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https://www.readbyqxmd.com/read/28430951/evidence-for-a-strong-correlation-between-transcription-factor-protein-disorder-and-organismic-complexity
#1
Inmaculada Yruela, Christopher J Oldfield, Karl J Niklas, A Keith Dunker
Studies of diverse phylogenetic lineages reveal that protein disorder increases in concert with organismic complexity but that differences nevertheless exist among lineages. To gain insight into this phenomenology, we analyzed all of the transcription factor (TF) families for which sequences are known for 17 species spanning bacteria, yeast, algae, land plants, and animals and for which the number of different cell types has been reported in the primary literature. Although the fraction of disordered residues in TF sequences is often moderately or poorly correlated with organismic complexity as gauged by cell type number (r2 < 0...
April 18, 2017: Genome Biology and Evolution
https://www.readbyqxmd.com/read/28430440/insights-on-the-physical-state-reached-by-an-active-pharmaceutical-ingredient-upon-high-energy-milling
#2
Benjamin Schammé, Xavier Monnier, Nicolas Couvrat, Laurent Delbreilh, Valérie Dupray, Eric Dargent, Gérard Coquerel
In this article, we study the physicochemical transformations of crystalline Quinidine upon high-energy milling. The investigations have been achieved by classical, high performance and fast scanning calorimetry combined with broadband dielectric spectroscopy and X-ray powder diffraction. As evolution of crystalline Quinidine with time of milling revealed a prominent sub-Tg cold-crystallization phenomenon, independent and complementary analytical techniques were implemented. Fast scanning calorimetry was performed for the first time on a milled pharmaceutical compound to postpone the crystallization event to higher temperatures...
April 21, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28430100/discovery-of-african-bat-polyomaviruses-and-infrequent-recombination-in-the-large-t-antigen-in-the-polyomaviridae
#3
Michael Carr, Gabriel Gonzalez, Michihito Sasaki, Kimihito Ito, Akihiro Ishii, Bernard M Hang'ombe, Aaron S Mweene, Yasuko Orba, Hirofumi Sawa
Bat species represent natural reservoirs for a number of high-consequence human pathogens. The present study investigated the diversity of polyomaviruses (PyVs) in Zambian insectivorous and fruit bat species. We describe the complete genomes from four newly proposed African bat PyV species employing the recently recommended criteria provided by the Polyomaviridae Study Group of the International Committee on Taxonomy of Viruses. A comprehensive phylogenetic and recombination analysis was performed to determine genetic relationships and the distribution of recombination events in PyV from mammalian and avian species...
April 22, 2017: Journal of General Virology
https://www.readbyqxmd.com/read/28429828/genomic-clustering-of-adaptive-loci-during-parallel-evolution-of-an-australian-wildflower
#4
Federico Roda, Greg M Walter, Rick Nipper, Daniel Ortiz-Barrientos
The buildup of the phenotypic differences that distinguish species has long intrigued biologists. These differences are often inherited as stable polymorphisms that allow the co-segregation of adaptive variation within species, and facilitate the differentiation of complex phenotypes between species. It has been suggested that the clustering of adaptive loci could facilitate this process but evidence is still scarce. Here we used QTL analysis to study the genetic basis of phenotypic differentiation between coastal populations of the Australian wildflower Senecio lautus...
April 21, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28429369/variation-in-brain-anatomy-in-frogs-and-its-possible-bearing-on-their-locomotor-ecology
#5
Adriana S Manzano, Anthony Herrel, Anne-Claire Fabre, Virginia Abdala
Despite the long-standing interest in the evolution of the brain, relatively little is known about variation in brain anatomy in frogs. Yet, frogs are ecologically diverse and, as such, variation in brain anatomy linked to differences in lifestyle or locomotor behavior can be expected. Here we present a comparative morphological study focusing on the macro- and micro-anatomy of the six regions of the brain and its choroid plexus: the olfactory bulbs, the telencephalon, the diencephalon, the mesencephalon, the rhombencephalon, and the cerebellum...
April 20, 2017: Journal of Anatomy
https://www.readbyqxmd.com/read/28429320/euglena-gracilis-genome-and-transcriptome-organelles-nuclear-genome-assembly-strategies-and-initial-features
#6
ThankGod Echezona Ebenezer, Mark Carrington, Michael Lebert, Steven Kelly, Mark C Field
Euglena gracilis is a major component of the aquatic ecosystem and together with closely related species, is ubiquitous worldwide. Euglenoids are an important group of protists, possessing a secondarily acquired plastid and are relatives to the Kinetoplastidae, which themselves have global impact as disease agents. To understand the biology of E. gracilis, as well as to provide further insight into the evolution and origins of the Kinetoplastidae, we embarked on sequencing the nuclear genome; the plastid and mitochondrial genomes are already in the public domain...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/28428993/from-nano-to-microcrystals-effects-of-different-synthetic-pathways-on-the-defect-architecture-in-heavily-gd-doped-ceria
#7
M Coduri, M Scavini, M Pani, M M Carnasciali, H Klein, C Artini
The evolution of the defect structure and microstructure of heavily Gd-doped ceria (Ce1-μREμO2-y, 0.313 ≤ μ ≤ 0.438) for different synthetic pathways is investigated here to explore the way defects interact with each other in a composition range known to effectively hamper the application of the material as an electrolyte. Synchrotron radiation powder diffraction is exploited by combining conventional Rietveld analysis with the Pair Distribution Function to get a multiscale picture of defect structures, and it is combined with Raman spectroscopy to assess local scale interactions...
April 21, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28428775/genomics-reveals-a-unique-clone-of-burkholderia-cenocepacia-harboring-an-actively-excising-novel-genomic-island
#8
Prashant P Patil, Swapna Mali, Samriti Midha, Vikas Gautam, Lona Dash, Sunil Kumar, Jayanthi Shastri, Lipika Singhal, Prabhu B Patil
Burkholderia cenocepacia is a clinically dominant form among the other virulent species of Burkholderia cepacia complex (Bcc). In the present study, we sequenced and analyzed the genomes of seven nosocomial Bcc isolates, five of which were isolated from the bloodstream infections and two isolates were recovered from the hospital setting during the surveillance. Genome-based species identification of the Bcc isolates using a type strain explicitly identified the species as B. cenocepacia. Moreover, single nucleotide polymorphism analysis revealed that the six isolates were clonal and phylogenetically distinct from the other B...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28428620/formal-definitions-of-unbounded-evolution-and-innovation-reveal-universal-mechanisms-for-open-ended-evolution-in-dynamical-systems
#9
Alyssa Adams, Hector Zenil, Paul C W Davies, Sara Imari Walker
Open-ended evolution (OEE) is relevant to a variety of biological, artificial and technological systems, but has been challenging to reproduce in silico. Most theoretical efforts focus on key aspects of open-ended evolution as it appears in biology. We recast the problem as a more general one in dynamical systems theory, providing simple criteria for open-ended evolution based on two hallmark features: unbounded evolution and innovation. We define unbounded evolution as patterns that are non-repeating within the expected Poincare recurrence time of an isolated system, and innovation as trajectories not observed in isolated systems...
April 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28428544/strain-softening-of-nano-scale-fuzzy-interfaces-causes-mullins-effect-in-thermoplastic-polyurethane
#10
T Sui, E Salvati, S Ying, G Sun, I P Dolbnya, K Dragnevski, C Prisacariu, A M Korsunsky
The strain-induced softening of thermoplastic polyurethane elastomers (TPUs), known as the Mullins effect, arises from their multi-phase structure. We used the combination of small- and wide- angle X-ray scattering (SAXS/WAXS) during in situ repeated tensile loading to elucidate the relationship between molecular architecture, nano-strain, and macro-scale mechanical properties. Insights obtained from our analysis highlight the importance of the 'fuzzy interface' between the hard and soft regions that governs the structure evolution at nanometre length scales and leads to macroscopic stiffness reduction...
April 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28428164/zika-in-twitter-temporal-variations-of-locations-actors-and-concepts
#11
Anthony Stefanidis, Emily Vraga, Georgios Lamprianidis, Jacek Radzikowski, Paul L Delamater, Kathryn H Jacobsen, Dieter Pfoser, Arie Croitoru, Andrew Crooks
BACKGROUND: The recent Zika outbreak witnessed the disease evolving from a regional health concern to a global epidemic. During this process, different communities across the globe became involved in Twitter, discussing the disease and key issues associated with it. This paper presents a study of this discussion in Twitter, at the nexus of location, actors, and concepts. OBJECTIVE: Our objective in this study was to demonstrate the significance of 3 types of events: location related, actor related, and concept related, for understanding how a public health emergency of international concern plays out in social media, and Twitter in particular...
April 20, 2017: JMIR Public Health and Surveillance
https://www.readbyqxmd.com/read/28428061/identification-and-characterization-of-an-interleukin-16-like-gene-from-pacific-white-shrimp-litopenaeus-vannamei
#12
Qianhui Liang, Jiefu Zheng, Hongliang Zuo, Chaozheng Li, Shengwen Niu, Linwei Yang, Muting Yan, Shao-Ping Weng, Jianguo He, Xiaopeng Xu
Interleukins are a group of cytokines that play essential roles in immune regulation. Almost all interleukin genes are only found in vertebrates. In this study, an interleukin-16-like gene (LvIL-16L) was identified from Pacific white shrimp, Litopenaeus vannamei. LvIL-16L was predicted to encode a precursor (pro-LvIL-16L) with 1378 amino acids, sharing similarities with predicted pro-IL-16-like proteins from insects. The C-terminus of pro-LvIL-16L protein contained two PDZ domains homologous to the mature IL-16 cytokine of vertebrates...
April 17, 2017: Developmental and Comparative Immunology
https://www.readbyqxmd.com/read/28427974/factors-predicting-spontaneous-thrombosis-of-aggressive-cranial-dural-arteriovenous-fistulas
#13
Santhosh Kumar Kannath, Jayadevan Enakshy Rajan, Amirtendu Mukherjee, Sankara Sarma P
BACKGROUND: Dural arteriovenous fistula (DAVF) with cortical venous drainage (CVD) are known to be aggressive in clinical course and are usually managed promptly. Spontaneous resolution of DAVF is a rare phenomenon and usually occurs in benign type of fistulas. Spontaneous thrombosis of aggressive DAVF is an extremely rare occurrence. The present study aims to identify the incidence and factors determining spontaneous resolution of aggressive DAVF. METHODS: All the patients presenting to our institution with suspected DAVF during the study period (July 2013 - December 2015) were prospectively enrolled into a database...
April 17, 2017: World Neurosurgery
https://www.readbyqxmd.com/read/28427363/a-spatio-temporal-analysis-of-suicide-in-el-salvador
#14
Carlos Carcach
BACKGROUND: In 2012, international statistics showed El Salvador's suicide rate as 40th in the world and the highest in Latin America. Over the last 15 years, national statistics show the suicide death rate declining as opposed to an increasing rate of homicide. Though completed suicide is an important social and health issue, little is known about its prevalence, incidence, etiology and spatio-temporal behavior. The primary objective of this study was to examine completed suicide and homicide using the stream analogy to lethal violence within a spatio-temporal framework...
April 20, 2017: BMC Public Health
https://www.readbyqxmd.com/read/28427346/karyotypic-evolution-of-the-medicago-complex-sativa-caerulea-falcata-inferred-from-comparative-cytogenetic-analysis
#15
Feng Yu, Haiqing Wang, Yanyan Zhao, Ruijuan Liu, Quanwen Dou, Jiangli Dong, Tao Wang
BACKGROUND: Polyploidy plays an important role in the adaptation and speciation of plants. The alteration of karyotype is a significant event during polyploidy formation. The Medicago sativa complex includes both diploid (2n = 2× = 16) and tetraploid (2n = 2× = 32) subspecies. The tetraploid M. ssp. sativa was regarded as having a simple autopolyploid origin from diploid ssp. caerulea, whereas the autopolyploid origin of tetraploid ssp. falcata from diploid form ssp. falcata is still in doubt...
April 21, 2017: BMC Evolutionary Biology
https://www.readbyqxmd.com/read/28427330/pan-genome-and-crispr-analyses-of-the-bacterial-fish-pathogen-moritella-viscosa
#16
Christian Karlsen, Erik Hjerde, Terje Klemetsen, Nils Peder Willassen
BACKGROUND: Winter-ulcer Moritella viscosa infections continue to be a significant burden in Atlantic salmon (Salmo salar L.) farming. M. viscosa comprises two main clusters that differ in genetic variation and phenotypes including virulence. Horizontal gene transfer through acquisition and loss of mobile genetic elements (MGEs) is a major driving force of bacterial diversification. To gain insight into genomic traits that could affect sublineage evolution within this bacterium we examined the genome sequences of twelve M...
April 20, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28427009/early-in-life-dietary-zinc-deficiency-and-supplementation-and-mammary-tumor-development-in-adulthood-female-rats
#17
Flávia R M da Silva, Tony F Grassi, Joyce R Zapaterini, Lucas T Bidinotto, Luis F Barbisan
Zinc deficiency during pregnancy and postnatal life can adversely increase risk of developing human diseases at adulthood. The present study was designed to evaluate whether dietary zinc deficiency or supplementation during the pregnancy, lactation and juvenile stages interferes in the development of mammary tumors induced by 7,12-dimethylbenzanthracene (DMBA) in female Sprague-Dawley (SD) rats. Pregnant female SD rats were allocated into three groups: zinc-adequate diet (ZnA - 35-mg/kg chow), zinc-deficient diet (ZnD - 3-mg/kg chow) or zinc-supplemented diet (ZnS - 180-mg/kg chow) during gestational day 10 (GD 10) until the litters' weaning...
April 1, 2017: Journal of Nutritional Biochemistry
https://www.readbyqxmd.com/read/28426805/evidence-of-horizontal-gene-transfer-by-transposase-gene-analyses-in-fervidobacterium-species
#18
Alba Cuecas, Wirojne Kanoksilapatham, Juan M Gonzalez
Horizontal Gene Transfer (HGT) plays an important role in the physiology and evolution of microorganisms above all thermophilic prokaryotes. Some members of the Phylum Thermotogae (i.e., Thermotoga spp.) have been reported to present genomes constituted by a mosaic of genes from a variety of origins. This study presents a novel approach to search on the potential plasticity of Fervidobacterium genomes using putative transposase-encoding genes as the target of analysis. Transposases are key proteins involved in genomic DNA rearrangements...
2017: PloS One
https://www.readbyqxmd.com/read/28426741/as3mt-mediated-tolerance-to-arsenic-evolved-by-multiple-independent-horizontal-gene-transfers-from-bacteria-to-eukaryotes
#19
Michael Palmgren, Karin Engström, Björn M Hallström, Karin Wahlberg, Dan Ariel Søndergaard, Torbjörn Säll, Marie Vahter, Karin Broberg
Organisms have evolved the ability to tolerate toxic substances in their environments, often by producing metabolic enzymes that efficiently detoxify the toxicant. Inorganic arsenic is one of the most toxic and carcinogenic substances in the environment, but many organisms, including humans, metabolise inorganic arsenic to less toxic metabolites. This multistep process produces mono-, di-, and trimethylated arsenic metabolites, which the organism excretes. In humans, arsenite methyltransferase (AS3MT) appears to be the main metabolic enzyme that methylates arsenic...
2017: PloS One
https://www.readbyqxmd.com/read/28424974/transposable-elements-in-the-anopheles-funestus-transcriptome
#20
Rita D Fernández-Medina, Claudia M A Carareto, Cláudio J Struchiner, José M C Ribeiro
Transposable elements (TEs) are present in most of the eukaryotic genomes and their impact on genome evolution is increasingly recognized. Although there is extensive information on the TEs present in several eukaryotic genomes, less is known about the expression of these elements at the transcriptome level. Here we present a detailed analysis regarding the expression of TEs in Anopheles funestus, the second most important vector of human malaria in Africa. Several transcriptionally active TE families belonging both to Class I and II were identified and characterized...
April 19, 2017: Genetica
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