feces samples of Iranian infants
Authors: Halimi Shahnaz , Mirsalehian Akbar 
Published: December 2015

ABSTRACTThe probiotic potential of Lactobacillus species isolated from infant feces was investigated. For this study, the antibiotic susceptibility, tolerance in gut‐related conditions, antimicrobial activity, and ability to adhere to a human colorectal adenocarcinoma cell line (Caco‐2 cells) of four common Lactobacillus species (Lactobacillus paracasei [n = 15], Lactobacillus rhamnosus [n = 45], Lactobacillus gasseri [n = 20] and Lactobacillus fermentum [n = 18]) were assessed. Most isolates that which were sensitive to imipenem, ampicillin, gentamycin, erythromycin and tetracycline were selected for other tests. L. gasseri isolates had the greatest sensitivity to gastric and intestinal fluids (<10% viability). L. fermentum (FH5, FH13 and FH18) had the highest adhesion to Caco‐2 cells. The lowest antibacterial activity against pathogenic bacteria was shown by L. gasseri strains in spot tests. Furthermore, non‐adjusted cell‐free culture supernatants with low pH had greater antimicrobial activity, which was related to organic acid. The results showed that some isolates of L. rhamnosus and L. fermentum are suitable for use as a probiotic.
Phenolic Compounds, Volatiles, and Sensory Characteristics of Twelve Sweet Cherry (Prunus avium L.) Cultivars Grown in Turkey
Authors: Hayaloglu Ali Adnan , Demir Nurullah 
Published: December 2015

AbstractThe paper reports the phenolic, anthocyanin, and volatile compounds and sensory characteristics of 12 cultivars of sweet cherries including cvs. Belge, Bing, Dalbasti, Durona di Cesena, Lambert, Merton Late, Starks Gold, Summit, Sweetheart, Van, Vista, and 0–900 Ziraat. Eight individual phenolic compounds were determined by the HPLC‐DAD method. Among these cherries, cvs. Bing, Durona di Cesena, and Lambert contained higher levels of total individual phenolic compounds than the other cultivars. Six anthocyanins were detected in cherries and cyanidin‐3‐O‐rutinoside was principal and it was the highest level in cv. Bing. The major volatiles found were 1‐hexanol, (E)‐2‐hexen‐1‐ol, benzylalcohol, hexenal, (E)‐2‐hexenal, and benzaldehyde. Sensory evaluation of the cherries showed that cvs. Belge, Bing, Dalbasti, and Summit have higher textural and flavor scores than others. It was concluded that the same compounds for phenolic or volatiles profiles of sweet cherries were similar in qualitative; however, quantitative differences were observed in these cultivars.
Reservoir Operation with Feedback in a Coupled Land Surface and Hydrologic Model: A Case Study of the Huai River Basin, China
Authors: Lv Meixia , Hao Zhenchun , Lin Zhaohui , Ma Zhuguo , Lv Meizhao , Wang Jiahu 
Published: December 2015

AbstractRegarding emerging large‐scale reservoir operation models, reports of reservoir operation feedback for hydrologic modeling are rare, and little attention has been paid to flood control. An operation scheme considering multilevel flood control (MLFC) was first proposed in this study, but more reservoir information was needed. Thus, an alternative scheme was proposed that consisted of a modified version of the reservoir operation scheme in the Soil and Water Assessment Tool Model (MSWAT scheme). These schemes were coupled to a land surface and hydrologic model system with feedback, i.e., a system in which reservoir operation can affect the subsequent simulation, and were investigated in the Huai River Basin. The results show reservoir storage and peak flow were generally overestimated by the original SWAT reservoir scheme (SWAT scheme). Compared with the SWAT scheme, the MSWAT scheme successfully reduced the simulated storage and peak flow at the reservoir stations. For the downstream stations, the streamflow simulations were improved at a significance level of 5%. The performances of the MSWAT and MLFC schemes at the reservoir stations were nearly equivalent. Importantly, reservoir operation feedback to hydrologic modeling was necessary because the reservoir operation effects could not be transferred downstream without it. The streamflow simulation of a reservoir station located on a flat plain was less sensitive to feedback than that of a mountain reservoir station.
Whole‐genome resequencing of extreme phenotypes in collared flycatchers highlights the difficulty of detecting quantitative trait loci in natural populations
Authors: Kardos Marty , Husby Arild , McFarlane S. Eryn , Qvarnström Anna , Ellegren Hans 
Published: December 2015

AbstractDissecting the genetic basis of phenotypic variation in natural populations is a long‐standing goal in evolutionary biology. One open question is whether quantitative traits are determined only by large numbers of genes with small effects, or whether variation also exists in large‐effect loci. We conducted genomewide association analyses of forehead patch size (a sexually selected trait) on 81 whole‐genome‐resequenced male collared flycatchers with extreme phenotypes, and on 415 males sampled independent of patch size and genotyped with a 50K SNP chip. No SNPs were genomewide statistically significantly associated with patch size. Simulation‐based power analyses suggest that the power to detect large‐effect loci responsible for 10% of phenotypic variance was <0.5 in the genome resequencing analysis, and <0.1 in the SNP chip analysis. Reducing the recombination by two‐thirds relative to collared flycatchers modestly increased power. Tripling sample size increased power to >0.8 for resequencing of extreme phenotypes (N = 243), but power remained <0.2 for the 50K SNP chip analysis (N = 1245). At least 1 million SNPs were necessary to achieve power >0.8 when analysing 415 randomly sampled phenotypes. However, power of the 50K SNP chip to detect large‐effect loci was nearly 0.8 in simulations with a small effective population size of 1500. These results suggest that reliably detecting large‐effect trait loci in large natural populations will often require thousands of individuals and near complete sampling of the genome. Encouragingly, far fewer individuals and loci will often be sufficient to reliably detect large‐effect loci in small populations with widespread strong linkage disequilibrium.
A note on the use of multiple linear regression in molecular ecology
Authors: Frasier Timothy R. 
Published: December 2015

AbstractMultiple linear regression analyses (also often referred to as generalized linear models – GLMs, or generalized linear mixed models – GLMMs) are widely used in the analysis of data in molecular ecology, often to assess the relative effects of genetic characteristics on individual fitness or traits, or how environmental characteristics influence patterns of genetic differentiation. However, the coefficients resulting from multiple regression analyses are sometimes misinterpreted, which can lead to incorrect interpretations and conclusions within individual studies, and can propagate to wider‐spread errors in the general understanding of a topic. The primary issue revolves around the interpretation of coefficients for independent variables when interaction terms are also included in the analyses. In this scenario, the coefficients associated with each independent variable are often interpreted as the independent effect of each predictor variable on the predicted variable. However, this interpretation is incorrect. The correct interpretation is that these coefficients represent the effect of each predictor variable on the predicted variable when all other predictor variables are zero. This difference may sound subtle, but the ramifications cannot be overstated. Here, my goals are to raise awareness of this issue, to demonstrate and emphasize the problems that can result and to provide alternative approaches for obtaining the desired information.
Catatonia in 26 patients with bipolar disorder: clinical features and response to electroconvulsive therapy
Authors: Medda Pierpaolo , Toni Cristina , Luchini Federica , Giorgi Mariani Michela , Mauri Mauro , Perugi Giulio 
Published: December 2015

ObjectivesWe describe the clinical characteristics and short‐term outcomes of a sample of inpatients with bipolar disorder with severe catatonic features resistant to pharmacological treatment.MethodsThe study involved 26 catatonic patients, resistant to a trial of benzodiazepines, and then treated with electroconvulsive therapy (ECT). All patients were evaluated prior to and one week following the ECT course using the Bush–Francis Catatonia Rating Scale (BFCRS) and the Clinical Global Impression (CGI).ResultsIn our sample, women were over‐represented (n = 23, 88.5%), the mean (± standard deviation) age was 49.5 ± 12.5 years, the mean age at onset was 28.1 ± 12.8 years, and the mean number of previous mood episodes was 5.3 ± 2.9. The mean duration of catatonic symptoms was 16.7 ± 11.8 (range: 3–50) weeks, and personal history of previous catatonic episodes was present in 10 patients (38.5%). Seventeen (65.4%) patients showed abnormalities at cerebral computerized tomography and/or magnetic resonance imaging and neurological comorbidities were observed in 15.4% of the sample. Stupor, rigidity, staring, negativism, withdrawal, and mutism were observed in more than 90% of patients. At the end of the ECT course, 21 patients (80.8%) were classified as responders. The BFCRS showed the largest percentage of improvement, with an 82% reduction of the initial score. The number of previous mood episodes was significantly lower and the use of anticholinergic and dopamine‐agonist medications was significantly more frequent in non‐responders than in responders.ConclusionsOur patients with bipolar disorder had predominantly retarded catatonia, frequent previous catatonic episodes, indicating a recurrent course, and high rates of concomitant brain structure alterations. However, ECT was a very effective treatment for catatonia in this patient group that was resistant to benzodiazepines.
Lupus anti-ribosomal P autoantibody proteomes express convergent biclonal signatures
Authors: Al Kindi M A , Colella A D , Beroukas D , Chataway T K , Gordon T P 
Published: December 2015

SummaryLupus-specific anti-ribosomal P (anti-Rib-P) autoantibodies have been implicated in the pathogenesis of neurological complications in systemic lupus erythematosus (SLE). The aim of the present study was to determine variable (V)-region signatures of secreted autoantibody proteomes specific for the Rib-P heterocomplex and investigate the molecular basis of the reported cross-reactivity with Sm autoantigen. Anti-Rib-P immunoglobulins (IgGs) were purified from six anti-Rib-P-positive sera by elution from enzyme-linked immunosorbent assay (ELISA) plates coated with either native Rib-P proteins or an 11-amino acid peptide (11-C peptide) representing the conserved COOH-terminal P epitope. Rib-P- and 11-C peptide-specific IgGs were analysed for heavy (H) and light (L) chain clonality and V-region expression using an electrophoretic and de-novo and database-driven mass spectrometric sequencing workflow. Purified anti-Rib-P and anti-SmD IgGs were tested for cross-reactivity on ELISA and their proteome data sets analysed for shared clonotypes. Anti-Rib-P autoantibody proteomes were IgG1 kappa-restricted and comprised two public clonotypes defined by unique H/L chain pairings. The major clonotypic population was specific for the common COOH-terminal epitope, while the second shared the same pairing signature as a recently reported anti-SmD clonotype, accounting for two-way immunoassay cross-reactivity between these lupus autoantibodies. Sequence convergence of anti-Rib-P proteomes suggests common molecular pathways of autoantibody production and identifies stereotyped clonal populations that are thought to play a pathogenic role in neuropsychiatric lupus. Shared clonotypic structures for anti-Rib-P and anti-Sm responses suggest a common B cell clonal origin for subsets of these lupus-specific autoantibodies.
Connecting science, policy, and implementation for landscape‐scale habitat connectivity
Authors: Brodie Jedediah F. , Paxton Midori , Nagulendran Kangayatkarasu , Balamurugan G. , Clements Gopalasamy Reuben , Reynolds Glen , Jain Anuj , Hon Jason 
Published: December 2015

AbstractWe examined the links between the science and policy of habitat corridors to better understand how corridors can be implemented effectively. As a case study, we focused on a suite of landscape‐scale connectivity plans in tropical and subtropical Asia (Malaysia, Singapore, and Bhutan). The process of corridor designation may be more efficient if the scientific determination of optimal corridor locations and arrangement is synchronized in time with political buy‐in and establishment of policies to create corridors. Land tenure and the intactness of existing habitat in the region are also important to consider because optimal connectivity strategies may be very different if there are few, versus many, political jurisdictions (including commercial and traditional land tenures) and intact versus degraded habitat between patches. Novel financing mechanisms for corridors include bed taxes, payments for ecosystem services, and strategic forest certifications. Gaps in knowledge of effective corridor design include an understanding of how corridors, particularly those managed by local communities, can be protected from degradation and unsustainable hunting. There is a critical need for quantitative, data‐driven models that can be used to prioritize potential corridors or multicorridor networks based on their relative contributions to long‐term metacommunity persistence.
Impact of inter‐ and intra‐specific competition among larvae on larval, adult, and life‐table traits of Aedes aegypti and Aedes albopictus females
Authors: NODEN BRUCE H. , O'NEAL PAUL A. , FADER JOSEPH E. , JULIANO STEVEN A. 
Published: December 2015

1. Few studies have taken a comprehensive approach of measuring the impact of inter‐ and intra‐specific larval competition on adult mosquito traits. In this study, the impact of competition among Aedes aegypti (L.) and A. albopictus (Skuse) was quantified over the entire life of a cohort.2. Competitive treatments affected hatch‐to‐adult survivorship and the development time to adulthood of females for both species but affected the median wing length of females only for A. albopictus. Competitive treatments had no significant effect on the median adult female longevity nor were there any effects on other individual traits related to blood feeding and reproductive success.3. Analysis of life table traits revealed no effect of competitive treatment on the net reproductive rate (R0) but there were significant effects on the cohort generation time (Tc) and the cohort rate of increase (r) for both species.4. Inter‐ and intra‐specific competition among Aedes larvae may produce individual and population‐level effects that are manifest in adults; however, benign conditions may enable resulting adults to compensate for some impacts of competition, particularly those affecting blood‐feeding success, fecundity, and the net reproductive rate, R0. The effect of competition, therefore, affects primarily larva‐to‐adult survivorship and the larval development time, which in turn impacts the cohort generation time, Tc, and ultimately the cohort rate of increase, r.5. The lack of effects of the larval rearing environment on adult longevity suggests that effects on vectorial capacity owing to longevity may be limited if adults have easy access to sugar and bloodmeals.
Methods of inoculation and evaluation of Erwinia psidii in eucalypt
Authors: Ferraz H. G. M. , Demuner G. A. , Guimarães L. M. S. , Arriel D. A. A. , da Silva A. C. , Junior N. B. , Mafia R. G. , Alfenas A. C. 
Published: December 2015

SummaryThe dieback and wilting caused by Erwinia psidii are emerging eucalypt diseases that have been observed since 2014 in the south and central‐south regions of Brazil. Field observations have shown variability in disease severity resistance among Eucalyptus spp. clones and species. It is hypothesized that this variability is due to genetic resistance. To confirm this hypothesis, inoculations in genetically distinct eucalypt plants are necessary. However, lack of an inoculation method and disease assessment makes difficult to select resistant genotypes for use in commercial plantations or genetic breeding programmes. Three inoculation methods were tested on eight clones of Eucalyptus spp. Among them, inoculum deposition with bacteria‐impregnated toothpick on the axillary buds was the simplest and most effective, capable to reproduce the disease symptoms observed under conditions of natural infection. We also developed a rating scale for disease assessment. Among eight clones tested, only Clone 1 (Eucalyptus saligna) and Clone 2 (Eucalyptus urophylla) were resistant.
The ability of multipotent mesenchymal stromal cells from the bone marrow of patients with leukemia to maintain normal hematopoietic progenitor cells
Authors: Sorokina Tamara , Shipounova Irina , Bigildeev Alexey , Petinati Nataliya , Drize Nina , Turkina Anna , Chelysheva Ekaterina , Shukhov Oleg , Kuzmina Larisa , Parovichnikova Elena , Savchenko Valery 
Published: December 2015

AbstractBackgroundThe development of leukemia impairs normal hematopoiesis and marrow stromal microenvironment. The aim of the investigation was to study the ability of multipotent mesenchymal stromal cells (MSCs) derived from the bone marrow of patients with leukemia to maintain normal hematopoietic progenitor cells.MethodsMSCs were obtained from the bone marrow of 14 patients with acute lymphoblastic (ALL), 25 with myeloid (AML), and 15 with chronic myeloid (CML) leukemia. As a control, MSCs from 22 healthy donors were used. The incidence of cobblestone area forming cells (CAFC 7–8 d) in the bone marrow of healthy donor cultivated on the supportive layer of patients MSCs was measured.ResultsThe ability of MSCs from AML and ALL patients at the moment of diagnosis to maintain normal CAFC was significantly decreased when compared to donors. After chemotherapy, the restoration of ALL patients’ MSCs functions was slower than that of AML. CML MSCs maintained CAFC better than donors’ at the moment of diagnosis and this ability increased with treatment.ConclusionsThe ability of patients’ MSCs to maintain normal hematopoietic progenitor cells was shown to change in comparison with MSCs from healthy donors and depended on nosology. During treatment, the functional capacity of patients’ MSCs had been partially restored.
Towards a clinically informed, data‐driven definition of elderly onset epilepsy
Authors: Josephson Colin B. , Engbers Jordan D. T. , Sajobi Tolulope T. , Jette Nathalie , Agha‐Khani Yahya , Federico Paolo , Murphy William , Pillay Neelan , Wiebe Samuel 
Published: December 2015

SummaryObjectiveElderly onset epilepsy represents a distinct subpopulation that has received considerable attention due to the unique features of the disease in this age group. Research into this particular patient group has been limited by a lack of a standardized definition and understanding of the attributes associated with elderly onset epilepsy.MethodsWe used a prospective cohort database to examine differences in patients stratified according to age of onset. Linear support vector machine learning incorporating all significant variables was used to predict age of onset according to prespecified thresholds. Sensitivity and specificity were calculated and plotted in receiver‐operating characteristic (ROC) space. Feature coefficients achieving an absolute value of 0.25 or greater were graphed by age of onset to define how they vary with time.ResultsWe identified 2,449 patients, of whom 149 (6%) had an age of seizure onset of 65 or older. Fourteen clinical variables had an absolute predictive value of at least 0.25 at some point over the age of epilepsy‐onset spectrum. Area under the curve in ROC space was maximized between ages of onset of 65 and 70. Features identified through machine learning were frequently threshold specific and were similar, but not identical, to those revealed through simple univariable and multivariable comparisons.SignificanceThis study provides an empirical, clinically informed definition of “elderly onset epilepsy.” If validated, an age threshold of 65–70 years can be used for future studies of elderly onset epilepsy and permits targeted interventions according to the patient's age of onset.
Biomineralization changes with food supply confer juvenile scallops (Argopecten purpuratus) resistance to ocean acidification
Authors: Ramajo Laura , Marbà Núria , Prado Luis , Peron Sophie , Lardies Marco A. , Rodriguez‐Navarro Alejandro B. , Vargas Cristian A. , Lagos Nelson A. , Duarte Carlos M. 
Published: December 2015

AbstractFuture ocean acidification (OA) will affect physiological traits of marine species, with calcifying species being particularly vulnerable. As OA entails high energy demands, particularly during the rapid juvenile growth phase, food supply may play a key role in the response of marine organisms to OA. We experimentally evaluated the role of food supply in modulating physiological responses and biomineralization processes in juveniles of the Chilean scallop, Argopecten purpuratus, that were exposed to control (pH ~ 8.0) and low pH (pH ~ 7.6) conditions using three food supply treatments (high, intermediate, and low). We found that pH and food levels had additive effects on the physiological response of the juvenile scallops. Metabolic rates, shell growth, net calcification, and ingestion rates increased significantly at low pH conditions, independent of food. These physiological responses increased significantly in organisms exposed to intermediate and high levels of food supply. Hence, food supply seems to play a major role modulating organismal response by providing the energetic means to bolster the physiological response of OA stress. On the contrary, the relative expression of chitin synthase, a functional molecule for biomineralization, increased significantly in scallops exposed to low food supply and low pH, which resulted in a thicker periostracum enriched with chitin polysaccharides. Under reduced food and low pH conditions, the adaptive organismal response was to trade‐off growth for the expression of biomineralization molecules and altering of the organic composition of shell periostracum, suggesting that the future performance of these calcifiers will depend on the trajectories of both OA and food supply. Thus, incorporating a suite of traits and multiple stressors in future studies of the adaptive organismal response may provide key insights on OA impacts on marine calcifiers.