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Protein and Metabolic Engineering

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Publications (73 Total)

Columbia University (61 Total)

73. Kernan, T., West, A.C., and Banta, S. (2017) “Characterization of endogenous promoters for control of recombinant gene expression in A. ferrooxidans” Biotechnology and Applied Biochemistry (In Press). doi: 10.1002/bab.1546

72. Solanki, K., Abdallah, W., and Banta, S. (2016) “Extreme Makeover: Engineering the activity of a thermostable alcohol dehydrogenase (AdhD) from Pyrococcus furiosus” Biotechnology Journal (Special Issue: ECAB3 Conference) (In Press) doi: 10.1002/biot.201600152

71. Bulutoglu, B., Garcia, K.E., Wu, F., Minteer, S.D., and Banta, S. (2016) “Direct evidence for metabolon formation and substrate channeling in recombinant TCA cycle enzymes” ACS Chemical Biology 11(10) 2847–2853. doi: 10.1021/acschembio.6b00523

70. Garcia, K., Babanova, S., Sheffler, W., Hans, M., Baker, D., Atanassov, P., and Banta, S. (2016) “Designed Protein Aggregates Entrapping Carbon Nanotubes for Bioelectrochemical Oxygen Reduction” Biotechnology and Bioengineering 113(11) 2321-2327. doi: 10.1002/bit.25996

69. Hjelm, R., Garcia, E., Babanova, S., Artyushkova, K., Banta, S. and Atanassov, P. (2016) “Functional Interfaces for Biomimetic Energy Harvesting: CNTs-DNA Matrix for Enzyme Assembly” Biophysica et Biochimica Acta (Bioenergetics) (Special Issue: Biodesign for Bioenergy) 1857(5) 612-620. doi: 10.1016/j.bbabio.2015.12.012

68. Wheeldon, I.R., Minteer, S.D., Banta, S., Calabrese Barton, S., Atanassov, P., and Sigman, M. (2016) “Substrate channeling as an approach to cascade reactions” Nature Chemistry 8(4) 299-309. doi:10.1038/nchem.2459

67. Ozbakir, H.F., Sambade, D.A., Majumdar, S., Linday, L., Banta, S., and West, A.C. (2016) “Detection of 2,5-hydroxyvitamin D with an enzyme modified electrode” Journal of Biosensors and Bioelectronics 7(1) 193. doi: 10.4172/2155-6210.1000193

66. Li, X., West, A.C., and Banta, S. (2016) “Enhancing isobutyric acid production from engineered Acidithiobacillus ferrooxidans cells via media optimization” Biotechnology and Bioengineering 113(4) 790-796. doi: 10.1002/bit.25837

65. Kernan, T., Majumdar, S., Li, X., Guan, J., West, A.C., and Banta, S. (2016) “Engineering the iron-oxidizing chemolithoautotroph Acidithiobacillus ferrooxidans for biochemical production” Biotechnology and Bioengineering 113(1) 189-197 (Featured in B&B Editor’s Spotlight Section) doi: 10.1002/bit.25703

64. Lau, C., Moehlenbrock, M.J., Arechederra, R.L., Falase, A., Garcia, K., Rincon, R., Minteer, S.D., Banta, S., Gupta, G., Babanova, S. and Atanassov, P. (2015) “Paper based biofuel cells: Incorporating enzymatic cascades for ethanol and methanol oxidation” International Journal of Hydrogen Energy 40(42) 14661-14666 doi:10.1016/j.ijhydene.2015.06.108

63. Smith, J.R., Amaya, K.R., Bredemeier, R.T., Banta, S., and Cropek, D.M. (2015) “Selective biomolecular photocatalytic decomposition using peptide-modified TiO2 nanoparticles” Applied Catalysis B: Environmental 176 315-324. doi:10.1016/j.apcatb.2015.03.060

62. Patel, T.N., Park, A-H.A. and Banta, S. (2014) “Genetic Manipulation of Outer Membrane Permeability: Generating Porous Heterogeneous Catalyst Analogs in Escherichia coli” ACS Synthetic Biology 3(12) 848-854. doi: 10.1021/sb400202s

61. Li, X., Mercado, R., Berlinger, S., Banta, S. and West, A.C. (2014) “Engineering Acidithiobacillus ferrooxidans growth media for enhanced electrochemical processing” AIChE Journal 60(12) 4008-4013. doi: 10.1002/aic.14628

60. Dooley, K., Bulutoglu, B. and Banta, S. (2014) “Doubling the cross-linking interface of a rationally-designed beta roll peptide for calcium-dependent proteinaceous hydrogel formation” Biomacromolecules 15(10) 3617-3624. doi: 10.1021/bm500870a

59. Li, X., Mercado, R., Kernan, T., West, A.C., and Banta, S. (2014) “Addition of citrate to Acidithiobacillus ferrooxidans cultures enables precipitate-free growth at elevated pH and reduces ferric inhibition” Biotechnology and Bioengineering 111(10) 1940-1948. doi: 10.1002/bit.25268

58. Patel, T.N., Park, A-H.A. and Banta, S. (2014) “Surface display of small peptides on Escherichia coli for enhanced calcite (CaCO3) precipitation rates” Biopolymers (Peptide Science) 102(2) 191-196. doi:10.1002/bip.22466

57. Chandra, D., Sankalia, N., Arcibal, I., Banta, S., Cropek, D., and Karande, P. (2014) “Design of affinity peptides from natural protein ligands: A study of the cardiac troponin complex” Biopolymers (Peptide Science) 102(1) 97-106. doi: 10.1002/bip.22436

56. Patel, T.N., Swanson, E.J., Park, A-H.A. and Banta, S. (2014) “An Automated Method for Measuring the Operational Stability of Biocatalysts with Carbonic Anhydrase Activity” Biochemical Engineering Journal 82 48-52. doi:10.1016/j.bej.2013.11.003

55. Banta, S., Dooley, K., and Shur, O. (2013) “Replacing antibodies: Engineering new binding proteins” Annual Review of Biomedical Engineering 15 93-113. doi: 10.1146/annurev-bioeng-071812-152412

54. Patel, T.N., Park, A-H. A., and Banta, S. (2013) “Periplasmic expression of carbonic anhydrase in Escherichia coli: A whole-cell biocatalyst for CO2 hydration” Biotechnology and Bioengineering 110(7) 1865-1873. doi: 10.1002/bit.24863

53. Liu, F., Banta, S., and Chen, W. (2013) “Functional assembly of a multi-enzyme cascade on the surface-displayed trifunctional scaffold for enhanced NADH production” Chemical Communications 49(36) 3766-3768. doi: 10.1039/C3CC40454D

52. Shur, O., Dooley, K. Blenner, M., Baltimore, M., and Banta, S. (2013) “A designed, phase changing RTX-based peptide for efficient bioseparations” BioTechniques 54(4) 197-206. doi: 10.2144/000114010

51. Campbell, E., Chuang, S., and Banta, S. (2013) “Modular exchange of substrate-binding loops alters both substrate and cofactor specificity in a member of the aldo-keto reductase superfamily” Protein Engineering, Design and Selection 26(3) 181-186. doi: 10.1093/protein/gzs095

50. Shur, O., and Banta, S. (2013) “Rearranging and concatenating a native RTX domain to understand sequence modularity” Protein Engineering, Design and Selection 26(3) 171-180. doi: 10.1093/protein/gzs092

49. Kim, Y.H., Campbell, E., Yu, J., Minteer, S.D., and Banta, S. (2013) “Complete oxidation of methanol in biobattery devices using a hydrogel created from three modified dehydrogenases” Angewandte Chemie International Edition 52(5) 1437-1440 (Designated as a “Hot Paper” by the Editors). doi: 10.1002/anie.201207423

48. Sahin, A., Lin, W.-T., Khunjar, W.O., Chandran, K., Banta, S., and West, A.C., (2013) “Electrochemical reduction of nitrite to ammonia for use in a bioreactor” Journal of the Electrochemical Society 160(1) G19-G26. doi: 10.1149/2.042301jes

47. Khunjar, W.O., Sahin, A., West, A.C., Chandran, K., and Banta, S. (2012) “Biomass production from electricity using ammonia as an electron carrier in a reverse microbial fuel cell” PLoS ONE 7(9) e44846. doi: 10.1371/journal.pone.0044846

46. Felsovalyi, F., Patel, T., Mangiagalli, P., Kumar, S.K., and Banta, S. (2012) “Effect of thermal stability on protein adsorption to silica using homologous aldo-keto reductases” Protein Science 21(8) 1113-1125 doi: 10.1002/pro.2099

45. Dooley, K., Kim, Y.H., Lu, H.D., Tu, R., and Banta, S. (2012) “Engineering of an Environmentally Responsive Beta Roll Peptide for Use as a Calcium-Dependent Cross-Linking Domain for Peptide Hydrogel Formation” Biomacromolecules 13(6) 1758-1764. doi: 10.1021/bm3002446

44. Campbell, E., Meredith, M., Minteer, S.D., and Banta, S., (2012) “An Enzymatic biofuel cell utilizing a biomimetic cofactor” Chemical Communications 48(13) 1898-1900. doi: 10.1039/C2CC16156G

43. Holland, J.T., Lau, C., Brozik, S., Atanassov, P., and Banta, S., (2011) “Engineering of glucose oxidase for direct electron transfer via site-specific gold nanoparticle conjugation” Journal of the American Chemical Society 133(48) 19262-19265. doi: 10.1021/ja2071237

42. Wu, J., Park, J.P., Dooley, K., Cropek, D.M., West, A.C. and Banta, S. (2011) “Rapid development of new protein biosensors utilizing peptides obtained via phage display” PLoS ONE 6(10) e24948. doi: 10.1371/journal.pone.0024948

41. Sahin, A., Dooley, K., Cropek, D.M., West, A.C., and Banta, S. (2011) “A dual enzyme electrochemical assay for the detection of organophosphorus compounds using organophosphorus hydrolase and horseradish peroxidase” Sensors and Actuators B: Chemical 158(1) 353-360. doi: 10.1016/j.snb.2011.06.034

40. Felsovalyi, F., Mangiagalli, P., Bureau, C., Kumar, S.K., and Banta, S. (2011) “Reversibility of the Adsorption of Lysozyme on Silica” Langmuir 27(19) 11873-11882. doi: 10.1021/la202585r

39. Szilvay, G.R., Brocato, S., Ivnitski, D., Li, C., De La Iglesia, P., Lau, C., Chi, E., Werner-Washburne, M., Banta, S., and Atanassov, P. (2011) “Engineering of a redox protein for DNA-directed assembly” Chemical Communications 47(26) 7464-7466. doi: 10.1039/C1CC11951F

38. Kang, W.H., Simon, M.J., Gao, S., Banta, S., and Morrison III, B. (2011) “Attenuation of astrocyte activation by TAT mediated-delivery of a peptide JNK inhibitor” Journal of Neurotrauma 28(7) 1219-1228. doi: 10.1089/neu.2011.1879

37. Shur, O., Wu, J., Cropek, D.M., and Banta, S. (2011) “Monitoring the conformational changes of an intrinsically disordered peptide using a Quartz Crystal Microbalance” Protein Science 20(5) 925-930. doi: 10.1002/pro.625

36. Gao, S., Simon, M.J., Hue, C.D., Morrison III, B., and Banta, S. (2011) “An unusual cell penetrating peptide identified using a plasmid display-based functional selection platform” ACS Chemical Biology 6(5) 484-491 (Recommended by Faculty of 1000, Featured in Biotechniques News). doi: 10.1021/cb100423u

35. Simon, M.J., Kang, W.H., Gao, S., Banta, S., and Morrison III, B. (2011) “TAT is not capable of transcellular delivery across an intact endothelial monolayer in vitro” Annals of Biomedical Engineering 39(1) 394-401. doi: 10.1007/s10439-010-0144-x

34. Glykys, D.J., Szilvay, G.R., Tortosa, P., Suarez Diez, M., Jaramillo, A., and Banta, S. (2011) “Pushing the limits of automatic computational protein design: computational design, expression, and characterization of a large synthetic protein based on a fungal laccase scaffold” Systems and Synthetic Biology 5(1-2) 45-58. doi: 10.1007/s11693-011-9080-9

33. Gao, S., Simon, M.J., Morrison III, B., and Banta, S. (2010) “A plasmid display platform for the selection of peptides exhibiting a functional cell-penetrating phenotype” Biotechnology Progress 26(6) 1796-1800. doi: 10.1002/btpr.490

32. Simon, M.J., Kang, W.H., Gao, S., Banta, S., and Morrison III, B. (2010) “Increased delivery of TAT across an endothelial monolayer following ischemic injury” Neuroscience Letters 486(1) 1-4. doi: 10.1016/j.neulet.2010.09.029

31. Wu, J., Cropek, D.M., West, A.C. and Banta, S. (2010) “Development of a troponin I biosensor using a peptide obtained through phage display” Analytical Chemistry 82(19) 8235-8243. doi: 10.1021/ac101657h

30. Campbell, E., Wheeldon, I.R., and Banta, S. (2010) “Broadening the cofactor specificity of a thermostable alcohol dehydrogenase using rational protein design introduces novel kinetic transient behavior” Biotechnology and Bioengineering 107(5) 763-774. doi: 10.1002/bit.22869

29. Lu, H.D., Wheeldon, I.R., and Banta, S. (2010) “Catalytic biomaterials: Engineering organophosphate hydrolase to form self-assembling enzymatic hydrogels” Protein Engineering, Design and Selection 23(7) 559-566. doi: 10.1093/protein/gzq026

28. Blenner, M.A., Shur, O., Szilvay, G.R., Cropek, D.M., and Banta, S. (2010) “Calcium-induced folding of a beta roll motif requires C-terminal entropic stabilization” Journal of Molecular Biology 400(2) 244-256. doi: 10.1016/j.jmb.2010.04.056

27. Banta, S., Wheeldon, I.R., and Blenner, M. (2010) “Protein engineering in the development of functional hydrogels” Annual Review of Biomedical Engineering 12 176-186. doi: 10.1146/annurev-bioeng-070909-105334

26. Park, J.P., Cropek, D.M., and Banta, S. (2010) “High affinity peptides for the recognition of the heart disease biomarker troponin I using phage display” Biotechnology and Bioengineering 105(4) 678-686. doi: 10.1002/bit.22597

25. Szilvay, G.R., Blenner, M.A., Shur, O., Cropek, D.M., and Banta, S. (2009) “A FRET-based method for probing the calcium-dependent conformational behavior of an intrinsically disordered beta roll domain from the Bordetella pertussis adenylate cyclase” Biochemistry 48(47) 11273-11282. doi: 10.1021/bi901447j

24. Wheeldon, I.R., Campbell, E. and Banta, S. (2009) “A chimeric fusion protein engineered with disparate functionalities— enzymatic activity and self assembly” Journal of Molecular Biology 392(1) 129-142. doi: 10.1016/j.jmb.2009.06.075

23. Chockalingam, K., Lu, H.D., and Banta, S. (2009) “Development of a bacteriophage-based system for the selection of short structured peptides” Analytical Biochemistry 388(1) 122-127. doi: 10.1016/j.ab.2009.01.042

22. Simon, M.J., Gao, S., Kang, W.H., Banta, S., and Morrison III, B. (2009) “TAT-mediated intracellular protein delivery to primary brain cells is dependent on glycosaminoglycan expression” Biotechnology and Bioengineering 104(1) 10-19. doi: 10.1002/bit.22377

21. Gao, S., Simon, M.J., Morrison III, B., and Banta, S. (2009) “Bifunctional chimeric fusion proteins engineered for DNA delivery: Optimization of the protein to DNA ratio” Biochimica et Biophysica Acta (General Subjects) 1790(3) 198-207. doi: 10.1016/j.bbagen.2009.01.001

20. Glykys, D.J., and Banta, S. (2009) “Metabolic control analysis of an enzymatic biofuel cell” Biotechnology and Bioengineering 102(6) 1624-1635. doi: 10.1002/bit.22199

19. Chen, X.J., West, A.C., Cropek, D.M., and Banta, S. (2008) “Detection of the superoxide radical anion using various alkanethiol monolayers and immobilized cytochrome c” Analytical Chemistry 80(24) 9622-9629. doi: 10.1021/ac800796b

18. Wheeldon, I.R., Gallaway, J.W., Calabrese Barton, S., and Banta, S. (2008) “Bioelectrocatalytic hydrogels from electron-conducting metallopolypeptides coassembled with bifunctional enzymatic building blocks” Proceedings of the National Academy of Sciences of the United States of America 105(40) 15275-15280. doi: 10.1073/pnas.0805249105

17. Blenner M.A., and Banta, S. (2008) “Characterization of the 4D5Flu single chain antibody with a stimulus-responsive elastin-like peptide linker: A potential reporter of peptide linker conformation” Protein Science 17(3) 527-536. doi: 10.1110/ps.073257308

16. Gallaway, J., Wheeldon, I.R., Rincon, R., Atanassov, P., Banta, S., and Calabrese Barton, S. (2008) “Oxygen-Reducing Enzyme Cathodes Produced from SLAC, a Small Laccase from Streptomyces coelicolor, For Use at Neutral pH” Biosensors and Bioelectronics 23(8) 1229-1235. doi: 10.1016/j.bios.2007.11.004

15. Atanassov, P., Apblett, C., Banta, S. Brozik, S., Calabrese Barton, S., Cooney, M., Liaw, B. Y., Mukerjee, S., and Minteer, S.D. (2007) "Enzymatic Biofuel Cells" Interface 16(2) 28-31

14. Wheeldon, I.R., Calabrese Barton, S., and Banta, S. (2007) “Bioactive Proteinaceous Hydrogels from Designed Bi-functional Building Blocks” Biomacromolecules 8(10) 2990-2994. doi: 10.1021/bm700858p

13. Chockalingam, K., Blenner, M., and Banta, S. (2007) “Design and Application of Stimulus-Responsive Peptide Systems” Protein Engineering, Design and Selection 20(4) 155-161. doi: 10.1093/protein/gzm008

Harvard University (7 Total)

12. Casali, M., Banta, S., Zambonelli, C., Megeed, Z., and Yarmush, M.L. (2008) ”Site-directed mutagenesis of the hinge peptide from the Hemagglutinin protein: Enhancement of the pH-responsive conformational change” Protein Engineering, Design and Selection 21(6) 395-404. doi: 10.1093/protein/gzn018

11. Banta, S.*, Megeed, Z.*, Casali, M., Rege, K., and Yarmush, M.L. (2007) “Engineering Protein and Peptide Building Blocks for Nanotechnology” Journal of Nanoscience and Nanotechnology 7(2) 387-401 (*co-first authors). doi: 10.1166/jnn.2007.153

10. Banta, S.*, Vemula, M.*, Yokoyama, T., Jayaraman, A., Berthiaume, F., and Yarmush, M.L. (2007) “Contribution of Gene Expression to Metabolic Fluxes in Hypermetabolic Livers Induced Through Burn Injury and Cecal Ligation and Puncture in Rats” Biotechnology and Bioengineering 97(1) 118-137 (*co-first authors) (Featured in Editor’s Spotlight ). doi: 10.1002/bit.21200

9. Banta, S., Yokoyama, T., Berthiaume, F., and Yarmush, M.L. (2005) “Effects of Dehydroepiandrosterone administration on rat hepatic metabolism following thermal injury” Journal of Surgical Research 127(2) 93-105. doi: 10.1016/j.jss.2005.01.001

8. Yokoyama, T., Banta, S., Berthiaume, F., Nagrath, D., Tompkins, R.G., and Yarmush, M.L. (2005) “Evolution of intrahepatic carbon, nitrogen, and energy metabolism in a D-galactosamine-induced rat liver failure model” Metabolic Engineering 7(2) 88-103. doi: 10.1016/j.ymben.2004.09.003

7. Banta, S., Yokoyama, T., Berthiaume, F., and Yarmush, M.L. (2004) “Quantitative effects of thermal injury and insulin on the metabolism of the skeletal muscle using the perfused rat hindquarter preparation” Biotechnology and Bioengineering 88(5) 613-629. doi: 10.1002/bit.20258

6. Yarmush, M.L. and Banta, S. (2003) “Metabolic Engineering: Advances in Modeling and Intervention in Health and Disease” Annual Review of Biomedical Engineering 5 349-381. doi: 10.1146/annurev.bioeng.5.031003.163247

Rutgers University (5 Total)

5. Sanli, G., Banta, S., Anderson, S., and Blaber, M. (2004) “Structural alteration of cofactor specificity in Corynebacterium 2,5-diketo-D-gluconic acid reductase” Protein Science 13(2) 504-512. doi: 10.1110/ps.03450704

4. Banta, S., Boston, M., Jarnagin, A., and Anderson, S. (2002) “Mathematical modeling of in vitro enzymatic production of 2-keto-L-gulonic acid using NAD(H) or NADP(H) as cofactors” Metabolic Engineering 4(4) 273-284. doi: 10.1006/mben.2002.0231

3. Banta, S., and Anderson, S. (2002) “Verification of a novel NADH-binding motif: Combinatorial mutagenesis of three amino acids in the cofactor binding pocket of Corynebacterium 2,5-diketo-D-gluconic acid reductase” Journal of Molecular Evolution 55(6) 623-631. doi: 10.1007/s00239-002-2345-x

2. Banta, S., Swanson, B.A., Wu, S., Jarnagin, A., and Anderson, S. (2002) “Optimizing an artificial metabolic pathway: Engineering the cofactor specificity of Corynebacterium 2,5-diketo-D-gluconic acid reductase for use in vitamin C biosynthesis” Biochemistry 41(20) 6226-6236. doi: 10.1021/bi015987b

1. Banta, S., Swanson, B.A., Wu, S., Jarnagin, A., and Anderson, S. (2002) “Alteration of the specificity of the cofactor-binding pocket of Corynebacterium 2,5-diketo-D-gluconic acid reductase A” Protein Engineering 15(2) 131-140. (Featured on cover) doi: 10.1093/protein/15.2.131

Book Chapters and Other Articles (3 Total)

Campbell, E., and Banta, S. (2014) “Protein Engineering for Enzymatic Fuel Cells” Enzymatic Fuel Cells: From Fundamentals to Applications Edited by H.R. Luckarifft, P.B. Atanassov and G.R. Johnson, Wiley & Sons

Banta, S. (2006) "Protein Engineering" The Biomedical Engineering Handbook, 3rd Ed, Edited by J.D. Bronzino, CRC Press, Boca Raton, Florida.

Banta, S. and Zupke, C. (2006) "Metabolic Engineering" The Biomedical Engineering Handbook, 3rd Ed, Edited by J.D. Bronzino, CRC Press, Boca Raton, Florida.