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https://www.readbyqxmd.com/read/28222747/ire1%C3%AE-xbp1-pathway-promotes-melanoma-progression-by-regulating-il-6-stat3-signaling
#1
Cheng Chen, Xuejun Zhang
BACKGROUND: The IRE1α-XBP1 pathway is the most conserved branch of the unfolded protein response pathways, which are activated during endoplasmic reticulum (ER) stress caused by the accumulation of unfolded/misfolded proteins in the ER lumen. The IRE1α-XBP1 pathway plays a critical role in various cancers. However, the role of this pathway in melanoma cell growth remains unclear. METHODS: Sixty-one pairs of melanoma specimens and corresponding normal tissues from patients were stained with XBP1...
February 21, 2017: Journal of Translational Medicine
https://www.readbyqxmd.com/read/28217125/the-structure-and-function-of-the-gram-positive-bacterial-rna-degradosome
#2
REVIEW
Kyu Hong Cho
The RNA degradosome is a highly structured protein complex responsible for bulk RNA decay in bacteria. The main components of the complex, ribonucleases, an RNA helicase, and glycolytic enzymes are well-conserved in bacteria. Some components of the degradosome are essential for growth and the disruption of degradosome formation causes slower growth, indicating that this complex is required for proper cellular function. The study of the Escherichia coli degradosome has been performed extensively for the last several decades and has revealed detailed information on its structure and function...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28216251/sars-cov-encoded-small-rnas-contribute-to-infection-associated-lung-pathology
#3
Lucía Morales, Juan Carlos Oliveros, Raúl Fernandez-Delgado, Benjamin Robert tenOever, Luis Enjuanes, Isabel Sola
Severe acute respiratory syndrome coronavirus (SARS-CoV) causes lethal disease in humans, which is characterized by exacerbated inflammatory response and extensive lung pathology. To address the relevance of small non-coding RNAs in SARS-CoV pathology, we deep sequenced RNAs from the lungs of infected mice and discovered three 18-22 nt small viral RNAs (svRNAs). The three svRNAs were derived from the nsp3 (svRNA-nsp3.1 and -nsp3.2) and N (svRNA-N) genomic regions of SARS-CoV. Biogenesis of CoV svRNAs was RNase III, cell type, and host species independent, but it was dependent on the extent of viral replication...
February 12, 2017: Cell Host & Microbe
https://www.readbyqxmd.com/read/28212670/characterization-of-schistosoma-japonicum-cp1412-protein-as-a-novel-member-of-the-ribonuclease-t2-molecule-family-with-immune-regulatory-function
#4
Xue-Dan Ke, Shuang Shen, Li-Jun Song, Chuan-Xin Yu, Mihoko Kikuchi, Kenji Hirayama, Hong Gao, Jie Wang, Xuren Yin, Yuan Yao, Qian Liu, Wei Zhou
BACKGROUND: Schistosome infection typically induces a polarized Th2 type host immune response. As egg antigen molecules play key roles in this immunoregulatory process, clarifying their functions in schistosomiasis would facilitate the development of vaccine and immunotherapeutic methods. Schistosoma japonicum (Sj) CP1412 (GenBank: AY57074.1) has been identified as a new member of the RNase T2 family with immune regulatory functions. METHODS: The expression plasmid Sj CP1412-pET28a was constructed and transformed into bacteria for production of recombinant Sj CP1412 protein (rSj CP1412) via IPTG induction...
February 17, 2017: Parasites & Vectors
https://www.readbyqxmd.com/read/28203566/increased-spontaneous-recombination-in-rnase-h2-deficient-cells-arises-from-multiple-contiguous-rnmps-and-not-from-single-rnmp-residues-incorporated-by-dna-polymerase-epsilon
#5
Anastasiya Epshtein, Catherine J Potenski, Hannah L Klein
Ribonucleotides can become embedded in DNA from insertion by DNA polymerases, failure to remove Okazaki fragment primers, R-loops that can prime replication, and RNA/cDNA-mediated recombination. RNA:DNA hybrids are removed by RNase H enzymes. Single rNMPs in DNA are removed by RNase H2 and if they remain on the leading strand, can lead to mutagenesis in a Top1-dependent pathway. rNMPs in DNA can also stimulate genome instability, among which are homologous recombination gene conversion events. We previously found that, similar to the rNMP-stimulated mutagenesis, rNMP-stimulated recombination was also Top1-dependent...
June 2016: Microbial Cell
https://www.readbyqxmd.com/read/28194280/cell-selex-identifies-a-sticky-rna-aptamer-sequence
#6
Partha Ray, Rebekah R White
Cell-SELEX is performed to select for cell binding aptamers. We employed an additional selection pressure by using RNAse to remove surface-binding aptamers and select for cell-internalizing aptamers. A common RNA sequence was identified from independent cell-SELEX procedures against two different pancreatic cancer cell lines, indicating a strong selection pressure towards this sequence from the large pool of other available sequences present in the aptamer library. The aptamer is not specific for the pancreatic cancer cell lines, and a similar sequence motif is present in previously published internalizing aptamers...
2017: Journal of Nucleic Acids
https://www.readbyqxmd.com/read/28184239/randomized-trial-evaluating-self-sampling-for-hpv-dna-based-tests-for-cervical-cancer-screening-in-nigeria
#7
Fatima Modibbo, K C Iregbu, James Okuma, Annemiek Leeman, Annemieke Kasius, Maurits de Koning, Wim Quint, Clement Adebamowo
BACKGROUND: Cervical cancer incidence and mortality rates in Sub-Saharan Africa (SSA) remain high due to several factors including low levels of uptake of cervical cancer screening. Self-collection of cervicovaginal samples for HPV DNA testing may be an effective modality that can increase uptake of cervical cancer screening in SSA and hard to reach populations in developed countries. We investigated whether self-collection of cervicovaginal samples for HPV DNA tests would be associated with increased uptake of screening compared with clinic based collection of samples...
2017: Infectious Agents and Cancer
https://www.readbyqxmd.com/read/28182989/6-cyclohexylmethyl-3-hydroxypyrimidine-2-4-dione-as-an-inhibitor-scaffold-of-hiv-reverase-transcriptase-impacts-of-the-3-oh-on-inhibiting-rnase-h-and-polymerase
#8
Jing Tang, Karen A Kirby, Andrew D Huber, Mary C Casey, Juan Ji, Daniel J Wilson, Stefan G Sarafianos, Zhengqiang Wang
3-Hydroxypyrimidine-2,4-dione (HPD) represents a versatile chemical core in the design of inhibitors of human immunodeficiency virus (HIV) reverse transcriptase (RT)-associated RNase H and integrase strand transfer (INST). We report herein the design, synthesis and biological evaluation of an HPD subtype (4) featuring a cyclohexylmethyl group at the C-6 position. Antiviral testing showed that most analogues of 4 inhibited HIV-1 in the low nanomolar to submicromolar range, without cytotoxicity at concentrations up to 100 μM...
January 30, 2017: European Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/28182633/characterizing-the-coding-region-determinant-binding-protein-crd-bp-microphthalmia-associated-transcription-factor-mitf-mrna-interaction
#9
Gerrit van Rensburg, Sebastian Mackedenski, Chow H Lee
Coding region determinant-binding protein (CRD-BP) binds to the 3'-UTR of microphthalmia-associated transcription factor (MITF) mRNA to prevent its targeted degradation by miR-340. Here, we aim to further understand the molecular interaction between CRD-BP and MITF RNA. Using point mutation in the GXXG motif of each KH domains, we showed that all four KH domains of CRD-BP are important for their physical association with MITF RNA. We mapped the CRD-BP-binding site in the 3'-UTR of MITF RNA from nts 1330-1740 and showed that the 49-nt fragment 1621-1669 is the minimal size MITF RNA for binding...
2017: PloS One
https://www.readbyqxmd.com/read/28182341/external-quality-assessment-for-rubella-virus-rna-detection-using-armored-rna-in-china
#10
D Zhang, G Lin, L Yi, M Hao, G Fan, X Yang, R Peng, J Ding, K Zhang, R Zhang, J Li
BACKGROUND: Although tremendous efforts have been made to reduce rubella incidence, there are still 300 new cases of congenital rubella syndrome daily; thus, rubella infections remain one of the leading causes of preventable congenital birth defects. An effective surveillance system, which could be achieved and maintained by using an external quality assessment program, is critical for prevention and control of this disease. METHODS: Armored RNAs, which are noninfectious and RNase-resistant, were used for encapsulation of the E1 gene of rubella virus and for preparation of a 10-specimen panel for external quality assessment...
February 1, 2017: Clinical Laboratory
https://www.readbyqxmd.com/read/28176817/structural-insights-into-human-angiogenin-variants-implicated-in-parkinson-s-disease-and-amyotrophic-lateral-sclerosis
#11
William J Bradshaw, Saima Rehman, Tram T K Pham, Nethaji Thiyagarajan, Rebecca L Lee, Vasanta Subramanian, K Ravi Acharya
Mutations in Angiogenin (ANG), a member of the Ribonuclease A superfamily (also known as RNase 5) are known to be associated with Amyotrophic Lateral Sclerosis (ALS, motor neurone disease) (sporadic and familial) and Parkinson's Disease (PD). In our previous studies we have shown that ANG is expressed in neurons during neuro-ectodermal differentiation, and that it has both neurotrophic and neuroprotective functions. In addition, in an extensive study on selective ANG-ALS variants we correlated the structural changes to the effects on neuronal survival and the ability to induce stress granules in neuronal cell lines...
February 8, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28174687/dicer-a-new-regulator-of-pluripotency-exit-and-line-1-elements-in-mouse-embryonic-stem-cells
#12
Maxime Bodak, Daniel Cirera-Salinas, Jian Yu, Richard P Ngondo, Constance Ciaudo
A gene regulation network orchestrates processes ensuring the maintenance of cellular identity and genome integrity. Small RNAs generated by the RNAse III DICER have emerged as central players in this network. Moreover, deletion of Dicer in mice leads to early embryonic lethality. To better understand the underlying mechanisms leading to this phenotype, we generated Dicer-deficient mouse embryonic stem cells (mESCs). Their detailed characterization revealed an impaired differentiation potential, and incapacity to exit from the pluripotency state...
February 2017: FEBS Open Bio
https://www.readbyqxmd.com/read/28173878/the-effects-of-glomerular-and-tubular-renal-progenitors-and-derived-extracellular-vesicles-on-recovery-from-acute-kidney-injury
#13
Andrea Ranghino, Stefania Bruno, Benedetta Bussolati, Aldo Moggio, Veronica Dimuccio, Marta Tapparo, Luigi Biancone, Paolo Gontero, Bruno Frea, Giovanni Camussi
BACKGROUND: Mesenchymal stromal cells (MSCs) and renal stem/progenitors improve the recovery of acute kidney injury (AKI) mainly through the release of paracrine mediators including the extracellular vesicles (EVs). Several studies have reported the existence of a resident population of MSCs within the glomeruli (Gl-MSCs). However, their contribution towards kidney repair still remains to be elucidated. The aim of the present study was to evaluate whether Gl-MSCs and Gl-MSC-EVs promote the recovery of AKI induced by ischemia-reperfusion injury (IRI) in SCID mice...
February 7, 2017: Stem Cell Research & Therapy
https://www.readbyqxmd.com/read/28167522/decreased-expression-of-stable-rna-can-alleviate-the-lethality-associated-with-rnase-e-deficiency-in-escherichia-coli
#14
P Himabindu, K Anupama
The endoribonuclease RNase E participates in mRNA degradation, rRNA processing and tRNA maturation in Escherichia coli, but the precise reasons for its essentiality are unclear and much debated. The enzyme is most active on RNA substrates with a 5' -terminal monophosphate, which is sensed by a domain in the enzyme that includes residue R169; E. coli also possesses a 5' -pyrophosphohydrolase RppH that catalyses conversion of 5' -terminal-triphosphate to -monophosphate on RNAs. Although the C-terminal half (CTH), beyond residue approximately 500, of RNase E is dispensable for viability, the ΔCTH mutation is lethal when combined with an R169Q mutation or with deletion of rppH In this work, we show that both these lethalities can be rescued in derivatives in which four, or five, of the seven rrn operons in the genome have been deleted...
February 6, 2017: Journal of Bacteriology
https://www.readbyqxmd.com/read/28166307/picornavirus-rna-is-protected-from-cleavage-by-ribonuclease-during-virion-uncoating-and-transfer-across-cellular-and-model-membranes
#15
Elisabetta Groppelli, Hazel C Levy, Eileen Sun, Mike Strauss, Clare Nicol, Sarah Gold, Xiaowei Zhuang, Tobias J Tuthill, James M Hogle, David J Rowlands
Picornaviruses are non-enveloped RNA viruses that enter cells via receptor-mediated endocytosis. Because they lack an envelope, picornaviruses face the challenge of delivering their RNA genomes across the membrane of the endocytic vesicle into the cytoplasm to initiate infection. Currently, the mechanism of genome release and translocation across membranes remains poorly understood. Within the enterovirus genus, poliovirus, rhinovirus 2, and rhinovirus 16 have been proposed to release their genomes across intact endosomal membranes through virally induced pores, whereas one study has proposed that rhinovirus 14 releases its RNA following disruption of endosomal membranes...
February 6, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28159842/direct-visualization-of-rna-dna-primer-removal-from-okazaki-fragments-provides-support-for-flap-cleavage-and-exonucleolytic-pathways-in-eukaryotic-cells
#16
Bochao Liu, Jiazhi Hu, Jingna Wang, Daochun Kong
During DNA replication in eukaryotic cells, short single-stranded DNA segments known as Okazaki fragments are first synthesized on the lagging strand. The Okazaki fragments originate from ~35 nt long RNA-DNA primers. After Okazaki fragment synthesis, these primers must be removed to allow fragment joining into a continuous lagging strand. To date, the models of enzymatic machinery that removes the RNA-DNA primers has come almost exclusively from biochemical reconstitution studies and some genetic interaction assays, and there is little direct evidence to confirm these models...
February 3, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28158275/early-endonuclease-mediated-evasion-of-rna-sensing-ensures-efficient-coronavirus-replication
#17
Eveline Kindler, Cristina Gil-Cruz, Julia Spanier, Yize Li, Jochen Wilhelm, Huib H Rabouw, Roland Züst, Mihyun Hwang, Philip V'kovski, Hanspeter Stalder, Sabrina Marti, Matthias Habjan, Luisa Cervantes-Barragan, Ruth Elliot, Nadja Karl, Christina Gaughan, Frank J M van Kuppeveld, Robert H Silverman, Markus Keller, Burkhard Ludewig, Cornelia C Bergmann, John Ziebuhr, Susan R Weiss, Ulrich Kalinke, Volker Thiel
Coronaviruses are of veterinary and medical importance and include highly pathogenic zoonotic viruses, such as SARS-CoV and MERS-CoV. They are known to efficiently evade early innate immune responses, manifesting in almost negligible expression of type-I interferons (IFN-I). This evasion strategy suggests an evolutionary conserved viral function that has evolved to prevent RNA-based sensing of infection in vertebrate hosts. Here we show that the coronavirus endonuclease (EndoU) activity is key to prevent early induction of double-stranded RNA (dsRNA) host cell responses...
February 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28153764/hyaluronic-acid-modification-of-rnase-a-and-its-intracellular-delivery-using-lipid-like-nanoparticles
#18
Xiaoying Wang, Yamin Li, Quanshun Li, Caleb Neufeld, Dimitra Pouli, Shuo Sun, Liu Yang, Pu Deng, Ming Wang, Irene Georgakoudi, Shunqing Tang, Qiaobing Xu
Developing safe and effective nanosystems to deliver active and therapeutic proteins to targeted cells and organs is an important tool for many biomedical applications. We present here a simple and efficient strategy for this purpose: delivering hyaluronic acid (HA)-modified RNase A (RNase A-HA) in nanocomplex with cationic lipid-like molecules (lipidoids) to cancer cells, resulting in targeted inhibition of cancer proliferation. The chemical conjugation of RNase A with HA both increased the supramolecular interaction with carrier lipidoids, promoting protein encapsulation efficacy, and facilitated cancer cell targeting via interaction with overexpressed CD44...
January 30, 2017: Journal of Controlled Release: Official Journal of the Controlled Release Society
https://www.readbyqxmd.com/read/28153719/c21orf57-is-a-human-homologue-of-bacterial-ybey-proteins
#19
Anubrata Ghosal, Caroline Köhrer, Vignesh M P Babu, Kinrin Yamanaka, Bryan W Davies, Asha I Jacob, Daniel J Ferullo, Charley C Gruber, Maarten Vercruysse, Graham C Walker
The product of the human C21orf57 (huYBEY) gene is predicted to be a homologue of the highly conserved YbeY proteins found in nearly all bacteria. We show that, like its bacterial and chloroplast counterparts, the HuYbeY protein is an RNase and that it retains sufficient function in common with bacterial YbeY proteins to partially suppress numerous aspects of the complex phenotype of an Escherichia coli ΔybeY mutant. Expression of HuYbeY in Saccharomyces cerevisiae, which lacks a YbeY homologue, results in a severe growth phenotype...
March 11, 2017: Biochemical and Biophysical Research Communications
https://www.readbyqxmd.com/read/28141492/rnase-e-and-rnase-j-are-needed-for-s-adenosylmethionine-homeostasis-in-sinorhizobium-meliloti
#20
Kathrin Baumgardt, Hendrik Melior, Ramakanth Madhugiri, Sebastian Thalmann, Adam Schikora, Matthew McIntosh, Anke Becker, Elena Evguenieva-Hackenberg
The ribonucleases (RNases) E and J play major roles in Escherichia coli and Bacillus subtilis, respectively, and co-exist in Sinorhizobium meliloti. We analyzed S. meliloti 2011 mutants with mini-Tn5 insertions in the corresponding genes rne and rnj and found many overlapping effects. We observed similar changes in mRNA levels including lower mRNA levels of the motility and chemotaxis related genes flaA, flgB, and cheR and higher levels of ndvA (important for glucan export). The acyl-homoserine lactone (AHL) levels were also higher during exponential growth in both RNase mutants, despite no increase in the expression of the sinI AHL synthase gene...
January 28, 2017: Microbiology
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