Identification and expression analysis of miRNAs during batch culture of HEK-293 cells

Journal of Biotechnology

Volumn 140, Issue 3-4, 2009, Pages 149-155

  Koh, Thong Chuan ^a   Lee, Yih Yean ^a   Chang, Siow Qi ^a   Nissom, Peter Morin ^a  

^a AGENCY FOR SCIENCE   (Singapore)

Author keywords

Batch cell culture; CHO; HEK293; microRNA (miRNA)

Indexed keywords

APOPTOSIS; BATCH CULTURES; BIOLOGICAL PROCESS; CELLULAR DIFFERENTIATIONS; CHO; DOWN REGULATIONS; EXPRESSION ANALYSIS; EXPRESSION PROFILING; GROWTH ARRESTS; HEK-293 CELLS; HEK293; MAMMALIAN CELLS; MICRO ARRAYS; MICRORNA (MIRNA); MICRORNAS; NON-CODING RNAS; PROTEIN-FREE; STATIONARY PHASIS; UP REGULATIONS;

ANIMAL CELL CULTURE; BIOREACTORS; CELL CULTURE; CELL DEATH; CHROMATOGRAPHIC ANALYSIS; GENE EXPRESSION; INDUSTRIAL CHEMICALS; MAMMALS; NUCLEIC ACIDS;

BATCH CELL CULTURE;

CYCLIN DEPENDENT KINASE 6; CYCLIN E1; CYCLINE; MICRORNA; UNCLASSIFIED DRUG;

APOPTOSIS; ARTICLE; BACTERIUM CULTURE; BIOREACTOR; CELL CYCLE ARREST; CELL DIFFERENTIATION; CELL STRAIN HEK293; CONTROLLED STUDY; DOWN REGULATION; GENE EXPRESSION PROFILING; HUMAN; HUMAN CELL; MICROARRAY ANALYSIS; PRIORITY JOURNAL; UPREGULATION;

APOPTOSIS; BIOREACTORS; CELL DIFFERENTIATION; CELL LINE; HUMANS; MICRORNAS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION;

MAMMALIA;

EID: 62849110531     PISSN: 01681656     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jbiotec.2009.01.021     Document Type: Article

References (30)

1. Bandrés E., Cubedo E., Agirre A., Malumbres R., Zárate R., Ramirez N., Abajo A., Navarro A., Moreno I., Monzó M., and García-Foncillas J. Identification by real-time PCR of 13 mature microRNAs differentially expressed in colorectal cancer and non-tumoral tissues. Molecular Cancer 5 (2006) 29 doi:10.1186/1476-4598-5-29
2. Bartel D.P. MicroRNAs: genomics, biogenesis, mechanism and function. Cell 116 (2004) 281-297
3. Brennecke J., Hipfner D.R., Stark A., Russell R.B., and Cohen S.M. bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila. Cell 113 (2003) 25-36
4. Chen R.W., Bemis L.T., Amato C.M., Myint H., Tran H., Birks D.K., Eckhardt S.G., and Robinson W.A. Truncation in CCND1 mRNA alters miR-16-1 regulation in mantle cell lymphoma. Blood 112 3 (2008) 822-829
5. Cimmino A., Calin G.A., Fabbri M., Iorio M.V., Ferracin M., Shimizu M., Wojcik S.E., Aqeilan R.I., Zupo S., Dono M., Rassenti L., Alder H., Volinia S., Liu C.-G., Kipps T.J., Negrini M., and Croce C.M. miR-15 and miR-16 induce apoptosis by targeting BCL2. Proceedings of the National Academy of Sciences 102 (2005) 13944-13949
6. Fussenegger M., Schlatter S., Datwyler D., Mazur X., and Bailey J.E. Controlled proliferation by multigene metabolic engineering enhances the productivity of Chinese hamster ovary cells. Nature Biotechnology 16 5 (1998) 468-472
7. Gaur A., Jewell D.A., Liang Y., Ridzon D., Moore J.H., Chen C., Ambros V.R., and Israel M.A. Characterisation of microRNA expression levels and their biological correlates in human cancer cell lines. Cancer Research 67 (2007) 2456-2468
8. Graham F.L., Smiley J., Russell W.C., and Nairn M.R. Characteristics of a human cell line transformed by DNA from human adenovirus type 5. Journal of General Virology 36 (1977) 59-72
9. Griffiths J.B. Animal cell culture processes-batch or continuous?. Journal of Biotechnology 22 (1992) 21-30
10. Hayashita Y., Osada H., Tatematsu Y., Yamada H., Yanagisawa K., Tomida S., Yatabe Y., Kawahara K., Sekido Y., and Takahashi T. A polycistronic microRNA cluster, miR-17-92, is overexpressed in human lung cancers and enhances cell proliferation. Cancer Research 65 21 (2005) 9628-9632
11. Hwang H.-W., and Mendell J.T. MicroRNAs in cell proliferation, cell death and tumorigenesis. British Journal of Cancer 94 (2006) 776-780
12. Johnson C.D., Esquela-Kerscher A., Stefani G., Byrom M., Kelnar K., Ovcharenko D., Wilson M., Wang X.W., Shelton J., Shingara J., Chin L., Brown D., and Slack F.J. The let-7 microRNA represses cell proliferation pathways in human cells. Cancer Research 67 16 (2007) 7713-7722
13. Lee Y.Y., Wong K.T.K., Nissom P.M., Wong D.C.F., and Yap M.G.S. Transcriptional profiling of batch and fed-batch protein-free 293-HEK cultures. Metabolic Engineering 9 1 (2007) 52-67
14. Liu Q., Fu H., Sun F., Zhang H., Tie Y., Zhu J., Xing R., Sun Z., and Zheng X. miR-16 family induces cell cycle arrest by regulating multiple cell cycle genes. Nucleic Acids Research 36 16 (2008) 5391-5404
15. Lu J., Getz G., Miska E.A., Alvarez-Saavedra E., Lamb J., Peck D., Sweet-Cordero A., Ebert B.L., Mak R.H., Ferrando A.A., Downing J.R., Jacks T., Horvitz H.R., and Golub T.R. MicroRNA expression profiles classify human cancers. Nature 435 (2005) 834-838
16. Müller D., Katinger H., and Grillari J. MicroRNAs as targets for engineering of CHO cell factories. Trends in Biotechnology 26 7 (2008) 359-365
17. Ovcharenko D., Kelnar K., Johnson C., Leng N., and Brown D. Genome-scale miRNA and small interfering RNA screens identify small RNA modulators of TRAIL-induced apoptosis pathway. Cancer Research 67 22 (2007) 10782-10788
18. Pogribny I.P., Tryndyak V.P., Boyko A., Rodriguez-Juarez R., Beland F.A., and Kovalchuk O. Induction of microRNAome deregulation in rat liver by long-term tamoxifen exposure. Mutation Research 619 (2007) 30-37
19. Reinhart B.J., Slack F.J., Basson M., Pasquinelli A.E., Bettinger J.C., Rougvie A.E., Horvitz H.R., and Ruvkun G. The 21-nucleotide let-7 RNA regulates developmental timing in Caenorhabditis elegans. Nature 403 (2000) 901-905
20. Ro S., Park C., Jin J., Sanders K.M., and Yan W. A PCR-based method for detection and quantification of small RNAs. Biochemical and Biophysical Research Communications 351 (2006) 756-763
21. Shim J.-H., Xiao C., Hayden M.S., Lee K.-Y., Trombetta E.S., Pypaert M., Nara A., Yoshimori T., Wilm B., Erdjument-Bromage H., Tempst P., Hogan B.L.M., Mellman I., and Ghosh S. CHMP5 is essential for late endosome function and down-regulation of receptor signaling during mouse embryogenesis. Journal of Cell Biology 172 7 (2006) 1045-1056
22. Takamizawa J., Konishi H., Yanagisawa K., Tomida S., Osada H., Endoh H., Harano T., Yatabe Y., Nagino M., Nimura Y., Mitsudomi T., and Takahashi T. Reduced expression of the let-7 microRNAs in human lung cancers in association with shortened postoperative survival. Cancer Research 64 11 (2004) 3753-3756
23. Tricoli J.V., and Jacobson J.W. MicroRNA: potential for cancer detection, diagnosis and prognosis. Cancer Research 67 (2007) 4553-4555
24. Vandesompele J., De Preter K., Pattyn F., Poppe B., Van Roy N., De Paepe A., and Speleman F. Accurate normalization of real-time quantitative RT-PCR data by geometric averaging of multiple internal control genes. Genome Biology 3 7 (2002) research0034.1-0034.11
25. Visione R., Pallante P., Vecchione A., Cirombella R., Ferracin M., Ferraro A., Volinia S., Coluzzi S., Leone V., Borbone E., Liu C.-G., Petrocca F., Calin G.A., Scarpa A., Colato C., Tallini G., Santoro M., Croce C.M., and Fusco A. Specific microRNAs are down-regulated in human thyroid anaplastic carcinomas. Oncogene 26 (2007) 7590-7595
26. Volinia S., Calin G.A., Liu C.-G., Ambs S., Cimmino A., Petrocca F., Visone R., Iorio M., Roldo C., Ferracin M., Prueitt R.L., Yanaihara N., Lanza G., Scarpa A., Vecchione A., Negrini M., Harris C.C., and Croce C.M. A microRNA expression signature of human solid tumors defines cancer gene targets. Proceedings of the National Academy of Sciences 103 7 (2006) 2257-2261
27. Watanabe S., Shuttleworth J., and Al-Rubeai M. Regulation of cell cycle and productivity in NS0 cells by the over-expression of p21CIP1. Biotechnology and Bioengineering 77 1 (2002) 1-7
28. Xu P., Vernooy S.Y., Guo M., and Hay B.A. The Drosophila microRNA mir-14 suppresses cell death and is required for normal fat metabolism. Current Biology 13 (2003) 790-795
29. Yanaihara N., Caplen N., Bowman E., Seike M., Kumamoto K., Yi M., Stephens R.M., Okamoto A., Yokota J., Tanaka T., Calin G.A., Liu C.G., Croce C.M., and Harris C.C. Unique microRNA molecular profiles in lung cancer diagnosis and prognosis. Cancer Cell 9 (2006) 189-198
30. Yang H., Kong W., He L., Zhao J.J., O'Donnell J.D., Wang J., Wenham R.M., Coppola D., Kruk P.A., Nicosia S.V., and Cheng J.Q. MicroRNA expression profiling in human ovarian cancer: miR-214 induces cell survival and cisplatin resistance by targeting PTEN. Cancer Research 68 2 (2008) 425-433