Assessment of nanomaterial cytotoxicity with SOLiD sequencing-based microRNA expression profiling

Biomaterials

Volumn 32, Issue 34, 2011, Pages 9021-9030

  Li, Shuchun ^a   Wang, Haitao ^a   Qi, Yuhua ^a   Tu, Jing ^a   Bai, Yunfei ^a   Tian, Tian ^a   Huang, Ningping ^a   Wang, Yong ^a   Xiong, Fei ^a   Lu, Zuhong ^a   Xiao, Zhongdang ^a  

^a SOUTHEAST UNIVERSITY   (China)

Author keywords

Cytotoxicity; MicroRNA; Nanomaterial; SOLiD sequencing

Indexed keywords

BIOLOGICAL EFFECTS; BIOLOGICAL PROCESS; CDTE; CELLULAR EFFECTS; EXPRESSION PROFILING; MICRORNA EXPRESSION; MICRORNAS; NANOMATERIAL; REGULATORY NETWORK; SYSTEMATIC ANALYSIS;

BIOCOMPATIBILITY; CADMIUM COMPOUNDS; CYTOTOXICITY;

NANOSTRUCTURED MATERIALS;

CADMIUM; IRON OXIDE; MICRORNA; NANOMATERIAL; TUNGSTEN;

ARTICLE; BIOCOMPATIBILITY; CONTROLLED STUDY; CYTOLOGY; EXPOSURE; GENE EXPRESSION PROFILING; GENE TARGETING; HIGH THROUGHPUT SEQUENCING; PRIORITY JOURNAL; RNA SEQUENCE;

ANIMALS; CADMIUM COMPOUNDS; CYTOTOXINS; FERRIC COMPOUNDS; GENE EXPRESSION PROFILING; MICE; MICRORNAS; NANOPARTICLES; NANOSTRUCTURES; NANOTUBES, CARBON; NIH 3T3 CELLS; QUANTUM DOTS; SEQUENCE ANALYSIS, RNA; TELLURIUM;

EID: 80053128746     PISSN: 01429612     EISSN: 18785905     Source Type: Journal    
DOI: 10.1016/j.biomaterials.2011.08.033     Document Type: Article

References (50)

1. Kim J.W., Galanzha E.I., Shashkov E.V., Moon H.M., Zharov V.P. Golden carbon nanotubes as multimodal photoacoustic and photothermal high-contrast molecular agents. Nat Nanotechnol 2009, 4:688-694.
2. Galanzha E.I., Shashkov E.V., Kelly T., Kim J.W., Yang L., Zharov V.P. In vivo magnetic enrichment and multiplex photoacoustic detection of circulating tumour cells. Nat Nanotechnol 2009, 4:855-860.
3. Bharali D.J., Khalil M., Gurbuz M., Simone T.M., Mousa S.A. Nanoparticles and cancer therapy: a concise review with emphasis on dendrimers. Int J Nanomedicine 2009, 4:1-7.
4. Kim J.S., Kuk E., Yu K.N., Kim J.H., Park S.J., Lee H.J., et al. Antimicrobial effects of silver nanoparticles. Nanomedicine 2007, 3:95-101.
5. Mao H.Q., Roy K., Troung-Le V.L., Janes K.A., Lin K.Y., Wang Y., et al. Chitosan-DNA nanoparticles as gene carriers: synthesis, characterization and transfection efficiency. J Control Release 2001, 70:399-421.
6. Medintz I.L., Uyeda H.T., Goldman E.R., Mattoussi H. Quantum dot bioconjugates for imaging, labelling and sensing. Nat Mater 2005, 4:435-446.
7. Farokhzad O.C., Langer R. Impact of nanotechnology on drug delivery. ACS Nano 2009, 3:16-20.
8. Bai Y., Zhang Y., Zhang J., Mu Q., Zhang W., Butch E.R., et al. Repeated administrations of carbon nanotubes in male mice cause reversible testis damage without affecting fertility. Nat Nanotechnol 2010, 5:683-689.
9. Barnard A.S. One-to-one comparison of sunscreen efficacy, aesthetics and potential nanotoxicity. Nat Nanotechnol 2010, 5:271-274.
10. Thomas C.R., George S., Horst A.M., Ji Z., Miller R.J., Peralta-Videa J.R., et al. Nanomaterials in the environment: from materials to high-throughput screening to organisms. ACS Nano 2011, 5:13-20.
11. Oberdörster G., Oberdörster E., Oberdörster J. Nanotoxicology: an emerging discipline evolving from studies of ultrafine particles. Environ Health Perspect 2005, 113:823-839.
12. Scheringer M. Nanoecotoxicology: environmental risks of nanomaterials. Nat Nanotechnol 2008, 3:322-323.
13. AshaRani P.V., Low Kah Mun G., Hande M.P., Valiyaveettil S. Cytotoxicity and genotoxicity of silver nanoparticles in human cells. ACS Nano 2009, 3:279-290.
14. Nel A., Xia T., Madler L., Li N. Toxic potential of materials at the nanolevel. Science 2006, 311:622-627.
15. Jiang W., Kim B.Y., Rutka J.T., Chan W.C. Nanoparticle-mediated cellular response is size-dependent. Nat Nanotechnol 2008, 3:145-150.
16. Nel A.E., Madler L., Velegol D., Xia T., Hoek E.M., Somasundaran P., et al. Understanding biophysicochemical interactions at the nano-bio interface. Nat Mater 2009, 8:543-557.
17. Lewinski N., Colvin V., Drezek R. Cytotoxicity of nanoparticles. Small 2008, 4:26-49.
18. Hillegass J.M., Shukla A., Lathrop S.A., MacPherson M.B., Fukagawa N.K., Mossman B.T. Assessing nanotoxicity in cells in vitro. Wiley Interdiscip Rev Nanomed Nanobiotechnol 2010, 2:219-231.
19. Mraz M., Malinova K., Mayer J., Pospisilova S. MicroRNA isolation and stability in stored RNA samples. Biochem Biophys Res Commun 2009, 390:1-4.
20. Bartel D.P. MicroRNAs: genomics, biogenesis, mechanism, and function. Cell 2004, 116:281-297.
21. Git A., Dvinge H., Salmon-Divon M., Osborne M., Kutter C., Hadfield J., et al. Systematic comparison of microarray profiling, real-time PCR, and next-generation sequencing technologies for measuring differential microRNA expression. RNA 2010, 16:991-1006.
22. He L., Hannon G.J. MicroRNAs: small RNAs with a big role in gene regulation. Nat Rev Genet 2004, 5:522-531.
23. Li S., Wang Y., Wang H., Bai Y., Liang G., Huang N., et al. MicroRNAs as participants in cytotoxicity of CdTe quantum dots in NIH/3T3 cells. Biomaterials 2011, 32:3807-3814.
24. Gusev Y. Computational methods for analysis of cellular functions and pathways collectively targeted by differentially expressed microRNA. Methods 2008, 44:61-72.
25. Papadopoulos G.L., Alexiou P., Maragkakis M., Reczko M., Hatzigeorgiou A.G. DIANA-mirPath: integrating human and mouse microRNAs in pathways. Bioinformatics 2009, 25:1991-1993.
26. Tan K.S., Armugam A., Sepramaniam S., Lim K.Y., Setyowati K.D., Wang C.W., et al. Expression profile of MicroRNAs in young stroke patients. PLoS One 2009, 4:e7689.
27. Lafferty-Whyte K., Cairney C.J., Jamieson N.B., Oien K.A., Keith W.N. Pathway analysis of senescence-associated miRNA targets reveals common processes to different senescence induction mechanisms. Biochim Biophys Acta 2009, 1792:341-352.
28. Chen G.Q., Zhao Z.W., Zhou H.Y., Liu Y.J., Yang H.J. Systematic analysis of microRNA involved in resistance of the MCF-7 human breast cancer cell to doxorubicin. Med Oncol 2010, 27:406-415.
29. Xing B., Li W.W., Sun K. A novel synthesis of high quality CdTe quantum dots with good thermal stability. Mater Lett 2008, 62:3178-3180.
30. Wang Y., Zheng J.W., Zhang Z.J., Yuan C.W., Fu D.G. CdTe nanocrystals as luminescent probes for detecting ATP, folic acid and l-cysteine in aqueous solution. Colloid Surf A 2009, 342:102-106.
31. Singh N., Manshian B., Jenkins G.J., Griffiths S.M., Williams P.M., Maffeis T.G., et al. NanoGenotoxicology: the DNA damaging potential of engineered nanomaterials. Biomaterials 2009, 30:3891-3914.
32. Prasad B.R., Nikolskaya N., Connolly D., Smith T.J., Byrne S.J., Gerard V.A., et al. Long-term exposure of CdTe quantum dots on PC12 cellular activity and the determination of optimum non-toxic concentrations for biological use. J Nanobiotechnology 2010, 8:7.
33. Jan E., Byrne S.J., Cuddihy M., Davies A.M., Volkov Y., Gun'ko Y.K., et al. High-content screening as a universal tool for fingerprinting of cytotoxicity of nanoparticles. ACS Nano 2008, 2:928-938.
34. De Paoli Lacerda S.H., Semberova J., Holada K., Simakova O., Hudson S.D., Simak J. Carbon nanotubes activate store-operated calcium entry in human blood platelets. ACS Nano 2011, 5:5808-5813.
35. Lee Y.S., Dutta A. MicroRNAs in cancer. Annu Rev Pathol 2009, 4:199-227.
36. Lujambio A., Calin G.A., Villanueva A., Ropero S., Sanchez-Cespedes M., Blanco D., et al. A microRNA DNA methylation signature for human cancer metastasis. Proc Natl Acad Sci U S A 2008, 105:13556-13561.
37. Choi A.O., Brown S.E., Szyf M., Maysinger D. Quantum dot-induced epigenetic and genotoxic changes in human breast cancer cells. J Mol Med 2008, 86:291-302.
38. Levine E., Ben Jacob E., Levine H. Target-specific and global effectors in gene regulation by MicroRNA. Biophys J 2007, 93:L52-L54.
39. Wang X., Li Y., Xu X., Wang Y.H. Toward a system-level understanding of microRNA pathway via mathematical modeling. Biosystems 2010, 100:31-38.
40. Vohradsky J., Panek J., Vomastek T. Numerical modelling of microRNA-mediated mRNA decay identifies novel mechanism of microRNA controlled mRNA downregulation. Nucleic Acids Res 2010, 38:4579-4585.
41. Kohler J.J., Schepartz A. Kinetic studies of Fos.Jun.DNA complex formation: DNA binding prior to dimerization. Biochemistry 2001, 40:130-142.
42. Bartlett D.W., Davis M.E. Insights into the kinetics of siRNA-mediated gene silencing from live-cell and live-animal bioluminescent imaging. Nucleic Acids Res 2006, 34:322-333.
43. Poliseno L., Salmena L., Zhang J., Carver B., Haveman W.J., Pandolfi P.P. A coding-independent function of gene and pseudogene mRNAs regulates tumour biology. Nature 2010, 465:1033-1038.
44. Kanehisa M., Goto S. KEGG: kyoto encyclopedia of genes and genomes. Nucleic Acids Res 2000, 28:27-30.
45. Walker V.G., Li Z., Hulderman T., Schwegler-Berry D., Kashon M.L., Simeonova P.P. Potential in vitro effects of carbon nanotubes on human aortic endothelial cells. Toxicol Appl Pharmacol 2009, 236:319-328.
46. Pisanic T.R., Blackwell J.D., Shubayev V.I., Finones R.R., Jin S. Nanotoxicity of iron oxide nanoparticle internalization in growing neurons. Biomaterials 2007, 28:2572-2581.
47. Auffan M., Decome L., Rose J., Orsiere T., De Meo M., Briois V., et al. In vitro interactions between DMSA-coated maghemite nanoparticles and human fibroblasts: a physicochemical and cyto-genotoxical study. Environ Sci Technol 2006, 40:4367-4373.
48. Soenen S.J., Nuytten N., De Meyer S.F., De Smedt S.C., De Cuyper M. High intracellular iron oxide nanoparticle concentrations affect cellular cytoskeleton and focal adhesion kinase-mediated signaling. Small 2010, 6:832-842.
49. Ashburner M., Ball C.A., Blake J.A., Botstein D., Butler H., Cherry J.M., et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet 2000, 25:25-29.
50. Lovric J., Bazzi H.S., Cuie Y., Fortin G.R., Winnik F.M., Maysinger D. Differences in subcellular distribution and toxicity of green and red emitting CdTe quantum dots. J Mol Med 2005, 83:377-385.