Construction of BAC-based physical map and analysis of chromosome rearrangement in chinese hamster ovary cell lines

Biotechnology and Bioengineering

Volumn 109, Issue 6, 2012, Pages 1357-1367

  Cao, Yihua ^a   Kimura, Shuichi ^b   Itoi, Takayuki ^a   Honda, Kohsuke ^a   Ohtake, Hisao ^a   Omasa, Takeshi ^a,b  

^a OSAKA UNIVERSITY   (Japan)

^b UNIVERSITY OF TOKUSHIMA   (Japan)

Author keywords

BAC FISH (bacterial artificial chromosome fluorescence in situ hybridization); Chinese hamster ovary cells; Chromosome rearrangements

Indexed keywords

ANALYSIS OF CHROMOSOMES; CELL LINES; CHINESE HAMSTER OVARY CELLS; CHINESE HAMSTERS; CHO CELL; CHROMOSOME REARRANGEMENT; FLUORESCENCE IN SITU HYBRIDIZATION; HYBRIDIZATION PROBE; IN-SITU HYBRIDIZATION; LUNG CELLS; MAMMALIAN HOSTS;

CELL CULTURE; CLONING; FISH; FLUORESCENCE MICROSCOPY; GENES; MAMMALS;

CLONE CELLS;

ANIMAL CELL; ANIMAL TISSUE; ARTICLE; BACTERIAL ARTIFICIAL CHROMOSOME; CHINESE HAMSTER; CHO CELL; CHROMOSOME MAP; CHROMOSOME PAIRING; CHROMOSOME REARRANGEMENT; CONTROLLED STUDY; FLUORESCENCE IN SITU HYBRIDIZATION; GENE SEQUENCE; GENOME; LUNG ALVEOLUS CELL; MOLECULAR CLONING; MOUSE; NONHUMAN;

ANIMALS; CHO CELLS; CHROMOSOMES; CRICETINAE; CRICETULUS; GENE REARRANGEMENT; IN SITU HYBRIDIZATION, FLUORESCENCE; PHYSICAL CHROMOSOME MAPPING;

BACTERIA (MICROORGANISMS); CRICETULUS GRISEUS; MAMMALIA;

EID: 84859882580     PISSN: 00063592     EISSN: 10970290     Source Type: Journal    
DOI: 10.1002/bit.24347     Document Type: Article

References (48)

1. Birzele F, Schaub J, Rust W, Clemens C, Baum P, Kaufmann H, Weith A, Schulz TW, Hildebrandt T. 2010. Into the unknown: Expression profiling without genome sequence information in CHO by next generation sequencing. Nucleic Acids Res 38(12): 3999-4010.
2. Bolzan AD, Paez GL, Bianchi MS. 2001. FISH analysis of telomeric repeat sequences and their involvement in chromosomal aberrations induced by radiomimetic compounds in hamster cells. Mutat Res 479(1-2): 187-196.
3. Bort JA, Stern B, Borth N. 2010. CHO-K1 host cells adapted to growth in glutamine-free medium by FACS-assisted evolution. Biotechnol J 5(10): 1090-1097.
4. Campbell PJ, Yachida S, Mudie LJ, Stephens PJ, Pleasance ED, Stebbings LA, Morsberger LA, Latimer C, McLaren S, Lin ML, McBride DJ, Varela I, Nik-Zainal SA, Leroy C, Jia M, Menzies A, Butler AP, Teague JW, Griffin CA, Burton J, Swerdlow H, Quail MA, Stratton MR, Iacobuzio-Donahue C, Futreal PA. 2010. The patterns and dynamics of genomic instability in metastatic pancreatic cancer. Nature 467(7319): 1109-1113.
5. Davies J, Reff M. 2001. Chromosome localization and gene-copy-number quantification of three random integrations in Chinese-hamster ovary cells and their amplified cell lines using fluorescence in situ hybridization. Biotechnol Appl Biochem 33(Pt 2): 99-105.
6. Deaven LL, Petersen DF. 1973. The chromosomes of CHO, an aneuploid Chinese hamster cell line: G-band, C-band, and autoradiographic analyses. Chromosoma 41(2): 129-144.
7. Derouazi M, Martinet D, Besuchet Schmutz N, Flaction R, Wicht M, Bertschinger M, Hacker DL, Beckmann JS, Wurm FM. 2006. Genetic characterization of CHO production host DG44 and derivative recombinant cell lines. Biochem Biophys Res Commun 340(4): 1069-1077.
8. Eppig JT, Nadeau JH. 1995. Comparative maps: The mammalian jigsaw puzzle. Curr Opin Genet Dev 5(6): 709-716.
9. Greber D, Fussenegger M. 2007. Mammalian synthetic biology: Engineering of sophisticated gene networks. J Biotechnol 130(4): 329-345.
10. Griffin TJ, Seth G, Xie HW, Bandhakavi S, Hu WS. 2007. Advancing mammalian cell culture engineering using genome-scale technologies. Trends Biotechnol 25(9): 401-408.
11. Hacker DL, De Jesus M, Wurm FM. 2009. 25 years of recombinant proteins from reactor-grown cells-Where do we go from here? Biotechnol Adv 27(6): 1023-1027.
12. Hackl M, Jakobi T, Blom J, Doppmeier D, Brinkrolf K, Szczepanowski R, Bernhart SH, Siederdissen CH, 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(1-2): 62-75.
13. Hammond S, Swanberg JC, Kaplarevic M, Lee KH. 2011. Genomic sequencing and analysis of a Chinese hamster ovary cell line using Illumina sequencing technology. BMC Genomics 12: 67.
14. Hert DG, Fredlake CP, Barron AE. 2008. Advantages and limitations of next-generation sequencing technologies: A comparison of electrophoresis and non-electrophoresis methods. Electrophoresis 29(23): 4618-4626.
15. Kantardjieff A, Nissom PM, Chuah SH, Yusufi F, Jacob NM, Mulukutla BC, Yap M, Hu WS. 2009. Developing genomic platforms for Chinese hamster ovary cells. Biotechnol Adv 27: 1028-1035.
16. Kao FT, Puck TT. 1968. Genetics of somatic mammalian cells, VII. Induction and isolation of nutritional mutants in Chinese hamster cells. Proc Natl Acad Sci USA 60(4): 1275-1281.
17. Kegel A, Betts-Lindroos H, Kanno T, Jeppsson K, Strom L, Katou Y, Itoh T, Shirahige K, Sjogren C. 2011. Chromosome length influences replication-induced topological stress. Nature 471(7338): 392-396.
18. Kuriki H, Sonta S, Murata K. 1993. Flow karyotype analysis and sorting of the Chinese hamster chromosomes: Comparing the effects of the isolation buffers. J Clin Lab Anal 7(2): 119-122.
19. Lichter P, Tang CJ, Call K, Hermanson G, Evans GA, Housman D, Ward DC. 1990. High-resolution mapping of human chromosome 11 by in situ hybridization with cosmid clones. Science 247(4938): 64-69.
20. Loo B, Jacob NM, Yusufi FNK, Lee TS, Chin JX, Johnson KC, Ramaraj T, Crow JA, Mudge J, Woodward JE, Bharti AK, Farmer AD, Retzel EF, Gao S, Sung W-K, Nagarajan N, Ruan X, Ruan Y, Karypis G, Lee DY, Yap M, Hu WS. 2011. The Chinese hamster genome: A foundation for CHO genome engineering. 22nd ESACT meeting. Vienna, Austria. p 15.
21. Majors BS, Chiang GG, Betenbaugh MJ. 2009. Protein and genome evolution in Mammalian cells for biotechnology applications. Mol Biotechnol 42(2): 216-223.
22. McPherson JD, Marra M, Hillier L, Waterston RH, Chinwalla A, Wallis J, Sekhon M, Wylie K, Mardis ER, Wilson RK, Fulton R, Kucaba TA, Wagner-McPherson C, Barbazuk WB, Gregory SG, Humphray SJ, French L, Evans RS, Bethel G, Whittaker A, Holden JL, McCann OT, Dunham A, Soderlund C, Scott CE, Bentley DR, Schuler G, Chen HC, Jang W, Green ED, Idol JR, Maduro VV, Montgomery KT, Lee E, Miller A, Emerling S, Kucherlapati, Gibbs R, Scherer S, Gorrell JH, Sodergren E, Clerc-Blankenburg K, Tabor P, Naylor S, Garcia D, de Jong PJ, Catanese JJ, Nowak N, Osoegawa K, Qin S, Rowen L, Madan A, Dors M, Hood L, Trask B, Friedman C, Massa H, Cheung VG, Kirsch IR, Reid T, Yonescu R, Weissenbach J, Bruls T, Heilig R, Branscomb E, Olsen A, Doggett N, Cheng JF, Hawkins T, Myers RM, Shang J, Ramirez L, Schmutz J, Velasquez O, Dixon K, Stone NE, Cox DR, Haussler D, Kent WJ, Furey T, Rogic S, Kennedy S, Jones S, Rosenthal A, Wen G, Schilhabel M, Gloeckner G, Nyakatura G, Siebert R, Schlegelberger B, Korenberg J, Chen XN, Fujiyama A, Hattori M, Toyoda A, Yada T, Park HS, Sakaki Y, Shimizu N, Asakawa S, Kawasaki K, Sasaki T, Shintani A, Shimizu A, Shibuya K, Kudoh J, Minoshima S, Ramser J, Seranski P, Hoff C, Poustka A, Reinhardt R, Lehrach H. 2001. A physical map of the human genome. Nature 409(6822): 934-941.
23. Meyne J, Baker RJ, Hobart HH, Hsu TC, Ryder OA, Ward OG, Wiley JE, Wurster-Hill DH, Yates TL, Moyzis RK. 1990. Distribution of non-telomeric sites of the (TTAGGG)n telomeric sequence in vertebrate chromosomes. Chromosoma 99(1): 3-10.
24. Moyzis RK, Buckingham JM, Cram LS, Dani M, Deaven LL, Jones MD, Meyne J, Ratliff RL, Wu JR. 1988. A highly conserved repetitive DNA sequence, (TTAGGG)n, present at the telomeres of human chromosomes. Proc Natl Acad Sci USA 85(18): 6622-6626.
25. Nehlsen K, Schucht R, da Gama-Norton L, Kromer W, Baer A, Cayli A, Hauser H, Wirth D. 2009. Recombinant protein expression by targeting pre-selected chromosomal loci. BMC Biotechnol 9: 100.
26. O'Brien SJ, Womack JE, Lyons LA, Moore KJ, Jenkins NA, Copeland NG. 1993. Anchored reference loci for comparative genome mapping in mammals. Nat Genet 3(2): 103-112.
27. Omasa T. 2002. Gene amplification and its application in cell and tissue engineering. J Biosci Bioeng 94(6): 600-605.
28. Omasa T. 2010. Chinese hamster ovary cell genome: Impact on cell engineering. The 23rd Annual and International Meeting of the Japanese Association for Animal Cell Technology (JAACT2010). Sapporo, Japan. p 58.
29. Omasa T, Cao Y, Park JY, Takagi Y, Kimura S, Yano H, Honda K, Asakawa S, Shimizu N, Ohtake H. 2009. Bacterial artificial chromosome library for genome-wide analysis of Chinese hamster ovary cells. Biotechnol Bioeng 104(5): 986-994.
30. Omasa T, Onitsuka M, Kim WD. 2010. Cell engineering and cultivation of Chinese hamster ovary (CHO) cells. Curr Pharm Biotechnol 11: 233-240.
31. Ono T, Sonta S. 2001. Chromosome map of cosmid clones constructed with Chinese hamster genomic DNA. Cytogenet Cell Genet 95(1-2): 97-102.
32. Pandita TK, DeRubeis D. 1995. Spontaneous amplification of interstitial telomeric bands in Chinese hamster ovary cells. Cytogenet Cell Genet 68(1-2): 95-101.
33. Park JY, Takagi Y, Yamatani M, Honda K, Asakawa S, Shimizu N, Omasa T, Ohtake H. 2010. Identification and analysis of specific chromosomal region adjacent to exogenous Dhfr-amplified region in Chinese hamster ovary cell genome. J Biosci Bioeng 109(5): 504-511.
34. Puck TT. 1985. Development of the Chinese hamster ovary (CHO) cell for use in somatic cell genetics. In: Gottesman MM, editor. New York: John Wiley.
35. Pühler A. 2011. Transcriptional and genomic analysis of CHO cells using high-throughput sequencing. 1st Asian Congress on Biotechnology. Shanghai, China. p 101.
36. Sasaki T, Ramanathan S, Okuno Y, Kumagai C, Shaikh SS, Gilbert DM. 2006. The Chinese hamster dihydrofolate reductase replication origin decision point follows activation of transcription and suppresses initiation of replication within transcription units. Mol Cell Biol 26(3): 1051-1062.
37. Simi S, Xiao Y, Campagna M, Doehmer J, Darroudi F. 1999. Dual-colour FISH analysis to characterize a marker chromosome in cytochrome P450 2B1 recombinant V79 Chinese hamster cells. Mutagenesis 14(1): 57-61.
38. Urlaub G, Chasin LA. 1980. Isolation of Chinese hamster cell mutants deficient in dihydrofolate reductase activity. Proc Natl Acad Sci USA 77(7): 4216-4220.
39. Urlaub G, Kas E, Carothers AM, Chasin LA. 1983. Deletion of the diploid dihydrofolate reductase locus from cultured mammalian cells. Cell 33(2): 405-412.
40. Urlaub G, Mitchell PJ, Kas E, Chasin LA, Funanage VL, Myoda TT, Hamlin J. 1986. Effect of gamma rays at the dihydrofolate reductase locus: Deletions and inversions. Somat Cell Mol Genet 12(6): 555-566.
41. Wlaschin KF, Hu WS. 2007. A scaffold for the Chinese hamster genome. Biotechnol Bioeng 98(2): 429-439.
42. Worton RG, Ho CC, Duff C. 1977. Chromosome stability in CHO cells. Somat Cell Genet 3(1): 27-45.
43. Wurm FM. 2004. Production of recombinant protein therapeutics in cultivated mammalian cells. Nat Biotechnol 22(11): 1393-1398.
44. Xiao Y, Slijepcevic P, Arkesteijn G, Darroudi F, Natarajan AT. 1996. Development of DNA libraries specific for Chinese hamster chromosomes 3, 4, 9, 10, X, and Y by DOP-PCR. Cytogenet Cell Genet 75(1): 57-62.
45. Xu X, Nagarajan H, Lewis NE, Pan S, Cai Z, Liu X, Chen W, Xie M, Wang W, Hammond S, et al. 2011. The genomic sequence of the Chinese hamster ovary (CHO)-K1 cell line. Nat Biotechnol 29(8): 735-741.
46. Yang F, O'Brien PC, Ferguson-Smith MA. 2000. Comparative chromosome map of the laboratory mouse and Chinese hamster defined by reciprocal chromosome painting. Chromosome Res 8(3): 219-227.
47. Yoshikawa T, Nakanishi F, Itami S, Kameoka D, Omasa T, Katakura Y, Kishimoto M, Suga K. 2000a. Evaluation of stable and highly productive gene amplified CHO cell line based on the location of amplified genes. Cytotechnology 33(1-3): 37-46.
48. Yoshikawa T, Nakanishi F, Ogura Y, Oi D, Omasa T, Katakura Y, Kishimoto M, Suga K. 2000b. Amplified gene location in chromosomal DNA affected recombinant protein production and stability of amplified genes. Biotechnol Progr 16(5): 710-715.