Cell Culture and Fermentation
Optimization Lab
Refereed Journal Publications
These articles may be found online at Pubmed or located using the links below.
  1. Baig, F., Fernando, L.P., Salazar, M.A., Powell, R.R., Bruce, T.F., Harcum, S.W. Dynamic Transcriptional Response of Escherichia coli to Inclusion Body Formation, Biotechnology and Bioengineering. (2014). Early view online. doi: 10.1002/bit.25169. 24338599
  2. Gowtham, Y.K., Miller, K.P., Hodge, D.B., Henson, J.M., Harcum, S.W. A novel two-stage fermentation process for bioethanol production using Saccharomyces pastorianus, Biotechnology Progress. (2014).Early view online. doi: 10.1002/btpr.1850. 24376155
  3. Salazar, M.A., Fernando, L.P., Baig, F., Harcum, S.W. The effects of protein solubility on the RNA Integrity Number (RIN) for recombinant Escherichia coliBiochemical Engineering Journal. 79: 129-135 (2013). doi: 10.1016/j.bej.2013.07.011. 24151430
  4. Brodsky, A.N., Zhang, J., Visconti, R.P., and Harcum, S.W. Expansion of mesenchymal stem cells in atmospheric carbon dioxide, 
    Biotechnology Progress29(5): 1298–1306 (2013). doi: 10.1002/btpr.1782. 23894049
  5. Brodsky, A. N., Caldwell, M., and Harcum, S. W. Glycosylation and post-translational modification gene expression analysis by DNA microarrays for cultured mammalian cells, Methods 56: 408-412 (2012) (INVITED). 22033470
  6. Wuest, D. M.,. Harcum, S. W, and Kelvin H. Lee, K. H. Genomics in Mammalian Cell Culture Bioprocessing, , Advances in Biotechnology 30: 629-638 (2012). (INVITED). 22079893
  7. Miller, K. P., Gowtham, Y. K., Henson, J. M., and Harcum, S. W.  Xylose isomerase improves growth and ethanol production rates from biomass sugars for both Saccharomyces pastorianus and Saccharomyces cerevisiae, Biotechnology Progress (online). doi/10.1002/btpr.1535. 22866331
  8. Haddadin, F. T., Kurtz, H. and Harcum, S. W. Serine Hydroxamate and the Transcriptome of High Cell Density Recombinant Escherichia coli MG1655, Applied Biochemistry and Biotechnology, 157: 124-139 (2009). 18612598
  9. Sharma, S. S., Campbell, J. W., Frisch, D., Blattner, F. R., and Harcum, S. W. Expression of two recombinant chloramphenicol acetyltransferase variants recombinant in highly reduced genome Escherichia coli strains, Biotechnology and Bioengineering, 98: 1056-1070 (2007). 17497738
  10. Chen, P., and Harcum, S. W. Identification of genes sensitive to ammonium in CHO cell cultures using a differential display, Applied Biochemistry and Biotechnology, 141: 349–360 (2007). 18025561
  11. Sharma, S. S., Blattner, F. R., and Harcum, S. W., Robustness of multiple-deletion E. coli strain under bioprocess conditions, Metabolic Engineering 9: 133-141 (2007).
  12. Posfai, G., Plunkett III, G., Feher, T., Frisch, D., Keil, G., Umenhoffer, K., Kolisnychenko, V., Stahl, B., Sharma, S. S., de Arruda, M., Burland, V., Harcum, S. W., Blattner, F. R., Emergent Properties of Reduced-Genome Escherichia coli, Science, 312: 1044-1046 (2006). 16645050
  13. Sharma, S. S., Chong, R., Harcum, S. W. Intein-mediated protein purification of fusion proteins expressed under high-cell-density conditions in E. coli, Journal of Biotechnology. 125: 48-56(2006). 16546284
  14. Harcum, S. W. and Haddadin, F. T., Global transcriptome response to heat-shock and dual heat-shock recombinant protein induction in Escherichia coli, Journal of Industrial Microbiology and Biotechnology. 33: 801-814 (2006). 16680459
  15. Chen, P., and Harcum, S. W. Effects of elevated ammonium on glycosylation gene expression in CHO cells, Metabolic Engineering, 8: 123-132 (2006). 16380282
  16. Sharma, S. S., Chong, R., Harcum, S. W. Simulation of the Large-Scale Production of a Soluble Recombinant Protein Expressed in Escherichia coli Using an Intein-Mediated Purification System, Applied Biochemistry and Biotechnology, 126:93-117(2005). 16118465
  17. Chen, P., and Harcum, S. W. Effects of amino acid additions on ammonium stressed CHO cells, Journal of Biotechnology, 117: 277-286 (2005). 15862358
  18. Clark, J.-R. Griffiths, J. Bailey, K. B.,  Harcum, S. W.Development of Method to Quantify Gene Expression Levels for Glycosylation Pathway Genes in CHO Cell Cultures, Applied Biochemistry and Biotechnology, 125: 159-173 (2005). 15917580
  19. Clark, K. J. R., Bailey, K. M., and Harcum, S. W. Effect of galactose feeding on mRNA expression levels in the glycosylation pathway for CHO expressing recombinant IL-4/13 cytokine trap, Biotechnology and Bioengineering, 90: 568-577 (2005). 15818560
  20. Haddadin, F. T., and Harcum, S. W. Transcriptome profiles for high-cell density recombinant and wild-type Escherichia coli, Biotechnology and Bioengineering, 90: 127-153 (2005). 15742388
  21. Clark, K. J. R., Chaplen, F. W. R., Harcum, S. W. Temperature Effects on Product Quality Related Enzymes in Batch tPA CHO Cells, Biotechnology Progress. 20: 1888-1892 (2004). 15575729
  22. Sharma, S. S., Zhang, A., Wang, H., Harcum, S. W., Chong, S. Study of Protein Splicing and Intein-mediated Peptide Bond Cleavage Under High-Cell-Density Conditions, Biotechnology Progress 19: 1085-1095 (2003). 12790686
  23. Jordan, G. L., and Harcum, S. W. Characterization of Up-regulated Proteases in an Industrial Recombinant Escherichia coli Fermentation, Journal of Industrial Microbiology and Biotechnology 28: 74-80 (2002). 12074055
  24. Harcum, S. W. Structured model to predict intracellular amino acid shortages during recombinant protein overexpression in E. coli, Journal of Biotechnology 93: 189-202 (2002). 11755983
  25. Barragan, M. H., and S. W. Harcum. Bioremediation of Acid Mine Drainage via Selective Removal of Metal Ions, Radioactive Waste Management and Environmental Restoration 22: 205-222 (2000).
  26. Marulanda, A. L. B., and Harcum, S. W. Removal of copper and aluminum from solution by immobilized Cyanidium caldarium, Radioactive Waste Management and Environmental Restoration 22: 223-237 (2000).
  27. Yoo, S. D., and Harcum, S. W.Xanthan Gum Production from Waste Sugar Beet Pulp, Bioresource Technology 70: 105-109 (1999). Abstract
  28. Harcum, S. W., and Bentley, W. E. The Heat-Shock and Stringent Responses have Overlapping Protease Activity in Recombinant Escherichia coli: Implications for Heterologous Protein Yield, Applied Biochemistry and Biotechnology 80: 23-37 (1999). 10394618
  29. Harcum, S. W. Cleaning up Acid Mine Drainage with Microbes, New Mexico Journal of Science, 37: 108-118 (1997).
  30. Harcum, S. W., and Bentley, W. E. Response Dynamics of 26-, 34-, 39-, 54-, and 80-kDa Proteases in Induced Cultures of Recombinant Escherichia coli, Biotechnology and Bioengineering 42: 675-685 (1993). 18613100
  31. Harcum, S. W., and Bentley, W. E. Protease Detection, Characterization, and Quantification in Recombinant Escherichia coli, Biotechnology Techniques 7: 441-447 (1993). Abstract
  32. Harcum, S. W., Dale, B. E., and Seely, R. J. Renaturation of Recombinant Secretory Leukocyte Protease Inhibitor: Aspects of Disulfide Bond Formation Kinetics, Biotechnology Letters 15: 943-948 (1993). Abstract
  33. Harcum, S. W., Ramírez, D. M., and Bentley, W. E. Optimal Nutrient Feed Policies for Heterologous Protein Production, Applied Biochemistry and Biotechnology 34/35: 161-173 (1992). Abstract
Refereed Book Chapters
  1. Harcum, S. (2008) Purification of protein solutions, In Biologically inspired  textiles, Eds. Ellison, M.S., Abbott, A., Woodhead Publishing, Cambridge.
  2. Harcum, S. W. (2006) Protein Glycosylation, In Cell Culture Technology for Pharmaceutical and Cellular-based Therapies, Eds. S. Ozturk and W. S. Hu, Taylor Francis, New York.
  3. Wood, D., Harcum, S. W., and Belfort, G. (2005) Engineering Applications and Future of Inteins, In Homing Endonucleases and Inteins, Eds. M. Belfort, V. Derbyshire, B. L. Stoddard, D. W. Wood, Springer-Verlag.
  4. Andersen, P. K. and Harcum, S. W. (2001) Chemical Engineering Principles, In Handbook of Water Pollution and Waster Minimization, Ed. A. Ghassemi, Marcel Dekker, New York.
Presentations
  1. Gowtham, Y.K.*, Saski, C., Harcum, S.W.* (2014) Transcriptome analysis of Chinese hamster ovary (CHO) cells undergoing serum-free medium adaptation using RNA-Seq, 247th American Chemical Society National Meeting & Exposition, March, Dallas, TX (oral presentation).
  2. Caldwell, T.C., Harcum, S.W.* (2014) Characterization of a novel two-stage fermentation process for ethanol production from lignocellulosic materials, 247th American Chemical Society National Meeting & Exposition, March, Dallas, TX (oral presentation).
  3. Brodsky, A. N. and Harcum, S. W.* (2012) Growth and Differentiation of  Mesenchymal Stem Cells in a Novel Media Under Atmospheric Carbon Dioxide Conditions, Cell Culture Engineering XIII, April, Scottsdale, AZ (poster).
  4. Brodsky, A. N.* and Harcum, S. W. (2012) Development of buffer supporting mesenchymal stem cell growth in atmospheric carbon dioxide, 243rd American Chemical Society National Meeting & Exposition, March, San Diego, CA (oral presentation).
  5. Gowtham, Y. K.*, Miller K. P., Henson, J. M., Harcum, S. W. (2012) Production of ethanol from Saccharomyces pastoranius on biomass sugars using a two-stage fermentation process, 243rd American Chemical Society National Meeting & Exposition, March, San Diego, CA (poster).
  6. Miller K.P. *, Caldwell, T., Henson, J.M., Harcum, S. W.  (2011) Ethanol production from biomass sugars by the yeast Saccharomyces pastorianus, 61st Annual Meeting of the Society for Industrial Microbiology, July, New Orleans.
  7. Gowtham, Y.*, Miller K.P. *, Henson, J.M., Harcum, S. W. (2011) A comparison of production of ethanol from Saccharomyces cerevisiae and Saccharomyces pastoranius on xylose, 61st Annual Meeting of the Society for Industrial Microbiology, New Orleans.
  8. Salazar, M.A.*, and Harcum, S.W. (2008) Finding conditions to untangle the recombinant protein inclusion body mess in Escherichia coli, 236th ACS National Meeting, August, Philadelphia, PA.
  9. Harcum, S. W., and Caldwell, M. L. (2007) Bottlenecks in influenza vaccine production in alternative hosts, Immunobiology of Influenza Virus Infection: Approaches for an Emerging Zoonotic Disease, Athens, GA, August.
  10. Harcum, S. W. (2007) Human Genetics: Leveraging the Resources of Clemson University and the Greenwood Genetic Center, Charleston, SC, Science Advisory Board Meeting of the Institute of Nutraceutical Research, June 22 (INVITED).
  11. Harcum, S. W. (2007) Gene expression changes in E. coli due to fermenter stresses, New England BioLabs, Beverly, MA, April 4 (INVITED).
  12. Harcum, S. W. (2007) Gene expression changes in mammalian cells under bioreactor conditions, Pfizer, St. Louis, MO, April 2 (INVITED).
  13. Harcum, S. W.*; Caldwell, M. F. (2006) Effects of ammonium on glycosylation-related gene expression in NS0 cells, 232th ACS National Meeting, September, San Francisco, CA
  14. Blattner, F. R.*, Campbell, J., Frisch, D., de Arruda, M., Burland, V., Plunkett III, G., Harcum, S., Kim, S.-C., Pósfai, G., (2006) Clean, IS-free E. coli: a Safe, Stable Platform for Production and Delivery of Biopharmaceuticals, ASM Biodefense Annual Meeting; Washington DC, February.
  15. Harcum, S. W. (2005) Effects of process changes on glycoprotein quality, Joint FDA/NIST/New York Academy of Science Workshop on Follow-On Biologics, New York, NY, December (INVITED).
  16. Chen, P.* Harcum, S. W. (2005) The effects of elevated ammonium on gene expression in CHO cells producing a glycoprotein, Society for Glycobiology Conference, Boston, MA, November.
  17. Sharma, S. S., and Harcum, S. W.* (2005) The feasibility of multiple-deletion E. coli strains to produce recombinant proteins at high-cell densities, Thirteenth International Microbial Genome Conference, Madison, WI, September 2005.
  18. Chen, P.* Harcum, S. W. (2005), Ammonia toxicity on CHO cells glycosylation and metabolism, 229th ACS National Meeting, March, San Diego, CA.
  19. Sharma, S. S.* Blattner, F., Harcum, S. W. (2005) Application of reduced genome Escherichia coli strains without transposable elements to the production of recombinant protein, 229th ACS National Meeting, March, San Diego, CA.
  20. Sharma, S. S.* Pósfaí, G., Frisch, D., Keil, G., Blattner, F., Harcum, S. W. (2004) Analysis of Multiple-Deletion Strains Expressing a Recombinant Protein, AIChE National Meeting, Austin, TX.
  21. Harcum, S. W.* Clark, K. J.-R Gene Expression Analysis of Glycosylation Pathway Enzymes for Galactose-Fed CHO cells (2004), Cambridge Healthtech Institute’s 2nd Annual Glycomics: Carbohydrates in Drug Development, April, Cambridge, MA (INVITED).
  22. Sharma, S. S.* S. W. Harcum (2004) Feasibility of a multiple-deletion Escherichia coli strain to produce recombinant proteins, 227th ACS National Meeting, March, Anaheim, CA
  23. Chen, P.* S. W. Harcum (2004), Ammonia toxicity on CHO cells glycosylation and metabolism, 227th ACS National Meeting, March, Anaheim, CA
  24. Clark, K. J.-R. and Harcum, S. W.*, Harris, B. P., Bailey K. M. (2003) Cloning and Functional Characterization of a Novel CHO Sialyltransferase, Oral Presentation, AIChE National Meeting, San Francisco, CA.
  25. Haddadin, F. T. and S.W. Harcum* (2003) Genetic Response of Recombinant Escherichia coli Subjected to Heat-Shock and Dual Heat-Shock/Induction, Oral Presentation, AIChE National Meeting, San Francisco, CA.
  26. Haddadin, F. T. and S. W. Harcum* (2003) Genetic Expression Analysis of Recombinant Escherichia coli Subjected to a Chemically-Induced Stringent Response, Poster Presentation, AIChE National Meeting, San Francisco, CA.
  27. Sharma, S. S., Harcum, S. W.* (2003) Simulation of the Large-scale Production of Recombinant Alpha-1-Antitrypsin Expressed in E. coli Using The IMPACT® System, Oral Presentation, AIChE National Meeting, San Francisco, CA.
  28. Clark, K. J.-R.* and Harcum, S. W. (2003) Bottleneck analysis of protein glycosylation, ACS Annual Meeting, New Orleans, March.
  29. Sharma, S. S.*, Chong, S., Harcum, S. W. (2002) Study of protein splicing and intein-mediated protein purification in high-cell-density recombinant Escherichia coli fermentation, ACS Annual Meeting, Boston, August.
  30. Clark, K. J.-R.* and Harcum, S. W. (2002) Comparison of glycosylation gene levels in CHO perfusion and batch cultures, ACS Annual Meeting, Boston, August.
  31. Chen, P.*, Harcum, S. W. (2002) Construction and utilization of a DNA microarray for CHO cells, Poster, ACS Annual Meeting, Boston, August.
  32. Clark, K. J.-R.* and Harcum, S. W. (2001) The Regulation of Key CHO Glycosylation Genes Effect Product Quality in a Temperature Dependent Manner, AIChE Annual Meeting, Reno, NV, November.
  33. Southwest Genomics and Biotechnology Alliance (GABA), “Recombinant protein expression effects on gene expression”, Albuquerque, NM, March 22, 2000 (INVITED).
  34. Texas A & M University, College Station, “Proteases in recombinant E. coli: A process control problem”, Department of Chemical Engineering, March 3, 2000 (INVITED).
  35. NMSU, Department of Biology, “Induction of proteases in E. coli”, October 28, 1999.
  36. Instituto Tecnologico y de Estudios Superiores de Monterrey, Centro de Biotecnologia, “What causes protease upregulation in recombinant E. coli”, Monterrey, Mexico, September 21, 1999 (INVITED).
  37. Jordan, G. L.* and Harcum, S. W. (1999) Characterization of proteases induced in a industrial recombinant protein fermentation, AIChE Annual Meeting, Dallas, November.
  38. Clark, K. J.-R.* and Harcum, S. W. (1999) Amino acid depletion model and experimental validation in recombinant E. coli, AIChE Annual Meeting, Dallas, November.
  39. Clark, K. J.-R. , Haddadin, F. T., Ortega, L. H.°, Perea, J. A.°, and Harcum, S. W.* (1999) Amino acid depletion model and experimental validation for recombinant E. coli, Biochemical Engineering XI, Engineering Foundation, Salt Lake City, UT, July 1999.
  40. Harcum, S. W.*, M. M. Montoya, N. Boyle°, and D. Topley° (1998) Model Validation for Predicted Amino Acid Depletion Trends in Recombinant E. coli, paper presentation, AIChE Annual Meeting, Miami, November.
  41. University of Arkansas, “Protease Induction in Recombinant E. coli”, October 1998 (INVITED).
  42. Regeneron Pharmaceuticals, Inc., “Metabolic modeling of amino acid depletions in recombinant E. coli”, June 1998 (INVITED).
  43. Los Alamos National Laboratories (LANL) at NMSU, “Bioscience and Biotechnology at NMSU”, June 1998 (INVITED).
  44. University of New Mexico, Chemical and Nuclear and Engineering Department, “Bioremediation of Acid Mine Drainage via Algal Biomass”, April 1998 (INVITED).
  45. Harcum, S. W.*, and W. E. Bentley (1998) Overlapping Protease Activity in Recombinant Escherichia coli: Implication for Protein Yields, ACS Annual Meeting, Boston, August.
  46. Marulanda Batista, A. L., and S. W. Harcum* (1998) Removal of Metal Ions from Acid Mine Drainage by Immobilized Algal Biomass, WERC/HRSC/NMHWMS ‘98 Joint Conference on the Environment, Albuquerque, NM, April.
  47. Barragan, M. H., and S. W. Harcum* (1998) Feasibility of using Cyanidium caldarium to Remediate Copper from Acid Mine Drainage, WM’98 Symposium, Tucson, AZ, March.
  48. Harcum, S. W.*, and W. E. Bentley (1997) Heterologous Protein Expression, the Heat-Shock Response, and the Stringent Response in Recombinant Escherichia coli  Have Overlapping Protease Activity, Engineering Foundation, Biochemical Engineering X, Calgary, Canada, May.
  49. Barragan, M. H., J. Stephens°, M. M. Montoya, and S. W. Harcum* (1997) Bioremediation of Acid Mine Drainage via Selective Removal of Metal Ions, Waste-Management Education and Research Consortium/Hazardous Substance Research Consortium Conference, Albuquerque, NM, April.
  50. Harcum, S. W.*, M. M. Montoya, R. Suriyanarayanan, and M. Bonner° (1996) Modeling Amino Acid Depletion During Foreign Protein Expression in Recombinant E. coli, paper presentation, AIChE Annual Meeting, Chicago, November.
  51. Harcum, S. W.*, and R. Suriyanarayanan (1996) A Predictive Model for Amino Acid Depletion in Recombinant E. coli, paper presentation, ACS Annual Meeting, New Orleans, LA, March.
  52. Genetics Institute, “Stress response dynamics in recombinant E. coli”, May 1996 (INVITED).
  53. NMSU, Department of Biology, “Stress proteases in recombinant E. coli”, Fall 1995.
  54. NMSU, Molecular Biology Program, “In search of B-cell genes p80 and Lyb5”, Fall 1995.
  55. Pulliam, T. R.*, D. M. Ramírez, S. W. Harcum, and W. E. Bentley (1995) Protease Activities Indicative of Cellular Stress in E. coli — Impact on Heterologous Protein Yield, 209th ACS National Meeting, poster presentation, Anaheim, CA.
  56. Ramírez, D. M., T. R. Pulliam, S. W. Harcum, and W. E. Bentley* (1994) Towards Optimal Expression in E. coli through Coordination of Metabolism and Cellular Stress, paper presentation, BioEast ‘94, Washington, DC, January.
  57. Harcum, S. W.*, and W. E. Bentley (1992) Host Cell Responses for Induced Gene Expression:  Experimental Analysis and Theory, paper presentation, AIChE Annual Meeting, Miami, FL, November.
  58. Harcum, S. W.*, and W. E. Bentley (1992) Protease Detection, Characterization, and Quantification in Recombinant Escherichia coli, poster presentation, Society for Industrial Microbiology Fall Meeting, Baltimore, MD, September.
  59. Harcum, S. W.*, and W. E. Bentley (1992) Protease Detection, Characterization, and Quantification in Recombinant Escherichia coli, poster presentation, Ninth International Biotechnology Symposium, Crystal City, VA, August.
  60. Harcum, S. W., D. M. Ramírez, and W. E. Bentley* (1991) Optimal Nutrient Feed Policies for Heterologous Protein Production, Thirteenth Symposium on Biotechnology for Fuels and Chemicals, paper presentation, Colorado Springs, CO, May.
  61. Harcum, S. W.*, and W. E. Bentley (1990) Heterogeneous Overexpression Characteristics in Recombinant Bacterial Cultures, Mid-Atlantic Biochemical Engineering Conference, poster presentation, Charlottesville, VA, February.
  62. Jachim, S. W.*, T. Eisfeld°, A. Sakoda, H. Y. Wang (1988) An Improved Engineering Method for Microencapsulating Mammalian Cells, poster presentation, AIChE National Meeting, Washington, DC, November.
  63. Wang, Henry Y.*, S. W. Jachim, I. Tsao, S. Nigam, A. Sakoda (1988) Microencapsulation of Mammalian Cells — Microenvironmental Considerations, paper presentation, ACS Fall Meeting, Los Angeles, California, September.
  64. Jachim, S. W.*, and B. E. Dale (1988) Renaturation Kinetics of Recombinant Secretory Leucoprotease Inhibitor, poster presentation, 18thAnnual Biochemical Engineering Conference, Estes Park, Colorado, April.
  65. Jachim, S. W.* (1987) Renaturation of SLPI — A Protease Inhibitor, paper presentation, Colorado Biochemical Engineering Conference, Boulder, Colorado, October.

Name change to S. W. Harcum from S. W. Jachim 1989.  *Speaker, ° Undergraduates    

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