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https://www.readbyqxmd.com/read/29351348/interactions-of-2-o-methyl-oligoribonucleotides-with-the-rna-models-of-the-30s-subunit-a-site
#1
Maciej Jasiński, Marta Kulik, Monika Wojciechowska, Ryszard Stolarski, Joanna Trylska
Synthetic oligonucleotides targeting functional regions of the prokaryotic rRNA could be promising antimicrobial agents. Indeed, such oligonucleotides were proven to inhibit bacterial growth. 2'-O-methylated (2'-O-Me) oligoribonucleotides with a sequence complementary to the decoding site in 16S rRNA were reported as inhibitors of bacterial translation. However, the binding mode and structures of the formed complexes, as well as the level of selectivity of the oligonucleotides between the prokaryotic and eukaryotic target, were not determined...
2018: PloS One
https://www.readbyqxmd.com/read/29351066/contamination-of-swimming-pools-and-hot-tubs-biofilms-with-acanthamoeba
#2
Behroz Mahdavi Poor, Abdolhossein Dalimi, Fatemeh Ghafarifar, Fariba Khoshzaban, Jalal Abdolalizadeh
The members of Acanthamoeba genus are ubiquitous amoeba which could be a pathogenic parasite. The amoeba is resistant to the common chlorine concentration that used for disinfecting the swimming pool water. Therefore, the pools can be suitable environments for the survival and multiplication of the amoeba. In this cross sectional study, 10 indoor recreational water centers from different regions of Tabriz city were selected and sampling was done from fixed and floating biofilms of the swimming pools and hot tubs...
March 26, 2018: Acta Parasitologica
https://www.readbyqxmd.com/read/29351062/phylogeny-and-cocoon-production-in-the-parasitic-leech-myzobdella-lugubris-leidy-1851-hirudinidae-piscicolidae
#3
Naim Saglam, Ralph Saunders, Shirley A Lang, Daniel H Shain
Myzobdella lugubris is a commensal leech on crustaceans and a parasite to fishes, surviving predominantly in brackish waters throughout North America. Specimens in this study were collected within the tidal zone of the Delaware River basin (New Jersey and Pennsylvania). To compare regional M. lugubris specimens, defined characters were scored after dorsal and ventral dissections, and phylogenetic relationships were resolved using cytochrome c oxidase subunit 1 (CO1), 12S ribosomal RNA (rDNA) and 18S rDNA gene fragments...
March 26, 2018: Acta Parasitologica
https://www.readbyqxmd.com/read/29350888/identification-of-p90-ribosomal-s6-kinase-2-as-a-novel-host-protein-in-hbx-augmenting-hbv-replication-by-itraq-based-quantitative-comparative-proteomics
#4
Li-Bo Yan, You-Jia Yu, Qing-Bo Zhang, Xiao-Qiong Tang, Lang Bai, FeiJun Huang, Hong Tang
PURPOSE: The aim of this study was to screen for novel host proteins that play a role in HBx augmenting HBV replication. EXPERIMENTAL DESIGN: Three HepG2 cell lines stably harboring different functional domain of HBx (HBx, HBx-Cm6, and HBx-Cm16) were cultured. ITRAQ technology integrated with LC-MS/MS analysis was applied to identify the proteome differences among these three cell lines. RESULTS: In brief, a total of 70 different proteins were identified among HepG2-HBx, HepG2-HBx-Cm6, and HepG2-HBx-Cm16 by double repetition...
January 19, 2018: Proteomics. Clinical Applications
https://www.readbyqxmd.com/read/29350170/atypical-lower-motor-neuron-disease-with-enlargement-of-nissl-substance-report-of-an-autopsy-case
#5
Masayuki Shintaku, Daita Kaneda, Kiyomitsu Oyanagi
The patient was an 81-year-old woman diagnosed with atypical motor neuron disease who died after a long clinical course (7.5 years without mechanical assistance of ventilation) characterized by lower motor neuron signs and symptoms. Upper motor neuron signs and cognitive impairment were not apparent. Autopsy demonstrated severe neuronal loss in the anterior horn of the spinal cord, and some of the remaining neurons showed enlargement of Nissl substance and apparent thickening of the nuclear envelopes. No Bunina bodies, skein-like inclusions, or structures immunoreactive for phosphorylated transactivation response DNA-binding protein 43 were found...
January 19, 2018: Clinical Neuropathology
https://www.readbyqxmd.com/read/29349517/a-novel-genomic-signature-predicting-fdg-uptake-in-diverse-metastatic-tumors
#6
Aurora Crespo-Jara, Maria Carmen Redal-Peña, Elena Maria Martinez-Navarro, Manuel Sureda, Francisco Jose Fernandez-Morejon, Francisco J Garcia-Cases, Ramon Gonzalez Manzano, Antonio Brugarolas
BACKGROUND: Building a universal genomic signature predicting the intensity of FDG uptake in diverse metastatic tumors may allow us to understand better the biological processes underlying this phenomenon and their requirements of glucose uptake. METHODS: A balanced training set (n = 71) of metastatic tumors including some of the most frequent histologies, with matched PET/CT quantification measurements and whole human genome gene expression microarrays, was used to build the signature...
January 18, 2018: EJNMMI Research
https://www.readbyqxmd.com/read/29349489/characterization-of-multiple-antilisterial-peptides-produced-by-sakacin-p-producing-lactobacillus-sakei-subsp-sakei-2a
#7
Kátia G Carvalho, Felipe H S Bambirra, Jacques R Nicoli, Jamil S Oliveira, Alexandre M C Santos, Marcelo P Bemquerer, Antonio Miranda, Bernadette D G M Franco
Antimicrobial compounds produced by lactic acid bacteria can be explored as natural food biopreservatives. In a previous report, the main antimicrobial compounds produced by the Brazilian meat isolate Lactobacillus sakei subsp. sakei 2a, i.e., bacteriocin sakacin P and two ribosomal peptides (P2 and P3) active against Listeria monocytogenes, were described. In this study, we report the spectrum of activity, molecular mass, structural identity and mechanism of action of additional six antilisterial peptides produced by Lb...
January 18, 2018: Archives of Microbiology
https://www.readbyqxmd.com/read/29348392/rapamycin-prevents-the-intervertebral-disc-degeneration-via-inhibiting-differentiation-and-senescence-of-annulus-fibrosus-cells
#8
Changhong Gao, Bin Ning, Chenglin Sang, Ying Zhang
The effects of bleomycin and rapamycin on cellular senescence and differentiation of rabbit annulus fibrosus stem cells (AFSCs) were investigated using a cell culture model. The results showed that bleomycin induced cellular senescence in AFSCs as evidenced by senescence-associated secretory phenotype. The morphology of AFSCs was changed from cobblestone-like cells to pancake-like cells. The senescence-associated β-galactosidase activity, the protein expression of P16 and P21, and inflammatory-related marker gene levels IL-1β, IL-6, and TNF-α were increased in bleomycin-treated AFSCs in a dose-dependent manner...
January 18, 2018: Aging
https://www.readbyqxmd.com/read/29348368/defining-the-physiological-role-of-srp-in-protein-targeting-efficiency-and-specificity
#9
Elizabeth A Costa, Kelly Subramanian, Jodi Nunnari, Jonathan S Weissman
The signal recognition particle (SRP) enables cotranslational delivery of proteins for translocation into the endoplasmic reticulum (ER), but its full in vivo role remains incompletely explored. We combined rapid auxin-induced SRP degradation with proximity-specific ribosome profiling to define SRP's in vivo function in yeast. Despite the classic view that SRP recognizes N-terminal signal sequences, we show that SRP was generally essential for targeting transmembrane domains regardless of their position relative to the N terminus...
January 18, 2018: Science
https://www.readbyqxmd.com/read/29348173/methanobactins-maintaining-copper-homeostasis-in-methanotrophs-and-beyond
#10
Grace E Kenney, Amy C Rosenzweig
Methanobactins (Mbns) are ribosomally produced, post-translationally modified natural products that bind copper with high affinity and specificity. Originally identified in methanotrophic bacteria, which have a high need for copper, operons encoding these compounds have also been found in many non-methanotrophic bacteria. The proteins responsible for Mbn biosynthesis include several novel enzymes. Mbn transport involves export through a multidrug efflux pump and re-internalization via a TonB-dependent transporter...
January 18, 2018: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29348055/high-resolution-structures-of-mitochondrial-ribosomes-and-their-functional-implications
#11
REVIEW
Philipp Bieri, Basil J Greber, Nenad Ban
Mitochondrial ribosomes (mitoribosomes) almost exclusively synthesize essential components of the oxidative phosphorylation machinery. Dysfunction of mitochondrial protein biosynthesis leads to human diseases and plays an important role in the altered metabolism of cancer cells. Recent developments in cryo-electron microscopy enabled the structural characterization of complete yeast and mammalian mitoribosomes at near-atomic resolution. Despite originating from ancestral bacterial ribosomes, mitoribosomes have diverged in their composition and architecture...
January 15, 2018: Current Opinion in Structural Biology
https://www.readbyqxmd.com/read/29347347/energetics-in-a-model-of-prebiotic-evolution
#12
B F Intoy, J W Halley
Previously we reported [A. Wynveen et al., Phys. Rev. E 89, 022725 (2014)PLEEE81539-375510.1103/PhysRevE.89.022725] that requiring that the systems regarded as lifelike be out of chemical equilibrium in a model of abstracted polymers undergoing ligation and scission first introduced by Kauffman [S. A. Kauffman, The Origins of Order (Oxford University Press, New York, 1993), Chap. 7] implied that lifelike systems were most probable when the reaction network was sparse. The model was entirely statistical and took no account of the bond energies or other energetic constraints...
December 2017: Physical Review. E
https://www.readbyqxmd.com/read/29346641/uncovering-behavioural-diversity-amongst-high-strength-pseudomonas-spp-surfactants-at-the-limit-of-liquid-surface-tension-reduction
#13
Kamaluddeen Kabir, Yusuf Y Deeni, Simona M Hapca, Luke Moore, Andrew J Spiers
Bacterial bio-surfactants have a wide range of biological functions and biotechnological applications. Previous analyses had suggested a limit to their reduction of aqueous liquid surface tensions (γMin), and here we confirm this in an analysis of 25 Pseudomonas spp. strains isolated from soil which produce high-strength surfactants that reduce surface tensions to 25.2 ± 0.1-26.5 ± 0.2 mN.m-1 (the surface tension of sterile growth medium and pure water was 52.9 ± 0.4 mN.m-1 and 72.1 ± 1.2 mN.m-1, respectively)...
January 16, 2018: FEMS Microbiology Letters
https://www.readbyqxmd.com/read/29346073/extensive-conservation-of-prokaryotic-ribosomal-binding-sites-in-known-and-novel-picobirnaviruses
#14
Siddharth R Krishnamurthy, David Wang
Currently, the Leviviridae and Cystoviridae are the only two recognized families of prokaryotic RNA viruses. Picobirnaviruses, which are bisegmented double-stranded RNA viruses commonly found in animal stool samples, are currently thought to be animal viruses, but have not been propagated in cell culture or in an animal model. We hypothesize that picobirnaviruses are prokaryotic RNA viruses. We identified and analyzed the genomes of 38 novel picobirnaviruses and determined that a classical bacterial sequence motif, the ribosomal binding site (RBS), is present in the 5' untranslated regions (5' UTRs) of all of the novel as well as all previously published picobirnavirus sequences...
January 12, 2018: Virology
https://www.readbyqxmd.com/read/29345637/structural-basis-of-rna-polymerase-iii-transcription-initiation
#15
Guillermo Abascal-Palacios, Ewan Phillip Ramsay, Fabienne Beuron, Edward Morris, Alessandro Vannini
RNA polymerase (Pol) III transcribes essential non-coding RNAs, including the entire pool of transfer RNAs, the 5S ribosomal RNA and the U6 spliceosomal RNA, and is often deregulated in cancer cells. The initiation of gene transcription by Pol III requires the activity of the transcription factor TFIIIB to form a transcriptionally active Pol III preinitiation complex (PIC). Here we present electron microscopy reconstructions of Pol III PICs at 3.4-4.0 Å and a reconstruction of unbound apo-Pol III at 3.1 Å...
January 17, 2018: Nature
https://www.readbyqxmd.com/read/29345219/transcriptional-changes-when-myxococcus-xanthus-preys-on-escherichia-coli-suggest-myxobacterial-predators-are-constitutively-toxic-but-regulate-their-feeding
#16
Paul G Livingstone, Andrew D Millard, Martin T Swain, David E Whitworth
Predation is a fundamental ecological process, but within most microbial ecosystems the molecular mechanisms of predation remain poorly understood. We investigated transcriptome changes associated with the predation of Escherichia coli by the myxobacterium Myxococcus xanthus using mRNA sequencing. Exposure to pre-killed prey significantly altered expression of 1319 predator genes. However, the transcriptional response to living prey was minimal, with only 12 genes being significantly up-regulated. The genes most induced by prey presence (kdpA and kdpB, members of the kdp regulon) were confirmed by reverse transcriptase quantitative PCR to be regulated by osmotic shock in M...
January 18, 2018: Microbial Genomics
https://www.readbyqxmd.com/read/29345218/mitochondrial-dna-suggests-cryptic-speciation-in-prodiplosis-longifila-gagn%C3%A3-diptera-cecidomyiidae-associated-with-geographic-distance-and-host-specialization
#17
D N Duque-Gamboa, M F Castillo-Cárdenas, L M Hernández, Y C Guzmán, M R Manzano, N Toro-Perea
Prodiplosis longifila is reported as a pest of a wide range of species cultivated in America, including citrus, solanaceous species and asparagus. This species has different behavioural traits that are primarily centred on the oviposition habit and the feeding of larvae, which can change depending on the host. However, scarce information is available on population studies and the natural history of this insect, and uncertainty exists about the taxonomic identity and the geographic distribution of this species...
January 18, 2018: Bulletin of Entomological Research
https://www.readbyqxmd.com/read/29344651/identification-of-genes-and-pathways-in-the-synovia-of-women-with-osteoarthritis-by-bioinformatics-analysis
#18
Bobin Mi, Guohui Liu, Wu Zhou, Huijuan Lv, Yi Liu, Jing Liu
Osteoarthritis (OA) has a high prevalence in female patients and sex may be a key factor affecting the progression of OA. The aim of the present study was to identify genetic signatures in the synovial membranes of female patients with OA and to elucidate the potential associated molecular mechanisms. The gene expression profiles of the GSE55457 and GSE55584 datasets were obtained from the Gene Expression Omnibus database. Data of two synovial membranes from normal female individuals (GSM1337306 and GSM1337310) and two synovial membranes from female patients affected by OA (GSM1337327 and GSM1337330) were obtained from the dataset GSE55457, and those of three synovial membranes from female patients affected by OA (GSM1339628, GSM1339629 and GSM1339632) were obtained from the dataset GSE55584...
January 15, 2018: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29344641/inhibition-of-rptor-overcomes-resistance-to-egfr-inhibition-in-triple-negative-breast-cancer-cells
#19
Kyu Sic You, Yong Weon Yi, Sahng-June Kwak, Yeon-Sun Seong
Triple-negative breast cancer (TNBC) cells frequently exhibit activated growth factor signaling and resistance to inhibitors for epidermal growth factor receptor (EGFR), despite the overexpression of EGFR protein, and this is associated with a malignant behavior and a poor prognosis. In this study, to elucidate the underlying mechanisms of resistance to EGFR inhibitor and identify inhibitors that exert a synergistic effect with EGFR inhibition, we examined the inhibitory effects of selected protein kinase inhibitors (PKIs) in combination with gefitinib on the viability of a mesenchymal stem-like (MSL) subtype TNBC cell line...
January 15, 2018: International Journal of Oncology
https://www.readbyqxmd.com/read/29344612/association-of-disease-severity-with-skin-microbiome-and-filaggrin-gene-mutations-in-adult-atopic-dermatitis
#20
Maja-Lisa Clausen, Tove Agner, Berit Lilje, Sofie M Edslev, Thor Bech Johannesen, Paal Skytt Andersen
Importance: Skin microbiome correlates with disease severity for lesional and nonlesional skin, indicating a global influence of atopic dermatitis (AD). A relation between skin microbiome and filaggrin gene (FLG) mutations proposes a possible association between skin microbiome and host genetics. Objectives: To assess skin and nasal microbiome diversity and composition in patients with AD and compare with healthy controls, and to investigate the microbiome in relation to disease severity and FLG mutations in patients with AD...
January 17, 2018: JAMA Dermatology
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