Health
A potential role for SARS-CoV-2 small viral RNAs in targeting host microRNAs and modulating gene expression
Michelini, F., Jalihal, A. P., Francia, S., Meers, C., Neeb, Z. T., Rossiello, F., Gioia, U., Aguado, J., Jones-Weinert, C., Luke, B., Biamonti, G., Nowacki, M., Storici, F., Carninci, P., Walter, N. G. & d’Adda di Fagagna, F. From ‘Cellular’ RNA to ‘Smart’ RNA: Multiple Roles of RNA in genome stability and beyond. Chem. Rev. 118, 4365–4403 (2018).
Moazed, D. Small RNAs in transcriptional gene silencing and genome defence. Nature 457, 413–420 (2009).
Alshaer, W. et al. siRNA: Mechanism of action, challenges, and therapeutic approaches. Eur. J. Pharmacol. 905, 174178 (2021).
Ergin, K. & Çetinkaya, R. in 1–32 (2022).
Iwasaki, Y. W., Siomi, M. C. & Siomi, H. PIWI-interacting RNA: Its biogenesis and functions. Annu. Rev. Biochem. 84, 405–433 (2015).
Allen, S. E. & Nowacki, M. Roles of noncoding RNAs in ciliate genome architecture. J. Mol. Biol. 432, 4186–4198 (2020).
Furrer, D. I., Swart, E. C., Kraft, M. F., Sandoval, P. Y. & Nowacki, M. Two sets of piwi proteins are involved in distinct sRNA pathways leading to elimination of germline-specific DNA. Cell Rep. 20, 505–520 (2017).
Hoehener, C., Hug, I. & Nowacki, M. Dicer-like enzymes with sequence cleavage preferences. Cell 173, 234-247.e7 (2018).
Sandoval, P. Y., Swart, E. C., Arambasic, M. & Nowacki, M. Functional diversification of dicer-like proteins and small RNAs required for genome sculpting. Dev. Cell 28, 174–188 (2014).
Cheloufi, S., Dos Santos, C. O., Chong, M. M. W. & Hannon, G. J. A dicer-independent miRNA biogenesis pathway that requires Ago catalysis. Nature 465, 584–589 (2010).
Valencia-Sanchez, M. A., Liu, J., Hannon, G. J. & Parker, R. Control of translation and mRNA degradation by miRNAs and siRNAs: Table 1. Genes Dev. 20, 515–524 (2006).
Morales, L. et al. SARS-CoV-encoded small RNAs contribute to infection-associated lung pathology. Cell Host Microbe 21, 344–355 (2017).
Perez, J. T., Varble, A., Sachidanandam, R., Zlatev, I., Manoharan, M., Garcia-Sastre, A. & tenOever, B. R. Influenza A virus-generated small RNAs regulate the switch from transcription to replication. Proc. Natl. Acad. Sci. 107, 11525–11530 (2010).
Shi, J. et al. Novel microRNA-like viral small regulatory RNAs arising during human hepatitis A virus infection. FASEB J. 28, 4381–4393 (2014).
Weng, K.-F. et al. A cytoplasmic RNA virus generates functional viral small RNAs and regulates viral IRES activity in mammalian cells. Nucleic Acids Res. 42, 12789–12805 (2014).
Meng, F. et al. Viral MicroRNAs encoded by nucleocapsid gene of SARS-CoV-2 are detected during infection, and targeting metabolic pathways in host cells. Cells 10, 1762 (2021).
Cheng, Z., Cheng, L., Lin, J., Lunbiao, C., Chunyu, L., Guoxin, S., Rui, X., Xiangnan, G., Changxing, L., Yan, C., Baoli, Z. & Wei, Z. Verification of SARS-CoV-2-Encoded small RNAs and contribution to Infection-Associated lung inflammation. bioRxiv 2021.05.16.444324 (2021).
Pawlica, P., Yario, T. A., White, S., Wang, J., Moss, W. N., Hui, P., Vinetz, J. M. & Steitz, J. A. SARS-CoV-2 expresses a microRNA-like small RNA able to selectively repress host genes. Proc. Natl. Acad. Sci. U. S. A. 118, (2021).
Withers, J. B. et al. Idiosyncrasies of viral noncoding RNAs provide insights into host cell biology. Annu. Rev. Virol. 6, 297–317 (2019).
Park, B. K. et al. differential signaling and virus production in Calu-3 cells and vero cells upon SARS-CoV-2 infection. Biomol. Ther. 29, 273–281 (2021).
Chu, H., Chan, J. F.-W., Yuen, T. T.-T., Shuai, H., Yuan, S., Wang, Y., Hu, B., Yip, C. C.-Y., Tsang, J. O.-L., Huang, X., Chai, Y., Yang, D., Hou, Y., Chik, K. K.-H., Zhang, X., Fung, A. Y.-F., Tsoi, H.-W., Cai, J.-P., Chan, W.-M., Ip, J. D., Chu, A. W.-H., Zhou, J., Lung, D. C., Kok, K.-H., To, K. K.-W., Tsang, O. T.-Y., Chan, K.-H. & Yuen, K.-Y. Comparative tropism, replication kinetics, and cell damage profiling of SARS-CoV-2 and SARS-CoV with implications for clinical manifestations, transmissibility, and laboratory studies of COVID-19: an observational study. The Lancet Microb. 1, e14–e23. https://doi.org/10.1016/s2666-5247(20)30004-5 (2020)
Zaliani, A. et al. Cytopathic SARS-CoV-2 screening on VERO-E6 cells in a large-scale repurposing effort. Sci. Data 9, 405 (2022).
Ogando, N. S. et al. SARS-coronavirus-2 replication in Vero E6 cells: Replication kinetics, rapid adaptation and cytopathology. J. Gen. Virol. 101, 925–940 (2020).
Kim, D. et al. The architecture of SARS-CoV-2 transcriptome. Cell 181, 914-921.e10 (2020).
Love, M. I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550 (2014).
Uren, P. J. et al. Site identification in high-throughput RNA–protein interaction data. Bioinformatics 28, 3013–3020 (2012).
Mathews, D. H. et al. Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure. Proc. Natl. Acad. Sci. U. S. A. 101, 7287–7292 (2004).
Kruger, J. & Rehmsmeier, M. RNAhybrid: microRNA target prediction easy, fast and flexible. Nucleic Acids Res. 34, W451–W454 (2006).
Rehmsmeier, M., Steffen, P., Höchsmann, M. & Giegerich, R. Fast and effective prediction of microRNA/target duplexes. RNA 10, 1507–1517 (2004).
DeDiego, M. L. et al. Inhibition of NF- B-mediated inflammation in severe acute respiratory syndrome coronavirus-infected mice increases survival. J. Virol. 88, 913–924 (2014).
Nelemans, T. & Kikkert, M. viral innate immune evasion and the pathogenesis of emerging RNA virus infections. Viruses 11, 961 (2019).
Xiong, Y. et al. Transcriptomic characteristics of bronchoalveolar lavage fluid and peripheral blood mononuclear cells in COVID-19 patients. Emerg. Microbes Infect. 9, 761–770 (2020).
Chen, Y., Liu, Q. & Guo, D. Emerging coronaviruses: Genome structure, replication, and pathogenesis. J. Med. Virol. 92, 418–423 (2020).
Li, C.-X. et al. Whole-transcriptome rna sequencing reveals significant differentially expressed mRNAs, miRNAs, and lncRNAs and related regulating biological pathways in the peripheral blood of COVID-19 patients. Mediators Inflamm. 2021, 1–22 (2021).
Ajaz, S. et al. Mitochondrial metabolic manipulation by SARS-CoV-2 in peripheral blood mononuclear cells of patients with COVID-19. Am. J. Physiol. Cell Physiol. 320, C57–C65 (2021).
Gassen, N. C. et al. SARS-CoV-2-mediated dysregulation of metabolism and autophagy uncovers host-targeting antivirals. Nat. Commun. 12, 3818 (2021).
Bruzzone, C., Bizkarguenaga, M., Gil-Redondo, R., Diercks, T., Arana, E., García de Vicuña, A., Seco, M., Bosch, A., Palazón, A., San Juan, I., Laín, A., Gil-Martínez, J., Bernardo-Seisdedos, G., Fernández-Ramos, D., Lopitz-Otsoa, F., Embade, N., Lu, S., Mato, J. M. & Millet, O. SARS-CoV-2 infection dysregulates the metabolomic and lipidomic profiles of serum. iScience 23, 101645 (2020).
Mirzaei, R. et al. The emerging role of microRNAs in the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection. Int. Immunopharmacol. 90, 107204 (2021).
Morin, R. D. et al. Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Genome Res. 18, 610–621 (2008).
Cazalla, D., Yario, T. & Steitz, J. A. Down-regulation of a host microRNA by a Herpesvirus saimiri noncoding RNA. Science 328, 1563–1566 (2010).
Ebert, M. S. & Sharp, P. A. MicroRNA sponges: Progress and possibilities. RNA 16, 2043–2050 (2010).
Zhou, Q. et al. Novel insights into MALAT1 function as a MicroRNA sponge in NSCLC. Front. Oncol. 11, 758653 (2021).
Xiao, J. et al. Long noncoding RNA TRPM2-AS acts as a microRNA sponge of miR-612 to promote gastric cancer progression and radioresistance. Oncogenesis 9, 29 (2020).
Bartoszewski, R. et al. SARS-CoV-2 may regulate cellular responses through depletion of specific host miRNAs. Am. J. Physiol. Lung Cell. Mol. Physiol. 319, L444–L455 (2020).
Langmead, B. & Salzberg, S. L. Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357–359 (2012).
Dobin, A. et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15–21 (2013).
Chen, E. Y., Tan, C. M., Kou, Y., Duan, Q., Wang, Z., Meirelles, G. V., Clark, N. R. & Ma’ayan, A. Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool. BMC Bioinformatics 14, 128 (2013).
Kuleshov, M. V., Jones, M. R., Rouillard, A. D., Fernandez, N. F., Duan, Q., Wang, Z., Koplev, S., Jenkins, S. L., Jagodnik, K. M., Lachmann, A., McDermott, M. G., Monteiro, C. D., Gundersen, G. W. & Ma’ayan, A. Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Res. 44, W90–W97 (2016).
Xie, Z., Bailey, A., Kuleshov, M. V., Clarke, D. J. B., Evangelista, J. E., Jenkins, S. L., Lachmann, A., Wojciechowicz, M. L., Kropiwnicki, E., Jagodnik, K. M., Jeon, M. & Ma’ayan, A. Gene set knowledge discovery with Enrichr. Curr. Protocols 1 (2021).
Chen, E. Y. Enrichr. at https://maayanlab.cloud/Enrichr.
Neph, S. et al. BEDOPS: High-performance genomic feature operations. Bioinformatics 28, 1919–1920 (2012).
Quinlan, A. R. & Hall, I. M. BEDTools: A flexible suite of utilities for comparing genomic features. Bioinformatics 26, 841–842 (2010).
Kent, W. J. et al. The human genome browser at UCSC. Genome Res. 12, 996–1006 (2002).
Stepanowsky, P., Levy, E., Kim, J., Jiang, X. & Ohno-Machado, L. Prediction of MicroRNA precursors using parsimonious feature sets. Cancer Inform. 13, 95–102 (2014).
Kerpedjiev, P., Hammer, S. & Hofacker, I. L. Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams. Bioinformatics 31, 3377–3379 (2015).
|
Sources 2/ https://www.nature.com/articles/s41598-022-26135-9 The mention sources can contact us to remove/changing this article |
What Are The Main Benefits Of Comparing Car Insurance Quotes Online
LOS ANGELES, CA / ACCESSWIRE / June 24, 2020, / Compare-autoinsurance.Org has launched a new blog post that presents the main benefits of comparing multiple car insurance quotes. For more info and free online quotes, please visit https://compare-autoinsurance.Org/the-advantages-of-comparing-prices-with-car-insurance-quotes-online/ The modern society has numerous technological advantages. One important advantage is the speed at which information is sent and received. With the help of the internet, the shopping habits of many persons have drastically changed. The car insurance industry hasn't remained untouched by these changes. On the internet, drivers can compare insurance prices and find out which sellers have the best offers. View photos The advantages of comparing online car insurance quotes are the following: Online quotes can be obtained from anywhere and at any time. Unlike physical insurance agencies, websites don't have a specific schedule and they are available at any time. Drivers that have busy working schedules, can compare quotes from anywhere and at any time, even at midnight. Multiple choices. Almost all insurance providers, no matter if they are well-known brands or just local insurers, have an online presence. Online quotes will allow policyholders the chance to discover multiple insurance companies and check their prices. Drivers are no longer required to get quotes from just a few known insurance companies. Also, local and regional insurers can provide lower insurance rates for the same services. Accurate insurance estimates. Online quotes can only be accurate if the customers provide accurate and real info about their car models and driving history. Lying about past driving incidents can make the price estimates to be lower, but when dealing with an insurance company lying to them is useless. Usually, insurance companies will do research about a potential customer before granting him coverage. Online quotes can be sorted easily. Although drivers are recommended to not choose a policy just based on its price, drivers can easily sort quotes by insurance price. Using brokerage websites will allow drivers to get quotes from multiple insurers, thus making the comparison faster and easier. For additional info, money-saving tips, and free car insurance quotes, visit https://compare-autoinsurance.Org/ Compare-autoinsurance.Org is an online provider of life, home, health, and auto insurance quotes. This website is unique because it does not simply stick to one kind of insurance provider, but brings the clients the best deals from many different online insurance carriers. In this way, clients have access to offers from multiple carriers all in one place: this website. On this site, customers have access to quotes for insurance plans from various agencies, such as local or nationwide agencies, brand names insurance companies, etc. "Online quotes can easily help drivers obtain better car insurance deals. All they have to do is to complete an online form with accurate and real info, then compare prices", said Russell Rabichev, Marketing Director of Internet Marketing Company. CONTACT: Company Name: Internet Marketing CompanyPerson for contact Name: Gurgu CPhone Number: (818) 359-3898Email: [email protected]: https://compare-autoinsurance.Org/ SOURCE: Compare-autoinsurance.Org View source version on accesswire.Com:https://www.Accesswire.Com/595055/What-Are-The-Main-Benefits-Of-Comparing-Car-Insurance-Quotes-Online View photos
to request, modification Contact us at Here or [email protected]
 |
 |
 |
