Conserved microRNA function as a basis for Chinese hamster ovary cell engineering

Biotechnology Letters

Volumn 37, Issue 4, 2015, Pages 787-798

  Kelly, Paul S ^a   Gallagher, Clair ^a   Clynes, Martin ^a   Barron, Niall ^a  

^a DUBLIN CITY UNIVERSITY   (Ireland)

Author keywords

Apoptosis; Chinese hamster ovary cell; microRNA; microRNA sponge; miR 34a; Productivity

Indexed keywords

BATCH CELL CULTURE; CELL DEATH; CELL PROLIFERATION; CONSERVATION; DIAGNOSIS; MOLECULAR BIOLOGY; POPULATION STATISTICS; PRODUCTIVITY; RECOMBINANT PROTEINS; RNA;

CHINESE HAMSTER OVARY CELLS; ECTOPIC EXPRESSIONS; ENGINEERING TOOLS; MICRORNAS; MIR-34A; MIRNA EXPRESSIONS; MOLECULAR NETWORKS; RECOMBINANT PROTEIN PRODUCTIONS;

CELL ENGINEERING;

MICRORNA;

ANIMAL; BIOSYNTHESIS; CELL ENGINEERING; CELL PROLIFERATION; CELL SURVIVAL; CHO CELL LINE; CRICETULUS; FEMALE; GENE EXPRESSION; GENETICS; PROCEDURES;

ANIMALS; CELL ENGINEERING; CELL PROLIFERATION; CELL SURVIVAL; CHO CELLS; CRICETULUS; FEMALE; GENE EXPRESSION; MICRORNAS;

EID: 84925535606     PISSN: 01415492     EISSN: 15736776     Source Type: Journal    
DOI: 10.1007/s10529-014-1751-7     Document Type: Article

References (52)

1. Bader AG (2012) miR-34—a microRNA replacement therapy is headed to the clinic. Front Genet 3:120
2. Barron N, Kumar N, Sanchez N, Doolan P, Clarke C, Meleady P, O’Sullivan F, Clynes M (2011a) Engineering CHO cell growth and recombinant protein productivity by over-expression of miR-7. J Biotechnol 151:204–211
3. Barron N, Sanchez N, Kelly P, Clynes M (2011b) MicroRNAs: tiny targets for engineering CHO cell phenotypes? Biotechnol Lett 33:11–21
4. Bartel DP (2009) MicroRNAs: target recognition and regulatory functions. Cell 136:215–233
5. Bartlett DW, Davis ME (2006) Insights into the kinetics of siRNA-mediated gene silencing from live-cell and live-animal bioluminescent imaging. Nucleic Acids Res 34:322–333
6. Bernardi C, Soffientini U, Piacente F, Tonetti MG (2013) Effects of microRNAs on fucosyltransferase 8 (FUT8) expression in hepatocarcinoma cells. PLoS ONE 8:e76540
7. Butler M, Meneses-Acosta A (2012) Recent advances in technology supporting biopharmaceutical production from mammalian cells. Appl Microbiol Biotechnol 96:885–894
8. Chatterjee S, Fasler M, Bussing I, Grosshans H (2011) Target-mediated protection of endogenous microRNAs in C. elegans. Dev Cell 20:388–396
9. Clarke C, Henry M, Doolan P, Kelly S, Aherne S, Sanchez N, Kelly P, Kinsella P, Breen L, Madden SF, Zhang L, Leonard M, Clynes M, Meleady P, Barron N (2012) Integrated miRNA, mRNA and protein expression analysis reveals the role of post-transcriptional regulation in controlling CHO cell growth rate. BMC Genom 13:656
10. Cole KA, Attiyeh EF, Mosse YP, Laquaglia MJ, Diskin SJ, Brodeur GM, Maris JM (2008) A functional screen identifies miR-34a as a candidate neuroblastoma tumor suppressor gene. Mol Cancer Res 6:735–742
11. De Jesus M, Wurm FM (2011) Manufacturing recombinant proteins in kg-ton quantities using animal cells in bioreactors. Eur J Pharm Biopharm 78:184–188
12. Druz A, Chu C, Majors B, Santuary R, Betenbaugh M, Shiloach J (2011) A novel microRNA mmu-miR-466h affects apoptosis regulation in mammalian cells. Biotechnol Bioeng 108:1651–1661
13. Druz A, Son YJ, Betenbaugh M, Shiloach J (2013) Stable inhibition of mmu-miR-466h-5p improves apoptosis resistance and protein production in CHO cells. Metab Eng 16:87–94
14. Ebert MS, Neilson JR, Sharp PA (2007) MicroRNA sponges: competitive inhibitors of small RNAs in mammalian cells. Nat Methods 4:721–726
15. Fischer S, Buck T, Wagner A, Ehrhart C, Giancaterino J, Mang S, Schad M, Mathias S, Aschrafi A, Handrick R, Otte K (2014) A functional high-content miRNA screen identifies miR-30 family to boost recombinant protein production in CHO cells. Biotechnol J 9:1279–1292
16. Gammell P, Barron N, Kumar N, Clynes M (2007) Initial identification of low temperature and culture stage induction of miRNA expression in suspension CHO-K1 cells. J Biotechnol 130:213–218
17. Hackl M, Jakobi T, Blom J, Doppmeier D, Brinkrolf K, Szczepanowski R, Bernhart SH, Honer Zu, Siederdissen C, Bort JA, Wieser M, Kunert R, Jeffs S, Hofacker IL, Goesmann A, Puhler A, Borth N, Grillari J (2011) Next-generation sequencing of the Chinese hamster ovary microRNA transcriptome: identification, annotation and profiling of microRNAs as targets for cellular engineering. J Biotechnol 153:62–75
18. Hackl M, Borth N, Grillari J (2012) miRNAs–pathway engineering of CHO cell factories that avoids translational burdening. Trends Biotechnol 30:405–406
19. Hammond S, Kaplarevic M, Borth N, Betenbaugh MJ, Lee KH (2012) Chinese hamster genome database: an online resource for the CHO community at www.CHOgenome.org. Biotechnol Bioeng 109:1353–1356
20. Hassan T, Smith SG, Gaughan K, Oglesby IK, O’Neill S, McElvaney NG, Greene CM (2013) Isolation and identification of cell-specific microRNAs targeting a messenger RNA using a biotinylated anti-sense oligonucleotide capture affinity technique. Nucleic Acids Res 41:e71
21. Hermeking H (2010) The miR-34 family in cancer and apoptosis. Cell Death Differ 17:193–199
22. Hernandez Bort JA, Hackl M, Hoflmayer H, Jadhav V, Harreither E, Kumar N, Ernst W, Grillari J, Borth N (2012) Dynamic mRNA and miRNA profiling of CHO-K1 suspension cell cultures. Biotechnol J 7:500–515
23. Jadhav V, Hackl M, Klanert G, Hernandez Bort JA, Kunert R, Grillari J, Borth N (2014) Stable over-expression of miR-17 enhances recombinant protein production of CHO cells. J Biotechnol 10:38–44
24. Jefferis R (2009) Recombinant antibody therapeutics: the impact of glycosylation on mechanisms of action. Trends Pharmacol Sci 30:356–362
25. Kelly PS, Clarke C, Clynes M, Barron N (2014) Bioprocess engineering: micromanaging Chinese hamster ovary cell phenotypes. Pharma Bioproc 2:323–337
26. Kim SH, Lee GM (2007) Down-regulation of lactate dehydrogenase-A by siRNAs for reduced lactic acid formation of Chinese hamster ovary cells producing thrombopoietin. Appl Microbiol Biotechnol 74:152–159
27. Kim JY, Kim YG, Lee GM (2012) CHO cells in biotechnology for production of recombinant proteins: current state and further potential. Appl Microbiol Biotechnol 93:917–930
28. Kluiver J, Gibcus JH, Hettinga C, Adema A, Richter MK, Halsema N, Slezak-Prochazka I, Ding Y, Kroesen BJ, van den Berg A (2012a) Rapid generation of microRNA sponges for microRNA inhibition. PLoS ONE 7:e29275
29. Kluiver J, Slezak-Prochazka I, Smigielska-Czepiel K, Halsema N, Kroesen BJ, van den Berg A (2012b) Generation of miRNA sponge constructs. Methods 58:113–117
30. Lee JS, Ha TK, Park JH, Lee GM (2013) Anti-cell death engineering of CHO cells: co-over-expression of Bcl-2 for apoptosis inhibition, Beclin-1 for autophagy induction. Biotechnol Bioeng 110:2195–2207
31. Loh WP, Loo B, Zhou L, Zhang P, Lee DY, Yang Y, Lam KP (2014) Over-expression of microRNAs enhances recombinant protein production in Chinese hamster ovary cells. Biotechnol J 9:1140–1151
32. Malphettes L, Freyvert Y, Chang J, Liu PQ, Chan E, Miller JC, Zhou Z, Nguyen T, Tsai C, Snowden AW, Collingwood TN, Gregory PD, Cost GJ (2010) Highly efficient deletion of FUT8 in CHO cell lines using zinc-finger nucleases yields cells that produce completely nonfucosylated antibodies. Biotechnol Bioeng 106:774–783
33. Martinez-Sanchez A, Murphy CL (2013) MicroRNA target identification—experimental approaches. Biology 2:189–205
34. Navarro F, Gutman D, Meire E, Caceres M, Rigoutsos I, Bentwich Z, Lieberman J (2009) miR-34a contributes to megakaryocytic differentiation of K562 cells independently of p53. Blood 114:2181–2192
35. Pasquinelli AE (2012) MicroRNAs and their targets: recognition, regulation and an emerging reciprocal relationship. Nat Rev Genet 13:271–282
36. Peterson SM, Thompson JA, Ufkin ML, Sathyanarayana P, Liaw L, Congdon CB (2014) Common features of microRNA target prediction tools. Front Genet 5:23
37. Rahimpour A, Vaziri B, Moazzami R, Nematollahi L, Barkhordari F, Kokabee L, Adeli A, Mahboudi F (2013) Engineering the Cellular protein secretory pathway for enhancement of recombinant tissue plasminogen activator expression in Chinese hamster ovary cells: effects of CERT and XBP1s Genes. J Microbiol Biotechnol 23:1116–1122
38. Sanchez N, Gallagher M, Lao N, Gallagher C, Clarke C, Doolan P, Aherne S, Blanco A, Meleady P, Clynes M, Barron N (2013a) MiR-7 Triggers cell cycle arrest at the G1/S transition by targeting multiple genes including Skp2 and Psme3. PLoS ONE 8:e65671
39. Sanchez N, Kelly P, Gallagher C, Lao NT, Clarke C, Clynes M, Barron N (2013b) CHO cell culture longevity and recombinant protein yield are enhanced by depletion of miR-7 activity via sponge decoy vectors. Biotechnol J 9:396–404
40. Shen Z, Zhan G, Ye D, Ren Y, Cheng L, Wu Z, Guo J (2012) MicroRNA-34a affects the occurrence of laryngeal squamous cell carcinoma by targeting the antiapoptotic gene survivin. Med Oncol 29:2473–2480
41. Song E, Lee SK, Dykxhoorn DM, Novina C, Zhang D, Crawford K, Cerny J, Sharp PA, Lieberman J, Manjunath N, Shankar P (2003) Sustained small interfering RNA-mediated human immunodeficiency virus type 1 inhibition in primary macrophages. J Virol 77:7174–7181
42. Strotbek M, Florin L, Koenitzer J, Tolstrup A, Kaufmann H, Hausser A, Olayioye MA (2013) Stable microRNA expression enhances therapeutic antibody productivity of Chinese hamster ovary cells. Metab Eng 20:157–166
43. Sun F, Fu H, Liu Q, Tie Y, Zhu J, Xing R, Sun Z, Zheng X (2008) Downregulation of CCND1 and CDK6 by miR-34a induces cell cycle arrest. FEBS Lett 582:1564–1568
44. Sun L, Wu Z, Shao Y, Pu Y, Miu W, Yao J, Wu Y, Yang Z (2012) MicroRNA-34a suppresses cell proliferation and induces apoptosis in U87 glioma stem cells. Technol Cancer Res Treat 11:483–490
45. Sunley K, Butler M (2010) Strategies for the enhancement of recombinant protein production from mammalian cells by growth arrest. Biotechnol Adv 28:385–394
46. Thomson DW, Bracken CP, Goodall GJ (2011) Experimental strategies for microRNA target identification. Nucleic Acid Res 39:6845–6853
47. Truettner JS, Motti D, Dietrich WD (2013) MicroRNA over-expression increases cortical neuronal vulnerability to injury. Brain Res 1533:122–130
48. Xu X, Nagarajan H, Lewis NE, Pan S, Cai Z, Liu X, Chen W, Xie M, Wang W, Hammond S, Andersen MR, Neff N, Passarelli B, Koh W, Fan HC, Wang J, Gui Y, Lee KH, Betenbaugh MJ, Quake SR, Famili I, Palsson BO, Wang J (2011) The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line. Nat Biotechnol 29:735–741
49. Yamane-Ohnuki N, Kinoshita S, Inoue-Urakubo M, Kusunoki M, Iida S, Nakano R, Wakitani M, Niwa R, Sakurada M, Uchida K, Shitara K, Satoh M (2004) Establishment of FUT8 knockout Chinese hamster ovary cells: an ideal host cell line for producing completely defucosylated antibodies with enhanced antibody-dependent cellular cytotoxicity. Biotechnol Bioeng 87:614–622
50. Yang X, Rutnam ZJ, Jiao C, Wei D, Xie Y, Du J, Zhong L, Yang BB (2012) An anti-let-7 sponge decoys and decays endogenous let-7 functions. Cell Cycle 11:3097–3108
51. Zhao X, Guo J, Yu Y, Yi S, Yu T, Fu L, Hou L, Chen W (2011) Over-expression of survivin and cyclin D1 in CHO cells confers apoptosis resistance and enhances growth in serum-free suspension culture. Biotechnol Lett 33:1293–1300
52. Zhu J (2012) Mammalian cell protein expression for biopharmaceutical production. Biotechnol Adv 30:1158–1170