bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic analysis of the metabolome exemplified using a rice population
Authors: Gong Liang , Chen Wei , Gao Yanqiang , Liu Xianqing , Zhang Hongyan , Xu Caiguo , Yu Sibin , Zhang Qifa , Luo Jie 
Published: November 2013

Significance
Although plant metabolites are critical for both plant and human nutrition, the genetic control of the plant metabolome remains largely unknown. Here, a genetic analysis of the rice metabolome resulted in the identification of hundreds of metabolic quantitative trait loci with both high resolution and large effects. We observed distinct and overlapping accumulation patterns of metabolites and complex genetic regulation of metabolism in different tissues. Twenty-four candidate genes, mainly those underlying phenolics, were assigned and the corresponding pathways were reconstructed in rice. This study demonstrated a powerful tool and provided a vast amount of high-quality data for understanding the genetic and biochemical basis of the metabolome. It is also valuable for crop genetic improvement through metabolomics-assisted breeding.
Growth Environment Influences Grain Protein Composition and Dough Functional Properties in Three Australian Wheat Cultivars
Authors: Hasniza M. Z. Noor , Wilkes Meredith A. , Uthayakumaran Surjani , Copeland Les 
Published: November 2013

ABSTRACTThe objectives of this study were to assess how functional properties of proteins in whole meal wheat (Triticum aestivum L.) flour vary across different growth environments. Grain from three commercial Australian Hard milling wheat cultivars was analyzed from four growth locations in 2008 and from two of the corresponding cultivars and locations in 2009. The protein content of the grain, soluble and insoluble extractable protein fractions, swelling index of glutenin (SIG), glutenin‐to‐gliadin ratio (Glu:Gli), percent unextractable polymeric protein (%UPP), and dough properties including force at maximum resistance (Rmax) and extensibility were measured. Based on analysis of variance of aggregated data for the cultivars, growth locations, and seasons, growth environment factors made significant contributions to variability in the total grain protein, Glu:Gli ratio, %UPP, SIG, Rmax, and extensibility of the wheat flour. Variability of protein content of the soluble and insoluble extractable protein fractions was mostly owing to genotype.
First Report of a Novel Begomovirus Associated with Yellow Vein Disease of Browne's Blechum (Blechum pyramidatum)
Authors: Tsai W. S. , Shih S. L. , Lee L. M. , Dolores L. M. , Kenyon L. 
Published: November 2013

Browne's Blechum (Blechum pyramidatum) is a common weed found in fields and waste grounds in the Philippines. A disease was observed causing begomovirus-like yellow/chlorotic leaf veins and shortened internodes of Browne's Blechum plants on the island of Luzon, Philippines; disease incidence ranged from 10 to 50% in fields in 2012. Samples were collected from two plants with symptoms from each of Laguna and Quezon provinces and one plant without symptoms from Laguna Province. All four samples from plants with symptoms tested positive for begomovirus by PCR using primer pair PAL1v1978B/PAR1c715H (2), but the symptomless plant sample did not. However, no virus DNA-B component was detected in any of the samples using either general detection primer pair DNABLC1/DNABLV2 or DNABLC2/DNABLV2 (1). Using abutting primers AFPH12W1-R2F (TCTGGATCCATTGTTGAACGAGT) and AFPH12W1-R2R (CCGGGATCCCACATTGTTAAACA), a complete DNA-A component sequence was obtained for a Laguna isolate (GenBank Accession No. KF446659) and for a Quezon isolate (KF446660). The Laguna and Quezon isolate sequences were 2,764 and 2,756 nucleotides, respectively, and shared 90.6% nucleotide sequence identity. Both had six open reading frames (ORFs)—two in the virus sense (V1 and V2) and four in the complementary sense (C1 to C4)—and the geminivirus conserved sequence (TAATATTAC). Based on BLASTn searching of GenBank and sequence analysis using MEGALIGN (DNASTAR), both isolates should be considered as a new begomovirus (tentatively named Blechum yellow vein virus, BlYVV) since their DNA-A sequences share less than 89% nucleotide identity with any other begomovirus. Both DNA sequences had the highest nucleotide identity (84.8 to 87.6%) with Papaya leaf curl Guangdong virus isolates (AJ558122, AY650283, FJ495184, FJ869907, and JN703795). To our knowledge, this is the first report of a previously unidentified begomovirus associated with yellow vein disease of this species. References: (1) S. K. Green et al. Plant Dis. 85:1286, 2001. (2) W. S. Tsai et al. Plant Pathol. 60:787, 2011.
Fungal Endopolygalacturonases Are Recognized as Microbe-Associated Molecular Patterns by the Arabidopsis Receptor-Like Protein RESPONSIVENESS TO BOTRYTIS POLYGALACTURONASES1
Authors: Zhang Lisha , Kars Ilona , Essenstam Bert , Liebrand Thomas W.H. , Wagemakers Lia , Elberse Joyce , Tagkalaki Panagiota , Tjoitang Devlin , van den Ackerveken Guido , van Kan Jan A.L. 
Published: November 2013

AbstractPlants perceive microbial invaders using pattern recognition receptors that recognize microbe-associated molecular patterns. In this study, we identified RESPONSIVENESS TO BOTRYTIS POLYGALACTURONASES1 (RBPG1), an Arabidopsis (Arabidopsis thaliana) leucine-rich repeat receptor-like protein, AtRLP42, that recognizes fungal endopolygalacturonases (PGs) and acts as a novel microbe-associated molecular pattern receptor. RBPG1 recognizes several PGs from the plant pathogen Botrytis cinerea as well as one from the saprotroph Aspergillus niger. Infiltration of B. cinerea PGs into Arabidopsis accession Columbia induced a necrotic response, whereas accession Brno (Br-0) showed no symptoms. A map-based cloning strategy, combined with comparative and functional genomics, led to the identification of the Columbia RBPG1 gene and showed that this gene is essential for the responsiveness of Arabidopsis to the PGs. Transformation of RBPG1 into accession Br-0 resulted in a gain of PG responsiveness. Transgenic Br-0 plants expressing RBPG1 were equally susceptible as the recipient Br-0 to the necrotroph B. cinerea and to the biotroph Hyaloperonospora arabidopsidis. Pretreating leaves of the transgenic plants with a PG resulted in increased resistance to H. arabidopsidis. Coimmunoprecipitation experiments demonstrated that RBPG1 and PG form a complex in Nicotiana benthamiana, which also involves the Arabidopsis leucine-rich repeat receptor-like protein SOBIR1 (for SUPPRESSOR OF BIR1). sobir1 mutant plants did not induce necrosis in response to PGs and were compromised in PG-induced resistance to H. arabidopsidis.
Cultural and socio‐economic determinants of energy consumption on small remote islands
Authors: Lenzen Manfred , Krishnapillai Murukesan , Talagi Deveraux , Quintal Jodie , Quintal Denise , Grant Ron , Abraham Simpson , Ehmes Cindy , Murray Joy 
Published: November 2013

AbstractIn this cross‐country analysis of four small and remote islands, we integrate multiple dimensions of socio‐economic demographic data, such as population, land area, remoteness, tourist arrivals and earnings, export earnings, financial support, average incomes, fuel and electricity prices, penetration of renewable energy sources, and motor vehicle usage; we compare these characteristics with per capita use of energy carriers such as electricity, petrol and diesel. From these characteristics, we identify key determinants of energy consumption in the islands. Whereas we focus on energy, our analysis also applies to emissions of carbon and energy‐related pollutants. Our results indicate that cultural and social contexts are at least as relevant for policymaking as economic and technological aspects. We suggest that in small island developing States there is scope for policymaking to at the same time: reduce economic vulnerability due to dependence on imported fossil fuels; reduce environmental impact; and progress sustainable development. Such progress can be implemented through peer‐to‐peer learning programmes facilitated by targeted international cooperation and partnerships.
LCMS Analysis of Fingerprints, the Amino Acid Profile of 20 Donors
Authors: de Puit Marcel , Ismail Mahado , Xu Xiaoma 
Published: November 2013

AbstractThe analysis of amino acids present in fingerprints has been studied several times. In this paper, we report a method for the analysis of amino acids using an fluorenylmethyloxycarbonyl chloride‐derivatization for LC separation and MS detection. We have obtained good results with regard to the calibration curves and the limit of detection and LOQ for the target compounds. The extraction of the amino acids from the substrates used proved to be very efficient. Analysis of the derivatized amino acids enabled us to obtain full amino acid profiles for 20 donors. The intervariability is as expected rather large, with serine as the most abundant constituent, and when examining the total profile of the amino acids per donor, a characteristic pattern can be observed. Some amino acids were not detected in some donors, or fell out of the range of the calibration curve, where others showed a surprisingly high amount of material in the deposition analyses. Further investigations will have to address the intravariability of the amino acid profiles of the fingerprints from donors. By the development of the analytical method and the application to the analysis of fingerprints, we were able to gain insight in the variability of the constituents of fingerprints between the donors.
Activity of Endogenous Muscle Proteases from 4 Australian Underutilized Fish Species as Affected by Ionic Strength, pH, and Temperature
Authors: Ahmed Zeinab , Donkor Osaana N. , Street Wayne A. , Vasiljevic Todor 
Published: November 2013

AbstractStorage conditions may influence the hydrolytic activity of endogenous muscle enzymes postmortem, rate of autolysis of myofibrillar proteins, and biological properties of hydrolyzed end products. This study investigated the effect of ionic strength, pH, and temperature on the activity of endogenous calpain‐like, cathepsins B and B+L measured in crude extract obtained from deepwater flathead, silver warehou, ribaldo, and ribbonfish muscles. Activity of calpain‐like enzymes in 3 examined species was significantly higher at pH 6.5 than pH 6.0 or 5.5. Raising the reaction temperature increased (P < 0.05) calpain‐like activity in ribaldo. Endogenous activity of cathepsin B in ribbonfish and silver warehou declined significantly with increasing ionic strength at pH 6.5 to 6.0. The obtained results will further expand our understanding of the impact that postmortem storage conditions have on the activity of endogenous fish proteases with respect to quality and bioactivity of fish proteins and potentially diversify utilization of underutilized fish species.
Elective Use of Intra‐Aortic Balloon Pump During Aortic Valve Replacement in Elderly Patients to Reduce Postoperative Cardiac Complications
Authors: Nakahira Junko , Sawai Toshiyuki , Minami Toshiaki 
Published: November 2013

AbstractThis is a retrospective cohort study to determine if routine intra‐aortic balloon pump (IABP) placement prior to aortic valve replacement in elderly patients with severe aortic stenosis without significant coronary artery stenosis reduces cardiac complications. Participants were patients aged ≥70 years without significant coronary stenosis, who had severe aortic stenosis, and were undergoing isolated aortic valve replacement. Our primary endpoint was postoperative cardiac morbidity rate as a composite of the adverse cardiac events: elevated creatine kinase with muscle and brain subunits (CK‐MB)/CK (>5%), fatal ventricular arrhythmias requiring therapy, or catecholamine index of >10. Eighteen patients had elective IABP insertion prior to surgery, and 16 patients had no planned IABP insertion. One patient died (5.6%) in the elective IABP group (P = 1.0 compared with the non‐IABP group). The overall rate of in‐hospital death was 2.9% (1/34). In the non‐IABP group, one patient had rescue IABP insertion after surgery (6.3%). The elective IABP group had a significantly lower cardiac morbidity rate than the non‐IABP group (44.4 vs. 87.5%, respectively, P = 0.013). According to multivariate analysis using a logistic European system for cardiac operative risk evaluation value of >10% to define increased morbidity, elective IABP use significantly reduced cardiac morbidity (odds ratio, 0.11; 95% confidence interval, 0.02–0.67; P = 0.016). Additionally, the elective IABP group was more likely to show low CK‐MB/CK than the non‐IABP group (4.1 ± 1.9% vs. 6.1 ± 3.1%, respectively, P = 0.026). We concluded that among elderly aortic valve replacement patients without significant coronary artery stenosis, elective IABP use may reduce the incidence of major adverse cardiac events.
Testosterone and Hemoglobin in Hemodialysis Male and Female Patients
Authors: Ekart Robert , Taskovska Milena , Hojs Nina , Bevc Sebastjan , Hojs Radovan 
Published: November 2013

AbstractIt has been speculated that testosterone stimulates erythropoiesis. We hypothesized that hemoglobin levels in hemodialysis (HD) patients are associated with serum testosterone concentrations. Testosterone, hemoglobin, and other biochemical parameters were measured in a representative sample of 98 chronic HD patients (50 male, 48 female; age 30–90 years, mean 65 ± 13.9 years). We investigated relations among serum testosterone concentration, hemoglobin, ferritin, albumin, body mass index, lean body mass, total cholesterol, low‐density lipoprotein and high‐density lipoprotein cholesterol, triglycerides, high‐sensitivity C‐reactive protein (hsCRP), calcium (Ca), P, intact parathyroid hormone, N‐terminal pro‐brain natriuretic peptide, Karnofsky performance status, and blood pressure (BP) before and after HD. A statistically significant positive correlation between testosterone and hemoglobin was found in all patients (r = 0.25, P < 0.01), men (r = 0.34, P < 0.02), but not in women (r = 0.27, P = 0.07). Multiple regression analysis for all patients has shown statistically significant association between hemoglobin and testosterone (P < 0.001), hsCRP (P < 0.005), lean body mass (P < 0.05), post‐HD systolic (P < 0.04), and diastolic BP (P < 0.005). Multiple regression analysis in men has shown an association between hemoglobin and testosterone (P < 0.04) and post‐HD diastolic BP (P < 0.04) and in women association between hemoglobin and testosterone (P < 0.04), Ca (P < 0.03), and post‐HD diastolic BP (P < 0.03). We found an association between serum testosterone concentration and hemoglobin in male and female HD patients.
A Physiological Controller for Turbodynamic Ventricular Assist Devices Based on a Measurement of the Left Ventricular Volume
Authors: Ochsner Gregor , Amacher Raffael , Wilhelm Markus J. , Vandenberghe Stijn , Tevaearai Hendrik , Plass André , Amstutz Alois , Falk Volkmar , Schmid Daners Marianne 
Published: November 2013

AbstractThe current article presents a novel physiological control algorithm for ventricular assist devices (VADs), which is inspired by the preload recruitable stroke work. This controller adapts the hydraulic power output of the VAD to the end‐diastolic volume of the left ventricle. We tested this controller on a hybrid mock circulation where the left ventricular volume (LVV) is known, i.e., the problem of measuring the LVV is not addressed in the current article. Experiments were conducted to compare the response of the controller with the physiological and with the pathological circulation, with and without VAD support. A sensitivity analysis was performed to analyze the influence of the controller parameters and the influence of the quality of the LVV signal on the performance of the control algorithm. The results show that the controller induces a response similar to the physiological circulation and effectively prevents over‐ and underpumping, i.e., ventricular suction and backflow from the aorta to the left ventricle, respectively. The same results are obtained in the case of a disturbed LVV signal. The results presented in the current article motivate the development of a robust, long‐term stable sensor to measure the LVV.
Likelihood‐based analysis of longitudinal data from outcome‐related sampling designs
Authors: Neuhaus John M. , Scott Alastair J. , Wild Christopher J. , Jiang Yannan , McCulloch Charles E. , Boylan Ross 
Published: November 2013

SummaryInvestigators commonly gather longitudinal data to assess changes in responses over time and to relate these changes to within‐subject changes in predictors. With rare or expensive outcomes such as uncommon diseases and costly radiologic measurements, outcome‐dependent, and more generally outcome‐related, sampling plans can improve estimation efficiency and reduce cost. Longitudinal follow up of subjects gathered in an initial outcome‐related sample can then be used to study the trajectories of responses over time and to assess the association of changes in predictors within subjects with change in response. In this article, we develop two likelihood‐based approaches for fitting generalized linear mixed models (GLMMs) to longitudinal data from a wide variety of outcome‐related sampling designs. The first is an extension of the semi‐parametric maximum likelihood approach developed in Neuhaus, Scott and Wild (2002, Biometrika 89, 23–37) and Neuhaus, Scott and Wild (2006, Biometrics 62, 488–494) and applies quite generally. The second approach is an adaptation of standard conditional likelihood methods and is limited to random intercept models with a canonical link. Data from a study of attention deficit hyperactivity disorder in children motivates the work and illustrates the findings.
Climbing the Ladder: Gender‐Specific Career Advancement in Financial Services and the Influence of Flexible Work‐Time Arrangements
Authors: Noback Inge , Broersma Lourens , van Dijk Jouke 
Published: November 2013

AbstractThe aim of this study is to gain insight into the gender‐specific career advancement of about 10,000 middle‐ and top‐level managers in a Dutch financial services company. Our results indicate that women earn less, work at lower job levels, but show slightly higher career mobility than men. However, working a compressed four‐day nine‐hours‐a‐day workweek turns out to be favourable for women who are ‘rewarded’ for working full time, whereas men are ‘penalized’ for not working five days a week. Introducing this form of flexibility into a predominantly masculine organizational culture offers new opportunities for career advancement, albeit solely for women.
Evidence for General and Domain‐Specific Elements of Teacher–Child Interactions: Associations With Preschool Children's Development
Authors: Hamre Bridget , Hatfield Bridget , Pianta Robert , Jamil Faiza 
Published: November 2013

This study evaluates a model for considering domain‐general and domain‐specific associations between teacher–child interactions and children's development, using a bifactor analytic strategy. Among a sample of 325 early childhood classrooms there was evidence for both general elements of teacher–child interaction (responsive teaching) and domain‐specific elements related to positive management and routines and cognitive facilitation. Among a diverse population of 4‐year‐old children (n = 1,407) responsive teaching was modestly associated with development across social and cognitive domains, whereas positive management and routines was modestly associated with increases in inhibitory control and cognitive facilitation was associated with gains in early language and literacy skills. The conceptual and methodological contributions and challenges of this approach are discussed.
CD24hiCD27+ B cells from patients with allergic asthma have impaired regulatory activity in response to lipopolysaccharide
Authors: van der Vlugt L. E. P. M. , Mlejnek E. , Ozir‐Fazalalikhan A. , Janssen Bonas M. , Dijksman T. R. , Labuda L. A. , Schot R. , Guigas B. , Möller G. M. , Hiemstra P. S. , Yazdanbakhsh M. , Smits H. H. 
Published: November 2013

SummaryBackgroundRegulatory B cells have been identified that strongly reduce allergic and auto‐immune inflammation in experimental models by producing IL‐10. Recently, several human regulatory B‐cell subsets with an impaired function in auto‐immunity have been described, but there is no information on regulatory B cells in allergic asthma.ObjectiveIn this study, the frequency and function of IL‐10 producing B‐cell subsets in allergic asthma were investigated.MethodsIsolated peripheral blood B cells from 13 patients with allergic asthma and matched healthy controls were analyzed for the expression of different regulatory B‐cell markers. Next, the B cells were activated by lipopolysaccharide (LPS), CpG or through the B‐cell receptor, followed by co‐culture with endogenous memory CD4+ T cells and house dust mite allergen DerP1.ResultsLower number of IL‐10 producing B cells were found in patients in response to LPS, however, this was not the case when B cells were activated through the B‐cell receptor or by CpG. Further dissection showed that only the CD24hiCD27+ B‐cell subset was reduced in number and IL‐10 production to LPS. In response to DerP1, CD4+ T cells from patients co‐cultured with LPS‐primed total B cells produced less IL‐10 compared to similar cultures from controls. These results are in line with the finding that sorted CD24hiCD27+ B cells are responsible for the induction of IL‐10+ CD4+ T cells.ConclusionsTaken together, these data indicate that CD24hiCD27+ B cells from allergic asthma patients produce less IL‐10 in response to LPS leading to a weaker IL‐10 induction in T cells in response to DerP1, which may play a role in allergic asthma.
Glucagon‐like peptide‐1 analogue, liraglutide, improves liver fibrosis markers in obese women with polycystic ovary syndrome and nonalcoholic fatty liver disease
Authors: Kahal H. , Abouda G. , Rigby A. S. , Coady A. M. , Kilpatrick E. S. , Atkin S. L. 
Published: November 2013

SummaryIntroductionNonalcoholic fatty liver disease (NAFLD) has been linked to polycystic ovary syndrome (PCOS) and carries an increased risk of liver cirrhosis. Procollagen type 3 amino‐terminal peptide (PIIINP) is an independent predictor of liver cirrhosis.ObjectiveTo assess whether 6‐month treatment with GLP‐1 analogue, liraglutide, improves markers of liver fibrosis.DesignA case–control study comparing women with PCOS to age‐ and weight‐matched controls. PCOS was diagnosed according to the Rotterdam criteria. All participants underwent liver function tests and liver ultrasound scan to assess for fatty infiltration. Serum marker for liver fibrosis, PIIINP, was measured at baseline and after 6‐month treatment with liraglutide 1·8 mg od.ResultsNineteen women with PCOS and 17 controls were recruited, age 32·8 ± 7·2 vs 33·5 ± 6·7 years and weight 100·9 ± 16·7 vs 99·3 ± 14·7 kg, respectively. At baseline, the PCOS group had higher testosterone 1·2 ± 0·3 vs 0·9 ± 0·3 nm (P = 0·01), HOMA‐IR 5·1 ± 2·6 vs 3·5 ± 1·3 (P = 0·03), AST 22·4 ± 5·2 vs 18·8 ± 3·4 u/l (P = 0·04), PIIINP 4·4 ± 0·8 vs 3·5 ± 0·8 ug/ml (P = 0·01) and NAFLD seven (35%) vs none (P = 0·005), respectively. Twenty‐five (69%) participants completed the study (13 PCOS, 12 controls). Following treatment, weight was reduced by 3·0 ± 4·2 kg (P = 0·01) and 3·8 ± 3·4 kg (P = 0·001), respectively. Similarly, HOMA‐IR, hsCRP, triglycerides and urinary isoprostane significantly reduced in both groups. PIIINP significantly reduced the in PCOS group 4·4 ± 0·8 vs 3·7 ± 0·9 ug/ml (P < 0·01), but not in controls 3·5 ± 0·8 vs 3·2 ± 0·7 ug/ml (P = 0·08).ConclusionsTreatment with liraglutide, and/or associated weight loss, significantly reduced PIIINP levels in obese women with PCOS. This may be an additional beneficial factor when considering the use of liraglutide in women with PCOS, obesity and NAFLD.