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https://www.readbyqxmd.com/read/28431233/a-compendium-of-rna-binding-proteins-that-regulate-microrna-biogenesis
#1
Thomas Treiber, Nora Treiber, Uwe Plessmann, Simone Harlander, Julia-Lisa Daiß, Norbert Eichner, Gerhard Lehmann, Kevin Schall, Henning Urlaub, Gunter Meister
During microRNA (miRNA) biogenesis, two endonucleolytic reactions convert stem-loop-structured precursors into mature miRNAs. These processing steps can be posttranscriptionally regulated by RNA-binding proteins (RBPs). Here, we have used a proteomics-based pull-down approach to map and characterize the interactome of a multitude of pre-miRNAs. We identify ∼180 RBPs that interact specifically with distinct pre-miRNAs. For functional validation, we combined RNAi and CRISPR/Cas-mediated knockout experiments to analyze RBP-dependent changes in miRNA levels...
April 20, 2017: Molecular Cell
https://www.readbyqxmd.com/read/28431016/somatic-transposition-and-meiotically-driven-elimination-of-an-active-helitron-family-in-pleurotus-ostreatus
#2
Alessandra Borgognone, Raúl Castanera, Elaia Muguerza, Antonio G Pisabarro, Lucía Ramírez
Helitrons constitute a superfamily of DNA transposons that were discovered in silico and are widespread in most eukaryotic genomes. They are postulated to mobilize through a "rolling-circle" mechanism, but the experimental evidence of their transposition has been described only recently. Here, we present the inheritance patterns of HELPO1 and HELPO2 helitron families in meiotically derived progeny of the basidiomycete Pleurotus ostreatus. We found distorted segregation patterns of HELPO2 helitrons that led to a strong under-representation of these elements in the progeny...
April 1, 2017: DNA Research: An International Journal for Rapid Publication of Reports on Genes and Genomes
https://www.readbyqxmd.com/read/28430985/arabidopsis-cp12-mutants-have-reduced-levels-of-phosphoribulokinase-and-impaired-function-of-the-calvin-benson-cycle
#3
Patricia Elena López-Calcagno, Amani Omar Abuzaid, Tracy Lawson, Christine Anne Raines
CP12 is a small, redox-sensitive protein, the most detailed understanding of which is the thioredoxin-mediated regulation of the Calvin-Benson cycle, where it facilitates the formation of a complex between glyceraldehyde-3-phosphate dehydrogenase (GAPDH) and phosphoribulokinase (PRK) in response to changes in light intensity. In most organisms, CP12 proteins are encoded by small multigene families, where the importance of each individual CP12 gene in vivo has not yet been reported. We used Arabidopsis thaliana T-DNA mutants and RNAi transgenic lines with reduced levels of CP12 transcript to determine the relative importance of each of the CP12 genes...
April 20, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/28430919/non-coding-rnas-in-cardiovascular-diseases-diagnostic-and-therapeutic-perspectives
#4
Wolfgang Poller, Stefanie Dimmeler, Stephane Heymans, Tanja Zeller, Jan Haas, Mahir Karakas, David-Manuel Leistner, Philipp Jakob, Shinichi Nakagawa, Stefan Blankenberg, Stefan Engelhardt, Thomas Thum, Christian Weber, Benjamin Meder, Roger Hajjar, Ulf Landmesser
Recent research has demonstrated that the non-coding genome plays a key role in genetic programming and gene regulation during development as well as in health and cardiovascular disease. About 99% of the human genome do not encode proteins, but are transcriptionally active representing a broad spectrum of non-coding RNAs (ncRNAs) with important regulatory and structural functions. Non-coding RNAs have been identified as critical novel regulators of cardiovascular risk factors and cell functions and are thus important candidates to improve diagnostics and prognosis assessment...
April 18, 2017: European Heart Journal
https://www.readbyqxmd.com/read/28430789/mir-9-3p-augments-apoptosis-induced-by-h2o2-through-down-regulation-of-herpud1-in-glioma
#5
Ling Yang, Yongping Mu, Hongwei Cui, Yabing Liang, Xiulan Su
MicroRNAs are short, single-stranded non-coding RNA molecules that function as regulators of tumor progression in various cancers, including glioma. The present study sought to investigate the biological functions of miR-9-3p in glioma progression. The results of a microRNA microarray indicated that microRNA-9-3p (miR-9-3p, miR-9*) is down-regulated in high-grade (grades III and IV) gliomas compared with non-tumor tissues. These results were confirmed with real-time PCR. The miR-9-3p expression level was associated with age and tumor grade...
2017: PloS One
https://www.readbyqxmd.com/read/28429576/suppression-of-osmads7-in-rice-endosperm-stabilizes-amylose-content-under-high-temperature-stress
#6
Hua Zhang, Heng Xu, Mengjie Feng, Ying Zhu
High temperature significantly alters the amylose content of rice, resulting in mature grains with poor eating quality. However, only few genes and/or quantitative trait loci (QTLs) involved in this process have been isolated and the molecular mechanisms of this effect remain unclear. Here, we describe a floral organ identity gene, OsMADS7, involved in stabilizing rice amylose content at high temperature. OsMADS7 is greatly induced by high temperature at the early filling stage. Constitutive suppression of OsMADS7 stabilizes amylose content under high temperature stress but results in low spikelet fertility...
April 20, 2017: Plant Biotechnology Journal
https://www.readbyqxmd.com/read/28429360/effects-of-silencing-annexin-a5-on-proliferation-and-invasion-of-human-cholangiocarcinoma-cell-line
#7
X-M Ding, J-X Li, K Wang, Z-S Wu, A-H Yao, C-Y Jiao, J-J Qian, D-S Bai, X-C Li
OBJECTIVE: We investigated the expression of annexin A5 (ANXA5) in human cholangiocarcinoma (CCA) cell line and its effect on proliferation, migration, and apoptosis of human CCA cells. MATERIALS AND METHODS: Expression of ANXA5 was detected by fluorescent quantitative reverse transcriptase polymerase chain reaction (qRT-PCR) and western blotting method in 2 human CCA cell lines, QBC939 and RBE. 3 shRNA plasmids for ANXA5 silencing (ANXA5-sh1, ANXA5-sh2, ANXA5-sh3) and 1 negative control plasmid were constructed to infect QBC939 cells...
April 2017: European Review for Medical and Pharmacological Sciences
https://www.readbyqxmd.com/read/28429325/gravitaxis-in-euglena
#8
Donat-P Häder, Ruth Hemmersbach
Motile microorganisms utilize a number of responses to external stimuli including light, temperature, chemicals as well as magnetic and electric fields. Gravity is a major clue to select a niche in their environment. Positive gravitaxis leads an organism down into the water column and negative gravitaxis brings it to the surface. In Euglena the precision of gravitaxis is regulated by an internal rhythm entrained by the daily light/dark cycle. This and the cooperation with phototaxis bring the cells into an optimal position in the water column...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/28429324/photomovement-in-euglena
#9
Donat-P Häder, Mineo Iseki
Motile microorganisms such as the green Euglena gracilis use a number of external stimuli to orient in their environment. They respond to light with photophobic responses, photokinesis and phototaxis, all of which can result in accumulations of the organisms in suitable habitats. The light responses operate synergistically with gravitaxis, aerotaxis and other responses. Originally the microscopically obvious stigma was thought to be the photoreceptor, but later the paraxonemal body (PAB, paraflagellar body) has been identified as the light responsive organelle, located in the trailing flagellum inside the reservoir...
2017: Advances in Experimental Medicine and Biology
https://www.readbyqxmd.com/read/28428090/preparation-and-characterization-of-lipid-nanoparticle-pdna-complexes-for-stat3-downregulation-and-overcoming-chemotherapy-resistance-in-lung-cancer-cells
#10
Mustafa Kotmakçı, Vildan Bozok Çetintaş, A Gülten Kantarcı
Developments in the field of molecular oncology have revealed that resistance to chemotherapeutics is acqured through several mechanisms including overexpression of common oncogenic proteins. Signal Transducer and Activator of Transcription 3 (STAT3) is one of these oncogenes that is overexpressed in many cancer types. RNA interference (RNAi) is proven powerful tool for downregulating STAT3, allowing re-sensitization of resistant cancer cells. However, delivery of RNA interference-mediating molecules for STAT3 downregulation in lung cancer cells is limited to a small number of studies most of which employ commercially available transfection kits...
April 17, 2017: International Journal of Pharmaceutics
https://www.readbyqxmd.com/read/28428068/comparative-analysis-of-gene-expression-profiles-for-several-migrating-cell-types-identifies-cell-migration-regulators
#11
Young-Kyung Bae, Frank Macabenta, Heather Leigh Curtis, Angelike Stathopoulos
Cell migration is an instrumental process that ensures cells are properly positioned to support the specification of distinct tissue types during development. To provide insight, we used fluorescence activated cell sorting (FACS) to isolate two migrating cell types from the Drosophila embryo: caudal visceral mesoderm (CVM) cells, precursors of longitudinal muscles of the gut, and hemocytes (HCs), the Drosophila equivalent of blood cells. ~350 genes were identified from each of the sorted samples using RNA-seq, and in situ hybridization was used to confirm expression within each cell type or, alternatively, within other interacting, co-sorted cell types...
April 17, 2017: Mechanisms of Development
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/28428007/identification-and-characterization-of-two-rna-silencing-suppressors-encoded-by-ophioviruses
#13
Gabriel Robles Luna, Carina A Reyes, Eduardo J Peña, Eliana Ocolotobiche, Cecilia Baeza, Maria Belén Borniego, Richard Kormelink, María Laura García
Citrus psorosis virus and Mirafiori lettuce big-vein virus are two members of the genus Ophiovirus, family Ophioviridae. So far, how these viruses can interfere in the antiviral RNA silencing pathway is not known. In this study, using a local GFP silencing assay on Nicotiana benthamiana, the 24K-25K and the movement protein (MP) of both viruses were identified as RNA silencing suppressor proteins. Upon their co-expression with GFP in N. benthamiana 16c plants, the proteins also showed to suppress systemic RNA (GFP) silencing...
April 17, 2017: Virus Research
https://www.readbyqxmd.com/read/28427939/nrage-induces-%C3%AE-catenin-arm-o-glcnacylation-and-negatively-regulates-wnt-signaling
#14
Yuxin Chen, Lei Jin, Bin Xue, Dong Jin, Fenyong Sun, Chuanjun Wen
The Wnt pathway is crucial for animal development, as well as tumor formation. Understanding the regulation of Wnt signaling will help to elucidate the mechanism of the cell cycle, cell differentiation and tumorigenesis. It is generally accepted that in response to Wnt signals, β-catenin accumulates in the cytoplasm and is imported into the nucleus where it recruits LEF/TCF transcription factors to activate the expression of target genes. In this study, we report that human NRAGE, a neurotrophin receptor p75 (p75NTR) binding protein, markedly suppresses the expression of genes activated by the Wnt pathway...
April 17, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28425161/atorvastatin-treatment-modulates-p16-promoter-methylation-to-regulate-p16-expression
#15
Boqian Zhu, Yaoyao Gong, Gaoliang Yan, Dong Wang, Qingjie Wang, Yong Qiao, Jiantong Hou, Bo Liu, Chengchun Tang
Intimal hyperplasia, the key event of artery restenosis, was a result of cell proliferation and cell migration. Atorvastatin experts an inhibitory effect on cell proliferation and migration but its mechanism remains largely unknown. p16, as a well-known tumor suppressor, was also reported to suppress cell growth and migration, but with vague mechanism. In this study, we demonstrated atorvastatin represses cell proliferation and migration in vascular smooth muscle cells (VSMCs), which process is mediated by p16...
April 20, 2017: FEBS Journal
https://www.readbyqxmd.com/read/28424727/host-induced-silencing-of-two-pharyngeal-gland-genes-conferred-transcriptional-alteration-of-cell-wall-modifying-enzymes-of-meloidogyne-incognita-vis-%C3%A3-vis-perturbed-nematode-infectivity-in-eggplant
#16
Tagginahalli N Shivakumara, Sonam Chaudhary, Divya Kamaraju, Tushar K Dutta, Pradeep K Papolu, Prakash Banakar, Rohini Sreevathsa, Bhupinder Singh, K M Manjaiah, Uma Rao
The complex parasitic strategy of Meloidogyne incognita appears to involve simultaneous expression of its pharyngeal gland-specific effector genes in order to colonize the host plants. Research reports related to effector crosstalk in phytonematodes for successful parasitism of the host tissue is yet underexplored. In view of this, we have used in planta effector screening approach to understand the possible interaction of pioneer genes (msp-18 and msp-20, putatively involved in late and early stage of M. incognita parasitism, respectively) with other unrelated effectors such as cell-wall modifying enzymes (CWMEs) in M...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28423924/advances-in-sirna-delivery-in-cancer-therapy
#17
Aishwarya Singh, Piyush Trivedi, Narendra Kumar Jain
RNA interference (RNAi)-based therapeutic approaches are under vibrant scrutinisation to seek cancer cure. siRNA suppress expression of the carcinogenic genes by targeting the mRNA expression. However, in vivo systemic siRNA therapy is hampered by the barriers such as poor cellular uptake, instability under physiological conditions, off-target effects and possible immunogenicity. To overcome these challenges, systemic siRNA therapy warrants the development of clinically suitable, safe, and effective drug delivery systems...
April 19, 2017: Artificial Cells, Nanomedicine, and Biotechnology
https://www.readbyqxmd.com/read/28423617/the-e3-ubiquitin-ligase-nedd4-is-translationally-upregulated-and-facilitates-pancreatic-cancer
#18
Min Weng, Zhu-Lin Luo, Xiao-Ling Wu, Wei-Zheng Zeng
AIM: To determine the regulation and function of the neural precursor cell expressed developmentally down regulated protein 4 (NEDD4) in PDAC and to determine its dependency on phosphatase and tensin homolog (PTEN) and PI3K/AKT signaling. METHODS: We investigated the expression of NEDD4 and the tumor suppressor PTEN in normal immortalized human pancreatic duct epithelial cell line and pancreatic adenocarcinoma (PDAC) cell lines. We further evaluated whether RNAi-mediated depletion of NEDD4 can attenuate PDAC cell proliferation and migration...
March 21, 2017: Oncotarget
https://www.readbyqxmd.com/read/28423565/identification-and-characterization-of-l1-specific-endo-sirnas-essential-for-early-embryonic-development-in-pig
#19
Heng Zhang, Jilong Liu, Yurong Tai, Xiaolei Zhang, Jiaming Zhang, Shichao Liu, Jiawei Lv, Zhonghua Liu, Qingran Kong
Small noncoding RNAs (sncRNAs) play important roles in RNA interference (RNAi). In addition to microRNA (miRNA) and Piwi-interacting RNA (piRNA), one key member of sncRNAs group is endogenous small interfering RNA (endo-siRNA). Some studies do show the role of endo-siRNAs in Dicer and/or Ago mutants, however, the biological functions of specific endo-siRNAs remains mostly unanswered. In the study, we have performed a comparative analysis of endo-siRNAs present in porcine sperms, oocytes and zygotes, identified by deep sequencing and bioinformatics analysis...
April 4, 2017: Oncotarget
https://www.readbyqxmd.com/read/28423418/rna-seq-validation-of-rnai-identifies-additional-gene-connectivity-in-tribolium-castaneum-coleoptera-tenebrionidae
#20
Lindsey C Perkin, Alison R Gerken, Brenda Oppert
RNA interference (RNAi) is a functional genomics tool to correlate genotype and phenotype by delivering targeted, gene-specific, and complementary dsRNA into a host via injection, feeding, or other means in order to reduce gene expression. In the red flour beetle, Tribolium castaneum, RNAi has been successful via injected dsRNA at all life stages. Traditionally, successful transcript knockdown has been quantified by qPCR on a gene-by-gene basis, where only expression of the target gene and normalization genes are evaluated...
January 1, 2017: Journal of Insect Science
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