bluuebunny/crossref_metadata_2025_split huggingface dataset:
Salmonellagenomic island 3 is an integrative and conjugative element and contributes to copper and arsenic resistance ofSalmonella enterica
Authors: Arai Nobuo , Sekizuka Tsuyoshi , Tamamura Yukino , Kusumoto Masahiro , Hinenoya Atsushi , Yamasaki Shinji , Iwata Taketoshi , Watanabe-Yanai Ayako , Kuroda Makoto , Akiba Masato 
Published: March 2019

ABSTRACTSalmonellagenomic island 3 (SGI3) was first described as a chromosomal island inSalmonella4,[5],12:i:-, a monophasic variant ofSalmonella entericasubsp.entericaserovar Typhimurium. The SGI3 DNA sequence detected fromSalmonella4,[5],12:i:-isolated in Japan was identical to that of a previously reported one across entire length of 81 kb. SGI3 consists of 86 open reading frames, including a copper homeostasis and silver resistance island (CHASRI) and an arsenic resistance operon in addition to genes related to conjugative transfer and DNA replication or partitioning, suggesting that the island is a mobile genetic element. We successfully selected transconjugants that acquired SGI3 after filter mating experiments using theS. entericaserovars Typhimurium, Heidelberg, Hadar, Newport, Cerro, and Thompson as recipients. Southern blot analysis using I-CeuI-digested genomic DNA demonstrated that SGI3 was integrated into a chromosomal fragment of the transconjugants. PCR and sequencing analysis demonstrated that SGI3 was inserted into the 3′ end of the tRNA genespheVorpheR. The length of the target site was 52 or 55 bp, and a 55-bpattIsequence indicating generation of the circular form of SGI3 was also detected. The transconjugants had a higher MIC against CuSO4compared with the recipient strains under anaerobic conditions. Resistance was defined by thecusgene cluster in the CHASRI. The transconjugants also had distinctly higher MICs against Na2HAsO4compared with recipient strains under aerobic conditions. These findings clearly demonstrate that SGI3 is an integrative and conjugative element and contributes to the copper and arsenic resistance ofS. enterica.
Snow is an important control of plant community functional composition
Authors: Happonen Konsta , Aalto Juha , Kemppinen Julia , Niittynen Pekka , Virkkala Anna-Maria , Luoto Miska 
Published: March 2019

AbstractThe functional composition of plant communities is a critical modulator of climate change impacts on ecosystems, but it is not a simple function of regional climate. In the Arctic tundra, where climate change is proceeding the most rapidly, communities have not shifted their trait composition as predicted by spatial temperature-trait relationships. Important causal pathways are thus missing from models of trait composition change. Here, we study causes of plant community functional variation in a tundra landscape. We consider the community weighted means of plant vegetative height, as well as two traits related to the leaf economic spectrum. Specifically, we model their responses to locally measured summer air temperature, snow conditions, and soil resource levels. For each of the traits we also quantify the importance of intraspecific trait variation (ITV) for between-community functional differences and trait-environment matching. Our study shows that in a tundra landscape 1) snow is the most influential abiotic variable affecting functional composition, 2) vegetation height is under weak local environmental control, whereas leaf economics is under strong local environmental control, 3) the relative magnitude of ITV differs between traits, and 4) ITV is not very consequential for community-level trait-environment relationships.
ANCESTRAL PERSISTENCE OF VESTIBULO-SPINAL REFLEXES IN AXIAL MUSCLES IN HUMANS
Authors: Guillaud Etienne , Faure Céline , Doat Emilie , Bouyer Laurent , Guehl Dominique , Cazalets Jean-René 
Published: March 2019

ABSTRACTAccurate control of the trunk is essential for maintaining balance in an upright subject. Most studies addressing vestibulo-spinal reflexes have investigated the role of the lower limbs, while limited attention has been paid to the back muscles. To address this issue, we challenged the persistence of vestibular evoked myogenic potentials (VEMPs) in back muscles in situations in which the leg muscle responses were modulated. Nineteen subjects were submitted to galvanic vestibular stimulations (GVS). Body sway and VEMPs were recorded in the paraspinal and limb muscles. During treadmill locomotion, the VEMPS in the lower limbs were observed only during the stance phase, whereas the axial VEMPs were observed during all phases. In upright standing subjects, slight head contact was sufficient to abolish the VEMPs in the lower limbs, while the VEMPs remained present in the paraspinal muscles. Similarly, during parabolic flight-induced microgravity, the VEMPs in the lower limb muscles were suppressed, while those in the axial muscles persisted despite the absence of gravitational information from the otolithic system. Our results depict a differentiated control mechanism of axial and appendicular muscles when a perturbation is detected by vestibular inputs. The persistent feature of axial myogenic adjustments suggests that a hard-wired reflex is functionally efficient to maintain posture. By contrast, the ankle responses to perturbations occur only when the accompanying sensory feedback is congruent, challenging the balance task and gravity. Overall, this study using GVS in microgravity is the first to present an approach delineating feed-forward vestibular control in the absence of all feedback.
Wnt activator FOXB2 drives prostate cancer neuroendocrine differentiation
Authors: Moparthi Lavanya , Pizzolato Giulia , Koch Stefan 
Published: March 2019

ABSTRACTThe Wnt signaling pathway is of paramount importance for development and disease. However, the tissue-specific regulation of Wnt pathway activity remains incompletely understood. Here we identify FOXB2, an uncharacterized forkhead box family transcription factor, as a potent activator of Wnt signaling in normal and cancer cells. Mechanistically, FOXB2 induces the non-classical Wnt ligand WNT7B, which increases TCF/LEF-dependent transcription without activating LRP6 or β-catenin. Proximity ligation and RNA interference identified YAP1, JUN, and DDX5 as transcriptional co-regulators required for FOXB2-dependent Wnt activation. Although FOXB2 expression is limited in adults, it is induced in select cancers, particularly advanced prostate cancer. RNA-seq data analysis suggests that FOXB2/WNT7B expression in prostate cancer is associated with a transcriptional program that favors neuronal differentiation and decreases recurrence-free survival. Consistently, FOXB2 is induced during neuroendocrine transformation of LNCaP prostate carcinoma cells, and conversely, FOXB2 overexpression is sufficient to induce their differentiation. Our results suggest that FOXB2 is a tissue-specific Wnt enhancer that promotes prostate cancer malignant transformation.
Protein secondary structure determines the temporal relationship between folding and disulfide formation
Authors: Robinson Philip J , Kanemura Shingo , Cao Xiaofei , Bulleid Neil J 
Published: March 2019

AbstractHow and when disulfides form in proteins during their folding is a fundamental question in cell biology. Two models describe the relationship between disulfide formation and folding, the folded precursor model, in which formation of nascent structure occurs prior to the disulfides and the quasi-stochastic model where disulfides form prior to complete domain folding. Here we investigate oxidative folding within a cellular milieu of three structurally diverse substrates in order to understand the folding mechanisms required to achieve correct cysteine coupling. We use a eukaryotic translation system in which we can manipulate the redox conditions and produce stalled translation intermediates representative of different stages of translocation. We identify different disulfide bonded isomers by non-reducing SDS-PAGE. Using this approach, we determined whether each substrate followed a folding driven or disulfide driven mechanism. Our results demonstrate that the folding model is substrate-dependent with disulfides forming prior to complete domain folding in a domain lacking secondary structure, whereas disulfide formation was absent at this stage in proteins with defined structural elements. In addition, we demonstrate the presence and rearrangement of non-native disulfides specifically in substrates following the quasi-stochastic model. These findings demonstrate why non-native disulfides are prevented from forming in proteins with well-defined secondary structure.Significance statementA third of human proteins contain structural elements called disulfide bonds that are often crucial for stability and function. Disulfides form between cysteines in the specialised environment of the endoplasmic reticulum (ER), during the complex process of protein folding. Many proteins contain multiple cysteines that can potentially form correct or incorrect cysteine pairings. To investigate how correct disulfide pairs are formed in a biological context, we developed an experimental approach to assess disulfide formation and rearrangement as proteins enter the ER. We found that a protein domain with atypical secondary structure undergoes disulfide orchestrated folding as it enters the ER and is prone to incorrect disulfide formation. In contrast, proteins with defined secondary structure form folding dependent, native disulfides. These findings show how different mechanisms of disulfide formation can be rationalised from structural features of the folding domains.
‘Candidatus Phytoplasma platensis’, a novel taxon associated with daisy (Bellis perennis) virescence and related diseases in South America
Authors: Fernández Franco Daniel , Galdeano Ernestina , Conci Luis Rogelio 
Published: March 2019

AbstractBellis perennis virescence (BellVir) phytoplasma affects ornamental daisies in Argentina. It has been previously classified within the X-disease group, subgroup III-J, which is one of the most important and widely distributed in South America, affecting diverse plant hosts. In this study, we compared 16S rRNA, ribosomal proteins rpIV and rps3, secA and immunodominant proteins imp and idpA genes of BellVir phytoplasma with previously described ‘Candidatus Phytoplasma’ species. The 16S rRNA gene of strain BellVir shared less than 97.5% with all previously described ‘Ca. Phytoplasma’ taxa except for ‘Ca. Phytoplasma pruni’. According to the recommended rules for the description of novel taxa within ‘Ca. Phytoplasma’, it should be considered as ‘Ca. P. pruni’-related strain. However, multilocus analysis showed further molecular diversity that distinguished BellVir phytoplasma from ‘Ca. Phytoplasma pruni’. Besides, BellVir phytoplasma and 16SrIII-J related strains have a geographical distribution restricted to South America, where ‘Ca. P.pruni’ has not been detected. Two insect vectors have been reported to transmit 16SrIII-J phytoplasmas, which have not been found to transmit ‘Ca. Phytoplasma pruni’. Having a wide host range, they have not been detected in Prunus persica. Therefore, based on multilocus sequence analyses, specific vector transmission and geographical distribution, we propose the recognition of the novel phytoplasma species ‘Ca. Phytoplasma platensis’, within the X-disease clade, with Bellis perennis virescence phytoplasma as the reference strain.
Antimicrobial susceptibility and serotype distribution of Streptococcus agalactiae recto-vaginal colonizing isolates from pregnant women at a tertiary hospital in Pretoria, South Africa: an observational descriptive study
Authors: Said Mohamed , Dangor Yusuf , Mbelle Nontombi , Madhi Shabir A. , Kwatra Gaurav , Ismail Farzana 
Published: March 2019

AbstractIntroductionStreptococcus agalactiae or Group B Streptococcus (GBS) is a significant cause of neonatal sepsis. Intrapartum antibiotic prophylaxis is recommended for pregnant women identified to be recto-vaginally colonised between 34-37 weeks gestational age to decrease the risk of invasive disease in their newborns. The aim of this study was to investigate serotype distribution and antimicrobial susceptibility patterns of GBS isolates cultured from recto-vaginal specimens during pregnancy.MethodsSixty-nine archived maternal colonizing isolates were tested against penicillin, erythromycin, clindamycin, vancomycin and levofloxacin. Minimum Inhibitory Concentration (MIC) testing was performed using the E-test method. Serotyping was performed by latex agglutination method.ResultsThe most common serotypes detected were Ia (54%), III (20%), V (16%), II (6%), IV (2%) and Ib (1%), respectively. All isolates were fully susceptible to penicillin, vancomycin and levofloxacin. Eight (11%) and 50 (56%) isolates showed intermediate resistance to erythromycin and clindamycin respectively, and one isolate was resistant to erythromycin. MLSB phenomenon was noted in 3 (4%) of the isolates.ConclusionGBS colonizing isolates remain susceptible to penicillin and remains the drug of choice for intrapartum antibiotic prophylaxis and treatment of invasive disease in newbrons. Macrolides should only be used if clinically indicated due to the high prevalence of intermediate resistance. A hexavalent GBS vaccine currently under development would provide coverage for 100% of the isolates identified in this study.
Deconvolving multiplexed protease signatures with substrate reduction and activity clustering
Authors: Zhuang Qinwei , Holt Brandon Alexander , Kwong Gabriel A. , Qiu Peng 
Published: March 2019

AbstractProteases are pleiotropic, promiscuous enzymes that degrade proteins and peptides, which drive important processes in health and disease. The ability to quantify the activity of protease signatures by sampling with Massively Multiplexed Activity (MMA) libraries will provide unparalleled biological information. Under such a framework, a designed library of peptide substrates is exposed to a cocktail of proteases, the cleavage velocity of each substrate is measured, and individual protease activity levels are inferred from the data. Previous studies have developed individual protease sensors, but multiplexed substrate cleavage data becomes difficult to interpret as the number of cross-cutting proteases increases. Computational methods for parsing this data to estimate individual protease activities primarily use an extensive compendium of all possible protease-substrate combinations, which require impractical amounts of training data when scaling up to MMA libraries. Here we provide a computational method for estimating protease activities efficiently by reducing the number of substrates and clustering proteases with similar cleavage activities into families. This method is scalable and will enable the future use of MMA libraries with applications spanning therapeutic and diagnostic biotechnology.
A novel growth factor-dependent thermogenic brown adipocyte cell line from defined precursor cells
Authors: Kindler Dagmar , Sousa Isabel S , Schweizer Sabine , Lerch Sarah , Klingenspor Martin , Herzig Stephan , Vegiopoulos Alexandros 
Published: March 2019

AbstractMolecular pathways regulating brown adipocyte formation and metabolism can be exploited as targets for the treatment of obesity and disorders of glucose and lipid metabolism such as type-2 diabetes. Investigations in this direction require adequate cell models for brown adipocytes and their precursors. We report the establishment of a novel clonal cell line derived from defined Lin−Sca1+ adipocyte precursors from murine interscapular brown fat. In contrast to most currently available lines, immortalization was achieved by serial passaging without viral or genetic manipulation. Instead, the media were supplemented with basic fibroblast growth factor, which was required for the maintenance of stable long-term growth and immature morphology. BATkl2 cells differentiated to adipocytes with high efficiency upon standard adipogenic induction independently of PPARg agonists and even at higher passage numbers. BATkl2 adipocytes showed readily detectable Uncoupling protein 1 (Ucp1) protein expression and acutely responded to norepinephrine with increased Ucp1 mRNA expression, lipolysis and uncoupled mitochondrial respiration. Highly efficient siRNA-mediated knockdown was demonstrated in the growth state as well as in differentiating adipocytes, whereas plasmid DNA transfection was achieved in immature cells. These features make the BATkl2 cell line an attractive brown (pre)-adipocyte cell model.
Critical success factors for next generation technical education institutions
Authors: Kashiramka Smita , Sagar Mahim , Dubey Amlendu Kumar , Mehndiratta Amit , Sushil Sushil 
Published: March 2019

PurposeThe purpose of this paper is to create a hierarchy of critical success factors affecting the higher technical education institutions, taking a case study of India. Using total interpretive structural modeling (TISM), the paper attempts to establish the inter-linkages among ten critical success factors for enhancing the performance of these institutions.Design/methodology/approachThe paper employs Total Interpretive Structural Modeling (TISM) to understand the hierarchy of the factors and their interplay using response from 18 experts in the domain.FindingsThe findings reveal that autonomy and accountability coupled with availability of sustainable funds are the driving factors for the success of the institutions. Infrastructural facilities and establishment of centers of excellence act as amplification factors. Introduction of new programs and their accreditation, improvement in faculty quality, research output and improvement in performance of academically weak students emerge as process factors that drive the output factors, namely, academic performance and student placement.Research limitations/implicationsThe major limitation of this study is the scope that was limited to 191 institutions, as mandated in the project.Practical implicationsThis study has important implications for the institutions as well as the policy makers to channelize their focus and efforts on driving and amplification factors that would ultimately lead to enhanced performance of the next generation higher technical education institutions.Originality/valueThis paper is a part of pan India project carried out to assess the performance of higher technical education institutions in India.
Execution costs, investability, and actual foreign investment in emerging markets
Authors: Ahn Hee-Joon , Cai Jun , Cheung Yan-Leung 
Published: March 2019

Purpose
This paper focuses on execution costs as liquidity measure. Execution costs are related to volatility and are an important component of a firm’s cost of capital. The purpose of this paper is to examine whether emerging market firms have lower execution costs when they face less restrictions on foreign investment and when they have more foreign shareholders.

Design/methodology/approach
The authors begin by documenting the cross-sectional behavior of execution costs. The authors then obtain preliminary evidence on the interaction between execution costs, the investability index and actual foreign investment. These results foreshadow those the authors obtain with the regression analysis. The ordinary least square results show that more investable firms have lower execution costs after the authors control for firm size, stock price, return volatility, industry effects and country effects. This evidence is very robust and highly significant. Direct foreign ownership (FO) in emerging market firms also appear to be associated with lower execution costs. The economic benefit from lowering the investability index on trade execution costs is highly significant.

Findings
Using a large cross-sectional sample from 23 emerging markets, the authors show that firms with more ex ante restrictions on FO, measured by the investability index, have lower execution costs, such as quoted spreads (QS) and effective spreads (ES), after the authors control for firm size, stock price, return volatility, industry factors and country effects. In addition, direct FO in emerging market firms appears to be associated with lower execution costs. However, ex ante restrictions on FO dominate the influence of direct FO. For a 0.5 increase in the investability index in the range of 0–1, the QS will be reduced by 17 percent of the mean QS, and the ES will be reduced by 12 percent of the mean ES from the sample stocks.

Originality/value
There are important differences between the approach and most of the financial liberalization studies. First, whereas most of the earlier studies are conducted at the level of country or market analysis, the investigation is at the level of individual stocks. Second, the authors focus on a cross-sectional association that avoids a criticism leveled at time series analyses. Over-time studies often use specific time points to represent financial liberalization watersheds. This approach can be misleading when financial liberalizations are viewed as processes that unfold over time. Third, the proxies for financial openness are available not only for individual firms across markets, but the authors also make a distinction between potential and actual foreign investment. The authors further categorize actual foreign investment into direct and indirect FO.
Augmentation of passive magnetic bearing performance by using air or iron intervals
Authors: Safaeian Reza , Heydari Hossein 
Published: March 2019

Purpose
This paper aims to suggest the use of air or iron intervals between axially magnetized rings to increase the forces and stiffness of permanent magnet passive magnetic bearings (PMBs). The paper calculates the stiffness of such bearings through an analytical method and optimizes the dimensions of the magnets for achieving maximum stiffness.

Design/methodology/approach
For determining the magnetic fields distribution, forces and stiffness of the bearings, a 2D analytical method is used, based on the subdomain method. For the sake of generalization, all of the parameters are normalized and optimized for maximum normalized stiffness per magnet volume ratio.

Findings
The optimum sizes of the magnets as well as the optimum dimensions of the air or iron intervals are calculated in this paper. The optimum sizes of the magnets are around the air gap length and it is very difficult to realize them. Using iron intervals can improve the stiffness to the extremely high values in practical dimensions of the magnets.

Originality/value
This paper presents a novel configuration for improving the performance of PMBs with alternately axially magnetized rings.