Recombinant human collagen and biomimetic variants using a de novo gene optimized for modular assembly

Biomacromolecules

Volumn 11, Issue 6, 2010, Pages 1460-1469

  Chan, Sam Wei Polly ^a   Hung, She Pin ^b   Raman, Senthil Kumar ^a   Hatfield, G Wesley ^c   Lathrop, Richard H ^c,d   Da Silva, Nancy A ^a   Wang, Szu Wen ^a  

^a Computational Biology Research Laboratory   (United States)

^b Verdezyne Inc   (United States)

^c Institute for Genomics and Bioinformatics   (United States)

^d Irvine   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIOMECHANICS; BIOMIMETICS; COMPUTATION THEORY; FUNCTIONAL POLYMERS; MECHANICAL PROPERTIES; OLIGONUCLEOTIDES; POLYMERS; YEAST;

CELL MATRIX; COMPUTATIONAL ALGORITHM; CYSTEINE RESIDUES; GENE ASSEMBLY; GENE SYNTHESIS; HELICAL DOMAINS; MODULAR APPROACH; MODULAR ASSEMBLY; MODULAR SYNTHESIS; OLIGONUCLEOTIDE HYBRIDIZATION; PROLYL-4-HYDROXYLASE; RECOMBINANT HUMAN COLLAGEN; RECOMBINANT POLYMERS; REGENERATIVE MEDICINE; SACCHAROMYCES CEREVISIAE; SEQUENCE REPETITION;

COLLAGEN;

BIOMIMETIC MATERIAL; COLLAGEN; COLLAGEN TYPE 3; CYSTEINE; OLIGONUCLEOTIDE; OXYGENASE; POLYMER; RECOMBINANT COLLAGEN; RECOMBINANT PROTEIN; UNCLASSIFIED DRUG; OLIGONUCLEOTIDE PROBE; PROCOLLAGEN PROLINE 2 OXOGLUTARATE 4 DIOXYGENASE;

ALGORITHM; AMINO TERMINAL SEQUENCE; ARTICLE; BIOENGINEERING; BIOMIMETICS; CODON; COLLAGEN SYNTHESIS; CONTROLLED STUDY; GENE EXPRESSION; GENE SYNTHESIS; GENE VECTOR; HUMAN; HYBRIDIZATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SACCHAROMYCES CEREVISIAE; TRIPLE HELIX; YEAST CELL; CHEMISTRY; ENZYMOLOGY; GENETICS; MOLECULAR CLONING; OLIGONUCLEOTIDE PROBE; PLASMID; PROTEIN ENGINEERING;

BIOMIMETIC MATERIALS; CLONING, MOLECULAR; COLLAGEN TYPE III; CYSTEINE; HUMANS; OLIGONUCLEOTIDE PROBES; PLASMIDS; PROCOLLAGEN-PROLINE DIOXYGENASE; PROTEIN ENGINEERING; RECOMBINANT PROTEINS; SACCHAROMYCES CEREVISIAE;

EID: 77954580155     PISSN: 15257797     EISSN: 15264602     Source Type: Journal    
DOI: 10.1021/bm100052y     Document Type: Article

References (84)

1. Stevens, M. M.; George, J. H. Science 2005, 310, 1135-1138.
2. Stopak, D.; Wessells, N. K.; Harris, A. K. Proc. Natl. Acad. Sci. USA 1985, 82, 2804-2808.
3. Sawhney, R. K.; Howard, J. J. Cell Biol. 2002, 157, 1083-1091.
4. Mizuno, M.; Fujisawa, R.; Kuboki, Y. J. Cell. Physiol. 2000, 184, 207-213.
5. Petrov, V. V.; Lijnen, P. J.; Fagard, R. H. J. Hypertens. 2002, 20, S29-S29.
6. Eghbali, M.; Tomek, R.; Woods, C.; Bhambi, B. Proc. Natl. Acad. Sci. USA 1991, 88, 795-799.
7. Saarialhokere, U. K.; Kovacs, S. O.; Pentland, A. P.; Olerud, J. E.; Welgus, H. G.; Parks, W. C. J. Clin. Invest. 1993, 92, 2858-2866.
8. Gelse, K.; Poschl, E.; Aigner, T. Adv. Drug Delivery Rev. 2003, 55, 1531-1546.
9. Li, S.-T. In Biomaterials: Principles and Applications; Park, J. B., Bronzino, J. D., Eds.; CRC Press/Taylor & Francis: Boca Raton, FL, 2002; pp 117-140
10. Kadler, K. Protein Profile 1994, 1, 519-638.
11. Sansilvestri-Morel, P.; Rupin, A.; Jullien, N. D.; Lembrez, N.; Mestries-Dubois, P.; Fabiani, J. N.; Verbeuren, T. J. J. Vasc. Res. 2005, 42, 388-398.
12. Benoit, D. S.; Anseth, K. S. Biomaterials 2005, 26, 5209-5220
13. Lutolf, M. P.; Weber, F. E.; Schmoekel, H. G.; Schense, J. C.; Kohler, T.; Muller, R.; Hubbell, J. A. Nat. Biotechnol. 2003, 21, 513-518.
14. Palecek, S. P.; Loftus, J. C.; Ginsberg, M. H.; Lauffenburger, D. A.; Horwitz, A. F. Nature 1997, 385, 537-540.
15. Silva, G. A.; Czeisler, C.; Niece, K. L.; Beniash, E.; Harrington, D. A.; Kessler, J. A.; Stupp, S. I. Science 2004, 303, 1352-1355.
16. Maheshwari, G.; Brown, G.; Lauffenburger, D. A.; Wells, A.; Griffith, L. G. J Cell Sci. 2000, 113 (Pt 10), 1677-1686.
17. Andersson, A. S.; Backhed, F.; von Euler, A.; Richter-Dahlfors, A.; Sutherland, D.; Kasemo, B. Biomaterials 2003, 24, 3427-3436.
18. Dike, L. E.; Chen, C. S.; Mrksich, M.; Tien, J.; Whitesides, G. M.; Ingber, D. E. In Vitro Cell. Dev. Biol.: Anim. 1999, 35, 441-448.
19. Wong, J. Y.; Velasco, A.; Rajagopalan, P.; Pham, Q. Langmuir 2003, 19, 1908-1913
20. Gray, D. S.; Tien, J.; Chen, C. S. J. Biomed. Mater. Res. 2003, 66, 605-614.
21. Lo, C. M.; Wang, H. B.; Dembo, M.; Wang, Y. L. Biophys. J. 2000, 79, 144-152.
22. Lutolf, M. P.; Lauer-Fields, J. L.; Schmoekel, H. G.; Metters, A. T.; Weber, F. E.; Fields, G. B.; Hubbell, J. A. Proc. Natl. Acad. Sci. U. S. A. 2003, 100, 5413-5418.
23. Halstenberg, S.; Panitch, A.; Rizzi, S.; Hall, H.; Hubbell, J. A. Biomacromolecules 2002, 3, 710-723.
24. Rowley, J. A.; Madlambayan, G.; Mooney, D. J. Biomaterials 1999, 20, 45-53.
25. Peyton, S. R.; Putnam, A. J. J. Cell. Physiol. 2005, 204, 198-209.
26. Stemmer, W. P. C.; Crameri, A.; Ha, K. D.; Brennan, T. M.; Heyneker, H. L. Gene 1995, 164, 49-53.
27. Larsen, L. S. Z.; Wassman, C. D.; Hatfield, G. W.; Lathrop, R. H. Int. J. Bioinf. Res. Appl. 2008, 4, 324-336.
28. Vaughan, P. R.; Galanis, M.; Richards, K. M.; Tebb, T. A.; Ramshaw, J. A.; Werkmeister, J. A. DNA Cell Biol. 1998, 17, 511-518.
29. Majsterek, I.; McAdams, E.; Adachi, E.; Dhume, S. T.; Fertala, A. Protein Sci. 2003, 12, 2063-2072.
30. Fertala, A. Recombinant Collagen-like Proteins. U.S. Pat. Appl. #2004/0115771 A1, 2004.
31. Vaughan, P. R.; Galanis, M.; Ramshaw, J. A.; Werkmeister, J. A. Method for Producing, in Yeast, a Hydroxylated Triple Helical Protein, and Yeast Host Cells Useful in Said Method. U.S. Pat. Appl. 2003/0064436 A1, 2003.
32. Goldberg, I.; Salerno, A. J.; Patterson, T.; Williams, J. I. Gene 1989, 80, 305-314.
33. Brodsky, B.; Ramshaw, J. A. Matrix Biol. 1997, 15, 545-554
34. Minond, D.; Lauer-Fields, J. L.; Nagase, H.; Fields, G. B. Biochemistry 2004, 43, 11474-11481.
35. Raynal, N.; Hamaia, S. W.; Siljander, P. R. M.; Maddox, B.; Peachey, A. R.; Fernandez, R.; Foley, L. J.; Slatter, D. A.; Jarvis, G. E.; Farndale, R. W. J. Biol. Chem. 2006, 281, 3821-3831.
36. Kotch, F. W.; Raines, R. T. Proc. Natl. Acad. Sci. USA 2006, 103, 3028-3033.
37. Yamazaki, C. M.; Kadoya, Y.; Hozumi, K.; Okano-Kosugi, H.; Asada, S.; Kitagawa, K.; Nomizu, M.; Koide, T. Biomaterials 2010, 31, 1925-1934.
38. Lathrop, R. H.; Hatfield, G. W. Method for Producing a Synthetic Gene or Other DNA Sequence. U.S. Pat. #7,262,031, 2004.
39. Olsen, D. R.; Leigh, S. D.; Chang, R.; McMullin, H.; Ong, W.; Tai, E.; Chisholm, G.; Birk, D. E.; Berg, R. A.; Hitzeman, R. A.; Toman, P. D. J. Biol. Chem. 2001, 276, 24038-24043.
40. Vuori, K.; Pihlajaniemi, T.; Marttila, M.; Kivirikko, K. I. Proc. Natl. Acad. Sci. USA 1992, 89, 7467-7470.
41. Gietz, R. D.; Sugino, A. Gene 1988, 74, 527-534.
42. West, R. W.; Yocum, R. R.; Ptashne, M. Mol. Cell. Biol. 1984, 4, 2467-2478.
43. Lee, K. M.; Da Silva, N. A. Yeast 2005, 22, 431-440
44. Ching, C. G. Sequential Cloned Gene Integration: Enhancements in Saccharomyces ceRevisiae, Extension to Polyploid Yeast Strains, and Application to Polyketide Production. Ph.D. Thesis, University of California, Irvine, Irvine, CA, 2005.
45. Lee, F. W. F.; Da Silva, N. A. Biotechnol. Prog. 1997, 13, 368-373.
46. Alani, E.; Cao, L.; Kleckner, N. Genetics 1987, 116, 541-545.
47. Gietz, R. D.; Woods, R. A. Biotechniques 2001, 30, 816-820.
48. Bertani, G. J. Bacteriol. 1951, 62, 293-300
49. Laemmli, U. K. Nature 1970, 227, 680-685.
50. Wittig, I.; Braun, H. P.; Schagger, H. Nat. Protoc. 2006, 1, 418-428.
51. Schagger, H. Nat. Protoc. 2006, 1, 16-22.
52. Sharp, P. M.; Cowe, E. Yeast 1991, 7, 657-678.
53. Gutman, G.; Hatfield, G. W. Proc. Natl. Acad. Sci. USA 1989, 86, 3699-3703.
54. Wang, S.-W.; Da Silva, N. A.; Hung, S.-P.; Lathrop, R. H. Collagen-Like Polypeptides and Encoding Polynucleotides. U.S. Pat. Appl #20090291474 A1, 2009.
55. Vuorela, A.; Myllyharju, J.; Nissi, R.; Pihlajamiemi, T.; Kivirikko, K. I. EMBO J. 1997, 16, 6702-6712.
56. Bruckner, P.; Prockop, D. J. Anal. Biochem. 1981, 110, 360-368.
57. Bachinger, H. P.; Fessler, L. I.; Timpl, R.; Fessler, J. H. J. Biol. Chem. 1981, 256, 3193-3199.
58. Berg, R. A.; Toman, P. D.; Wallace, D. G. Mutated Recombinant Collagens. U.S. Pat. #6653450, 2003.
59. Williams, K. E.; Olsen, D. R. Matrix Biol. 2009, 28, 373-379.
60. Chung, H. J.; Jensen, D. A.; Gawron, K.; Steplewski, A.; Fertala, A. J. Mol. Biol. 2009, 390, 306-318.
61. Mithieux, S. M.; Tu, Y. D.; Korkmaz, E.; Braet, F.; Weiss, A. S. Biomaterials 2009, 30, 431-435.
62. Wise, S. G.; Weiss, A. S. Int. J. Biochem. Cell Biol. 2009, 41, 494-497.
63. MacEwan, S. R.; Chilkoti, A. Biopolymers 2010, 94, 60-77.
64. Kluge, J. A.; Rabotyagova, U.; Leisk, G. G.; Kaplan, D. L. Trends Biotechnol. 2008, 26, 244-251.
65. Persikov, A. V.; Ramshaw, J. A. M.; Kirkpatrick, A.; Brodsky, B. Biochemistry 2000, 39, 14960-14967.
66. Bella, J.; Eaton, M.; Brodsky, B.; Berman, H. M. Science 1994, 266, 75-81.
67. Persikov, A. V.; Ramshaw, J. A. M.; Brodsky, B. Biopolymers 2000, 55, 436-450.
68. Emsley, J.; Knight, C. G.; Farndale, R. W.; Barnes, M. J. J. Mol. Biol. 2004, 335, 1019-1028.
69. Buechter, D. D.; Paolella, D. N.; Leslie, B. S.; Brown, M. S.; Mehos, K. A.; Gruskin, E. A. J. Biol. Chem. 2003, 278, 645-650.
70. Cappello, J.; Ferrari, F. High Molecular Weight Collagen-like Protein Polymers. U.S. Pat. #5496712, 1996.
71. Lamberg, A.; Helaakoski, T.; Myllyharju, J.; Peltonen, S.; Notbohm, H.; Pihlajaniemi, T.; Kivirikko, K. I. J. Biol. Chem. 1996, 271, 11988-11995.
72. Perret, S.; Merle, C.; Bernocco, S.; Berland, P.; Garrone, R.; Hulmes, D. J. S.; Theisen, M.; Ruggiero, F. J. Biol. Chem. 2001, 276, 43693-43698.
73. Nokelainen, M.; Tu, H.; Vuorela, A.; Notbohm, H.; Kivirikko, K. I.; Myllyharju, J. Yeast 2001, 18, 797-806.
74. Myllyharju, J.; Nokelainen, M.; Vuorela, A.; Kivirikko, K. I. Biochem. Soc. Trans. 2000, 28, 353-357.
75. Toman, P. D.; Chisholm, G.; McMullin, H.; Giere, L. M.; Olsen, D. R.; Kovach, R. J.; Leigh, S. D.; Fong, B. E.; Chang, R.; Daniels, G. A.; Berg, R. A.; Hitzeman, R. A. J. Biol. Chem. 2000, 275, 23303-23309.
76. Olsen, D.; Yang, C.; Bodo, M.; Chang, R.; Leigh, S.; Baez, J.; Carmichael, D.; Perala, M.; Hamalainen, E.-R.; Jarvinen, M.; Polarek, J. Adv. Drug Delivery Rev. 2003, 55, 1547-1567.
77. Baez, J.; Olsen, D.; Polarek, J. W. Appl. Microbiol. Biotechnol. 2005, 69, 245-252.
78. Uitto, J. Arch. Biochem. Biophys. 1979, 192, 371-379.
79. Chung, E.; Miller, E. J. Science 1974, 183, 1200-1201.
80. Koide, T.; Nagata, K. Collagen 2005, 247, 85-114.
81. Malfait, F.; Symoens, S.; De Backer, J.; Hermanns-Le, T.; Sakalihasan, N.; Lapiere, C. M.; Coucke, P.; De Paepe, A. Hum. Mutat. 2007, 28, 387-395.
82. Cabral, W. A.; Makareeva, E.; Letocha, A. D.; Scribanu, N.; Fertala, A.; Steplewski, A.; Keene, D. R.; Persikov, A. V.; Leikin, S.; Marini, J. C. Hum. Mutat. 2007, 28, 396-405.
83. Lund, A. M.; Joensen, F.; Christensen, E.; Duno, M.; Skovby, F.; Schwartz, M. Clin. Genet. 2008, 73, 97-101.
84. Kramer, R. Z.; Venugopal, M. G.; Bella, J.; Mayville, P.; Brodsky, B.; Berman, H. M. J. Mol. Biol. 2000, 301, 1191-1205.