Genomic and Epigenomic Biomarkers of Toxicology and Disease. Группа авторов

Чтение книги онлайн.

Читать онлайн книгу Genomic and Epigenomic Biomarkers of Toxicology and Disease - Группа авторов страница 21

Genomic and Epigenomic Biomarkers of Toxicology and Disease - Группа авторов

Скачать книгу

provide promise that similar uses can be leveraged in toxicological sciences. Despite these qualities, there remain significant technical challenges to reducing variability in measurements and to increasing our confidence in the application of these biomarkers. A standardization of protocols and reporting efforts analogous to the Transcriptomics Reporting Framework (Gant et al. 2017), and large-scale database efforts to categorize EV contents relating to source cells will be important for biomarker identification and for linking biofluid measured miRNAs to specific tissues, cells, and biological effects (see exRNA Atlas: Murillo et al. 2019). These and other concerted efforts will ultimately lead to a consistent and widespread use of miRNAs in regulatory and toxicological sciences.

      Acknowledgements

      The authors wish to thank Drs. Sheau-Fung Thai, Chris Corton, Sid Hunter and Kimberly Slentz-Kesler for their critical reviews of this manuscript. This manuscript has been reviewed by the US Environmental Protection Agency and approved for publication. Approval does not signify that the contents reflect the views of the Agency, nor does the mentioning of trade names or commercial products constitute endorsement or recommendation of use.

      1 Amorim, M.G., Valieris, R., Drummond, R.D., Pizzi, M.P., Freitas, V.M., Sinigaglia-Coimbra, R., Calin, G.A., Pasqualini, R., Arap, W., Silva, I.T., Dias-neto, E., and Nunes, D.N. (2017). A total transcriptome profiling method for plasma-derived extracellular vesicles: Applications for liquid biopsies. Sci. Rep. 7: 14395.

      2 Arroyo, J.D., Chevillet, J.R., Kroh, E.M., Ruf, I.K., Pritchard, C.C., Gibson, D.F., Mitchell, P.S., Bennett, C.F., Pogosova-Agadjanyan, E.L., Stirewalt, D.L., Tait, J.F., and Tewari, M. (2011). Argonaute2 complexes carry a population of circulating microRNAs independent of vesicles in human plasma. Proc. Natl. Acad. Sci. USA 108: 5003–5008.

      3 Ashley, J., Cordy, B., Lucia, D., Fradkin, L.G., Budnik, V., and Thomson, T. (2018). Retrovirus-like Gag protein Arc1 binds RNA and traffics across synaptic boutons. Cell 172 (262–274): e11.

      4 Bailey, W.J. and Glaab, W.E. (2018). Accessible miRNAs as novel toxicity biomarkers. Int. J. Toxicol. 37: 116–120.

      5 Bala, S., Petrasek, J., Mundkur, S., Catalano, D., Levin, I., Ward, J., Alao, H., Kodys, K., and Szabo, G. (2012). Circulating microRNAs in exosomes indicate hepatocyte injury and inflammation in alcoholic, drug-induced, and inflammatory liver diseases. Hepatology 56: 1946–1957.

      6 Balansky, R., Longobardi, M., Ganchev, G., Iltcheva, M., Nedyalkov, N., Atanasov, P., Toshkova, R., De Flora, S., and Izzotti, A. (2013). Transplacental clastogenic and epigenetic effects of gold nanoparticles in mice. Mutat. Res. 751–752: 42–48.

      7 Balasubramanian, S., Gunasekaran, K., Sasidharan, S., Jeyamanickavel Mathan, V., and Perumal, E. (2020). MicroRNAs and xenobiotic toxicity: An overview. Toxicol. Rep. 7: 583–595.

      8 Beck, R., Bommarito, P., Douillet, C., Kanke, M., Del Razo, L.M., Garcia-Vargas, G., Fry, R.C., Sethupathy, P., and Styblo, M. (2018). Circulating miRNAs associated with arsenic exposure. Environ. Sci. Technol. 52: 14487–14495.

      9 Beezhold, K., Liu, J., Kan, H., Meighan, T., Castranova, V., Shi, X., and Chen, F. (2011). miR-190-mediated downregulation of PHLPP contributes to arsenic-induced Akt activation and carcinogenesis. Toxicol. Sci. 123: 411–420.

      10 Bleck, B., Grunig, G., Chiu, A., Liu, M., Gordon, T., Kazeros, A., and Reibman, J. (2013). MicroRNA-375 regulation of thymic stromal lymphopoietin by diesel exhaust particles and ambient particulate matter in human bronchial epithelial cells. J. Immunol. 190: 3757–3763.

      11 Bollati, V., Angelici, L., Rizzo, G., Pergoli, L., Rota, F., Hoxha, M., Nordio, F., Bonzini, M., Tarantini, L., Cantone, L., Pesatori, A.C., Apostoli, P., Baccarelli, A.A., and Bertazzi, P.A. (2015). Microvesicle-associated microRNA expression is altered upon particulate matter exposure in healthy workers and in A549 cells. J. Appl. Toxicol. 35: 59–67.

      12 Bollati, V., Marinelli, B., Apostoli, P., Bonzini, M., Nordio, F., Hoxha, M., Pegoraro, V., Motta, V., Tarantini, L., Cantone, L., Schwartz, J., Bertazzi, P.A., and Baccarelli, A. (2010). Exposure to metal-rich particulate matter modifies the expression of candidate microRNAs in peripheral blood leukocytes. Environ. Health Perspect. 118: 763–768.

      13 Bonneau, E., Neveu, B., Kostantin, E., Tsongalis, G.J., and De Guire, V. (2019). How close are miRNAs from clinical practice? A perspective on the diagnostic and therapeutic market. EJIFCC 30: 114–127.

      14 Brunetto, M.R., Cavallone, D., Oliveri, F., Moriconi, F., Colombatto, P., Coco, B., Ciccorossi, P., Rastelli, C., Romagnoli, V., Cherubini, B., Teilum, M.W., Blondal, T., and Bonino, F. (2014). A serum microRNA signature is associated with the immune control of chronic hepatitis B virus infection. PLoS One 9: e110782.

      15 Buschmann, D., Kirchner, B., Hermann, S., Marte, M., Wurmser, C., Brandes, F., Kotschote, S., Bonin, M., Steinlein, O.K., Pfaffl, M.W., Schelling, G., and Reithmair, M. (2018). Evaluation of serum extracellular vesicle isolation methods for profiling miRNAs by next-generation sequencing. J. Extracell Vesicles 7: 1481321.

      16 Bushel, P.R., Caiment, F., Wu, H., O’Lone, R., Day, F., Calley, J., Smith, A., and Li, J. (2018). RATEmiRs: The rat atlas of tissue-specific and enriched miRNAs database. BMC Genom. 19: 825.

      17 Cave, M.C., Pinkston, C.M., Rai, S.N., Wahlang, B., Pavuk, M., Head, K.Z., Carswell, G.K., Nelson, G.M., Klinge, C.M., Bell, D.A., Birnbaum, L.S., and Chorley, B.N. (2022). Circulating microRNAs, polychlorinated biphenyls, and environmental liver disease in the Anniston Community Health Survey. Environ. Health Perspect 101: 17003.

      18 Cermelli, S., Ruggieri, A., Marrero, J.A., Ioannou, G.N., and Beretta, L. (2011). Circulating microRNAs in patients with chronic hepatitis C and non-alcoholic fatty liver disease. PLoS One 6: e23937.

      19 Chakraborty, C., Sharma, A.R., Sharma, G., and Lee, S.S. (2021). Therapeutic advances of miRNAs: A preclinical and clinical update. J. Adv. Res. 28: 127–138.

      20 Chen, X., Ba, Y., Ma, L., Cai, X., Yin, Y., Wang, K., Guo, J., Zhang, Y., Chen, J., Guo, X., Li, Q., Li, X., Wang, W., Zhang, Y., Wang, J., Jiang, X., Xiang, Y., Xu, C., Zheng, P., Zhang, J., Li, R., Zhang, H., Shang, X., Gong, T., Ning, G., Wang, J., Zen, K., Zhang, J., and Zhang, C.Y. (2008). Characterization of microRNAs in serum: A novel class of biomarkers for diagnosis of cancer and other diseases. Cell Res. 18: 997–1006.

      21 Chevillet, J.R., Kang, Q., Ruf, I.K., Briggs, H.A., Vojtech, L.N., Hughes, S.M., Cheng, H.H., Arroyo, J.D., Meredith, E.K., Gallichotte, E.N., Pogosova-Agadjanyan, E.L., Morrissey, C., Stirewalt, D.L., Hladik, F., Yu, E.Y., Higano, C.S., and Tewari, M. (2014). Quantitative and stoichiometric analysis of the microRNA content of exosomes. Proc. Natl. Acad. Sci. USA 111: 14888–14893.

      22 Chorley, B.N., Atabakhsh, E., Doran, G., Gautier, J.C., Ellinger-Ziegelbauer, H., Jackson, D., Sharapova, T., Yuen, P.S.T., Church, R.J., Couttet, P., Froetschl, R., Mcduffie, J., Martinez, V., Pande, P., Peel, L., Rafferty, C., Simutis, F.J., and Harrill, A.H. (2021a). Methodological considerations for measuring biofluid-based microRNA biomarkers. Crit. Rev. Toxicol. 51 (3): 264–282264–282.

      23 Chorley, B.N., Carswell, G.K., Nelson, G., Bhat, V.S., and Wood, C.E. (2020). Early microRNA indicators of PPARalpha pathway activation in the liver. Toxicol. Rep. 7: 805–815.

      24 Chorley, B.N., Ellinger-Ziegelbauer, H., Tackett, M., Simutis, F.J., Harrill, A.H., Mcduffie, J., Atabakhsh, E., Nassirpour, R., Whiteley, L.O., Leonard, J.F., Carswell, G.K., Harpur, E., Chen, C.L., and Gautier, J.C. (2021b). Urinary miRNA biomarkers of drug-induced kidney injury and their site specificity within the nephron. Toxicol.

Скачать книгу