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https://www.readbyqxmd.com/read/29228327/most-m6a-rna-modifications-in-protein-coding-regions-are-evolutionarily-unconserved-and-likely-nonfunctional
#1
Zhen Liu, Jianzhi Zhang
Methylation of the adenosine base at the nitrogen-6 position (m6A) is the most prevalent internal posttranscriptional modification of mRNAs in many eukaryotes. Despite the rapid progress in the transcriptome-wide mapping of m6As, identification of proteins responsible for writing, reading, and erasing m6As, and elucidation of m6A functions in splicing, RNA stability, translation, and other processes, it is unknown whether most observed m6A modifications are functional. To address this question, we respectively analyze the evolutionary conservation of yeast and human m6As in protein-coding regions...
December 8, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/29228307/superordinate-precision-an-examination-of-academic-writing-among-bilingual-deaf-and-hard-of-hearing-students
#2
Jessica A Scott, Robert J Hoffmeister
Academic English is an essential literacy skill area for success in post-secondary education and in many work environments. Despite its importance, academic English is understudied with deaf and hard of hearing (DHH) students. Nascent research in this area suggests that academic English, alongside American Sign Language (ASL) fluency, may play an important role in the reading proficiency of DHH students in middle and high school. The current study expands this research to investigate academic English by examining student proficiency with a sub-skill of academic writing called superordinate precision, the taxonomical categorization of a term...
December 8, 2017: Journal of Deaf Studies and Deaf Education
https://www.readbyqxmd.com/read/29228294/accurate-mapping-of-trna-reads
#3
Anne Hoffmann, Jörg Fallmann, Mario Mörl, Peter F Stadler, Fabian Amman
Motivation: Many repetitive DNA elements are transcribed at appreciable expression levels. Mapping the corresponding RNA sequencing reads back to a reference genome is notoriously difficult and error-prone task, however. This is in particular true if chemical modifications introduce systematic mismatches, while at the same time the genomic loci are only approximately identical, as in the case of tRNAs. Results: We therefore developed a dedicated mapping strategy to handle RNA-seq reads that map to tRNAs relying on a modified target genome in which known tRNA loci are masked and instead intronless tRNA precursor sequences are appended as artificial "chromosomes"...
December 8, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29228262/ltr-retrotransposons-show-low-levels-of-unequal-recombination-and-high-rates-of-intraelement-gene-conversion-in-large-plant-genomes
#4
Rosa Maria Cossu, Claudio Casola, Stefania Giacomello, Amaryllis Vidalis, Douglas G Scofield, Andrea Zuccolo
The accumulation and removal of transposable elements (TEs) is a major driver of genome size evolution in eukaryotes. In plants, Long Terminal Repeat (LTR) retrotransposons (LTR-RTs) represent the majority of TEs and form most of the nuclear DNA in large genomes. Unequal recombination (UR) between LTRs leads to removal of intervening sequence and formation of solo-LTRs. UR is a major mechanism of LTR-RT removal in many angiosperms, but our understanding of LTR-RT-associated recombination within the large, LTR-RT-rich genomes of conifers is quite limited...
December 8, 2017: Genome Biology and Evolution
https://www.readbyqxmd.com/read/29228202/activity-of-ceftazidime-avibactam-against-problem-enterobacteriaceae-and-pseudomonas-aeruginosa-in-the-uk-2015-16
#5
David M Livermore, Danièle Meunier, Katie L Hopkins, Michel Doumith, Robert Hill, Rachel Pike, Peter Staves, Neil Woodford
Background: Ceftazidime/avibactam combines an established oxyimino-cephalosporin with the first diazabicyclooctane β-lactamase inhibitor to enter clinical use. We reviewed its activity against Gram-negative isolates, predominantly from the UK, referred for resistance investigation in the first year of routine testing, beginning in July 2015. Methods: Isolates were as received from referring laboratories; there is a bias to submit those with suspected carbapenem resistance...
December 8, 2017: Journal of Antimicrobial Chemotherapy
https://www.readbyqxmd.com/read/29228197/efficacy-of-13-commercial-household-aerosol-insecticides-against-aedes-aegypti-diptera-culicidae-from-morelos-mexico
#6
Pablo A Kuri-Morales, Fabián Correa-Morales, Cassandra González-Acosta, Miguel Moreno-Garcia, Eduardo Dávalos-Becerril, José Ismael Benitez-Alva, Jorge Peralta-Rodriguez, Victor Salazar-Bueyes, Jesús F González-Roldán
In Mexico, Aedes aegypti (L.) (Diptera: Culicidae) is the primary vector of Dengue, Zika, and Chikungunya viruses. Control programs include community participation using personal protection such as household aerosol insecticides. In both, urban or rural areas, the use of aerosol insecticides is a common practice to avoiding mosquito biting. Thus, information on the efficacy of commercial products must be available. This study reports the efficacy of 13 household aerosol insecticides against Ae. aegypti from an endemic dengue area in Mexico...
December 8, 2017: Journal of Medical Entomology
https://www.readbyqxmd.com/read/29228050/birth-preparedness-and-complication-readiness-bpcr-among-pregnant-women-in-hard-to-reach-areas-in-bangladesh
#7
Md Moinuddin, Aliki Christou, Dewan Md Emdadul Hoque, Tazeen Tahsina, Shumona Sharmin Salam, Sk Masum Billah, Lianne Kuppens, Md Ziaul Matin, Shams El Arifeen
BACKGROUND: Birth preparedness and complication readiness aims to reduce delays in care seeking, promote skilled birth attendance, and facility deliveries. Little is known about birth preparedness practices among populations living in hard-to-reach areas in Bangladesh. OBJECTIVES: To describe levels of birth preparedness and complication readiness among recently delivered women, identify determinants of being better prepared for birth, and assess the impact of greater birth preparedness on maternal and neonatal health practices...
2017: PloS One
https://www.readbyqxmd.com/read/29228005/rna-seq-reveals-transcriptome-changes-in-goats-following-myostatin-gene-knockout
#8
Lamei Wang, Bei Cai, Shiwei Zhou, Haijing Zhu, Lei Qu, Xiaolong Wang, Yulin Chen
Myostatin (MSTN) is a powerful negative regulator of skeletal muscle mass in mammalian species that is primarily expressed in skeletal muscles, and mutations of its encoding gene can result in the double-muscling trait. In this study, the CRISPR/Cas9 technique was used to edit MSTN in Shaanbei Cashmere goats and generate knockout animals. RNA sequencing was used to determine and compare the transcriptome profiles of the muscles from three wild-type (WT) goats, three fibroblast growth factor 5 (FGF5) knockout goats (FGF5+/- group) and three goats with disrupted expression of both the FGF5 and MSTN genes (FM+/- group)...
2017: PloS One
https://www.readbyqxmd.com/read/29227852/relationships-between-early-literacy-and-nonlinguistic-rhythmic-processes-in-kindergarteners
#9
Ola Ozernov-Palchik, Maryanne Wolf, Aniruddh D Patel
A growing number of studies report links between nonlinguistic rhythmic abilities and certain linguistic abilities, particularly phonological skills. The current study investigated the relationship between nonlinguistic rhythmic processing, phonological abilities, and early literacy abilities in kindergarteners. A distinctive aspect of the current work was the exploration of whether processing of different types of rhythmic patterns is differentially related to kindergarteners' phonological and reading-related abilities...
December 8, 2017: Journal of Experimental Child Psychology
https://www.readbyqxmd.com/read/29227832/functional-characterization-and-phenotypic-monitoring-of-human-hematopoietic-stem-cell-expansion-and-differentiation-of-monocytes-and-macrophages-by-whole-cell-mass-spectrometry
#10
Guido Vogel, Aline Cuénod, Roxanne Mouchet, André Strauss, Claudia Daubenberger, Valentin Pflüger, Damien Portevin
The different facets of macrophages allow them to play distinct roles in tissue homeostasis, tissue repair and in response to infections. Individuals displaying dysregulated macrophage functions are proposed to be prone to inflammatory disorders or infections. However, this being a cause or a consequence of the pathology remains often unclear. In this context, we isolated and expanded CD34+ HSCs from healthy blood donors and derived them into CD14+ myeloid progenitors which were further enriched and differentiated into macrophages...
November 22, 2017: Stem Cell Research
https://www.readbyqxmd.com/read/29227790/interpersonal-and-intrapersonal-emotional-processes-in-individuals-treated-for-alcohol-use-disorder-and-non-addicted-healthy-individuals
#11
Maciej Kopera, Elisa M Trucco, Andrzej Jakubczyk, Hubert Suszek, Aneta Michalska, Aleksandra Majewska, Natalia Szejko, Agata Łoczewska, Aleksandra Krasowska, Anna Klimkiewicz, Kirk J Brower, Robert A Zucker, Marcin Wojnar
INTRODUCTION: Prior work largely confirms the presence of various emotional processing deficits among individuals with an alcohol use disorder (AUD); however, their specificity and relevance still warrant investigation. The aim of the current study was to compare selected aspects of emotional processing (i.e., mental state recognition, alexithymia, and emotional intelligence) between individuals treated for an AUD and healthy individuals. METHODS: The AUD sample consisted of 92 abstinent men with AUD who were participating in an 8-week inpatient abstinence-based treatment program in Warsaw, Poland...
December 5, 2017: Addictive Behaviors
https://www.readbyqxmd.com/read/29227468/metagenomic-binning-and-association-of-plasmids-with-bacterial-host-genomes-using-dna-methylation
#12
John Beaulaurier, Shijia Zhu, Gintaras Deikus, Ilaria Mogno, Xue-Song Zhang, Austin Davis-Richardson, Ronald Canepa, Eric W Triplett, Jeremiah J Faith, Robert Sebra, Eric E Schadt, Gang Fang
Shotgun metagenomics methods enable characterization of microbial communities in human microbiome and environmental samples. Assembly of metagenome sequences does not output whole genomes, so computational binning methods have been developed to cluster sequences into genome 'bins'. These methods exploit sequence composition, species abundance, or chromosome organization but cannot fully distinguish closely related species and strains. We present a binning method that incorporates bacterial DNA methylation signatures, which are detected using single-molecule real-time sequencing...
December 11, 2017: Nature Biotechnology
https://www.readbyqxmd.com/read/29227348/quantitative-pet-ct-in-clinical-practice-assessing-the-agreement-of-pet-tumor-indices-using-different-clinical-reading-platforms
#13
Joyce C Mhlanga, Alin Chirindel, Martin A Lodge, Richard L Wahl, Rathan M Subramaniam
OBJECTIVE: The aim of this study was to determine whether various fluorine-18-fluorodeoxyglucose PET/CT-derived parameters used in oncology vary significantly depending on the interpretation software systems used in clinical practice for multiple human solid tumors. PATIENTS AND METHODS: A total of 120 fluorine-18-fluorodeoxyglucose PET/CT studies carried out in patients with pancreatic, lung, colorectal, and head and neck cancers were evaluated retrospectively on two different vendor software platforms including Mirada and MIMVista...
December 8, 2017: Nuclear Medicine Communications
https://www.readbyqxmd.com/read/29227329/a-systematic-review-and-meta-analysis-of-second-line-immunosuppressants-for-autoimmune-hepatitis-treatment
#14
Michele De Lemos-Bonotto, Cristiane Valle-Tovo, Ane M Costabeber, Angelo A Mattos, André L F Azeredo-da-Silva
INTRODUCTION: The gold-standard treatment for autoimmune hepatitis (AIH) is a prednisone/azathioprine combination. However, subgroups of patients may be unresponsive to this treatment. The aim of this study is to evaluate the efficacy of second-line immunosuppressive therapies for AIH through a systematic review and meta-analysis in adult patients. PATIENTS AND METHODS: The systematic review was registered at the PROSPERO platform under number 42015019831. Databases MEDLINE (PubMed), Lilacs, Cochrane, and Scielo were searched...
December 8, 2017: European Journal of Gastroenterology & Hepatology
https://www.readbyqxmd.com/read/29226826/prostate-magnetic-resonance-imaging-interpretation-varies-substantially-across-radiologists
#15
Geoffrey A Sonn, Richard E Fan, Pejman Ghanouni, Nancy N Wang, James D Brooks, Andreas M Loening, Bruce L Daniel, Katherine J To'o, Alan E Thong, John T Leppert
BACKGROUND: Multiparametric magnetic resonance imaging (mpMRI) interpreted by experts is a powerful tool for diagnosing prostate cancer. However, the generalizability of published results across radiologists of varying expertise has not been verified. OBJECTIVE: To assess variability in mpMRI reporting and diagnostic accuracy across radiologists of varying experience in routine clinical care. DESIGN, SETTING, AND PARTICIPANTS: Men who underwent mpMRI and MR-fusion biopsy between 2014-2016...
December 6, 2017: European Urology Focus
https://www.readbyqxmd.com/read/29226775/corrigendum-the-wisdom-in-virtue-pursuit-of-virtue-predicts-wise-reasoning-about-personal-conflicts
#16
(no author information available yet)
Original Article: Huynh, A. C., Oakes, H., Shay, G. R., & McGregor, I. (2017). The wisdom in virtue: Pursuit of virtue predicts wise reasoning about personal conflicts. Psychological Science, 28, 1848-1856. doi:10.1177/0956797617722621 In this article, results for the Pursuit of Virtue × Conflict Type interaction in Study 2 were incorrectly reported. The final paragraph on page 1854 stated, "As in Study 1, we found a significant Pursuit of Virtue × Conflict Type interaction, F(1, 353) = 4.61, p = .032, η p2 = ...
December 2017: Psychological Science
https://www.readbyqxmd.com/read/29226700/retrospective-correction-of-physiological-noise-impact-on-sensitivity-specificity-and-reproducibility-of-resting-state-functional-connectivity-in-a-reading-network-model
#17
Venkatagiri Krishnamurthy, Lisa C Krishnamurthy, Dina M Schwam, Ashley Ealey, Jaemin Shin, Daphne Greenberg, Robin D Morris
It is well accepted that physiological noise (PN) obscures the detection of neural fluctuations in resting-state functional connectivity (rsFC) MRI. However, a clear consensus for an optimal PN correction (PNC) methodology and how it can impact the rsFC signal characteristics is still lacking. In this study, we probe the impact of three PNC methods: RETROICOR: (Glover, et al. 2000), ANATICOR: (Jo, et al. 2010), and RVTMBPM: (Bianciardi, et al. 2009). Using a reading network model, we systematically explore the effects of PNC optimization on sensitivity, specificity, and reproducibility of rsFC signals...
December 10, 2017: Brain Connectivity
https://www.readbyqxmd.com/read/29226634/post-intervention-sustainability-of-a-brief-psycho-educational-support-group-intervention-for-family-caregivers-of-cancer-patients
#18
Joyce Y S Tan, Kevin F Y Lam, Haikel A Lim, Shi Min Chua, Ee Heok Kua, Konstadina Griva, Rathi Mahendran
INTRODUCTION: Family caregivers of cancer patients experience many negative effects due to the heavy responsibility involved. Although various psychosocial interventions have been found to improve caregivers' quality of life (QOL), the sustainability of the benefits of these interventions over time has been less consistently investigated and hence less clearly established. Extending previous research on the immediate post-intervention effects, this study aims to examine the trajectories of change in caregivers QOL over an 8-week follow-up period...
December 11, 2017: Asia-Pacific Psychiatry: Official Journal of the Pacific Rim College of Psychiatrists
https://www.readbyqxmd.com/read/29226567/a-strain-specific-multiplex-rt-pcr-for-australian-rabbit-haemorrhagic-disease-viruses-uncovers-a-new-recombinant-virus-variant-in-rabbits-and-hares
#19
R N Hall, J E Mahar, A J Read, R Mourant, M Piper, N Huang, T Strive
Rabbit haemorrhagic disease virus (RHDV, or GI.1) is a calicivirus in the genus Lagovirus that has been widely utilized in Australia as a biological control agent for the management of overabundant wild European rabbit (Oryctolagus cuniculus) populations since 1996. Recently, two exotic incursions of pathogenic lagoviruses have been reported in Australia; GI.1a-Aus, previously called RHDVa-Aus, is a GI.1a virus detected in January 2014, and the novel lagovirus GI.2 (previously known as RHDV2). Furthermore, an additional GI...
December 10, 2017: Transboundary and Emerging Diseases
https://www.readbyqxmd.com/read/29226533/the-anthelmintic-drug-niclosamide-and-its-analogues-activate-the-parkinson-s-disease-associated-protein-kinase-pink1
#20
Erica Barini, Ageo Miccoli, Federico Tinarelli, Katie Mulholand, Hachemi Kadri, Farhat Khanim, Laste Stojanovski, Kevin D Read, Kerry Burness, Julian J Blow, Youcef Mehellou, Miratul Muqit
Mutations in PINK1, which impair its catalytic kinase activity, are causal for autosomal recessive early onset Parkinson's disease (PD). Various studies have indicated that the activation of PINK1 could be a useful strategy in treating neurodegenerative diseases such as PD. Herein, we show that the anthelmintic drug niclosamide and its analogues are capable of activating PINK1 in cells via reversible impairment of the mitochondrial membrane potential. Using these compounds, we demonstrate for the first time that the PINK1 pathway is active and detectable in primary neurons...
December 10, 2017: Chembiochem: a European Journal of Chemical Biology
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