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Y rna

Waqas Muhammad Usman, Tin Chanh Pham, Yuk Yan Kwok, Luyen Tien Vu, Victor Ma, Boya Peng, Yuen San Chan, Likun Wei, Siew Mei Chin, Ajijur Azad, Alex Bai-Liang He, Anskar Y H Leung, Mengsu Yang, Ng Shyh-Chang, William C Cho, Jiahai Shi, Minh T N Le
Most of the current methods for programmable RNA drug therapies are unsuitable for the clinic due to low uptake efficiency and high cytotoxicity. Extracellular vesicles (EVs) could solve these problems because they represent a natural mode of intercellular communication. However, current cellular sources for EV production are limited in availability and safety in terms of horizontal gene transfer. One potentially ideal source could be human red blood cells (RBCs). Group O-RBCs can be used as universal donors for large-scale EV production since they are readily available in blood banks and they are devoid of DNA...
June 15, 2018: Nature Communications
Suzam L S Pereira, Cristina P S Martins, Aurizangela O Sousa, Luciana R Camillo, Caroline P Araújo, Grazielle M Alcantara, Danielle S Camargo, Luciana C Cidade, Alex-Alan F de Almeida, Marcio G C Costa
Nuclear factor Y (NF-Y) is a ubiquitous transcription factor found in eukaryotes. It is composed of three distinct subunits called NF-YA, NF-YB and NF-YC. NF-Ys have been identified as key regulators of multiple pathways in the control of development and tolerance to biotic and abiotic factors. The present study aimed to identify and characterize the complete repertoire of genes coding for NF-Y in citrus, as well as to perform the functional characterization of one of its members, namely CsNFYA5, in transgenic tobacco plants...
2018: PloS One
Chang Xue, Shu-Xin Zhang, Chang-He Ouyang, Dingran Chang, Bruno J Salena, Yingfu Li, Zai-Sheng Wu
DNA is a highly programmable material that can be configured into unique high-order structures, such as DNA branched junctions containing multiple helical arms converging at a center. Herein we show that DNA programmability can deliver in situ growth of a 3-way junction-based DNA structure (denoted Y-shaped DNA) with the use of three hairpin-shaped DNA molecules as precursors, a specific microRNA target as a recyclable trigger, and a DNA polymerase as a driver. We demonstrate that the Y-shaped configuration comes with the benefit of restricted freedom of movement in confined cellular environment, which makes the approach ideally suited for in situ imaging of small RNA targets, such as microRNAs...
June 14, 2018: Angewandte Chemie
Zhiyun Chen, Rahul Raghavan, Fengxia Qi, Justin Merritt, Jens Kreth
RNase Y is a major endoribonuclease in Group A streptococcus (GAS) and other Gram-positive bacteria. Our previous study showed that RNase Y was involved in mRNA degradation and processing in GAS. We hypothesized that mRNA processing regulated the expression of important GAS virulence factors via altering their mRNA stabilities and that RNase Y mediated at least some of the mRNA-processing events. The aims of this study were to (1) identify mRNAs that were processed by RNase Y and (2) confirm the mRNA-processing events...
June 13, 2018: MicrobiologyOpen
Y Moritani, M Usui, K Sano, K Nakazawa, T Hanatani, M Nakatomi, T Iwata, T Sato, W Ariyoshi, T Nishihara, K Nakashima
OBJECTIVE AND BACKGROUND: Human periodontal ligament mesenchymal stem cells (hPDLMSCs) are reported to be responsible for homeostasis and regeneration of periodontal tissue. Although hPDLMSCs are commonly cultured in monolayers, monolayer cultures have been reported as inferior to 3-dimensional cultures such as spheroids, which are spherical clusters of cells formed by self-assembly. The aim of this study was to examine the osteogenic phenotype of spheroids of hPDLMSCs, compared with monolayer cultures of hPDLMSC, in vitro and in vivo...
June 14, 2018: Journal of Periodontal Research
T Maroilley, M Berri, G Lemonnier, D Esquerré, C Chevaleyre, S Mélo, F Meurens, J L Coville, J J Leplat, A Rau, B Bed'hom, S Vincent-Naulleau, M J Mercat, Y Billon, P Lepage, C Rogel-Gaillard, J Estellé
The epithelium of the intestinal mucosa and the gut-associated lymphoid tissues (GALT) constitute an essential physical and immunological barrier against pathogens. In order to study the specificities of the GALT transcriptome in pigs, we compared the transcriptome profiles of jejunal and ileal Peyer's patches (PPs), mesenteric lymph nodes (MLNs) and peripheral blood (PB) of four male piglets by RNA-Seq. We identified 1,103 differentially expressed (DE) genes between ileal PPs (IPPs) and jejunal PPs (JPPs), and six times more DE genes between PPs and MLNs...
June 13, 2018: Scientific Reports
Paradesi Naidu Gollavilli, Aishwarya Pawar, Kari Wilder-Romans, Natesan Ramakrishnan, Carl G Engelke, Vijaya L Dommeti, Pranathi M Krishnamurthy, Archana Nallasivam, Ingrid J Apel, Tianlei Xu, Zhaohui Qin, Felix Y Feng, Irfan A Asangani
The EWS/ETS fusion transcription factors drive Ewing sarcoma (EWS) by orchestrating an oncogenic transcription program. Therapeutic targeting of EWS/ETS has been unsuccessful; however, identifying mediators of the EWS/ETS function could offer new therapeutic options. Here we describe the dependency of EWS/ETS-driven transcription upon chromatin reader BET bromdomain proteins and investigate the potential of BET inhibitors in treating EWS. EWS/FLI1 and EWS/ERG were found in a transcriptional complex with BRD4, and knockdown of BRD2/3/4 significantly impaired the oncogenic phenotype of EWS cells...
June 13, 2018: Cancer Research
Shannon N Rhoads, Zachary T Monahan, Debra S Yee, Andrew Y Leung, Cameron G Newcombe, Robert N O'Meally, Robert N Cole, Frank P Shewmaker
FUS is an abundant, predominantly nuclear protein involved in RNA processing. Under various conditions, FUS functionally associates with RNA and other macromolecules to form distinct, reversible phase-separated liquid structures. Persistence of the phase-separated state and increased cytoplasmic localization are both hypothesized to predispose FUS to irreversible aggregation, which is a pathological hallmark of subtypes of amyotrophic lateral sclerosis and frontotemporal dementia. We previously showed that phosphorylation of FUS's prion-like domain suppressed phase separation and toxic aggregation, proportionally to the number of added phosphates...
June 13, 2018: Molecular Biology of the Cell
Cheng-Zhou Mao, Li Zheng, Yi-Min Zhou, Hai-Yan Wu, Jing-Bo Xia, Chi-Qian Liang, Xiao-Fang Guo, Wen-Tao Peng, Hui Zhao, Wei-Bin Cai, Soo-Ki Kim, Kyu-Sang Park, Dong-Qing Cai, Xu-Feng Qi
The clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated (Cas) 9 system has emerged as a powerful tool for knock-in of DNA fragments via donor plasmid and homology-independent DNA repair mechanism; however, conventional integration includes unnecessary plasmid backbone and may result in the unfaithful expression of the modified endogenous genes. Here, we report an efficient and precise CRISPR/Cas9-mediated integration strategy using a donor plasmid that harbors 2 of the same cleavage sites that flank the cassette at both sides...
June 13, 2018: FASEB Journal: Official Publication of the Federation of American Societies for Experimental Biology
Susanna K P Lau, George C S Lo, Franklin W N Chow, Rachel Y Y Fan, James J Cai, Kwok-Yung Yuen, Patrick C Y Woo
Talaromyces marneffei is the most important thermal dimorphic fungus causing systemic mycosis in Southeast Asia. We report the discovery of a novel partitivirus, Talaromyces marneffei partitivirus -1 (TmPV1). TmPV1 was detected in 7 (12.7%) of 55 clinical T. marneffei isolates. Complete genome sequencing of the seven TmPV1 isolates revealed two double-stranded RNA (dsRNA) segments encoding RNA-dependent RNA polymerase (RdRp) and capsid protein, respectively. Phylogenetic analysis showed that TmPV1 occupied a distinct clade among the members of the genus Gammapartitivirus Transmission electron microscopy confirmed the presence of isometric, nonenveloped viral particles of 30 to 45 nm in diameter, compatible with partitiviruses, in TmPV1-infected T...
June 12, 2018: MBio
M S Joshi, B V Tandale, M M Gore, S Bhalla, Y K Gurav, G N Sapkal, K P Kushwaha A, S D Chitambar
The etiological agent remained unidentified in a large number of patients hospitalized for acute encephalitis syndrome (AES) in 2008-2009 in Uttar Pradesh and Bihar, north India. All patients were found to present with fever and altered sensorium, while 28%, 19% and 13% showed hepatomegaly, splenomegaly and meningeal signs, respectively. Involvement mostly of children with abnormal hepatic features prompted us to undertake an exploratory study on viral hepatitis A to determine its association, if any, with hepatic derangements...
2018: Acta Virologica
J-H Zhou, Y-N Wang, X-R Li, Y-S Liu, Q Pan, X Lan
The prevalence of hepatitis E virus (HEV) in domestic swine threats the public health, due to the risk of zoonotic transmission. In this study, we investigated the prevalence and genetic features of HEV in swine, in Gansu, which is geographically an important province in China. 377 fecal samples were collected from pig farms in Gansu province of China and tested for HEV RNA by RT-PCR. The prevalence rate is about 23% in pig farms of Gansu province. By RT-nPCR, 5' and 3' RACE methods, a whole genome with 7,284 nt in length, termed as swCH189, was obtained and investigated by nucleotide, codon and amino acid usage analyses...
2018: Acta Virologica
C J Goh, D Park, J S Lee, F Sebastiani, Y Hahn
Amalgaviridae is a family of double-stranded, monosegmented RNA viruses that are associated with plants, fungi, microsporidians, and animals. A sequence contig derived from the transcriptome of a eudicot, Cistus incanus (the family Cistaceae; commonly known as hoary rockrose), was identified as the genome sequence of a novel plant RNA virus and named Cistus incanus RNA virus 1 (CiRV1). Sequence comparison and phylogenetic analysis indicated that CiRV1 is a novel species of the genus Amalgavirus in the family Amalgaviridae...
2018: Acta Virologica
X Liu, J Lan, Y S Huang, P H Cao, C L Zhou, Y K Ren, N Q He, S J Liu, Y L Tian, T L Nguyen, L Jiang, J M Wan
Chloroplasts play an essential role in plant growth and development, and cold conditions affect chloroplast development. Although many genes or regulators involved in chloroplast biogenesis and development have been isolated and characterized, many components affecting chloroplast biogenesis under cold conditions have not been characterized. Here, we report the functional characterization of a white stripe leaf 5 (wsl5) mutant in rice. The mutant develops white-striped leaves during early leaf development and is albinic when planted under cold stress...
June 8, 2018: Journal of Experimental Botany
Carolina Roselli, Mark D Chaffin, Lu-Chen Weng, Stefanie Aeschbacher, Gustav Ahlberg, Christine M Albert, Peter Almgren, Alvaro Alonso, Christopher D Anderson, Krishna G Aragam, Dan E Arking, John Barnard, Traci M Bartz, Emelia J Benjamin, Nathan A Bihlmeyer, Joshua C Bis, Heather L Bloom, Eric Boerwinkle, Erwin B Bottinger, Jennifer A Brody, Hugh Calkins, Archie Campbell, Thomas P Cappola, John Carlquist, Daniel I Chasman, Lin Y Chen, Yii-Der Ida Chen, Eue-Keun Choi, Seung Hoan Choi, Ingrid E Christophersen, Mina K Chung, John W Cole, David Conen, James Cook, Harry J Crijns, Michael J Cutler, Scott M Damrauer, Brian R Daniels, Dawood Darbar, Graciela Delgado, Joshua C Denny, Martin Dichgans, Marcus Dörr, Elton A Dudink, Samuel C Dudley, Nada Esa, Tonu Esko, Markku Eskola, Diane Fatkin, Stephan B Felix, Ian Ford, Oscar H Franco, Bastiaan Geelhoed, Raji P Grewal, Vilmundur Gudnason, Xiuqing Guo, Namrata Gupta, Stefan Gustafsson, Rebecca Gutmann, Anders Hamsten, Tamara B Harris, Caroline Hayward, Susan R Heckbert, Jussi Hernesniemi, Lynne J Hocking, Albert Hofman, Andrea R V R Horimoto, Jie Huang, Paul L Huang, Jennifer Huffman, Erik Ingelsson, Esra Gucuk Ipek, Kaoru Ito, Jordi Jimenez-Conde, Renee Johnson, J Wouter Jukema, Stefan Kääb, Mika Kähönen, Yoichiro Kamatani, John P Kane, Adnan Kastrati, Sekar Kathiresan, Petra Katschnig-Winter, Maryam Kavousi, Thorsten Kessler, Bas L Kietselaer, Paulus Kirchhof, Marcus E Kleber, Stacey Knight, Jose E Krieger, Michiaki Kubo, Lenore J Launer, Jari Laurikka, Terho Lehtimäki, Kirsten Leineweber, Rozenn N Lemaitre, Man Li, Hong Euy Lim, Henry J Lin, Honghuang Lin, Lars Lind, Cecilia M Lindgren, Marja-Liisa Lokki, Barry London, Ruth J F Loos, Siew-Kee Low, Yingchang Lu, Leo-Pekka Lyytikäinen, Peter W Macfarlane, Patrik K Magnusson, Anubha Mahajan, Rainer Malik, Alfredo J Mansur, Gregory M Marcus, Lauren Margolin, Kenneth B Margulies, Winfried März, David D McManus, Olle Melander, Sanghamitra Mohanty, Jay A Montgomery, Michael P Morley, Andrew P Morris, Martina Müller-Nurasyid, Andrea Natale, Saman Nazarian, Benjamin Neumann, Christopher Newton-Cheh, Maartje N Niemeijer, Kjell Nikus, Peter Nilsson, Raymond Noordam, Heidi Oellers, Morten S Olesen, Marju Orho-Melander, Sandosh Padmanabhan, Hui-Nam Pak, Guillaume Paré, Nancy L Pedersen, Joanna Pera, Alexandre Pereira, David Porteous, Bruce M Psaty, Sara L Pulit, Clive R Pullinger, Daniel J Rader, Lena Refsgaard, Marta Ribasés, Paul M Ridker, Michiel Rienstra, Lorenz Risch, Dan M Roden, Jonathan Rosand, Michael A Rosenberg, Natalia Rost, Jerome I Rotter, Samir Saba, Roopinder K Sandhu, Renate B Schnabel, Katharina Schramm, Heribert Schunkert, Claudia Schurman, Stuart A Scott, Ilkka Seppälä, Christian Shaffer, Svati Shah, Alaa A Shalaby, Jaemin Shim, M Benjamin Shoemaker, Joylene E Siland, Juha Sinisalo, Moritz F Sinner, Agnieszka Slowik, Albert V Smith, Blair H Smith, J Gustav Smith, Jonathan D Smith, Nicholas L Smith, Elsayed Z Soliman, Nona Sotoodehnia, Bruno H Stricker, Albert Sun, Han Sun, Jesper H Svendsen, Toshihiro Tanaka, Kahraman Tanriverdi, Kent D Taylor, Maris Teder-Laving, Alexander Teumer, Sébastien Thériault, Stella Trompet, Nathan R Tucker, Arnljot Tveit, Andre G Uitterlinden, Pim Van Der Harst, Isabelle C Van Gelder, David R Van Wagoner, Niek Verweij, Efthymia Vlachopoulou, Uwe Völker, Biqi Wang, Peter E Weeke, Bob Weijs, Raul Weiss, Stefan Weiss, Quinn S Wells, Kerri L Wiggins, Jorge A Wong, Daniel Woo, Bradford B Worrall, Pil-Sung Yang, Jie Yao, Zachary T Yoneda, Tanja Zeller, Lingyao Zeng, Steven A Lubitz, Kathryn L Lunetta, Patrick T Ellinor
Atrial fibrillation (AF) affects more than 33 million individuals worldwide 1 and has a complex heritability 2 . We conducted the largest meta-analysis of genome-wide association studies (GWAS) for AF to date, consisting of more than half a million individuals, including 65,446 with AF. In total, we identified 97 loci significantly associated with AF, including 67 that were novel in a combined-ancestry analysis, and 3 that were novel in a European-specific analysis. We sought to identify AF-associated genes at the GWAS loci by performing RNA-sequencing and expression quantitative trait locus analyses in 101 left atrial samples, the most relevant tissue for AF...
June 11, 2018: Nature Genetics
C Shen, Q Z Wang, Z Y Shen, H Y Yuan, W J Yu, X D Chen, H Xu
BACKGROUND: Acne vulgaris is a common chronic skin disease. Inflammation is an important pathogenetic mechanism of acne, and NLRP3 polymorphisms have been reported to be involved in the mediation and occurrence of the inflammation. However, only a few studies on NLRP3 and acne have been reported, and the mechanism remains unclear. AIM: To investigate two SNPs in the NLRP3 gene in patients with acne vulgaris (AV) and healthy controls (HCs) in a Chinese population...
June 11, 2018: Clinical and Experimental Dermatology
Benjamin Kleaveland, Charlie Y Shi, Joanna Stefano, David P Bartel
Noncoding RNAs (ncRNAs) play increasingly appreciated gene-regulatory roles. Here, we describe a regulatory network centered on four ncRNAs-a long ncRNA, a circular RNA, and two microRNAs-using gene editing in mice to probe the molecular consequences of disrupting key components of this network. The long ncRNA Cyrano uses an extensively paired site to miR-7 to trigger destruction of this microRNA. Cyrano-directed miR-7 degradation is much more effective than previously described examples of target-directed microRNA degradation, which come primarily from studies of artificial and viral RNAs...
June 4, 2018: Cell
Y Liang, T Z Li, G M Lu, Z Q Huang, C H Zou, J D Li, S L Li
No abstract text is available yet for this article.
June 8, 2018: Zhonghua Bing Li Xue za Zhi Chinese Journal of Pathology
Anuradha Upadhyay, Tulsi Gaonkar, Ajay Kumar Upadhyay, Satisha Jogaiah, Manisha P Shinde, Narendra Y Kadoo, Vidya S Gupta
Among the different abiotic stresses, salt stress has a significant effect on the growth and yield of grapevine (Vitis vinifera L.). In this study, we employed RNA sequence based transcriptome analysis to study salinity stress response in grape variety Thompson Seedless. Salt stress adversely affected the growth related and physiological parameters and the effect on physiological parameters was significant within 10 days of stress imposition. A total of 343 genes were differentially expressed in response to salt stress...
May 31, 2018: Plant Physiology and Biochemistry: PPB
Hui-Min Zhang, H L Xia, H R Jiang, Y J Mao, K X Qu, B Z Huang, Y C Gong, Z P Yang
Intramuscular fat (IMF) content and fatty acid (FA) composition vary significantly across beef cattle breeds, which play important roles in taste and nutritional value. However, the molecular mechanisms underlying these phenotypic differences remain unknown. The present study compared meat quality traits between Yunling cattle and Chinese Simmental cattle. Yunling cattle showed a lower IMF content and proportion of monounsaturated fatty acids (MUFA), as well as higher proportions of saturated fatty acids (SFA), polyunsaturated fatty acids (PUFA) and short chain fatty acids (sc-FA) in the longissimus dorsi (LD) muscle than Chinese Simmental cattle...
June 8, 2018: Genome Génome / Conseil National de Recherches Canada
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