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Relevant bibliographies by topics / Independent 3'UTR RNA

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Journal articles

Academic literature on the topic 'Independent 3'UTR RNA'

Author: Grafiati

Published: 3 June 2025

Last updated: 31 July 2025

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Journal articles on the topic "Independent 3'UTR RNA"

1

Newburn, Laura R., Baodong Wu, and K. Andrew White. "Investigation of Novel RNA Elements in the 3′UTR of Tobacco Necrosis Virus-D." Viruses 12, no. 8 (2020): 856. http://dx.doi.org/10.3390/v12080856.

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RNA elements in the untranslated regions of plus-strand RNA viruses can control a variety of viral processes including translation, replication, packaging, and subgenomic mRNA production. The 3′ untranslated region (3′UTR) of Tobacco necrosis virus strain D (TNV-D; genus Betanecrovirus, family Tombusviridae) contains several well studied regulatory RNA elements. Here, we explore a previously unexamined region of the viral 3′UTR, the sequence located upstream of the 3′-cap independent translation enhancer (3′CITE). Our results indicate that (i) a long-range RNA–RNA interaction between an intern

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2

Serrano, Paula, Miguel Rodriguez Pulido, Margarita Sáiz, and Encarnacion Martínez-Salas. "The 3′ end of the foot-and-mouth disease virus genome establishes two distinct long-range RNA–RNA interactions with the 5′ end region." Journal of General Virology 87, no. 10 (2006): 3013–22. http://dx.doi.org/10.1099/vir.0.82059-0.

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The untranslated regions (UTRs) of the foot-and-mouth disease virus (FMDV) genome contain multiple functional elements. In the 5′ UTR, the internal ribosome entry site (IRES) element governs cap-independent translation initiation, whereas the S region is presumably involved in RNA replication. The 3′ UTR, composed of two stem–loops and a poly(A) tract, is required for viral infectivity and stimulates IRES activity. Here, it was found that the 3′ end established two distinct strand-specific, long-range RNA–RNA interactions, one with the S region and another with the IRES element. These interact

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3

Huang, Cheng-Yen, Yih-Leh Huang, Menghsiao Meng, Yau-Heiu Hsu, and Ching-Hsiu Tsai. "Sequences at the 3′ Untranslated Region of Bamboo Mosaic Potexvirus RNA Interact with the Viral RNA-Dependent RNA Polymerase." Journal of Virology 75, no. 6 (2001): 2818–24. http://dx.doi.org/10.1128/jvi.75.6.2818-2824.2001.

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ABSTRACT The 3′ untranslated region (UTR) of bamboo mosaic potexvirus (BaMV) genomic RNA was found to fold into a series of stem-loop structures including a pseudoknot structure. These structures were demonstrated to be important for viral RNA replication and were believed to be recognized by the replicase (C.-P. Cheng and C.-H. Tsai, J. Mol. Biol. 288:555–565, 1999). Electrophoretic mobility shift and competition assays have now been used to demonstrate that theEscherichia coli-expressed RNA-dependent RNA polymerase domain (Δ893) derived from BaMV open reading frame 1 could specifically bind

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4

Berzal-Herranz, Alfredo, Beatriz Berzal-Herranz, Sara Esther Ramos-Lorente, and Cristina Romero-López. "The Genomic 3′ UTR of Flaviviruses Is a Translation Initiation Enhancer." International Journal of Molecular Sciences 23, no. 15 (2022): 8604. http://dx.doi.org/10.3390/ijms23158604.

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Viruses rely on the cellular machinery of host cells to synthesize their proteins, and have developed different mechanisms enabling them to compete with cellular mRNAs for access to it. The genus Flavivirus is a large group of positive, single-stranded RNA viruses that includes several important human pathogens, such as West Nile, Dengue and Zika virus. The genome of flaviviruses bears a type 1 cap structure at its 5′ end, needed for the main translation initiation mechanism. Several members of the genus also use a cap-independent translation mechanism. The present work provides evidence that

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5

Liu, D., and P. Xue. "Existence of independent C/EBP 3'-UTR RNA in human tissues." Acta Biochimica et Biophysica Sinica 46, no. 1 (2013): 76–77. http://dx.doi.org/10.1093/abbs/gmt120.

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6

Wang, Sai, Kitti Wing Ki Chan, Min Jie Alvin Tan, et al. "A conserved arginine in NS5 binds genomic 3′ stem–loop RNA for primer-independent initiation of flavivirus RNA replication." RNA 28, no. 2 (2021): 177–93. http://dx.doi.org/10.1261/rna.078949.121.

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The commitment to replicate the RNA genome of flaviviruses without a primer involves RNA–protein interactions that have been shown to include the recognition of the stem–loop A (SLA) in the 5′ untranslated region (UTR) by the nonstructural protein NS5. We show that DENV2 NS5 arginine 888, located within the carboxy-terminal 18 residues, is completely conserved in all flaviviruses and interacts specifically with the top-loop of 3′SL in the 3′UTR which contains the pentanucleotide 5′-CACAG-3′ previously shown to be critical for flavivirus RNA replication. We present virological and biochemical d

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7

Shen, Ruizhong, Aurélie M. Rakotondrafara, and W. Allen Miller. "trans Regulation of Cap-Independent Translation by a Viral Subgenomic RNA." Journal of Virology 80, no. 20 (2006): 10045–54. http://dx.doi.org/10.1128/jvi.00991-06.

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ABSTRACT Many positive-strand RNA viruses generate 3′-coterminal subgenomic mRNAs to allow translation of 5′-distal open reading frames. It is unclear how viral genomic and subgenomic mRNAs compete with each other for the cellular translation machinery. Translation of the uncapped Barley yellow dwarf virus genomic RNA (gRNA) and subgenomic RNA1 (sgRNA1) is driven by the powerful cap-independent translation element (BTE) in their 3′ untranslated regions (UTRs). The BTE forms a kissing stem-loop interaction with the 5′ UTR to mediate translation initiation at the 5′ end. Here, using reporter mRN

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8

Ji, Xinjun, Jian Kong, Russ P. Carstens та Stephen A. Liebhaber. "The 3′ Untranslated Region Complex Involved in Stabilization of Human α-globin mRNA Assembles in the Nucleus and Serves an Independent Role as a Splice Enhancer". Molecular and Cellular Biology 27, № 9 (2007): 3290–302. http://dx.doi.org/10.1128/mcb.02289-05.

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ABSTRACT Posttranscriptional controls, mediated primarily by RNA-protein complexes, have the potential to alter multiple steps in RNA processing and function. Human α-globin mRNA is bound at a C-rich motif in the 3′ untranslated region (3′UTR) by the KH domain protein α-globin poly(C)-binding protein (αCP). This “α-complex” is essential to cytoplasmic stability of α-globin mRNA in erythroid cells. Here we report that the 3′UTR α-complex also serves an independent nuclear role as a splice enhancer. Consistent with this role, we find that αCP binds α-globin transcripts prior to splicing. Surpris

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9

Bhardwaj, Usha, Paul Powell, and Dixie J. Goss. "Eukaryotic initiation factor (eIF) 3 mediates Barley Yellow Dwarf Viral mRNA 3′–5′ UTR interactions and 40S ribosomal subunit binding to facilitate cap-independent translation." Nucleic Acids Research 47, no. 12 (2019): 6225–35. http://dx.doi.org/10.1093/nar/gkz448.

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Abstract Barley Yellow Dwarf Virus (BYDV) is a positive strand RNA virus that lacks the canonical 5′ 7-methylguanosine cap and a 3′ poly-A tail. Instead, BYDV utilizes a cruciform cap independent translation element (CITE) in its 3′UTR RNA (BYDV-like CITE or BTE) that binds eukaryotic translation initiation factor (eIF) 4F and recruits 40S ribosomal subunits in the presence of active helicase factors (eIF4A, eIF4B, eIF4F and ATP). A long-range, 5-nucleotide, base-pairing kissing loop interaction between the 3′BTE and a 5′UTR stem-loop is necessary for translation to initiate. The 40S–eIF compl

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10

Qu, Feng, and T. Jack Morris. "Cap-Independent Translational Enhancement of Turnip Crinkle Virus Genomic and Subgenomic RNAs." Journal of Virology 74, no. 3 (2000): 1085–93. http://dx.doi.org/10.1128/jvi.74.3.1085-1093.2000.

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ABSTRACT The presence of translational control elements and cap structures has not been carefully investigated for members of theCarmovirus genus, a group of small icosahedral plant viruses with positive-sense RNA genomes. In this study, we examined both the 5′ and 3′ untranslated regions (UTRs) of the turnip crinkle carmovirus (TCV) genomic RNA (4 kb) as well as the 5′ UTR of the coat protein subgenomic RNA (1.45 kb) for their roles in translational regulation. All three UTRs enhanced translation of the firefly luciferase reporter gene to different extents. Optimal translational efficiency wa

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