bluuebunny/crossref_metadata_2025 huggingface dataset:
Helicobacter pylori infection associates with fecal microbiota composition and diversity
Authors: Frost Fabian , Kacprowski Tim , Rühlemann Malte , Bang Corinna , Franke Andre , Zimmermann Kathrin , Nauck Matthias , Völker Uwe , Völzke Henry , Biffar Reiner , Schulz Christian , Mayerle Julia , Weiss Frank U. , Homuth Georg , Lerch Markus M.
Published: December 2019

Helicobacter (H.) pylori is the most important cause for peptic ulcer disease and a risk factor for gastric carcinoma. How colonization with H. pylori affects the intestinal microbiota composition in humans is unknown. We investigated the association of H. pylori infection with intestinal microbiota composition in the population-based cohort Study-of-Health-in-Pomerania (SHIP)-TREND. Anti-H. pylori serology and H. pylori stool antigen tests were used to determine the H. pylori infection status. The fecal microbiota composition of 212 H. pylori positive subjects and 212 matched negative control individuals was assessed using 16S rRNA gene sequencing. H. pylori infection was found to be significantly associated with fecal microbiota alterations and a general increase in fecal microbial diversity. In infected individuals, the H. pylori stool antigen load determined a larger portion of the microbial variation than age or sex. The highest H. pylori stool antigen loads were associated with a putatively harmful microbiota composition. This study demonstrates profound alterations in human fecal microbiota of H. pylori infected individuals. While the increased microbiota diversity associated with H. pylori infection as well as changes in abundance of specific genera could be considered to be beneficial, others may be associated with adverse health effects, reflecting the complex relationship between H. pylori and its human host.
Matrisome-Associated Gene Expression Patterns Correlating with TIMP2 in Cancer
Authors: Peeney David , Fan Yu , Nguyen Trinh , Meerzaman Daoud , Stetler-Stevenson William G.
Published: December 2019

Remodeling of the extracellular matrix (ECM) to facilitate invasion and metastasis is a universal hallmark of cancer progression. However, a definitive therapeutic target remains to be identified in this tissue compartment. As major modulators of ECM structure and function, matrix metalloproteinases (MMPs) are highly expressed in cancer and have been shown to support tumor progression. MMP enzymatic activity is inhibited by the tissue inhibitor of metalloproteinase (TIMP1–4) family of proteins, suggesting that TIMPs may possess anti-tumor activity. TIMP2 is a promiscuous MMP inhibitor that is ubiquitously expressed in normal tissues. In this study, we address inconsistencies in the literature regarding the role of TIMP2 in tumor progression by analyzing co-expressed genes in tumor vs. normal tissue. Utilizing data from The Cancer Genome Atlas and Genotype-Tissue expression studies, focusing on breast and lung carcinomas, we analyzed the correlation between TIMP2 expression and the transcriptome to identify a list of genes whose expression is highly correlated with TIMP2 in tumor tissues. Bioinformatic analysis of the identified gene list highlights a core of matrix and matrix-associated genes that are of interest as potential modulators of TIMP2 function, thus ECM structure, identifying potential tumor microenvironment biomarkers and/or therapeutic targets for further study.
Serum Squamous Cell Carcinoma Antigen-Immunoglobulin M complex levels predict survival in patients with cirrhosis
Authors: Cagnin Marco , Biasiolo Alessandra , Martini Andrea , Ruvoletto Mariagrazia , Quarta Santina , Fasolato Silvano , Angeli Paolo , Fassina Giorgio , Pontisso Patrizia
Published: December 2019

Complications of chronic liver diseases – particularly hepatocellular carcinoma (HCC) – are a major cause of mortality worldwide. Several studies have shown that high or increasing levels of serum Squamous Cell Carcinoma Antigen-Immunoglobulin M complex (SCCA-IgM) are associated with development of HCC in patients with advanced liver disease and worse survival in patients with liver cancer. The aim of the present study was to assess, in patients with advanced liver disease, differences in long-term clinical outcomes in relation to baseline levels of serum SCCA-IgM. Ninety one consecutive outpatients with liver cirrhosis of different etiologies, without hepatocellular carcinoma at presentation, were enrolled from April 2007 to October 2012 in a prospective study. For a median time of 127 months, patients were bi-annually re-evaluated. SCCA-IgM complex levels were determined with a validated enzyme-linked immunosorbent assay. The results provided evidence that serum SCCA-IgM is a predictor of overall survival. The best cut-off to discriminate both HCC-free and overall survival rates was 120 AU/mL. Patients with baseline values higher than this threshold showed a substantial increase in both HCC incidence rate and all-cause mortality rate. In conclusion, a single measurement of serum SCCA-IgM helps to identify those patients with liver cirrhosis with increased risks of HCC development and mortality.
Anti-Nogo-A antibodies prevent vascular leakage and act as pro-angiogenic factors following stroke
Authors: Rust Ruslan , Weber Rebecca Z. , Grönnert Lisa , Mulders Geertje , Maurer Michael A. , Hofer Anna-Sophie , Sartori Andrea M. , Schwab Martin E.
Published: December 2019

Angiogenesis is a key restorative process following stroke but has also been linked to increased vascular permeability and blood brain barrier (BBB) disruption. Previous pre-clinical approaches primarily focused on the administration of vascular endothelial growth factor (VEGF) to promote vascular repair after stroke. Although shown to improve angiogenesis and functional recovery from stroke, VEGF increased the risk of blood brain barrier disruption and bleedings to such an extent that its clinical use is contraindicated. As an alternative strategy, antibodies against the neurite growth inhibitory factor Nogo-A have recently been shown to enhance vascular regeneration in the ischemic central nervous system (CNS); however, their effect on vascular permeability is unknown. Here, we demonstrate that antibody-mediated Nogo-A neutralization following stroke has strong pro-angiogenic effects but does not increase vascular permeability as opposed to VEGF. Moreover, VEGF-induced vascular permeability was partially prevented when VEGF was co-administered with anti-Nogo-A antibodies. This study may provide a novel therapeutic strategy for vascular repair and maturation in the ischemic brain.
Selection of Reference Genes for qPCR Analyses of Gene Expression in Ramie Leaves and Roots across Eleven Abiotic/Biotic Treatments
Authors: Yu Yongting , Zhang Gang , Chen Yikun , Bai Qingqing , Gao Chunsheng , Zeng Liangbin , Li Zhimin , Cheng Yi , Chen Jia , Sun Xiangping , Guo Litao , Xu Jianping , Yan Zhun
Published: December 2019

Quantitative real-time PCR (qPCR) is commonly used for deciphering gene functions. For effective qPCR analyses, suitable reference genes are needed for normalization. The objective of this study is to identify the appropriate reference gene(s) for qPCR analyses of the leaves and roots of ramie (Boehmeria nivea L.), an important natural fiber crop. To accomplish this goal, we investigated the expression patterns of eight common plant qPCR reference genes in ramie leaves and roots under five abiotic stresses, five hormonal treatments, and one biotic stress. The relative expression stabilities of the eight genes were evaluated using four common but different approaches: geNorm, NormFinder, BestKeeper, and RefFinder. Across the 11 tested conditions, ACT1 was the most stably expressed among the eight genes while GAPDH displayed the biggest variation. Overall, while variations in the suggested reference genes were found for different tissue x treatment combinations, our analyses revealed that together, genes ACT1, CYP2, and UBQ can provide robust references for gene expression studies of ramie leaves under most conditions, while genes EF-1α, TUB, and ACT1 can be used for similar studies of ramie roots. Our results should help future functional studies of the genes in ramie genome across tissues and environmental conditions.
Follow up colonoscopy may be omissible in uncomplicated left-sided acute diverticulitis diagnosed with CT- a retrospective cohort study
Authors: O’Donohoe Nollaig , Chandak Pankaj , Likos-Corbett Marina , Yee Janelle , Hurndall Katherine , Rao Christopher , Engledow Alec Harry
Published: December 2019

International guidelines recommend colonoscopy following hospitalisation for acute diverticulitis. There is a paucity of evidence supporting the efficacy of colonoscopy in this context, particularly for patients with CT-diagnosed uncomplicated left-sided diverticulitis. This study aims to investigate the frequency that colorectal cancer (CRC) and advanced adenomas (AA) are identified during follow-up colonoscopy after hospitalisation with CT-proven left-sided diverticulitis for the first time in a UK population. In this single-centre retrospective-cohort study all patients presenting with CT-diagnosed uncomplicated left-sided diverticulitis between 2014 and 2017 were identified. The incidence of histologically confirmed CRC and AA identified at follow-up colonoscopy 4–6 weeks following discharge was assessed. 204 patients with CT proven uncomplicated left-sided diverticulitis underwent follow-up colonoscopy. 72% were female and the median age was 63 years. There were no major complications. 22% of patients were found to have incidental hyperplastic polyps or adenomas with low-grade dysplasia. No CRC or AA were found. Routine colonoscopy following acute diverticulitis in this cohort did not identify a single CRC or AA and could arguably have been omitted. This would significantly reduce cost and pressure on endoscopy departments, in addition to the pain and discomfort that is commonly associated with colonoscopy.
An in vivo examination of the differences between rapid cardiovascular collapse and prolonged hypotension induced by snake venom
Authors: Kakumanu Rahini , Kemp-Harper Barbara K. , Silva Anjana , Kuruppu Sanjaya , Isbister Geoffrey K. , Hodgson Wayne C.
Published: December 2019

We investigated the cardiovascular effects of venoms from seven medically important species of snakes: Australian Eastern Brown snake (Pseudonaja textilis), Sri Lankan Russell’s viper (Daboia russelii), Javanese Russell’s viper (D. siamensis), Gaboon viper (Bitis gabonica), Uracoan rattlesnake (Crotalus vegrandis), Carpet viper (Echis ocellatus) and Puff adder (Bitis arietans), and identified two distinct patterns of effects: i.e. rapid cardiovascular collapse and prolonged hypotension. P. textilis (5 µg/kg, i.v.) and E. ocellatus (50 µg/kg, i.v.) venoms induced rapid (i.e. within 2 min) cardiovascular collapse in anaesthetised rats. P. textilis (20 mg/kg, i.m.) caused collapse within 10 min. D. russelii (100 µg/kg, i.v.) and D. siamensis (100 µg/kg, i.v.) venoms caused ‘prolonged hypotension’, characterised by a persistent decrease in blood pressure with recovery. D. russelii venom (50 mg/kg and 100 mg/kg, i.m.) also caused prolonged hypotension. A priming dose of P. textilis venom (2 µg/kg, i.v.) prevented collapse by E. ocellatus venom (50 µg/kg, i.v.), but had no significant effect on subsequent addition of D. russelii venom (1 mg/kg, i.v). Two priming doses (1 µg/kg, i.v.) of E. ocellatus venom prevented collapse by E. ocellatus venom (50 µg/kg, i.v.). B. gabonica, C. vegrandis and B. arietans (all at 200 µg/kg, i.v.) induced mild transient hypotension. Artificial respiration prevented D. russelii venom induced prolonged hypotension but not rapid cardiovascular collapse from E. ocellatus venom. D. russelii venom (0.001–1 μg/ml) caused concentration-dependent relaxation (EC50 = 82.2 ± 15.3 ng/ml, Rmax = 91 ± 1%) in pre-contracted mesenteric arteries. In contrast, E. ocellatus venom (1 µg/ml) only produced a maximum relaxant effect of 27 ± 14%, suggesting that rapid cardiovascular collapse is unlikely to be due to peripheral vasodilation. The prevention of rapid cardiovascular collapse, by ‘priming’ doses of venom, supports a role for depletable endogenous mediators in this phenomenon.
Oral treatment with T6-loaded yeast cell wall particles reduces the parasitemia in murine visceral leishmaniasis model
Authors: Scariot Débora B. , Volpato Hélito , Fernandes Nilma S. , Lazarin-Bidóia Danielle , Borges Olga , Sousa Maria do Céu , Rosa Fernanda A. , Jacomini Andrey P. , Silva Sueli O. , Ueda-Nakamura Tânia , Rubira Adley F. , Nakamura Celso V.
Published: December 2019

Yeast cell wall particles isolated fromSaccharomyces cerevisiae(scYCWPs) have a rich constitution of β-glucan derived from the cell wall. After removing intracellular contents, β-glucan molecules are readily recognized by dectin-1 receptors, present on the cytoplasmic membrane surface of the mononuclear phagocytic cells and internalized.Leishmaniaspp. are obligate intracellular parasites; macrophages are its primary host cells. An experimental murine model of visceral leishmaniasis caused byL. infantumwas used to evaluate the antileishmanial activity of oral administration of these particles. A low-water soluble thiophene previously studiedin vitroagainstL. infantumwas entrapped intoscYCWPs to direct it into the host cell, in order to circumvent the typical pharmacokinetic problems of water-insoluble compounds. We found thatscYCWPs + T6 reduced the parasitic burden in the liver and spleen. There was an increase in IFN-γ levels related to nitric oxide production, explaining the reduction of theL. infantumburden in the tissue. Histological analysis did not show signals of tissue inflammation and biochemical analysis from plasma did not indicate signals of cytotoxicity afterscYCWPs + T6 treatment. These findings suggested thatscYCWPs + T6 administered through oral route reduced the parasitic burden without causing toxic effects, satisfying requirements for development of new strategies to treat leishmaniasis.
Proton-transfer pathways in the mitochondrial S. cerevisiae cytochrome c oxidase
Authors: Björck Markus L. , Vilhjálmsdóttir Jóhanna , Hartley Andrew M. , Meunier Brigitte , Näsvik Öjemyr Linda , Maréchal Amandine , Brzezinski Peter
Published: December 2019

In cytochrome c oxidase (CytcO) reduction of O2 to water is linked to uptake of eight protons from the negative side of the membrane: four are substrate protons used to form water and four are pumped across the membrane. In bacterial oxidases, the substrate protons are taken up through the K and the D proton pathways, while the pumped protons are transferred through the D pathway. On the basis of studies with CytcO isolated from bovine heart mitochondria, it was suggested that in mitochondrial CytcOs the pumped protons are transferred though a third proton pathway, the H pathway, rather than through the D pathway. Here, we studied these reactions in S. cerevisiae CytcO, which serves as a model of the mammalian counterpart. We analyzed the effect of mutations in the D (Asn99Asp and Ile67Asn) and H pathways (Ser382Ala and Ser458Ala) and investigated the kinetics of electron and proton transfer during the reaction of the reduced CytcO with O2. No effects were observed with the H pathway variants while in the D pathway variants the functional effects were similar to those observed with the R. sphaeroides CytcO. The data indicate that the S. cerevisiae CytcO uses the D pathway for proton uptake and presumably also for proton pumping.
Induced Osteogenesis in Plants Decellularized Scaffolds
Authors: Lee Jennifer , Jung Hyerin , Park Narae , Park Sung-Hwan , Ju Ji Hyeon
Published: December 2019

A three-dimensional (3D) culture system that closely replicates the in vivo microenvironment of calcifying osteoid is essential for in vitro cultivation of bone-like material. In this regard, the 3D cellulose constructs of plants may well serve as scaffolds to promote growth and differentiation of osteoblasts in culture. Our aim in this study was to generate bone-like tissue by seeding pluripotent stem cells (hiPSCs), stimulated to differentiate as osteoblasts in culture, onto the decellularised scaffolds of various plants. We then assessed expression levels of pertinent cellular markers and degrees of calcium-specific staining to gauge technical success. Apple scaffolding bearing regular pores of 300 μm seemed to provide the best construct. The bone-like tissue thus generated was implantable in a rat calvarial defect model where if helped form calcified tissue. Depending on the regularity and sizing of scaffold pores, this approach readily facilitates production of mineralized bone.
Coupling Effects in Multistage Laser Wake-field Acceleration of Electrons
Authors: Jin Zhan , Nakamura Hirotaka , Pathak Naveen , Sakai Yasuo , Zhidkov Alexei , Sueda Keiichi , Kodama Ryosuke , Hosokai Tomonao
Published: December 2019

Staging laser wake-field acceleration is considered to be a necessary technique for developing full-optical jitter-free high energy electron accelerators. Splitting of the acceleration length into several technical parts and with independent laser drivers allows not only the generation of stable, reproducible acceleration fields but also overcoming the dephasing length while maintaining an overall high acceleration gradient and a compact footprint. Temporal and spatial coupling of pre-accelerated electron bunches for their injection in the acceleration phase of a successive laser pulse wake field is the key part of the staging laser-driven acceleration. Here, characterization of the coupling is performed with a dense, stable, narrow energy band of <3% and energy-selectable electron beams with a charge of ~1.6 pC and energy of ~10 MeV generated from a laser plasma cathode. Cumulative focusing of electron bunches in a low-density preplasma, exhibiting the Budker–Bennett effect, is shown to result in the efficient injection of electrons, even with a long distance between the injector and the booster in the laser pulse wake. The measured characteristics of electron beams modified by the booster wake field agree well with those obtained by multidimensional particle-in-cell simulations.
HoxB13 expression in ductal type adenocarcinoma of prostate: clinicopathologic characteristics and its utility as potential diagnostic marker
Authors: Park Cheol Keun , Shin Su-Jin , Cho Yoon Ah , Joo Jin Woo , Cho Nam Hoon
Published: December 2019

The histologic criteria and selective biomarkers of prostate ductal type adenocarcinoma (DAC) are relatively unknown compared to that known about acinar type adenocarcinoma (AAC). It is known that genetic alteration in Hox13 gene is associated with carcinogenesis of prostate cancer. In this study, we investigated clinicopathologic characteristics of HoxB13 expression in prostate cancer and compared clinicopathologic profiles of DAC and AAC of prostate. After slide review, some morphological variants of DAC, equivalent to Gleason pattern 3 and 5 of AAC were identified. High level of HoxB13 expression was identified in 46.5% (46 out of 99 cases) and 39.2% (31 out of 79 cases) of cases that belong to the training set and test set, respectively. In the training set, high level of HoxB13 expression was significantly correlated with DAC (P < 0.001), higher Gleason score (P < 0.001), advanced pathologic T stage (P = 0.010), and occurrence of biochemical recurrence (BCR; P < 0.001). The test set confirmed that high level of HoxB13 expression was associated with DAC (P < 0.001), higher Gleason score (P = 0.001), advanced pathologic T stage (P < 0.001), and occurrence of BCR (P < 0.001). Our findings suggest that HoxB13 may be a useful diagnostic marker for detection of DAC and a prognostic marker for prediction of BCR.
Type-2 Diabetics Reduces Spatial Variation of Microbiome Based on Extracellular Vesicles from Gut Microbes across Human Body
Authors: Nah Geumkyung , Park Sang-Cheol , Kim Kangjin , Kim Sungmin , Park Jaehyun , Lee Sanghun , Won Sungho
Published: December 2019

As a result of advances in sequencing technology, the role of gut microbiota in the mechanism of type-2 diabetes mellitus (T2DM) has been revealed. Studies showing wide distribution of microbiome throughout the human body, even in the blood, have motivated the investigation of the dynamics in gut microbiota across the humans. Particularly, extracellular vesicles (EVs), lipid bilayer structures secreted from the gut microbiota, have recently come into the spotlight because gut microbe-derived EVs affect glucose metabolism by inducing insulin resistance. Recently, intestine hyper-permeability linked to T2DM has also been associated with the interaction between gut microbes and leaky gut epithelium, which increases the uptake of macromolecules like lipopolysaccharide from the membranes of microbes leading to chronic inflammation. In this article, we firstly investigate the co-occurrence of stool microbes and microbe-derived EVs across serum and urine in human subjects (N = 284), showing the dynamics and stability of gut derived EVs. Stool EVs are intermediate, while the bacterial composition in both urine and serum EVs is distinct from the stool microbiome. The co-occurrence of microbes was compared between patients with T2DM (N = 29) and matched in healthy subjects (N = 145). Our results showed significantly higher correlations in patients with T2DM compared to healthy subjects across stool, serum, and urine, which could be interpreted as the dysfunction of intestinal permeability in T2DM. Therefore, the significant correlation of EVs might give insight into the pathophysiological mechanisms of T2DM, as well as the role of EVs as a biomarker in the intestinal permeability of T2DM.
Dominant Heterogeneity of Upper and Lower Motor Neuron Degeneration to Motor Manifestation of Involved Region in Amyotrophic Lateral Sclerosis
Authors: Jin Jiaoting , Hu Fangfang , Zhang Qiuli , Chen Qiaoyi , Li Haining , Qin Xing , Jia Rui , Kang Li , Dang Yonghui , Dang Jingxia
Published: December 2019

The aim of this study was to localize the anatomic distribution of upper motor neuron (UMN) loss through examining cortical thickness at the clinical onset of amyotrophic lateral sclerosis (ALS) and explore motor manifestation in functionally impaired body region attribute to impairment of lower motor neuron (LMN) or UMN or mixed LMN and UMN? The clinical features, cortical thickness of corresponding areas from different body regions in MRI and electromyography (EMG) data were collected from 108 classical ALS patients. The cortical thickness was thinner in ALS group than control group in bilateral head-face and upper-limb areas (p < 0.05). In head-face area, the cortical thickness of bulbar-onset group was significantly lower than that of control groups (p < 0.05). In upper-limb areas, the cortical thickness of cervical-onset group was significantly thinner than that of control group. Notably, the bulbar ALSFRS-R subscore was correlated with cortical thickness in bilateral head-face areas (p < 0.05). The bulbar ALSFRS-R subscore of the positive LMN damage group was lower compared to that of the negative LMN damage group (P < 0.001). The limb ALSFRS-R subscore correlated with compound muscle action potential (CMAP) amplitudes of median, ulnar, peroneal, and tibial nerves (P < 0.001), but was not related to cortical thickness. In conclusion, the UMN degeneration in ALS was derived from focal initiation, bulbar- and cervical-onset may date from head-face and upper-limb areas in motor homunculus cortex, respectively. The bulbar dysfunction was resulted from the mixed UMN and LMN impairment, while limb dysfunction derived mostly from LMN loss.
Epinephrine affects motility, and increases adhesion, biofilm and virulence of Pseudomonas aeruginosa H103
Authors: Cambronel Mélyssa , Tortuel Damien , Biaggini Kelly , Maillot Olivier , Taupin Laure , Réhel Karine , Rincé Isabelle , Muller Cécile , Hardouin Julie , Feuilloley Marc , Rodrigues Sophie , Connil Nathalie
Published: December 2019

Microbial endocrinology has demonstrated for more than two decades, that eukaryotic substances (hormones, neurotransmitters, molecules of the immune system) can modulate the physiological behavior of bacteria. Among them, the hormones/neurotransmitters, epinephrine (Epi) and norepinephrine (NE), released in case of stress, physical effort or used in medical treatment, were shown to be able to modify biofilm formation in various bacterial species. In the present study, we have evaluated the effect of Epi on motility, adhesion, biofilm formation and virulence of Pseudomonas aeruginosa, a bacterium linked to many hospital-acquired infections, and responsible for chronic infection in immunocompromised patients including persons suffering from cystic fibrosis. The results showed that Epi increased adhesion and biofilm formation of P. aeruginosa, as well as its virulence towards the Galleria mellonella larvae in vivo model. Deciphering the sensor of this molecule in P. aeruginosa and the molecular mechanisms involved may help to find new strategies of treatment to fight against this bacterium.
Desert crossing strategies of migrant songbirds vary between and within species
Authors: Jiguet Frédéric , Burgess Malcolm , Thorup Kasper , Conway Greg , Arroyo Matos José Luis , Barber Lee , Black John , Burton Niall , Castelló Joan , Clewley Gary , Copete José Luis , Czajkowski Michel Alexandre , Dale Svein , Davis Tony , Dombrovski Valery , Drew Mike , Elts Jaanus , Gilson Vicky , Grzegorczyk Emilienne , Henderson Ian , Holdsworth Michael , Husbands Rob , Lorrilliere Romain , Marja Riho , Minkevicius Simonas , Moussy Caroline , Olsson Peter , Onrubia Alejandro , Pérez Marc , Piacentini Joseph , Piha Markus , Pons Jean-Marc , Procházka Petr , Raković Marko , Robins Harriet , Seimola Tuomas , Selstam Gunnar , Skierczyński Michał , Sondell Jan , Thibault Jean-Claude , Tøttrup Anders P. , Walker Justin , Hewson Chris
Published: December 2019

Each year, billions of songbirds cross large ecological barriers during their migration. Understanding how they perform this incredible task is crucial to predict how global change may threaten the safety of such journeys. Earlier studies based on radar suggested that most songbirds cross deserts in intermittent flights at high altitude, stopping in the desert during the day, while recent tracking with light loggers suggested diurnal prolongation of nocturnal flights and common non-stop flights for some species. We analyzed light intensity and temperature data obtained from geolocation loggers deployed on 130 individuals of ten migratory songbird species, and show that a large variety of strategies for crossing deserts exists between, but also sometimes within species. Diurnal stopover in the desert is a common strategy in autumn, while most species prolonged some nocturnal flights into the day. Non-stop flights over the desert occurred more frequently in spring than in autumn, and more frequently in foliage gleaners. Temperature recordings suggest that songbirds crossed deserts with flight bouts performed at various altitudes according to species and season, along a gradient ranging from low above ground in autumn to probably >2000 m above ground level, and possibly at higher altitude in spring. High-altitude flights are therefore not the general rule for crossing deserts in migrant songbirds. We conclude that a diversity of migration strategies exists for desert crossing among songbirds, with variations between but also within species.
Specific strains of Streptococcus mutans, a pathogen of dental caries, in the tonsils, are associated with IgA nephropathy
Authors: Ito Seigo , Misaki Taro , Naka Shuhei , Wato Kaoruko , Nagasawa Yasuyuki , Nomura Ryota , Otsugu Masatoshi , Matsumoto-Nakano Michiyo , Nakano Kazuhiko , Kumagai Hiroo , Oshima Naoki
Published: December 2019

Streptococcus mutans is known to be a major causative agent of dental caries, and strains expressing the cell surface collagen-binding Cnm protein contribute to the development of several systemic diseases. A relationship between tonsillar immunity and glomerulonephritis has been recognized in IgA nephropathy (IgAN), and specific pathogens may have effects on tonsillar immunity (mucosal immunity). Here, we present findings showing a relationship between the presence of Cnm-positive S. mutans strains in the tonsils of IgAN patients and IgAN condition/pathogenesis. Analyses of tonsillar specimens obtained from patients with IgAN (n = 61) and chronic tonsillitis (controls; n = 40) showed that the Cnm protein-positive rate was significantly higher in IgAN patients. Among IgAN patients, the tonsillar Cnm-positive group (n = 15) had a significantly higher proportion of patients with high urinary protein (>1.5 g/gCr) and lower serum albumin level than the Cnm-negative group (n = 46). Additionally, Cnm protein and CD68, a common human macrophage marker, were shown to be merged in the tonsils of IgAN patients. These findings suggest that Cnm-positive S. mutans strains in the tonsils may be associated with severe IgAN.
Regulation of miRNAs as new tool for cutaneous vitality lesions demonstration in ligature marks in deaths by hanging
Authors: Neri Margherita , Fabbri Matteo , D’Errico Stefano , Di Paolo Marco , Frati Paola , Gaudio Rosa Maria , La Russa Raffaele , Maiese Aniello , Marti Matteo , Pinchi Enrica , Turillazzi Emanuela , Fineschi Vittorio
Published: December 2019

This study aims to demonstrate that the application of miRNA expression in forensic pathology, in cases of hanging, applying the method on skin samples. The proposed investigative protocol allowed us to highlight a different miRNA expression in the skin ligature marks of subjects who died by hanging compared to healthy skin control samples. The results obtained showed an increase in the expression of miRNAs recognized as regulators of the inflammatory response in skin lesions such as miR125a-5p and miR125b-5p. Furthermore, overexpression of additional miRNAs – miR214a-3p, miR128-3p, miR130a-3p, and miR92a-3p – with anti-inflammatory activity was highlighted. It was possible to document a statistical significance to control skin samples only for miR103a-3p (p < 0.05), miR214-3p and miR92a-3p (p < 0.01) The upregulation of miR222-3p and miR150-5p, respectively related to mast-cell activation and neutrophils after the application of traumatic stimuli supports the immunohistochemical data showed in literature. The diagnostic accuracy of miRNAs could expand the range of diagnostic tools available in the assessment of the vitality of a lesion.
MicroRNAs and their targeted genes associated with phase changes of stem explants during tissue culture of tea plant
Authors: Gao Ying , Li Da , Zhang Lu-Lu , Borthakur Devajit , Li Qing-Sheng , Ye Jian-Hui , Zheng Xin-Qiang , Lu Jian-Liang
Published: December 2019

Elucidation of the molecular mechanism related to the dedifferentiation and redifferentiation during tissue culture will be useful for optimizing regeneration system of tea plant. In this study, an integrated sRNAome and transcriptome analyses were carried out during phase changes of the stem explant culture. Among 198 miRNAs and 8001 predicted target genes, 178 differentially expressed miRNAs and 4264 potential targets were screened out from explants, primary calli, as well as regenerated roots and shoots. According to KEGG analysis of the potential targets, pathway of “aminoacyl-tRNA biosynthesis”, “proteasome” and “glutathione metabolism” was of great significance during the dedifferentiation, and pathway of “porphyrin and chlorophyll metabolism”, “mRNA surveillance pathway”, “nucleotide excision repair” was indispensable for redifferentiation of the calli. Expression pattern of 12 miRNAs, including csn-micR390e, csn-miR156b-5p, csn-miR157d-5p, csn-miR156, csn-miR166a-3p, csn-miR166e, csn-miR167d, csn-miR393c-3p, csn-miR394, csn-miR396a-3p, csn-miR396 and csn-miR396e-3p, was validated by qRT-PCR among 57 differentially expressed phase-specific miRNAs. Validation also confirmed that regulatory module of csn-miR167d/ERF3, csn-miR156/SPB1, csn-miR166a-3p/ATHB15, csn-miR396/AIP15A, csn-miR157d-5p/GST and csn-miR393c-3p/ATG18b might play important roles in regulating the phase changes during tissue culture of stem explants.
Proportions of macronutrients, including specific dietary fats, in prospective anti-Alzheimer’s diet
Authors: Studnicki Marcin , Dębski Konrad J. , Stępkowski Dariusz
Published: December 2019

Here we present a novel life-long whole-population study, which enabled us to predict a diet that, in terms of macronutrient proportions, may be prophylactic against Alzheimer’s Disease (AD). The method is based on the existence of oscillations in the correlation between historical per capita personal income (PCPI) and age-adjusted death rates (AADR) for AD for each state of the USA in 2005. These oscillations can be explained by changing proportions of macronutrients in the average American diet between 1929 and 2005. We assumed that reducing future correlation of PCPI with AADR will reduce the population’s susceptibility to AD. Based on the results of fitting macronutrient availabilities to the variability of Roriginal, using Generalized Additive Models (GAM) analysis, we constructed four “Calculator” equations. The Calculator allowed for prediction of an optimal diet characterized by low correlation of PCPI with AADR (Rpredicted) and minimum energy difference from the historical average macronutrient consumption for each corresponding period of life. We predict that protein consumption should be reduced by half in early middle age and late middle age, whereas in late age it should increase. Our predictions are in line with results on humans and simpler organisms in the context of prolonging life.
Association between skeletal muscle attenuation and gastroesophageal reflux disease: A health check-up cohort study
Authors: Kim Young Min , Kim Jie-Hyun , Baik Su Jung , Jung Da Hyun , Park Jae Jun , Youn Young Hoon , Park Hyojin
Published: December 2019

Sarcopenia is defined as skeletal muscle attenuation and has an association with metabolic syndrome. Metabolic syndrome, which includes obesity, is one of known predictive factors for gastroesophageal reflux disease (GERD). This study aimed to elucidate the association between sarcopenia and GERD. We retrospectively reviewed electronic medical records of 8,218 patients who were performed an upper gastrointestinal endoscopy at check-up center of the Gangnam Severance Hospital. GERD was diagnosed by endoscopic findings. Erosive reflux disease (ERD) included Barrett's esophagus and reflux esophagitis, with the exception of minimal change esophagitis. Sarcopenia was defined by appendicular skeletal muscle (skeletal muscle in the upper and lower limbs). Sarcopenic obesity was defined as the presence of both sarcopenia and obesity. Associations between sarcopenia and GERD, as well as between sarcopenic obesity and ERD, were analyzed. A total of 3,414 patients were diagnosed with GERD, and 574 (16.8%) had sarcopenia. Sarcopenia was independent predictive factor for GERD (odds ratio [OR] = 1.170, 95% confidence interval [CI]: 1.016–1.346, P = 0.029). In addition, male sex, smoking, alcohol, and diet, including sweets and fatty food, had a significant association with GERD. A total of 1,423 (17.3%) of 8,218 patients were diagnosed with ERD, and 302 (21.2%) had sarcopenia. Male sex, smoking, and fatty food consumption had a significant association with ERD. Moreover, sarcopenia (OR = 1.215, 95% CI: 1.019–1.449, P = 0.030), obesity (OR = 1.343, 95% CI: 1.163–1.552, P < 0.001), and sarcopenic obesity (OR = 1.406, 95% CI: 1.195–1.654, P < 0.001) were independent predictive factors for ERD. Sarcopenia is associated with GERD, and sarcopenic obesity may be predictive factor for ERD.
Plasmonics of Diffused Silver Nanoparticles in Silver/Nitride Optical Thin Films
Authors: Ye Yufeng , Loh Joel Y. Y. , Flood Andrew , Fang Cong Y. , Chang Joshua , Zhao Ruizhi , Brodersen Peter , Kherani Nazir P.
Published: December 2019

Metal-dielectric multilayers are versatile optical devices that can be designed to combine the visible transmittance of dielectrics with the electronic properties of metals for plasmonic and meta-material applications. However, their performances are limited by an interfacial optical absorption often attributed entirely to the metal surface roughness. Here, we show that during deposition of AlN/Ag/AlN and SiNx/Ag/SiNx multilayers, significant diffusion of Ag into the top dielectric layer form Ag nanoparticles which excite localized surface plasmon resonances that are primarily responsible for the interfacial optical absorption. Based on experimental depth profiles, we model the multilayer’s silver concentration profile as two complementary error functions: one for the diffused Ag nanoparticles and one for the interface roughness. We apply the Maxwell-Garnett and Bruggeman effective medium theories to determine that diffusion characteristics dominate the experimental absorption spectra. The newfound metal nanoparticle diffusion phenomenon effectively creates a hybrid structure characteristic of both metal-dielectric multilayer and metal-dielectric composite.
Estradiol and high fat diet associate with changes in gut microbiota in female ob/ob mice
Authors: Acharya Kalpana D. , Gao Xing , Bless Elizabeth P. , Chen Jun , Tetel Marc J.
Published: December 2019

Estrogens protect against diet-induced obesity in women and female rodents. For example, a lack of estrogens in postmenopausal women is associated with an increased risk of weight gain, cardiovascular diseases, low-grade inflammation, and cancer. Estrogens act with leptin to regulate energy homeostasis in females. Leptin-deficient mice (ob/ob) exhibit morbid obesity and insulin resistance. The gut microbiome is also critical in regulating metabolism. The present study investigates whether estrogens and leptin modulate gut microbiota in ovariectomizedob/ob(obese) or heterozygote (lean) mice fed high-fat diet (HFD) that received either 17β-Estradiol (E2) or vehicle implants. E2 attenuated weight gain in both genotypes. Moreover, both obesity (ob/obmice) and E2 were associated with reduced gut microbial diversity.ob/obmice exhibited lower species richness than control mice, while E2-treated mice had reduced evenness compared with vehicle mice. Regarding taxa, E2 was associated with an increased abundance of the S24-7 family, while leptin was associated with increases in Coriobacteriaceae,ClostridiumandLactobacillus. Some taxa were affected by both E2 and leptin, suggesting these hormones alter gut microbiota of HFD-fed female mice. Understanding the role of E2 and leptin in regulating gut microbiota will provide important insights into hormone-dependent metabolic disorders in women.
Utility of hepatic or total body iron burden in the assessment of advanced hepatic fibrosis in HFE hemochromatosis
Authors: Chin Justin , Powell Lawrie W. , Ramm Louise E. , Ayonrinde Oyekoya T. , Ramm Grant A. , Olynyk John K.
Published: December 2019

Development of advanced hepatic fibrosis in HFE Hemochromatosis (HH) is influenced by hepatic iron concentration (HIC) and age. In patients with HH, it is important to assess the likelihood of cirrhosis and thus the need for confirmatory liver biopsy. Therapeutic phlebotomy also provides an estimate of mobilisable iron stores. We determined whether mobilisable iron stores may predict the presence of advanced fibrosis. Retrospective analysis of 137 male and 65 female HH subjects was undertaken. Biochemical, histological and phlebotomy data were available on all subjects. The mean values of HIC, HIC × [age], mobilisable iron, mobilisable iron × [age] and serum ferritin in the cohort were higher in the group with advanced fibrosis. HIC had an optimum sensitivity and specificity of 73% for the diagnosis of advanced liver fibrosis, with a cut-off HIC level of 200 µmol/g (AUROC 0.83, p < 0.0001). AUROC for HIC was greater in females (0.93) than males (0.79). Mobilisable iron had an optimum sensitivity and specificity both of 83% at a cut-off of 9.6 g for the prediction of advanced fibrosis in all subjects (AUROC 0.92, p < 0.0001). Mobilisable iron stores provide a simple, clinically useful indication of the risk of advanced fibrosis and should routinely be considered.
Generating and sustaining long-lived spin states in 15N,15N′-azobenzene
Authors: Sheberstov Kirill F. , Vieth Hans-Martin , Zimmermann Herbert , Rodin Bogdan A. , Ivanov Konstantin L. , Kiryutin Alexey S. , Yurkovskaya Alexandra V.
Published: December 2019

Long-Lived spin States (LLSs) hold a great promise for sustaining non-thermal spin order and investigating various slow processes by Nuclear Magnetic Resonance (NMR) spectroscopy. Of special interest for such application are molecules containing nearly equivalent magnetic nuclei, which possess LLSs even at high magnetic fields. In this work, we report an LLS in trans-15N,15N′-azobenzene. The singlet state of the 15N spin pair exhibits a long-lived character. We solve the challenging problem of generating and detecting this LLS and further increase the LLS population by converting the much higher magnetization of protons into the 15N singlet spin order. As far as the longevity of this spin order is concerned, various schemes have been tested for sustaining the LLS. Lifetimes of 17 minutes have been achieved at 16.4 T, a value about 250 times longer than the longitudinal relaxation time of 15N in this magnetic field. We believe that such extended relaxation times, along with the photochromic properties of azobenzene, which changes conformation upon light irradiation and can be hyperpolarized by using parahydrogen, are promising for designing new experiments with photo-switchable long-lived hyperpolarization.
Lipidomic study of the influence of dietary fatty acids on structural lipids of cold-water nudibranch molluscs
Authors: Imbs Andrey B. , Grigorchuk Valeria P.
Published: December 2019

Nudibranch molluscs occur in marine ecosystems worldwide and prey on numerous invertebrate species. During feeding, dietary fatty acids (FAs) unusual for nudibranchs are transferred to their lipids. Normal biomembrane functions require stable composition of structural polar lipids (PL), but the pathways of dietary FA utilization to PL in nudibranchs still remain unknown. A combination of chromatography and tandem high-resolution mass spectrometry was used to determine total lipid, PL, FA, and PL molecular species composition of two cold-water species ofDendronotus, which then were compared with those ofTritonia tetraquetra. The use of FA trophic markers showed thatDendronotussp. andT. tetraquetraprey on different soft corals, whileD. robustusmay consumes hydrocorals and bryozoans. Nudibranch FA profiles were strongly modified by dietary FAs but their PL profilers were similar. Dietary FAs are not included in ceramide aminoethylphosphonate and inositol glycerophospholipids, but directed to ethanolamine, choline, and serine glycerophospholipids and, in some cases, form isobaric molecular species with different FA chain lengths. For such isobaric species, nudibranchs reduce the length of alkyl groups when very-long-chain FAs are obtained with diet. This molecular mechanism may explain the adaptation of nudibranch membrane structure to dietary input of unusual FAs.
Study of bicyclomycin biosynthesis in Streptomyces cinnamoneus by genetic and biochemical approaches
Authors: Witwinowski Jerzy , Moutiez Mireille , Coupet Matthieu , Correia Isabelle , Belin Pascal , Ruzzini Antonio , Saulnier Corinne , Caraty Laëtitia , Favry Emmanuel , Seguin Jérôme , Lautru Sylvie , Lequin Olivier , Gondry Muriel , Pernodet Jean-Luc , Darbon Emmanuelle
Published: December 2019

The 2,5-Diketopiperazines (DKPs) constitute a large family of natural products with important biological activities. Bicyclomycin is a clinically-relevant DKP antibiotic that is the first and only member in a class known to target the bacterial transcription termination factor Rho. It derives from cyclo-(l-isoleucyl-l-leucyl) and has an unusual and highly oxidized bicyclic structure that is formed by an ether bridge between the hydroxylated terminal carbon atom of the isoleucine lateral chain and the alpha carbon of the leucine in the diketopiperazine ring. Here, we paired in vivo and in vitro studies to complete the characterization of the bicyclomycin biosynthetic gene cluster. The construction of in-frame deletion mutants in the biosynthetic gene cluster allowed for the accumulation and identification of biosynthetic intermediates. The identity of the intermediates, which were reproduced in vitro using purified enzymes, allowed us to characterize the pathway and corroborate previous reports. Finally, we show that the putative antibiotic transporter was dispensable for the producing strain.
Characteristics of factors for decreased lung function in elderly patients with type 2 diabetes
Authors: Ishii Masaki , Yamaguchi Yasuhiro , Hamaya Hironobu , Ogawa Sumito , Imura Mitsuo , Akishita Masahiro
Published: December 2019

Chronic obstructive pulmonary disease (COPD) often accompanies type 2 diabetes mellitus (T2DM). However, background factors affecting these diseases in the elderly remain unclear. Eligible patients with T2DM were divided into two age groups—non-elderly (<65 years) and elderly (≥65 years); COPD, ratio of forced expiratory volume in one second to forced expiratory volume (FEV1/FVC ratio), and percent predicted forced expiratory volume in one second (FEV1% predicted) were examined, and factors related to reduced respiratory function according to age group were evaluated. In total, 371 patients with T2DM were analysed. COPD was found in 9 patients (5.3%) in the non-elderly group and 45 (22.5%) in the elderly group. In the elderly, male sex, low body mass index (BMI), insulin therapy, and high C-peptide immunoreactivity levels were factors related to COPD. In the non-elderly, age, female sex, high BMI were factors related to decreased FEV1% predicted. Female sex was factor related to decreased FEV1% predicted in both age groups. Low BMI was a factor related to reduced respiratory function in elderly patients and high BMI was a factor related to reduced respiratory function in non-elderly patients. Thus, BMI needs to be managed according to the age and general condition of T2DM patients.
Full three-dimensional Poynting vector flow analysis of great field-intensity enhancement in specifically sized spherical-particles
Authors: Yue Liyang , Yan Bing , Monks James N. , Dhama Rakesh , Jiang Chunlei , Minin Oleg V. , Minin Igor V. , Wang Zengbo
Published: December 2019

The Poynting vector plays a key role in electrodynamics as it is directly related to the power and the momentum carried by an electromagnetic wave. Based on the Lorenz-Mie theory, we report on the focusing effect of a spherical particle-lens by properly analysing the Poynting vector maps. Conventional two-dimensional (2D) maps showing Poynting vector magnitude and direction in a given plane cannot deliver information on three-dimensional (3D) directivity and vectorisation in key regions of singularities, such as vortexes and saddle points, due to poor expressiveness. In this article, an analytical 3D mapping technology is utilised to track the field-features passing through the singularities of the distribution of the Poynting vector in a spherically dielectric mesoscale particle-lens. We discovered that the spheres with the certain size parameters can stimulate extremely large field-intensity at singularities and then form two circular hotspots around the sphere poles. An astonishing large ‘heart-shape’ 3D Poynting vector circulation, which cannot be predicted by conventional 2D mapping analysis, is found to provide a great angular variation within an enormous range in these spheres. We anticipate that this effect will contribute to the field-enhancement phenomena, such as surface enhances Raman scattering, surface enhances absorption, super-resolution imaging and others.