bluuebunny/crossref_metadata_2025 huggingface dataset:
Structure and function of conjugative pili: inducible synthesis of functional F pili by Escherichia coli K-12 containing a lac-tra operon fusion
Authors: Grossman T H , Silverman P M
Published: December 2016

In vivo and in vitro recombination methods were used to construct the recombinant plasmid pTG801, in which the F-plasmid DNA transfer (tra) genes required for the formation of functional F pili were placed under the lac transcriptional control sequences of pUC19. The 20 kilobases of cloned F DNA includes genes traA through the 5'-terminal part of traG; the plasmid lacks the positive regulatory gene traJ and all of the known tra genes required for the DNA transfer stage of conjugation. pTG801 transformants were sensitive to the donor-specific bacteriophages Q beta and f1, as measured by the formation of infectious centers. They were relatively insensitive to bacteriophage R17, as expected from the absence of traD. In the presence of a lacIq allele, sensitivity of pTG801 transformants to f1 and Q beta depended on the concentration of inducer (isopropyl-beta-D-thiogalactopyranoside [IPTG]). Viewed by electron microscopy, pTG801 transformants elaborated 7- to 10-nm-diameter filaments that could be laterally decorated with RNA bacteriophage particles, consistent with the formation of F pili. In stationary-phase cultures, these filaments formed massive aggregates and could be seen to adhere lengthwise to the cell surface; few pili accumulated in the medium as single filaments.
Overinitiation of replication of the Escherichia coli chromosome from an integrated runaway-replication derivative of plasmid R1
Authors: Bernander R , Merryweather A , Nordström K
Published: December 2016

A 16-base-pair fragment, deletion of which completely inactivated oriC, was replaced by a temperature-dependent runaway-replication derivative (the copy number of which increases with temperature) of the IncFII plasmid R1. The constructed strains were temperature sensitive, and flow cytometry revealed a severalfold increase in the DNA/mass ratio following shifts to nonpermissive temperatures. The cell size distribution was broader in the constructed strains relative to that in the wild type because of asynchrony between the chromosome replication and cell division cycles. This difference was more pronounced for counterclockwise initiation of chromosomal replication, in which small DNA-less cells and long filaments were abundant. Following a temperature shift the cell size distributions became even more broad, showing that changes in the frequency of chromosomal replication affect cell division and emphasizing the interplay between these two processes.
Correlation between histidine operon expression and guanosine 5'-diphosphate-3'-diphosphate levels during amino acid downshift in stringent and relaxed strains of Salmonella typhimurium
Authors: Shand R F , Blum P H , Mueller R D , Riggs D L , Artz S W
Published: December 2016

We have analyzed the correlation of attenuator-independent expression of the Salmonella typhimurium histidine operon in vivo with levels of the "alarmone" guanosine 5'-diphosphate 3'-diphosphate. Amino acid downshift caused by serine hydroxamate addition increased his expression in a relA+ strain and decreased his expression in a relA mutant, whereas levels of guanosine 5'-diphosphate-3'-diphosphate varied in parallel with the changes in his expression in the two strains. In several experiments, overall variations in his expression ranged from 20- to 60-fold after downshift. The mild downshift allowed growth of the cultures to continue at near-preshift rates. Serine hydroxamate addition was also used to analyze the effect of amino acid downshift on induced expression of wild-type and mutant lac promoters. There was a 12-fold difference in lac expression when a relA+-relA1 pair was subjected to mild starvation but only a 3-fold difference when the strains carried the lacZpL8UV5 promoter mutation. These results suggest that guanosine 5'-diphosphate-3'-diphosphate stimulates gene expression in vivo at the level of transcription initiation.
Channel architecture in maltoporin: dominance studies with lamB mutations influencing maltodextrin binding provide evidence for independent selectivity filters in each subunit
Authors: Ferenci T , Lee K S
Published: December 2016

Maltoporin trimers constitute maltodextrin-selective channels in the outer membrane of Escherichia coli. To study the organization of the maltodextrin-binding site within trimers, dominance studies were undertaken with maltoporin variants of altered binding affinity. It has been established that amino acid substitutions at three dispersed regions of the maltoporin sequence (at residues 8, 82, and 360) resulted specifically in maltodextrin-binding defects and loss of maltodextrin channel selectivity; a substitution at residue 118 increased both binding affinity and maltodextrin transport. Strains heterodiploid for lamB were constructed in which these substitutions were encoded by chromosomal and plasmid-borne genes, and the relative level of maltoporin expression from these genes was estimated. Binding assays with bacteria forming maltoporin heterotrimers were performed in order to test for complementation between binding-negative alleles, negative dominance of negative over wild-type alleles, and possible dominance of negatives over the high-affinity allele. Double mutants with mutations affecting residues 8 and 118, 82 and 118, and 118 and 360 were constructed in vitro, and the dominance properties of the mutations in cis were also tested. There was no complementation between negatives and no negative dominance in heterotrimers. The high-affinity mutation was dominant over negatives in trans but not in cis. The affinity of binding sites in heterotrimer populations was characteristic of the high-affinity allele present and uninfluenced by the negative allele. These results are consistent with the presence of three discrete binding sites in a maltoporin trimer and suggest that the selectivity filter for maltodextrins is not at the interface between the three subunits.
L-1,2-propanediol exits more rapidly than L-lactaldehyde from Escherichia coli
Authors: Zhu Y , Lin E C
Published: December 2016

Catabolism of the six-carbon compound L-fucose results in formation of dihydroxyacetone phosphate (C-1-to-C-3 fragment) and L-lactaldehyde (C-4-to-C-6 fragment) as intermediates. The fate of lactaldehyde depends on the respiratory growth conditions. Aerobically, lactaldehyde is oxidized to L-lactate by an NAD-linked dehydrogenase (ald product). L-Lactate, in turn, is converted to pyruvate, which enters the general metabolic pool. Anaerobically, lactaldehyde is reduced to L-1,2-propanediol by an NADH-linked oxidoreductase (fucO product). L-1,2-Propanediol is excreted as a terminal fermentation product. In a previous study, we showed that retention of the C-4-to-C-6 fragment of fucose depended on the competition for lactaldehyde by aldehyde dehydrogenase and propanediol oxidoreductase (Y. Zhu and E.C.C. Lin, J. Bacteriol. 169:785-789, 1987). In this study, we compared the wild-type strain and isogenic mutant strains defective in ald, fucO, or both for ability to accumulate radioactivity when incubated with fucose labeled at either the C-1 or the C-6 position. The results showed that although blocking the oxidation of lactaldehyde prevented its assimilation, rapid exit of the 3-carbon unit occurred only when the compound was reduced to propanediol. Moreover, growth experiments on fucose indicated that a double ald fucO mutant accumulated inhibiting concentrations of lactaldehyde. The inner cell membrane therefore appears to be much more permeable to the 3-carbon alcohol than to the 3-carbon aldehyde. The almost instantaneous exit of propanediol appears to be a facilitated process.
Plasmid-determined inducible efflux is responsible for resistance to cadmium, zinc, and cobalt in Alcaligenes eutrophus
Authors: Nies D H , Silver S
Published: December 2016

In Alcaligenes eutrophus CH34, resistance to chromate is plasmid determined, inducible, and based on decreased net accumulation of the metal anion. Plasmid-encoded resistances to zinc, cadmium, cobalt, and nickel are resulting from inducible, energy-dependent cation efflux systems.
Cloning, nucleotide sequence, and characterization of genes encoding the secretion function of the Pasteurella haemolytica leukotoxin determinant
Authors: Strathdee C A , Lo R Y
Published: December 2016

The structural gene of the Pasteurella haemolytica leukotoxin determinant is highly homologous to that of the Escherichia coli hemolysin determinant, which also encodes a specialized set of genes involved in the secretion of the hemolysin. In this report, we describe the cloning and nucleotide sequence of the analogous secretion genes from P. haemolytica which make up the remainder of the leukotoxin determinant. The secretion genes were cloned directly from the P. haemolytica chromosome to form the recombinant plasmid pPH5B. By subcloning the secretion genes together with the leukotoxin structural gene, the cloned leukotoxin determinant was reconstructed on a single plasmid, pLKT52, which directs the synthesis of active leukotoxin to the culture supernatant when expressed in E. coli. DNA sequence analysis showed the presence of two secretion genes, designated lktB and lktD in order of their genetic organization, which code for proteins of 79.7 and 54.7 kilodaltons, both of which were detected when pLKT52 was expressed in E. coli minicells. The lktB and lktD genes were found to be highly homologous to the hlyB and hlyD secretion genes of the hemolysin determinant, and the predicted LktB-HlyB and LktD-HlyD proteins were 90.5 and 75.6% homologous. Nucleotide sequence homology between the leukotoxin and hemolysin determinants was limited to the C, A, B, and D coding regions, although the presence of similar transcriptional terminators in the A-B intercistronic region is suggestive of a similar transcriptional organization. On the basis of these data, we hypothesize that the two determinants share a common evolutionary history and are prototypes for a widely disseminated family of virulence factors, the RTX cytotoxins.
Effect of degradative plasmid CAM-OCT on responses of Pseudomonas bacteria to UV light
Authors: McBeth D L
Published: December 2016

The effect of plasmid CAM-OCT on responses to UV irradiation was compared in Pseudomonas aeruginosa, in Pseudomonas putida, and in Pseudomonas putida mutants carrying mutations in UV response genes. CAM-OCT substantially increased both survival and mutagenesis in the two species. P. aeruginosa strains without CAM-OCT exhibited much higher UV sensitivity than did P. putida strains. UV-induced mutagenesis of plasmid-free P. putida was easily detected in three different assays (two reversion assays and one forward mutation assay), whereas UV mutagenesis of P. aeruginosa without CAM-OCT was seen only in the forward mutation assay. These results suggest major differences in DNA repair between the two species and highlight the presence of error-prone repair functions on CAM-OCT. A number of P. putida mutants carrying chromosomal mutations affecting either survival or mutagenesis after UV irradiation were isolated, and the effect of CAM-OCT on these mutants was determined. All mutations producing a UV-sensitive phenotype in P. putida were fully suppressed by the plasmid, whereas the plasmid had a more variable effect on mutagenesis mutations, suppressing some and producing no suppression of others. On the basis of the results reported here and results obtained by others with plasmids carrying UV response genes, it appears that CAM-OCT may differ either in regulation or in the number and functions of UV response genes encoded.
Repeated failed non-invasive prenatal testing in a woman with immune thrombocytopenia and antiphospholipid syndrome: lessons learnt
Authors: Hui C Y Y , Tan W C , Tan E L , Tan L K
Published: December 2016

We present a case of a 37-year-old Chinese woman (gravida 4 para 0) with a history of immune thrombocytopenia and type IIb antiphospholipid syndrome. She was started on 100 mg of aspirin, 20 mg of prednisolone and 20 mg of subcutaneous low-molecular-weight heparin daily for her fourth pregnancy. She opted for non-invasive prenatal testing for aneuploidy screening but had failed results three times consecutively from insufficient fetal cfDNA initially or high variance in cfDNA counts on redraws. She declined invasive karyotyping. Her pregnancy was complicated by severe pre-eclampsia and fetal growth restriction at 19+6 weeks of gestation and was terminated. Subsequent fetal karyotyping revealed a normal karyotype of 46XY with no apparent abnormalities.
Improving Ebola infection prevention and control in primary healthcare facilities in Sierra Leone: a single-group pretest post-test, mixed-methods study
Authors: Ratnayake Ruwan , Ho Lara S , Ansumana Rashid , Brown Hannah , Borchert Matthias , Miller Laura , Kratz Thomas , McMahon Shannon A , Sahr Foday
Published: December 2016

Background

Accomplishing infection prevention and control (IPC) in health facilities in Sub-Saharan Africa is challenging. Owing to poor IPC, healthcare workers (HCWs) were frequently infected during Sierra Leone's Ebola epidemic. In late 2014, IPC was rapidly and nationally scaled up. We carried out workshops in sampled facilities to further improve adherence to IPC. We investigated HCW experiences and observed practice gaps, before and after the workshops.

Methods

We conducted an uncontrolled, before and after, mixed-methods study in eight health facilities in Bo and Kenema Districts during December 2014 and January 2015. Quantitative methods administered to HCWs at baseline and follow-up included a survey on attitudes and self-efficacy towards IPC, and structured observations of behaviours. The intervention involved a workshop for HCWs to develop improvement plans for their facility. We analysed the changes between rounds in survey responses and behaviours. We used interviews to explore attitudes and self-efficacy throughout the study period.

Results

HCWs described IPC as ‘life-saving’ and personal protective equipment (PPE) as uncomfortable for providers and frightening for patients. At baseline, self-efficacy was high (median=4/strongly agree). Responses reflecting unfavourable attitudes were low for glove use (median=1/strongly disagree, IQR, 1–2) and PPE use with ill family members (median=1, IQR, 1–2), and mixed for PPE use with ill HCWs (median=2/disagree, IQR, 1–4). Observations demonstrated consistent glove reuse and poor HCW handwashing. The maintenance of distance (RR 1.09, 95% CI 1.02 to 1.16) and patient handwashing (RR 1.19, 95% CI 1.3 to 1.25) improved to >90%.

Conclusions

We found favourable attitudes towards IPC and gaps in practice. Risk perceptions of HCWs and tendencies to ration PPE where chronic supply chain issues normally lead to PPE stock-outs may affect practice. As Sierra Leone's Ebola Recovery Strategy aims to make all facilities IPC compliant, socio-behavioural improvements and a secure supply chain are essential.
Translation and validation of the Cancer-Related Fatigue Scale in Greek in a sample of patients with advanced prostate cancer
Authors: Charalambous Andreas , Kaite Charis , Constantinou Marianna , Kouta Christiana
Published: December 2016

Objective

To translate and validate the Cancer-Related Fatigue (CRF) Scale in the Greek language.

Design

A cross-sectional descriptive design was used in order to translate and validate the CRF Scale in Greek. Factor analyses were performed to understand the psychometric properties of the scale and to establish construct, criterion and convergent validity.

Setting

Outpatients' oncology clinics of two public hospitals in Cyprus.

Participants

148 patients with advanced prostate cancer undergoing chemotherapy.

Results

The Cancer Fatigue Scale (CFS) had good stability (test–retest reliability r=0.79, p<0.001) and good internal consistency (Cronbach's α coefficient for all 15 items α=0.916). Furthermore, the Kaiser-Meyer-Olkin Measure of Sampling Adequacy (KMO value) was found to be 0.743 and considered to be satisfactory (>0.5). The correlations between the CFS physical scale (CFS-FS scale) and the European Organization for Research and Treatment of Cancer (EORTC) QLQ-C30 physical subscales were found to be significant (r=−0.715). The same occurred between CFS cognitive and EORTC cognitive subscale (r=−0.579). Overall, the criterion validity was verified. The same occurs for the convergent validity of the CFS since all correlations with the Global Health Status (q29–q30) were found to be significant.

Conclusions

This is the first validation study of the CRF Scale in Greek and warrant of its use in the assessment of prostate cancer patient's related fatigue. However, further testing and validation is needed in the early stages of the disease and in patients in later chemotherapy cycles.
Physical activity as intervention for age-related loss of muscle mass and function: protocol for a randomised controlled trial (the LISA study)
Authors: Eriksen Christian Skou , Garde Ellen , Reislev Nina Linde , Wimmelmann Cathrine Lawaetz , Bieler Theresa , Ziegler Andreas Kraag , Gylling Anne Theil , Dideriksen Kasper Juel , Siebner Hartwig Roman , Mortensen Erik Lykke , Kjaer Michael
Published: December 2016

Introduction

Physical and cognitive function decline with age, accelerating during the 6th decade. Loss of muscle power (force×velocity product) is a dominant physical determinant for loss of functional ability, especially if the lower extremities are affected. Muscle strength training is known to maintain or even improve muscle power as well as physical function in older adults, but the optimal type of training for beneficial long-term training effects over several years is unknown. Moreover, the impact of muscle strength training on cognitive function and brain structure remains speculative. The primary aim of this randomised controlled trial is to compare the efficacy of two different 1 year strength training regimens on immediate and long-lasting improvements in muscle power in retirement-age individuals. Secondary aims are to evaluate the effect on muscle strength, muscle mass, physical and cognitive function, mental well-being, health-related quality of life and brain morphology.

Methods and analysis

The study includes 450 home-dwelling men and women (62–70 years). Participants are randomly allocated to (1) 1 year of supervised, centre-based heavy resistance training, (2) home-based moderate intensity resistance training or (3) habitual physical activity (control). Changes in primary (leg extensor power) and secondary outcomes are analysed according to the intention to treat principle and per protocol at 1, 2, 4, 7 and 10 years.

Ethics and dissemination

The study is expected to generate new insights into training-induced promotion of functional ability and independency after retirement and will help to formulate national recommendations regarding physical activity schemes for the growing population of older individuals in western societies. Results will be published in scientific peer-reviewed journals, in PhD theses and at public meetings. The study is approved by the Regional Ethical Committee (Capital Region, Copenhagen, Denmark, number H-3-2014-017).

Trial registration number

NCT02123641.
HOspitals and patients WoRking in Unity (HOW R U?): protocol for a prospective feasibility study of telephone peer support to improve older patients' quality of life after emergency department discharge
Authors: Lowthian Judy A , Lennox Alyse , Curtis Andrea , Dale Jeremy , Browning Colette , Smit De Villiers , Wilson Gillian , O'Brien Debra , Rosewarne Cate , Boyd Lee , Garner Cath , Cameron Peter
Published: December 2016

Introduction

Older people presenting to an emergency department (ED) have a higher likelihood of social isolation, loneliness and depression; which are all associated with negative health outcomes and increased health service use, including higher rates of ED attendance. TheHOW R U?study aims to ascertain the feasibility and acceptability of a postdischarge telephone support programme for older ED patients following discharge. The intervention, which aims to improve quality of life, will be delivered by hospital-based volunteers.

Methods and analysis

A multicentre prospective uncontrolled feasibility study will enrol 50 community-dwelling patients aged ≥70 years with symptoms of loneliness or depression who are discharged home within 72 hours from the ED or acute medical ward. Participants will receive weekly supportive telephone calls over a 3-month period from a volunteer-peer. Feasibility will be assessed in terms of recruitment, acceptability of the intervention to participants and level of retention in the programme. Changes in level of loneliness (UCLA-3 item Loneliness Scale), mood (Geriatric Depression Scale-5 item) and health-related quality of life (EQ-5D-5L and EQ-VAS) will also be measured postintervention (3 months).

Ethics and dissemination

Research ethics and governance committee approval has been granted for this study by each participating centre (reference: 432/15 and 12-09-11-15). Study findings will inform the design and conduct of a future multicentre randomised controlled trial of a postdischarge volunteer-peer telephone support programme to improve social isolation, loneliness or depressive symptoms in older patients. Results will be disseminated through peer-reviewed journal publication, and conference and seminar presentation.

Trial registration number

ACTRN12615000715572, Pre-results.
‘You can't be a person and a doctor’: the work–life balance of doctors in training—a qualitative study
Authors: Rich Antonia , Viney Rowena , Needleman Sarah , Griffin Ann , Woolf Katherine
Published: December 2016

Objectives

Investigate the work–life balance of doctors in training in the UK from the perspectives of trainers and trainees.

Design

Qualitative semistructured focus groups and interviews with trainees and trainers.

Setting

Postgraduate medical training in London, Yorkshire and Humber, Kent, Surrey and Sussex, and Wales during the junior doctor contract dispute at the end of 2015. Part of a larger General Medical Council study about the fairness of postgraduate medical training.

Participants

96 trainees and 41 trainers. Trainees comprised UK graduates and International Medical Graduates, across all stages of training in 6 specialties (General Practice, Medicine, Obstetrics and Gynaecology, Psychiatry, Radiology, Surgery) and Foundation.

Results

Postgraduate training was characterised by work–life imbalance. Long hours at work were typically supplemented with revision and completion of the e-portfolio. Trainees regularly moved workplaces which could disrupt their personal lives and sometimes led to separation from friends and family. This made it challenging to cope with personal pressures, the stresses of which could then impinge on learning and training, while also leaving trainees with a lack of social support outside work to buffer against the considerable stresses of training. Low morale and harm to well-being resulted in some trainees feeling dehumanised. Work–life imbalance was particularly severe for those with children and especially women who faced a lack of less-than-full-time positions and discriminatory attitudes. Female trainees frequently talked about having to choose a specialty they felt was more conducive to a work–life balance such as General Practice. The proposed junior doctor contract was felt to exacerbate existing problems.

Conclusions

A lack of work–life balance in postgraduate medical training negatively impacted on trainees' learning and well-being. Women with children were particularly affected, suggesting this group would benefit the greatest from changes to improve the work–life balance of trainees.
Urban–rural differences in cancer-directed surgery and survival of patients with non-small cell lung cancer
Authors: Thomas Audrey Alforque , Pearce Alison , O'Neill Ciaran , Molcho Michal , Sharp Linda
Published: December 2016

Background

Lung cancer is the leading cause of cancer death worldwide. Clinically appropriate cancer-directed surgery is an influential and significant prognostic factor. In a population-based study, we determined how urban/rural residence was related to surgery receipt for patients with non-small cell lung cancer. We assessed the relationship between relative survival and patients' area of residence, taking into account surgery receipt and area socioeconomic level.

Methods

We extracted data from the National Cancer Registry Ireland on patients with non-small cell lung cancer diagnosed during 1994–2011 and linked to area-level data on socioeconomic indicators and urban/rural categories. We calculated ORs for receipt of cancer-directed surgery using logistic regression with postestimation of adjusted proportions. Relative survival estimates with follow-up to 31 December 2012 were calculated for all cases and stratified by surgery receipt, adjusting for clinical variables, area socioeconomic level and other sociodemographic characteristics.

Results

15 031 people diagnosed with non-small cell lung cancer were included in the analysis. On the basis of the multiple logistic regression model, a significantly larger proportion of urban patients (adjusted proportion 23%) as compared with rural patients (adjusted proportion 21%) received surgery (p<0.001). In multivariate analysis, rural residence was significantly related to a decrease in excess mortality for all cases (HR 0.90, 95% CI 0.87 to 0.94, p<0.001) and for non-surgical cases (HR 0.88, 95% CI 0.85 to 0.92, p<0.001).

Conclusions

The findings point to the need for targeted policies addressing access to treatment for rural patients with non-small cell lung cancer.
Western dietary pattern increases risk of cardiovascular disease in Iranian adults: a prospective population-based study
Authors: Mirmiran Parvin , Bahadoran Zahra , Vakili Azita Zadeh , Azizi Fereidoun
Published: December 2016

Limited data are available regarding the association of major dietary patterns and risk of cardiovascular disease (CVD) in Middle Eastern countries. We aimed to evaluate the association of major dietary patterns, using factor analysis, with the risk of CVD. Participants without CVD (n = 2284) were recruited from the Tehran Lipid and Glucose Study and were followed for a mean of 4.7 years. Dietary intake of participants was assessed at baseline (2006–2008); biochemical variables were evaluated at baseline and follow-up examination. Multivariate Cox proportional hazard regression models, adjusted for potential confounders, were used to estimate risk of CVD across tertiles of dietary pattern scores. Linear regression models were used to indicate association of dietary pattern scores with changes of CVD risk factors over the study period. Two major dietary patterns, Western and traditional, were identified. During a mean 4.7 ± 1.4 years of follow-up, 57 participants experienced CVD-related events. In the fully adjusted model, we observed an increased risk of CVD-related events in the highest compared to the lowest tertile category of Western dietary pattern score (HR = 2.07, 95% CI = 1.03–4.18, P for trend = 0.01). Traditional dietary pattern was not associated with incidence of CVD or CVD risk factors. A significant association was observed between the Western dietary pattern and changes in serum insulin (β = 5.88, 95% CI = 0.34–11.4). Our findings confirm that the Western dietary pattern, characterized by higher loads of processed meats, salty snacks, sweets, and soft drinks, is a dietary risk factor for CVD in the Iranian population.
Excessive training is associated with endoplasmic reticulum stress but not apoptosis in the hypothalamus of mice
Authors: Pinto Ana Paula , da Rocha Alisson Luiz , Pereira Bruno Cesar , Oliveira Luciana da Costa , Morais Gustavo Paroschi , Moura Leandro Pereira , Ropelle Eduardo Rochete , Pauli José Rodrigo , da Silva Adelino Sanchez Ramos
Published: December 2016

Downhill running-based overtraining model increases the hypothalamic levels of IL-1β, TNF-α, SOCS3, and pSAPK-JNK. The aim of the present study was to verify the effects of 3 overtraining protocols on the levels of BiP, pIRE-1 (Ser724), pPERK (Thr981), pelF2α (Ser52), ATF-6, GRP-94, caspase 4, caspase 12, pAKT (Ser473), pmTOR (Ser2448), and pAMPK (Thr172) proteins in the mouse hypothalamus. The mice were randomized into the control, overtrained by downhill running (OTR/down), overtrained by uphill running (OTR/up), and overtrained by running without inclination (OTR) groups. After the overtraining protocols (i.e., at the end of week 8), hypothalamus was removed and used for immunoblotting. The OTR/down group exhibited increased levels of all of the analyzed endoplasmic reticulum stress markers in the hypothalamus at the end of week 8. The OTR/up and OTR groups exhibited increased levels of BiP, pIRE-1 (Ser724), and pPERK (Thr981) in the hypothalamus at the end of week 8. There were no significant differences in the levels of caspase 4, caspase 12, pAKT (Ser473), pmTOR (Ser2448), and pAMPK (Thr172) between the experimental groups at the end of week 8. In conclusion, the 3 overtraining protocols increased the endoplasmic reticulum stress at the end of week 8.
Phreatic line calculation and stability analysis of slopes under the combined effect of reservoir water level fluctuations and rainfall
Authors: Sun Guanhua , Yang Yongtao , Cheng Shengguo , Zheng Hong
Published: December 2016

Rainfall and reservoir water level fluctuations are the main external factors of landslides in the Three Gorges Reservoir area. To improve the analysis of slope stability under the combined effect of reservoir water level fluctuations and rainfall, a simplified method for phreatic line calculation of slopes is proposed in this study. Based on the obtained phreatic line, the expression of normal stress on the sliding surface of the slope under the hydrodynamic forces is deduced, and a global analysis method to solve the slope safety factor under hydrodynamic force is proposed. Finally, the safety evolution of a slope in the Three Gorges Reservoir area is studied under the combined effect of reservoir water level fluctuations and rainfall.
A Low-Phase Noise ADPLL Based on a PRBS-Dithered DDS Enhancement Circuit
Authors: Ameur Noura Ben
Published: December 2016

This paper aims to design an all-digital phase-locked loop (ADPLL) intended for professional digital audio data conversion applications. The method used for designing is based on an analogy between analog PLL and ADPLL. Managing a low-jitter effect, a comparative study between discrete voltage-controlled oscillator (DVCO) and direct digital synthesis (DDS) based on a pseudorandom binary sequence (PRBS) generator is performed. The features of the design in this work are high-precision and low harmonic distortion DDS which is combined with ADPLL. For model-based design validation, a rapid register transfer level (RTL) with VHSIC hardware description language (VHDL) is practiced and the dynamic performance result indicates a significant improvement in total harmonic distortion (THD) ([Formula: see text][Formula: see text]dB) and a better resolution of 18.97[Formula: see text]bits for audio applications based on the aid of phase dithering DDS enhancement circuit.
A CMOS LNA Partially Degenerated Topology Proposal Using Active Inductors
Authors: Cambero E. V. V. , Capovilla C. E. , Casella I. R. S. , Munoz R. R. , Araujo H. X.
Published: December 2016

This paper presents the design of a CMOS low-noise amplifier (LNA) with partial inductive degeneration using active inductors in [Formula: see text]m technology. Both, the inductor of the partial degeneration and the load inductor, are actives. The inductors configurations are cascode with feedback resistance and Wu folded compact. The LNA has a gain of 13.2[Formula: see text]dB and a noise figure of 4.7[Formula: see text]dB at 1.8[Formula: see text]GHz. The layout has an active area of [Formula: see text]. The results are satisfactory, validating the compact design and demonstrating the technical feasibility of this proposed topology.
Rule Extraction from Decision Trees Ensembles: New Algorithms Based on Heuristic Search and Sparse Group Lasso Methods
Authors: Mashayekhi Morteza , Gras Robin
Published: December 2016

Decision trees are examples of easily interpretable models whose predictive accuracy is normally low. In comparison, decision tree ensembles (DTEs) such as random forest (RF) exhibit high predictive accuracy while being regarded as black-box models. We propose three new rule extraction algorithms from DTEs. The RF[Formula: see text]DHC method, a hill climbing method with downhill moves (DHC), is used to search for a rule set that decreases the number of rules dramatically. In the RF[Formula: see text]SGL and RF[Formula: see text]MSGL methods, the sparse group lasso (SGL) method, and the multiclass SGL (MSGL) method are employed respectively to find a sparse weight vector corresponding to the rules generated by RF. Experimental results with 24 data sets show that the proposed methods outperform similar state-of-the-art methods, in terms of human comprehensibility, by greatly reducing the number of rules and limiting the number of antecedents in the retained rules, while preserving the same level of accuracy.
Structural effects and translocation of spontaneous membrane-translocating peptides with POPC bilayer
Authors: Zhang Yuan , Wang Huanjie , Xu Weiren , Meng Fancui
Published: December 2016

Martini coarse-grained force field simulations have been carried out to estimate the free energy profiles of the spontaneous membrane-translocating peptide TP2 and one negative control peptide ONEG with POPC as the model bilayer. The results show that the free energy minimum of TP2 is [Formula: see text]20[Formula: see text]kJ/mol lower than that of ONEG. In addition, the minimum of TP2 shifts slightly to the bilayer center compared with ONEG. The translocation barrier height for TP2 and ONEG are 119.0[Formula: see text]kJ/mol and 155.7[Formula: see text]kJ/mol, respectively. The lower central energy barrier of TP2 facilitates the transition between two leaflets of POPC. Both translocating peptides induce the formation of funnel-shaped structures at the bilayer center, but TP2 has a more compact structure and brings less perturbation compared with ONEG. Subsequently all atom molecular simulations testify the findings. It is indicated that compared with its negative control ONEG, TP2 binds better with lipid and penetrates deeper into bilayer with less perturbation to the bilayer structure. Our findings may shed light on the design and virtual screening of spontaneous membrane-translocating peptides.
Creation of codes based on wavelet transformation and its application in ADV612 chips
Authors: Levina Alla , Taranov Sergey
Published: December 2016

Theory of wavelet transform is a powerful tool for image and video processing. Mathematical concepts of wavelet transform and filter bank have been studied carefully in many works. This work presents application of new construction of linear and robust codes based on wavelet decomposition and its application in ADV612 chips. We present the model of the error-coding scheme that allows to detect errors in the ADV612 chips with high probability. In our work, we will show that developed and presented scheme of protection drastically improves the resistance of ADV612 chips to malfunctions and errors.
Quadratic maps with a periodic critical point of period 2
Authors: Canci Jung Kyu , Vishkautsan Solomon
Published: December 2016

We provide a complete classification of possible graphs of rational preperiodic points of endomorphisms of the projective line of degree 2 defined over the rationals with a rational periodic critical point of period 2, under the assumption that these maps have no periodic points of period at least 7. We explain how this extends results of Poonen on quadratic polynomials. We show that there are exactly 13 possible graphs, and that such maps have at most nine rational preperiodic points. We provide data related to the analogous classification of graphs of endomorphisms of degree 2 with a rational periodic critical point of period 3 or 4.
On the Lucas property of linear recurrent sequences
Authors: Zhong Hao , Cai Tianxin
Published: December 2016

Let [Formula: see text] be an arithmetic function. [Formula: see text] has Lucas property if for any prime [Formula: see text] and [Formula: see text], where [Formula: see text], [Formula: see text] In this paper, we discuss the Lucas property of Fibonacci sequences and Lucas numbers. Meanwhile, we find some other interesting results.
Size distribution and visible luminescence of silicon nanoparticles embedded in SiNx thin film: Role of RF power in PECVD
Authors: Gómez-González Luis Andres , Dutt Ateet , Monroy Betsabee Marel , Escobar-Carrasquilla Juan David , Santana Guillermo , Álvarez-Macías Carlos , Ponce Arturo
Published: December 2016

This paper presents, the studies of the influence of (radio frequency) RF power on the size distribution and visible photoluminescence (PL) of SiNx thin film deposited at 300[Formula: see text]C of substrate temperature by plasma enhanced chemical vapor deposition. RF power was varied (5–50[Formula: see text]W), and its aftereffect on the optical properties of thin films was investigated. By increasing the RF power between 5[Formula: see text]W and 25[Formula: see text]W, main PL peak showed a red shift with an increase in PL intensity, which is associated with an increase in the silicon nanocrystals size and density, respectively. Results obtained were confirmed with High-resolution transmission electron microscopy micrographs and from the statistical calculations. By attaining a precise RF power value, stable silicon nitride thin film with suitable optical properties can be achieved for the potential fabrication of optoelectronic devices.
The furthest end of the Earth: the role of geological research in Antarctic exploration, 1895–1922
Authors: Clary Renee M. , Sharpe Tom
Published: December 2016

Following the 1895 Sixth International Geographical Congress declaration that Antarctica was the greatest goal in exploration, an intensive period of Antarctic Exploration (1895–1922) was ushered in with multiple expeditions to the South Polar regions. These often included geological exploration in their scientific programmes. During this period, evidence for the geological links between the Antarctic Peninsula and the Andes was gathered, the outline stratigraphy of the Transantarctic Mountains deciphered and the first studies of Antarctica's palaeontology undertaken, in addition to the attainment of the Geographical South Pole.
Exact and Approximate Maximum Inner Product Search with LEMP
Authors: Teflioudi Christina , Gemulla Rainer
Published: December 2016

We study exact and approximate methods for maximum inner product search, a fundamental problem in a number of data mining and information retrieval tasks. We propose the LEMP framework, which supports both exact and approximate search with quality guarantees. At its heart, LEMP transforms a maximum inner product search problem over a large database of vectors into a number of smaller cosine similarity search problems. This transformation allows LEMP to prune large parts of the search space immediately and to select suitable search algorithms for each of the remaining problems individually. LEMP is able to leverage existing methods for cosine similarity search, but we also provide a number of novel search algorithms tailored to our setting. We conducted an extensive experimental study that provides insight into the performance of many state-of-the-art techniques—including LEMP—on multiple real-world datasets. We found that LEMP often was significantly faster or more accurate than alternative methods.
Adaptive Cluster Tendency Visualization and Anomaly Detection for Streaming Data
Authors: Kumar Dheeraj , Bezdek James C. , Rajasegarar Sutharshan , Palaniswami Marimuthu , Leckie Christopher , Chan Jeffrey , Gubbi Jayavardhana
Published: December 2016

The growth in pervasive network infrastructure called the Internet of Things (IoT) enables a wide range of physical objects and environments to be monitored in fine spatial and temporal detail. The detailed, dynamic data that are collected in large quantities from sensor devices provide the basis for a variety of applications. Automatic interpretation of these evolving large data is required for timely detection of interesting events. This article develops and exemplifies two new relatives of the visual assessment of tendency (VAT) and improved visual assessment of tendency (iVAT) models, which uses cluster heat maps to visualize structure in static datasets. One new model is initialized with a static VAT/iVAT image, and then incrementally (hence inc-VAT/inc-iVAT) updates the current minimal spanning tree (MST) used by VAT with an efficient edge insertion scheme. Similarly, dec-VAT/dec-iVAT efficiently removes a node from the current VAT MST. A sequence of inc-iVAT/dec-iVAT images can be used for (visual) anomaly detection in evolving data streams and for sliding window based cluster assessment for time series data. The method is illustrated with four real datasets (three of them being smart city IoT data). The evaluation demonstrates the algorithms’ ability to successfully isolate anomalies and visualize changing cluster structure in the streaming data.
Mining for Topics to Suggest Knowledge Model Extensions
Authors: Lorenzetti Carlos , Maguitman Ana , Leake David , Menczer Filippo , Reichherzer Thomas
Published: December 2016

Electronic
concept maps,
interlinked with other concept maps and multimedia resources, can provide rich
knowledge models
to capture and share human knowledge. This article presents and evaluates methods to support experts as they extend existing knowledge models, by suggesting new context-relevant topics mined from Web search engines. The task of generating topics to support knowledge model extension raises two research questions: first, how to extract topic descriptors and discriminators from concept maps; and second, how to use these topic descriptors and discriminators to identify candidate topics on the Web with the right balance of novelty and relevance. To address these questions, this article first develops the theoretical framework required for a “topic suggester” to aid information search in the context of a knowledge model under construction. It then presents and evaluates algorithms based on this framework and applied in E
xtender
, an implemented tool for topic suggestion. E
xtender
has been developed and tested within CmapTools, a widely used system for supporting knowledge modeling using concept maps. However, the generality of the algorithms makes them applicable to a broad class of knowledge modeling systems, and to Web search in general.
Ecoinformatics (Big Data) for Agricultural Entomology: Pitfalls, Progress, and Promise
Authors: Rosenheim Jay A. , Gratton Claudio
Published: December 2016

Ecoinformatics, as defined in this review, is the use of preexisting data sets to address questions in ecology. We provide the first review of ecoinformatics methods in agricultural entomology. Ecoinformatics methods have been used to address the full range of questions studied by agricultural entomologists, enabled by the special opportunities associated with data sets, nearly all of which have been observational, that are larger and more diverse and that embrace larger spatial and temporal scales than most experimental studies do. We argue that ecoinformatics research methods and traditional, experimental research methods have strengths and weaknesses that are largely complementary. We address the important interpretational challenges associated with observational data sets, highlight common pitfalls, and propose some best practices for researchers using these methods. Ecoinformatics methods hold great promise as a vehicle for capitalizing on the explosion of data emanating from farmers, researchers, and the public, as novel sampling and sensing techniques are developed and digital data sharing becomes more widespread.
Molecular Evolution of Insect Sociality: An Eco-Evo-Devo Perspective
Authors: Toth Amy L. , Rehan Sandra M.
Published: December 2016

The evolution of eusociality is a perennial issue in evolutionary biology, and genomic advances have fueled steadily growing interest in the genetic changes underlying social evolution. Along with a recent flurry of research on comparative and evolutionary genomics in different eusocial insect groups (bees, ants, wasps, and termites), several mechanistic explanations have emerged to describe the molecular evolution of eusociality from solitary behavior. These include solitary physiological ground plans, genetic toolkits of deeply conserved genes, evolutionary changes in protein-coding genes, cis regulation, and the structure of gene networks, epigenetics, and novel genes. Despite this proliferation of ideas, there has been little synthesis, even though these ideas are not mutually exclusive and may in fact be complementary. We review available data on molecular evolution of insect sociality and highlight key biotic and abiotic factors influencing social insect genomes. We then suggest both phylogenetic and ecological evolutionary developmental biology (eco-evo-devo) perspectives for a more synthetic view of molecular evolution in insect societies.
Three Pillars for the Neural Control of Appetite
Authors: Sternson Scott M. , Eiselt Anne-Kathrin
Published: December 2016

The neural control of appetite is important for understanding motivated behavior as well as the present rising prevalence of obesity. Over the past several years, new tools for cell type-specific neuron activity monitoring and perturbation have enabled increasingly detailed analyses of the mechanisms underlying appetite-control systems. Three major neural circuits strongly and acutely influence appetite but with notably different characteristics. Although these circuits interact, they have distinct properties and thus appear to contribute to separate but interlinked processes influencing appetite, thereby forming three pillars of appetite control. Here, we summarize some of the key characteristics of appetite circuits that are emerging from recent work and synthesize the findings into a provisional framework that can guide future studies.
Role of IL-17A in murine models of COPD airway disease
Authors: Yanagisawa Haruhiko , Hashimoto Mitsuo , Minagawa Shunsuke , Takasaka Naoki , Ma Royce , Moermans Catherine , Ito Saburo , Araya Jun , Budelsky Alison , Goodsell Amanda , Baron Jody L. , Nishimura Stephen L.
Published: December 2016

Small airway fibrosis is a major pathological feature of chronic obstructive pulmonary disease (COPD) and is refractory to current treatments. Chronic inflammatory cells accumulate around small airways in COPD and are thought to play a major role in small airway fibrosis. Mice deficient in α/β T cells have recently been shown to be protected from both experimental airway inflammation and fibrosis. In these models, CD4+Th17 cells and secretion of IL-17A are increased. However, a pathogenic role for IL-17 in specifically mediating fibrosis around airways has not been demonstrated. Here a role for IL-17A in airway fibrosis was demonstrated using mice deficient in the IL-17 receptor A ( il17ra). Il17ra-deficient mice were protected from both airway inflammation and fibrosis in two different models of airway fibrosis that employ COPD-relevant stimuli. In these models, CD4+ Th17 are a major source of IL-17A with other expressing cell types including γδ T cells, type 3 innate lymphoid cells, polymorphonuclear cells, and CD8+ T cells. Antibody neutralization of IL-17RA or IL-17A confirmed that IL-17A was the relevant pathogenic IL-17 isoform and IL-17RA was the relevant receptor in airway inflammation and fibrosis. These results demonstrate that the IL-17A/IL-17 RA axis is crucial to murine airway fibrosis. These findings suggest that IL-17 might be targeted to prevent the progression of airway fibrosis in COPD.