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https://www.readbyqxmd.com/read/27915305/dna-barcoding-coupled-with-high-resolution-melting-analysis-enables-rapid-and-accurate-distinction-of-aspergillus-species
#1
Gabor Fidler, Sandor Kocsube, Eva Leiter, Sandor Biro, Melinda Paholcsek
We describe a high-resolution melting (HRM) analysis method that is rapid, reproducible, and able to identify reference strains and further 40 clinical isolates of Aspergillus fumigatus (14), A. lentulus (3), A. terreus (7), A. flavus (8), A. niger (2), A. welwitschiae (4), and A. tubingensis (2). Asp1 and Asp2 primer sets were designed to amplify partial sequences of the Aspergillus benA (beta-tubulin) genes in a closed-, single-tube system. Human placenta DNA, further Aspergillus (3), Candida (9), Fusarium (6), and Scedosporium (2) nucleic acids from type strains and clinical isolates were also included in this study to evaluate cross reactivity with other relevant pathogens causing invasive fungal infections...
December 3, 2016: Medical Mycology: Official Publication of the International Society for Human and Animal Mycology
https://www.readbyqxmd.com/read/27915291/the-landscape-of-microbial-phenotypic-traits-and-associated-genes
#2
Maria Brbić, Matija Piškorec, Vedrana Vidulin, Anita Kriško, Tomislav Šmuc, Fran Supek
Bacteria and Archaea display a variety of phenotypic traits and can adapt to diverse ecological niches. However, systematic annotation of prokaryotic phenotypes is lacking. We have therefore developed ProTraits, a resource containing ∼545 000 novel phenotype inferences, spanning 424 traits assigned to 3046 bacterial and archaeal species. These annotations were assigned by a computational pipeline that associates microbes with phenotypes by text-mining the scientific literature and the broader World Wide Web, while also being able to define novel concepts from unstructured text...
December 1, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27915286/presence-of-diverse-rhizobial-communities-responsible-for-nodulation-of-common-bean-phaseolus-vulgaris-in-south-african-and-mozambican-soils
#3
Mwazuma K Zinga, Sanjay K Jaiswal, Felix D Dakora
The diversity and phylogeny of root-nodule bacteria isolated from common bean grown in Mozambique and different provinces of South Africa was studied by restriction fragment length polymorphism and phylogenetic analysis. The combined restriction banding pattern of 16S rRNA and nifH profile-generated dendrogram grouped all test isolates into four major clusters with XXI restriction group and three clusters with the VIII restriction groups. Location-based clustering was observed with the 16S-RFLP analysis. Phylogenetic analysis of 16S rRNA, glnII, gyrB and gltA sequences showed that common bean was nodulated specifically by Rhizobium etli in Mozambican soils, and by diverse of group of Rhizobium species in South African soils (e...
December 2, 2016: FEMS Microbiology Ecology
https://www.readbyqxmd.com/read/27915261/evaluation-of-a-community-based-intervention-to-improve-routine-childhood-vaccination-uptake-among-migrants-in-urban-slums-of-ludhiana-india
#4
Paramita Sengupta, Anoop Ivan Benjamin, Puja R Myles, Bontha V Babu
BACKGROUND: Evidence on the effectiveness of community-based interventions in improving vaccination uptake in migrant populations is limited. This study aims to evaluate the effectiveness of a community-based intervention to improve access to and uptake of childhood vaccinations among urban slum-dwelling migrant communities in Ludhiana, India. METHODS: A mixed-methods evaluation was conducted involving a post-intervention comparison of vaccination uptake in six randomly selected intervention and control slum communities...
December 2, 2016: Journal of Public Health
https://www.readbyqxmd.com/read/27915247/genomic-diversity-of-bacteriophages-infecting-the-fish-pathogen-flavobacterium-psychrophilum
#5
Daniel Castillo, Mathias Middelboe
Bacteriophages infecting the fish pathogen Flavobacterium psychrophilum can potentially be used to prevent and control outbreaks of this bacterium in salmonid aquaculture. However, application of bacteriophages in disease control requires detailed knowledge on their genetic composition. To explore the diversity of F. pyschrophilum bacteriophages we have analyzed the complete genome sequences of 17 phages isolated from two distant geographic areas (Denmark and Chile), including the previously characterized temperate bacteriophage 6H...
December 2, 2016: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/27915188/combined-cluster-and-discriminant-analysis-an-efficient-chemometric-approach-in-diesel-fuel-characterization
#6
Márton Novák, Dóra Palya, Zsolt Bodai, Zoltán Nyiri, Norbert Magyar, József Kovács, Zsuzsanna Eke
Combined cluster and discriminant analysis (CCDA) as a chemometric tool in compound specific isotope analysis of diesel fuels was studied. The stable carbon isotope ratios (δ(13)C) of n-alkanes in diesel fuel can be used to characterize or differentiate diesels originating from different sources. We investigated 25 diesel fuel samples representing 20 different brands. The samples were collected from 25 different service stations in 11 European countries over a 2 year period. The n-alkane fraction of diesel fuels was separated using solid-state urea clathrate formation combined with silica gel fractionation...
November 23, 2016: Forensic Science International
https://www.readbyqxmd.com/read/27915184/anti-atherosclerotic-effects-of-pravastatin-in-brachiocephalic-artery-in-comparison-with-en-face-aorta-and-aortic-roots-in-apoe-ldlr-mice
#7
Renata B Kostogrys, Magdalena Franczyk-Zarow, Marlena Gasior-Glogowska, Edyta Kus, Agnieszka Jasztal, Tomasz P Wrobel, Malgorzata Baranska, Izabela Czyzynska-Cichon, Anna Drahun, Angelika Manterys, Stefan Chlopicki
BACKGROUND: Cholesterol-dependent and independent mechanisms were proposed to explain anti-atherosclerotic action of statins in humans. However, their effects in murine models of atherosclerosis have not been consistently demonstrated. Here, we studied the effects of pravastatin on atherosclerosis in ApoE/LDLR(-/-) mice fed a control and atherogenic diet. METHODS: ApoE/LDLR(-/-) mice were fed a control (CHOW) or an atherogenic (Low Carbohydrate High Protein, LCHP) diet...
September 17, 2016: Pharmacological Reports: PR
https://www.readbyqxmd.com/read/27915181/bioenergy-and-biodiversity-intensified-biomass-extraction-from-hedges-impairs-habitat-conditions-for-birds
#8
Ralf Sauerbrei, Birgit Aue, Christian Krippes, Eva Diehl, Volkmar Wolters
Biomass is increasingly used as an alternative source for energy in Europe. Woody material cut from hedges is considered to provide a suitable complement to maize and oilseed rape, which are currently the dominant biomass sources. Since shrubs and trees are also important habitats for birds, however, coppicing of hedges at the landscape scale may adversely affect the diversity of the avifauna. To evaluate this risk, we estimated the response of hedge birds to three management scenarios differing in cutting intensity and hedge selection...
December 1, 2016: Journal of Environmental Management
https://www.readbyqxmd.com/read/27915089/complete-mitochondrial-genome-of-parasitic-nematode-cylicocyclus-nassatus-and-comparative-analyses-with-cylicocyclus-insigne
#9
Yuan Gao, Jian-Hua Qiu, Bing-Bing Zhang, Xin Su, Xue Fu, Dong-Mei Yue, Chun-Ren Wang
Cylicocyclus nassatus is a common and important parasite in the large intestine of equine. In this study, the complete mitochondrial (mt) genome sequence of C. nassatus was determined and comparatively analysed with Cylicocyclus insigne. The mt genome size of C. nassatus was 13,846 bp, 18 bp longer than that of C. insigne. The circular mt genome includes 12 protein-coding genes, two rRNA genes, 22 tRNA genes and two non-coding regions. All the genes are transcribed in the same direction and gene arrangement is consistent with that of gene arrangement 3 (GA3)...
November 30, 2016: Experimental Parasitology
https://www.readbyqxmd.com/read/27914874/transmission-networks-and-risk-of-hiv-infection-in-kwazulu-natal-south-africa-a-community-wide-phylogenetic-study
#10
Tulio de Oliveira, Ayesha B M Kharsany, Tiago Gräf, Cherie Cawood, David Khanyile, Anneke Grobler, Adrian Puren, Savathree Madurai, Cheryl Baxter, Quarraisha Abdool Karim, Salim S Abdool Karim
BACKGROUND: The incidence of HIV infection in young women in Africa is very high. We did a large-scale community-wide phylogenetic study to examine the underlying HIV transmission dynamics and the source and consequences of high rates of HIV infection in young women in South Africa. METHODS: We did a cross-sectional household survey of randomly selected individuals aged 15-49 years in two neighbouring subdistricts (one urban and one rural) with a high burden of HIV infection in KwaZulu-Natal, South Africa...
November 30, 2016: Lancet HIV
https://www.readbyqxmd.com/read/27914870/co-occurrence-and-predictors-of-three-commonly-occurring-behavioral-symptoms-in-dementia-agitation-aggression-and-rejection-of-care
#11
Scott Seung W Choi, Chakra Budhathoki, Laura N Gitlin
OBJECTIVE: To investigate co-occurrences of agitation, aggression, and rejection of care in community-dwelling families living with dementia. METHODS: Cross-sectional, secondary analysis from a randomized controlled trial testing a nonpharmacological intervention to reduce behavioral symptoms. We examined frequency of occurrence of presenting behaviors at baseline and their combination. Omnibus tests compared those exhibiting combinations of behaviors on contributory factors...
November 3, 2016: American Journal of Geriatric Psychiatry
https://www.readbyqxmd.com/read/27914666/reprint-of-spatial-modeling-of-cutaneous-leishmaniasis-in-iran-from-1983-to-2013
#12
Kourosh Holakouie-Naieni, Ehsan Mostafavi, Ali Darvishi Boloorani, Mehdi Mohebali, Reza Pakzad
INTRODUCTION: Cutaneous Leshmaniasis (CL), a parasitic skin infection caused by Leishmania species, is endemic in some regions of Iran. In this study, the effect of location on the incidence and distribution of CL in Iran was studied. METHODS: We collected datas including the number of Cutaneous Leishmaniasis cases and populations at-risk of disease in Iran's different provinces reported by the Iranian ministry of health and the National Bureau of Statistics, respectively...
November 30, 2016: Acta Tropica
https://www.readbyqxmd.com/read/27914581/corrigendum-to-structures-and-gene-clusters-of-the-closely-related-o-antigens-of-escherichia-coli-o46-and-o134-both-containing-d-glucuronoyl-d-allothreonine-carbohydr-res-409-2015-20-24
#13
Andrei V Perepelov, Quan Wang, Andrei V Filatov, Xianghong Xia, Alexander S Shashkov, Andrej Weintraub, Göran Widmalm, Lei Wang, Yuriy A Knirel
No abstract text is available yet for this article.
December 21, 2016: Carbohydrate Research
https://www.readbyqxmd.com/read/27914502/rationale-and-design-of-the-progression-of-atherosclerotic-plaque-determined-by-computed-tomographic-angiography-imaging-paradigm-registry-a-comprehensive-exploration-of-plaque-progression-and-its-impact-on-clinical-outcomes-from-a-multicenter-serial-coronary
#14
Sang-Eun Lee, Hyuk-Jae Chang, Asim Rizvi, Martin Hadamitzky, Yong-Jin Kim, Edoardo Conte, Daniele Andreini, Gianluca Pontone, Valentina Volpato, Matthew J Budoff, Ilan Gottlieb, Byoung Kwon Lee, Eun Ju Chun, Filippo Cademartiri, Erica Maffei, Hugo Marques, Jonathon A Leipsic, Sanghoon Shin, Jung Hyun Choi, Namsik Chung, James K Min
BACKGROUND: The natural history of coronary artery disease (CAD) in patients with low-to-intermediate risk is not well characterized. Although earlier invasive serial studies have documented the progression of atherosclerotic burden, most were focused on high-risk patients only. The PARADIGM registry is a large, prospective, multinational dynamic observational registry of patients undergoing serial coronary computed tomographic angiography (CCTA). The primary aim of PARADIGM is to characterize the natural history of CAD in relation to clinical and laboratory data...
December 2016: American Heart Journal
https://www.readbyqxmd.com/read/27914468/intra-individual-variability-in-day-to-day-and-month-to-month-measurements-of-physical-activity-and-sedentary-behaviour-at-work-and-in-leisure-time-among-danish-adults
#15
E S L Pedersen, I H Danquah, C B Petersen, J S Tolstrup
BACKGROUND: Accelerometers can obtain precise measurements of movements during the day. However, the individual activity pattern varies from day-to-day and there is limited evidence on measurement days needed to obtain sufficient reliability. The aim of this study was to examine variability in accelerometer derived data on sedentary behaviour and physical activity at work and in leisure-time during week days among Danish office employees. METHODS: We included control participants (n = 135) from the Take a Stand! Intervention; a cluster randomized controlled trial conducted in 19 offices...
December 3, 2016: BMC Public Health
https://www.readbyqxmd.com/read/27914442/analysis-and-modeling-of-255-source-levels-of-merchant-ships-from-an-acoustic-observatory-along-st-lawrence-seaway
#16
Yvan Simard, Nathalie Roy, Cédric Gervaise, Samuel Giard
An ensemble of 255 spectral source levels (SSLs) of merchant ships were measured with an opportunistic seaway acoustic observatory adhering to the American National Standards Institute/Acoustical Society of America S12.64-2009 standard as much as possible, and deployed in the 350-m deep lower St. Lawrence Seaway in eastern Canada. The estimated SSLs were sensitive to the transmission loss model. The best transmission loss model at the three measuring depths was an empirical in situ function for ranges larger than 300 m, fused with estimates from a wavenumber integration propagation model fed with inverted local geoacoustic properties for [300 to 1 m] ranges...
September 2016: Journal of the Acoustical Society of America
https://www.readbyqxmd.com/read/27914437/humpback-whale-generated-ambient-noise-levels-provide-insight-into-singers-spatial-densities
#17
Kerri D Seger, Aaron M Thode, Jorge Urbán-R, Pamela Martínez-Loustalot, M Esther Jiménez-López, Diana López-Arzate
Baleen whale vocal activity can be the dominant underwater ambient noise source for certain locations and seasons. Previous wind-driven ambient-noise formulations have been adjusted to model ambient noise levels generated by random distributions of singing humpback whales in ocean waveguides and have been combined to a single model. This theoretical model predicts that changes in ambient noise levels with respect to fractional changes in singer population (defined as the noise "sensitivity") are relatively unaffected by the source level distributions and song spectra of individual humpback whales (Megaptera novaeangliae)...
September 2016: Journal of the Acoustical Society of America
https://www.readbyqxmd.com/read/27914235/hyaluronan-as-a-promising-excipient-for-ocular-drug-delivery
#18
REVIEW
Michaela Guter, Miriam Breunig
Hyaluronan (HA) is a naturally occurring polysaccharide and well known for its exceptional properties such as high biocompatibility and biodegradability, along with a low immunogenicity. Besides its use for various biomedical applications it recently came into focus as a favorable excipient for the formulation of various ocular therapeutics. This review article summarizes the ocular distribution of HA and its most heavily investigated binding protein "cluster of differentiation 44" (CD44) which is the rationale for the clinical use of HA, primarily as an additive in ocular applications ranging from eye drops to contact lenses...
November 30, 2016: European Journal of Pharmaceutics and Biopharmaceutics
https://www.readbyqxmd.com/read/27914203/multiple-processes-drive-genetic-structure-of-humpback-whale-megaptera-novaeangliae-populations-across-spatial-scales
#19
Francine Kershaw, Inês Carvalho, Jacqueline Loo, Cristina Pomilla, Peter B Best, Ken P Findlay, Salvatore Cerchio, Tim Collins, Marcia H Engel, Gianna Minton, Peter Ersts, Jaco Barendse, P G H Kotze, Yvette Razafindrakoto, Solange Ngouessono, Michael Meÿer, Meredith Thorton, Howard C Rosenbaum
Elucidating patterns of population structure for species with complex life histories, and disentangling the processes driving such patterns, remains a significant analytical challenge. Humpback whale (Megaptera novaeangliae) populations display complex genetic structures that have not been fully resolved at all spatial scales. We generated a data set of nuclear markers for 3,575 samples spanning the seven breeding stocks and substocks found in the South Atlantic and western and northern Indian Oceans. For the total sample, and males and females separately, we assessed genetic diversity, tested for genetic differentiation between putative populations and isolation by distance, estimated the number of genetic clusters without a priori population information, and estimated rates of gene flow using maximum likelihood and Bayesian approaches...
December 3, 2016: Molecular Ecology
https://www.readbyqxmd.com/read/27914200/assembling-the-tat-protein-translocase
#20
Felicity Alcock, Phillip J Stansfeld, Hajra Basit, Johann Habersetzer, Matthew Ab Baker, Tracy Palmer, Mark I Wallace, Ben C Berks
The twin-arginine protein translocation system (Tat) transports folded proteins across the bacterial cytoplasmic membrane and the thylakoid membranes of plant chloroplasts. The Tat transporter is assembled from multiple copies of the membrane proteins TatA, TatB, and TatC. We combine sequence co-evolution analysis, molecular simulations, and experimentation to define the interactions between the Tat proteins of Escherichia coli at molecular-level resolution. In the TatBC receptor complex the transmembrane helix of each TatB molecule is sandwiched between two TatC molecules, with one of the inter-subunit interfaces incorporating a functionally important cluster of interacting polar residues...
December 3, 2016: ELife
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