bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Seminal fluid proteome of the polyandrous Red junglefowl offers insights into the molecular basis of fertility, reproductive ageing and domestication
Authors: Borziak Kirill , Álvarez-Fernández Aitor , L. Karr Timothy , Pizzari Tommaso , Dorus Steve 
Published: November 2016

AbstractSeminal fluid proteins (SFPs) are emerging as fundamental contributors to sexual selection given their role in post-mating reproductive events, particularly in polyandrous species where the ejaculates of different males compete for fertilisation. SFP identification however remains taxonomically limited and little is known about avian SFPs, despite extensive work on sexual selection in birds. We characterize the SF proteome of the polyandrous Red junglefowl, Gallus gallus, the wild species that gave rise to the domestic chicken. We identify 1,141 SFPs, including proteins involved in immunity and antimicrobial defences, sperm maturation, and fertilisation, revealing a functionally complex SF proteome. This includes a predominant contribution of blood plasma proteins that is conserved with human SF. By comparing the proteome of young and old males with fast or slow sperm velocity in a balanced design, we identify proteins associated with ageing and sperm velocity, and show that old males that retain high sperm velocity have distinct proteome characteristics. SFP comparisons with domestic chickens revealed both qualitative and quantitative differences likely associated with domestication and artificial selection. Collectively, these results shed light onto the functional complexity of avian SF, and provide a platform for molecular studies of fertility, reproductive ageing, and domestication.
miR-19b Regulates Ventricular Action Potential Duration in Zebrafish
Authors: Benz Alexander , Kossack Mandy , Auth Dominik , Seyler Claudia , Zitron Edgar , Juergensen Lonny , Katus Hugo A. , Hassel David 
Published: November 2016

AbstractSudden cardiac death due to ventricular arrhythmias often caused by action potential duration (APD) prolongation is a common mode of death in heart failure (HF). microRNAs, noncoding RNAs that fine tune gene expression, are frequently dysregulated during HF, suggesting a potential involvement in the electrical remodeling process accompanying HF progression. Here, we identified miR-19b as an important regulator of heart function. Zebrafish lacking miR-19b developed severe bradycardia and reduced cardiac contractility. miR-19b deficient fish displayed increased sensitivity to AV-block, a characteristic feature of long QT syndrome in zebrafish. Patch clamp experiments from whole hearts showed that miR-19b deficient zebrafish exhibit significantly prolonged ventricular APD caused by impaired repolarization. We found that miR-19b directly and indirectly regulates the expression of crucial modulatory subunits of cardiac ion channels, and thereby modulates AP duration and shape. Interestingly, miR-19b knockdown mediated APD prolongation can rescue a genetically induced short QT phenotype. Thus, miR-19b might represent a crucial modifier of the cardiac electrical activity, and our work establishes miR-19b as a potential candidate for human long QT syndrome.
Age differences between sexual partners, behavioural and demographic correlates, and HIV infection on Likoma Island, Malawi
Authors: Beauclair Roxanne , Helleringer Stéphane , Hens Niel , Delva Wim 
Published: November 2016

AbstractPatterns of age differences between sexual partners – “age-mixing” – may partially explain the magnitude of HIV epidemics in Sub-Saharan Africa. However, evidence of age-disparity as a risk factor for HIV remains mixed. We used data from a socio-centric study of sexual behaviour in Malawi to quantify the age-mixing pattern and to find associations between relationship characteristics and age differences for 1,922 participants. Three age difference measures were explored as predictors of prevalent HIV infection. We found that for each year increase in male participant age, the average age difference with their partners increased by 0.26 years, while among women it remained approximately constant around 5 years. Women in the study had larger within-individual variation in partner ages compared to men. Spousal partnerships and never using a condom during sex were associated with larger age differences in relationships of both men and women. Men who were more than five years younger than their partners had 5.39 times higher odds (95% CI: 0.93–31.24) of being HIV-infected than men 0–4 years older. The relationship between HIV-infection and age-asymmetry may be more complex than previously described. The role that women play in HIV transmission should not be under-estimated, particularly in populations with large within-individual variation in partner ages.
Longitudinal modeling of ultrasensitive and traditional prostate-specific antigen and prediction of biochemical recurrence after radical prostatectomy
Authors: Laajala Teemu D. , Seikkula Heikki , Seyednasrollah Fatemeh , Mirtti Tuomas , Boström Peter J. , Elo Laura L. 
Published: November 2016

AbstractUltrasensitive prostate-specific antigen (u-PSA) remains controversial for follow-up after radical prostatectomy (RP). The aim of this study was to model PSA doubling times (PSADT) for predicting biochemical recurrence (BCR) and to capture possible discrepancies between u-PSA and traditional PSA (t-PSA) by utilizing advanced statistical modeling. 555 RP patients without neoadjuvant/adjuvant androgen deprivation from the Turku University Hospital were included in the study. BCR was defined as two consecutive PSA values >0.2 ng/mL and the PSA measurements were log2-transformed. One third of the data was reserved for independent validation. Models were first fitted to the post-surgery PSA measurements using cross-validation. Major trends were then captured using linear mixed-effect models and a predictive generalized linear model effectively identified early trends connected to BCR. The model generalized for BCR prediction to the validation set with ROC-AUC of 83.6% and 95.1% for the 1 and 3 year follow-up censoring, respectively. A web-based tool was developed to facilitate its use. Longitudinal trends of u-PSA did not display major discrepancies from those of t-PSA. The results support that u-PSA provides useful information for predicting BCR after RP. This can be beneficial to avoid unnecessary adjuvant treatments or to start them earlier for selected patients.
Burstein-Moss Effect Behind Au Surface Plasmon Enhanced Intrinsic Emission of ZnO Microdisks
Authors: Zhu Qiuxiang , Lu Junfeng , Wang Yueyue , Qin Feifei , Shi Zengliang , Xu Chunxiang 
Published: November 2016

AbstractIn this paper, ZnO microdisks with sputtering of Au nanoparticles were prepared to explore their plasmon/exciton coupling effect. An obvious blue shift and enhanced excitonic emission intensity were observed in the PL spectra of as-grown and Au-sputtered ZnO samples at room temperature. The investigation on the absorption spectra and temperature-dependent PL spectra has been demonstrated the Burstein-Moss effect behind the optical phenomena. These results revealed the coupling dynamics between the metal localized surface plasmon and semiconductor exciton.
Urinary Biomarkers of Whole Grain Wheat Intake Identified by Non-targeted and Targeted Metabolomics Approaches
Authors: Zhu Yingdong , Wang Pei , Sha Wei , Sang Shengmin 
Published: November 2016

AbstractMounting evidence suggests that whole grain (WG) intake plays an important role in chronic disease prevention. However, numerous human studies have failed to produce clear-cut conclusions on this topic. Here, a combination of non-targeted and targeted metabolomics approaches, together with kinetic studies, was used to investigate biomarkers of WG wheat intake and further explore the diet-disease associations. Via these integrated approaches, forty-one compounds were identified as the most discriminating endogenous metabolites after WG versus refined grain (RG) wheat bread consumption. The corresponding biological assessment of these endogenous changes suggests that, in contrast to RG consumption, WG wheat consumption may facilitate antioxidant defense systems and moderate the risk factors of cancer, cardiovascular diseases, and other chronic diseases. A panel of urinary markers consisting of seven alkylresorcinol metabolites and five benzoxazinoid derivatives as specific biomarkers, as well as five phenolic acid derivatives, was also established to cover multiple time points and longer time periods for correctly and objectively monitoring WG wheat intake. Through these findings, we have established a comprehensive biomarker pool to better assess WG wheat consumption, and to monitor the endogenous changes that are linked to health effects of WG wheat consumption.
Sustaining Interferon Induction by a High-Passage Atypical Porcine Reproductive and Respiratory Syndrome Virus Strain
Authors: Ma Zexu , Yu Ying , Xiao Yueqiang , Opriessnig Tanja , Wang Rong , Yang Liping , Nan Yuchen , Samal Siba K. , Halbur Patrick G. , Zhang Yan-Jin 
Published: November 2016

AbstractPorcine reproductive and respiratory syndrome virus (PRRSV) strain A2MC2 induces type I interferons in cultured cells. The objective of this study was to attenuate this strain by serial passaging in MARC-145 cells and assess its virulence and immunogenicity in pigs. The A2MC2 serially passaged 90 times (A2MC2-P90) retains the feature of interferon induction. The A2MC2-P90 replicates faster with a higher virus yield than wild type A2MC2 virus. Infection of primary pulmonary alveolar macrophages (PAMs) also induces interferons. Sequence analysis showed that the A2MC2-P90 has genomic nucleic acid identity of 99.8% to the wild type but has a deletion of 543 nucleotides in nsp2. The deletion occurred in passage 60. The A2MC2-P90 genome has a total of 35 nucleotide variations from the wild type, leading to 26 amino acid differences. Inoculation of three-week-old piglets showed that A2MC2-P90 is avirulent and elicits immune response. Compared with Ingelvac PRRS® MLV strain, A2MC2-P90 elicits higher virus neutralizing antibodies. The attenuated IFN-inducing A2MC2-P90 should be useful for development of an improved PRRSV vaccine.
Relative abundance of chemical forms of Cu(II) and Cd(II) on soybean roots as influenced by pH, cations and organic acids
Authors: Zhou Qin , Liu Zhao-dong , Liu Yuan , Jiang Jun , Xu Ren-kou 
Published: November 2016

AbstractLittle information is available on chemical forms of heavy metals on integrate plant roots. KNO3 (1 M), 0.05M EDTA at pH6 and 0.01 M HCl were used sequentially to extract the exchangeable, complexed and precipitated forms of Cu(II) and Cd(II) from soybean roots and then to investigate chemical form distribution of Cu(II) and Cd(II) on soybean roots. Cu(II) and Cd(II) adsorbed on soybean roots were mainly exchangeable form, followed by complexed form, while their precipitated forms were very low under acidic conditions. Soybean roots had a higher adsorption affinity to Cu(II) than Cd(II), leading to higher toxic of Cu(II) than Cd(II). An increase in solution pH increased negative charge on soybean and thus increased exchangeable Cu(II) and Cd(II) on the roots. Ca2+, Mg2+ and NH4+ reduced exchangeable Cu(II) and Cd(II) levels on soybean roots and these cations showed greater effects on Cd(II) than Cu(II) due to greater adsorption affinity of the roots to Cu(II) than Cd(II). L-malic and citric acids decreased exchangeable and complexed Cu(II) on soybean roots. In conclusion, Cu(II) and Cd(II) mainly existed as exchangeable and complexed forms on soybean roots. Ca2+ and Mg2+ cations and citric and L-malic acids can potentially alleviate Cu(II) and Cd(II) toxicity to plants.
H2O2 and Ca2+-based signaling and associated ion accumulation, antioxidant systems and secondary metabolism orchestrate the response to NaCl stress in perennial ryegrass
Authors: Hu Tao , Chen Ke , Hu Longxing , Amombo Erick , Fu Jinmin 
Published: November 2016

AbstractLittle is known about the interplay between Ca2+ and H2O2 signaling in stressed cool-season turfgrass. To understand better how Ca2+ and H2O2 signals are integrated to enhance grass acclimation to stress conditions, we analyzed the rearrangements of endogenous ion accumulation, antioxidant systems and secondary metabolism in roots, stems and leaves of perennial ryegrass (Lolium perenne L.) treated with exogenous Ca2+ and H2O2 under salinity. Ca2+ signaling remarkably enhanced the physiological response to salt conditions. Ca2+ signaling could maintain ROS homeostasis in stressed grass by increasing the responses of antioxidant genes, proteins and enzymes. H2O2 signaling could activate ROS homeostasis by inducing antioxidant genes but weakened Ca2+ signaling in leaves. Furthermore, the metabolic profiles revealed that sugars and sugar alcohol accounted for 49.5–88.2% of all metabolites accumulation in all treated leaves and roots. However, the accumulation of these sugars and sugar alcohols displayed opposing trends between Ca2+ and H2O2 application in salt-stressed plants, which suggests that these metabolites are the common regulatory factor for Ca2+ and H2O2 signals. These findings assist in understanding better the integrated network in Ca2+ and H2O2 of cool-season turfgrass’ response to salinity.
Fxyd2 regulates Aδ- and C-fiber mechanosensitivity and is required for the maintenance of neuropathic pain
Authors: Ventéo Stéphanie , Laffray Sophie , Wetzel Christiane , Rivat Cyril , Scamps Frédérique , Méchaly Ilana , Bauchet Luc , Raoul Cédric , Bourinet Emmanuel , Lewin Gary R. , Carroll Patrick , Pattyn Alexandre 
Published: November 2016

AbstractIdentification of the molecular mechanisms governing sensory neuron subtype excitability is a key requisite for the development of treatments for somatic sensory disorders. Here, we show that the Na,K-ATPase modulator Fxyd2 is specifically required for setting the mechanosensitivity of Aδ-fiber low-threshold mechanoreceptors and sub-populations of C-fiber nociceptors, a role consistent with its restricted expression profile in the spinal somatosensory system. We also establish using the spared nerve injury model of neuropathic pain, that loss ofFxyd2function, either constitutively inFxyd2−/−mice or acutely in neuropathic rats, efficiently alleviates mechanical hypersensitivity induced by peripheral nerve lesions. The role of Fxyd2 in modulating Aδ- and C-fibers mechanosensitivity likely accounts for the anti-allodynic effect ofFxyd2knockdown. Finally, we uncover the evolutionarily conserved restricted expression pattern of FXYD2 in human dorsal root ganglia, thus identifying this molecule as a potentially promising therapeutic target for peripheral neuropathic pain management.
Evidence of the presence of nucleic acids and β-glucan in the matrix of non-typeable Haemophilus influenzae in vitro biofilms
Authors: Domenech Mirian , Pedrero-Vega Elena , Prieto Alicia , García Ernesto 
Published: November 2016

AbstractNon-typeable Haemophilus influenzae (NTHi) is a Gram-negative bacterium that frequently colonizes the human nasopharynx; it is a common cause of chronic and recurrent otitis media in children and of exacerbations of chronic obstructive pulmonary disease. To date, no exopolysaccharide clearly contributing to NTHi biofilms has been identified. Consequently, there is some debate as to whether NTHi forms biofilms during colonization and infection. The present work shows that NTHi can form biofilms in vitro, producing an extracellular matrix composed of proteins, nucleic acids, and a β-glucan. Extracellular DNA, visualized by immunostaining and using fluorochromes, is an important component of this matrix and appears to be essential in biofilm maintenance. Extracellular RNA appears to be required only in the first steps of biofilm formation. Evidence of a matrix polysaccharide was obtained by staining with Calcofluor white M2R and by disaggregating biofilms with cellulase. Using strain 54997, residues of Glcp(1→4) in the NTHi biofilm were confirmed by gas-liquid chromatography-mass spectrometry. Evidence that N-acetyl-L-cysteine shows notable killing activity towards in vitro NTHi biofilm-forming bacteria is also provided.
Functional insights into the testis transcriptome of the edible sea urchin Loxechinus albus
Authors: Gaitán-Espitia Juan Diego , Sánchez Roland , Bruning Paulina , Cárdenas Leyla 
Published: November 2016

AbstractThe edible sea urchinLoxechinus albus(Molina, 1782) is a keystone species in the littoral benthic systems of the Pacific coast of South America. The international demand for high-quality gonads of this echinoderm has led to an extensive exploitation and decline of its natural populations. Consequently, a more thorough understanding ofL. albusgonad development and gametogenesis could provide valuable resources for aquaculture applications, management, conservation and studies about the evolution of functional and structural pathways that underlie the reproductive toolkit of marine invertebrates. Using a high-throughput sequencing technology, we explored the male gonad transcriptome of this highly fecund sea urchin. Through ade novoassembly approach we obtained 42,530 transcripts of which 15,544 (36.6%) had significant alignments to known proteins in public databases. From these transcripts, approximately 73% were functionally annotated allowing the identification of several candidate genes that are likely to play a central role in developmental processes, nutrient reservoir activity, sexual reproduction, gamete generation, meiosis, sex differentiation, sperm motility, male courtship behavior and fertilization. Additionally, comparisons with the male gonad transcriptomes of other echinoderms revealed several conserved orthologous genes, suggesting that similar functional and structural pathways underlie the reproductive development in this group and other marine invertebrates.
Efficient and simple approach to in vitro culture of primary epithelial cancer cells
Authors: Janik Karolina , Popeda Marta , Peciak Joanna , Rosiak Kamila , Smolarz Maciej , Treda Cezary , Rieske Piotr , Stoczynska-Fidelus Ewelina , Ksiazkiewicz Magdalena 
Published: November 2016

Primary cancer cells constitute a favourable testing platform for in vitro research in oncology field as they reflect tumour state more accurately than the most commonly employed stable cell lines. Unfortunately, due to limited availability of material and difficulties with protocols validation, primary models are rarely implemented into laboratory practice.
We have compared protocols for primary cultures, differing in media components and plate coatings. In terms of culture establishment, application of Geltrex® coating demonstrated equal efficiency to feeder layer (83% compared with 72% successfully established breast and 80% compared with 80% prostate tumour specimens), yet it was substantially less complicated and easier to validate. Both Geltrex® coating and tissue-specific primary cell medium were permanently required to successfully maintain primary epithelial prostate cancer cells (PEPCs) in culture. In case of primary epithelial breast cancer cells (PEBCs), collagen I coating enabled to obtain comparable number of passages to Geltrex® coating (P=0.438). Commercial primary cell media demonstrated lower efficiency than tissue-specific ones (PEPCs–5 compared with 8 and PEBCs–6 compared with 9 passages). Interestingly, both analysed tumour types were unsusceptible to induction of culture lifespan extension when transduced with SV40LT, BMI-1 or hEST2 genes, commonly applied as potential immortalizing agents.
In conclusion, the approach based on extracellular matrix reconstitution and tissue-specific primary cell media is easy to validate and provides in vitro expansion sufficient for analytical purposes (approximately 8 passages). Therefore, it may facilitate implementation of hardly available experimental models for a variety of analyses.
Strong antineoplastic effects of metformin in preclinical models of liver carcinogenesis
Authors: Cauchy François , Mebarki Mouniya , Leporq Benjamin , Laouirem Samira , Albuquerque Miguel , Lambert Simon , Bourgoin Pierre , Soubrane Olivier , Van Beers Bernard E. , Faivre Sandrine , Bedossa Pierre , Paradis Valérie 
Published: November 2016

Studies suggest that metformin, widely used for treating Type 2 diabetes, possesses innate antineoplastic properties. For metabolic syndrome patients with hepatocellular carcinoma (HCC), metformin may provide antitumoral effects. We evaluated the impact of metformin on tumour growth and visceral fat composition using relevant preclinical models of metabolic syndrome. Studies were performed in three hepatoma cell lines, in HepG2 xenograft mice fed with standard chow (SC) diet, 60% high-fat diet (HFD) or 30% fructose diet (FR), and an ex vivo model of human cultured HCC slices. Visceral fatty acid composition was analysed by magnetic resonance imaging (MRI). Metformin had a dose-dependent inhibitory effect on cell proliferation and apoptosis in vitro through the deregulation of mTOR/AMPK, AKT and extracellular signal regulated kinase (ERK) signalling pathways. Tumour engraftment rates were higher in HFD mice than SC mice (hepatic: 79% compared with 25%, P=0.02) and FR mice (subcutaneous: 86% compared with 50%, P=0.04). Subcutaneous tumour volume was increased in HFD mice (+64% compared with FR and SC, P=0.03). Metformin significantly decreased subcutaneous tumour growth via cell-cycle block and mammalian target of rapamycin (mTOR) pathway inhibition, and also induced hypoxia and decreased angiogenesis. In ex vivo tumour slices, metformin treatment led to increased necrosis, decreased cyclin D1 and increased carbonic anhydrase-9 (CA-9). Metformin caused qualitative changes in visceral fat composition of HFD mice, with decreased proportions of polyunsaturated fatty acids (14.6% ± 2.3% compared with 17.9% ± 3.0%, P=0.04). The potent antitumoral effects of metformin in multiple preclinical models implicating several molecular mechanisms provide a strong rationale for clinical trials including combination studies in HCC patients.
Evolutionary trend toward kinetic stability in the folding trajectory of RNases H
Authors: Lim Shion A. , Hart Kathryn M. , Harms Michael J. , Marqusee Susan 
Published: November 2016

Significance
Because protein folding is crucial to proper cellular function, there must be evolutionary pressures on how a protein achieves and maintains its folded structure. The outcome of these pressures on a folding pathway should be reflected in trends and patterns over a protein’s evolutionary history. To understand how folding pathways evolve, we characterized how reconstructed ancestral proteins of the ribonuclease H family fold. The deepest ancestors fold and unfold faster than their modern descendants, and kinetic stability evolved along both mesophilic and thermophilic lineages. This trend is possible because of a conserved partially folded intermediate state, which uncouples thermodynamic and kinetic stability to allow each parameter to evolve independently.
Optimal stomatal behavior with competition for water and risk of hydraulic impairment
Authors: Wolf Adam , Anderegg William R. L. , Pacala Stephen W. 
Published: November 2016

SignificancePlants lose water and take up carbon through stomata, whose behavior has major influences on global carbon and water fluxes. Yet both competition for water and the potential fitness costs of hydraulic damage during water stress could alter how stomata behave. Here, we add variable xylem conductivity to water and carbon costs of low-xylem water potentials to the classic stomatal optimization and a pure carbon-maximization optimization. We show that both optimizations can reproduce known stomatal responses to environmental conditions but that the pure carbon-maximization optimization is also consistent with competition for water. We describe a new measure—the marginal xylem tension efficiency—that can be used to test stomatal optimizations.