Charles Miller
Biological Engineering
Associate Professor
Contact Information
Office Location: ENGR 402UPhone: 435-797-2593
Email: charles.miller@usu.edu
Additional Information:
Awards
Sims, R. C. and Miller, C. D. (Co-PI), 2021-2024. Synergistic Municipal Wastewater Treatment using a Rotating Algae Biofilm Reactor. Department of Energy (DOE) Office of Energy Efficiency and Renewable Energy (EERE). $2,300,000, 2021
DOE
Master Student Researcher of the Year Mentor, 2023
College of Engineering
Outstanding Teacher of the Year, 2023
Department of Biological Engineering
First place Graduate Poster, 2023
IBE
Undergraduate Researcher of the Year Mentor, 2022
College of Engineering
Best Research Poster Undergraduate , 2021
Intermountain Biological Engineering Conference
Outstanding Undergraduate Research Mentor, College of Engineering, 2021
USU College of Engineering
Outstanding Undergraduate Research Mentor, Biological Engineering Department, 2021
Biological Engineering Department
Second Place Poster Award, 2020
Intermountain Biological Engineering Conference
Outstanding PhD Scholar mentor, 2019
College of Engineering
Outstanding PhD Scholar mentor, 2019
Department of Biological Engineering
Outstanding Teacher of the Year, 2019
Biological Engineering Department
Outstanding PhD Scholar mentor, 2018
College of Engineering
Outstanding PhD Scholar mentor, 2018
Department of Biological Engineering
USU Faculty Service Award, Robins Award Finalist, 2018
USU
Faculty Service Award, College of Engineering, 2018
USU College of Engineering
Faculty Service Award, College of Engineering, 2018
Biological Enginereing Department
Outstanding Teacher, Department of Biological Engineering, 2017
Department of Biological Engineering
iGEM Silver medal, 2015
International genetically Engineered Machine competition
Outstanding Undergraduate Faculty Advisor, 2015
USU Department of Biological Engineering
Outstanding Undergraduate Research Faculty Mentor Award, 2015
College of Engineering
Gold Medal, 2014
iGEM
Gold Medal, 2013
iGEM
Outstanding Teacher, 2012
Biological Engineering
Best Manufacturing Project, 2012
iGEM World Championship-MIT
Best Engineered Biobrick Device, 2012
iGEM
iGEM Gold Medal, 2012
international Genetically Engineered Machine Competition
Outstanding Graduate Advisor, 2011
Biological Engineering
Outstanding Teacher, 2010
Biological and Irrigation
Outstanding Undergraduate Research Mentor, 2010
Biological and Irrigation
Outstanding Undergraduate Research Mentor, 2010
College of Engineering
Publications | Books
- Rahman, A., Miller, C.D, (2017). Microalgae as a Source of Bioplastics: Algal Green Chemistry: Recent Progress in Biotechnology. Elsivier
- Ellis, J., Miller, C.D, (2016). Chapter 8. Fuel alcohols from microalgae: Biotechnology: Products and Processes; in Green Energy, Technology Series. Springer
- Ellis, J.T, Sims, R.C, Miller, C.D, (2012). Monitoring microbial diversity of bioreactors using metagenomic approaches: Subcellular Biochemistry: Volume 55 Reprogramming Microbial Metabolic Pathways. Springer
An asterisk (*) at the end of a publication indicates that it has not been peer-reviewed.
Publications | Journal Articles
Academic Journal
- Doloman, A., Boeren, S., Miller, C.D, Sousa,, D., (2022). Stimulating Effect of Fermentative Bacteria on a Syntrophic Co-Culture of Syntrophomonas wolfei and Methanospsirillium hungatei. Applied and Environmental Microbiology
- Doloman, A., Mahajan, A., Pererva, Y., Flann, N.S, Miller, C.D, (2020). A Model for Bioaugmented Anaerobic Granulation. Frontiers in Microbiology, Microbiotechnology section
- Pererva, Y., Miller, C.D, Sims, R.C, (2020). Approaches in Design of Laboratory-Scale UASB Reactors. Processes, 8:734
- Pererva, Y., Miller, C.D, Sims, R.C, (2020). Existing Empirical Kinetic Models in Biochemical Methane Potential (BMP) Testing, Their Selection and Numerical Solution. Water, 12:1831
- Pererva, Y., Miller, C.D, Sims, R.C, (2020). Sulfur, Phosphorus and Metals in the Stoichiometric Estimation of Biomethane and Biohydrogen Yields. Processes, 8:714
- Doloman, A., Yehor, P., Cortez, M., Sims, R.C, Miller, C.D, (2019). Augmentation of granular anaerobic sludge with algalytic bacteria enhances methane production from microalgal biomass. Fermentation, 5(4):Requested for special issue "Fermentation Process in Biorefinery."
- Doloman, A., Sims, R.C, Miller, C.D, (2019). Activity of Preserved Anaerobic Sludge. Journal of Environmental Science and Health, Part A: Toxic/Hazardous Substances and Environmental Engineering of Science, doi: DOI: 10.1080/10934529.2019.1668654
- Ranganathan, B., Miller, C.D, Sinskey, A., (2018). Biocompatible synthetic and semi-synthetic polymers – A patent preliminary analysis. Pharmaceutical Nanotechnology
- Doloman, A., Varghese, H., Miller, C.D, Flann, N.S, (2017). Modeling de novo granulation of anaerobic sludge. BMC systems biology, 11:1, 69.
- Doloman, A., Soboh, Y., Walters, A.J, Sims, R.C, Miller, C.D, (2017). Qualitative analysis of microbial dynamics during anaerobic digestion of microalgal biomass in an UASB reactor. International Journal of Microbiology, 2017, 1-12.
- Hodges, A., Hamud, I., Sims, R.C, Miller, C.D, (2017). Expanded shale flue dust as an additive for the coagulation-flocculation of wastewater. International Journal of Innovative Research in Science, Engineering, and Technology, 6:9, 5 pages.
- Nielsen, C., Rahman, A., Rehman, A., Walsh, M., Miller, C.D, (2017). Food Waste Conversion to Microbial Polyhydroxyalkanoates. Microbial Biotechnology, 10, 1338-1352.
- Khargonekar, P., Sinskey, A., Miller, C.D, Ranganathan, B., (2017). Convergence Revolution – piloting the third scientific revolution through start-ups for breast cancer cure. Cancer Science & Research, 4:1, 1-6.
- Doloman, A., Varghese, H., Miller, C.D, Flan, N.S, (2017). Modeling de novo granulation of anaerobic sludge. BMC Systems Biology, 11:69
- Rahman, A., Putman, R., Hengge, N., Miller, C.D, (2017). Biomanufacturing through iGEM-An International Student Competition. Biological Engineering Faculty Publications
- Beal, J., Haddock-Angelli, T., Gershater, M., Miller, C.D, deMora, K., Rettberg, R., I., (2016). Reproducibility of Fluorescent Expression from Engineered Biological Constructs in E.coli. PLOS One, March, 1-22.
- Inan, K., Sal, F., Rahman, A., Putman, R.J, Agblevor, F.A, Miller, C.D, (2016). Microbubble assisted polyhydroxybutyrate production in Escherichia coli.. BMC Research Notes, 9:338, 1-7.
- Wood, J., Miller, C.D, Sims, R.C, Takemoto, J., (2015). Biomass and Phycocyanin Production from Cyanobacteria Dominated Biofilms Cultured using Oilfield and Natural Gas Extraction Produced Water. Algal Research, 11, 165-168.
- Wood, J.L, Miller, C.D, Sims, R.C, Takemoto, J.Y, (2015). Biomass and phycocyanin production from cyanobacteria dominated biofilm reactors cultured using oilfield and natural gas extraction produced water. Algal Research, 11, 165-168.
- Rahman, A., Putman, R., Inan, K., Ay Sal, F., Sathish, A., Smith, T., C., Sims, R.C, Miller, C.D, (2015). Polyhydroxybutyrate production using a wastewater microalgae based media. Algal Research, 8, 95-98.
- Castro, Y., Ellis, J.T, Miller, C.D, Sims, R.C, (2015). Optimization of wastewater microalgal saccharification using dilute acid hydrolysis for acetone, butanol, and ethanol fermentation. Applied Energy, 140, 14-19.
- Ellis, J.T, Sims, R.C, Miller, C.D, (2014). Metagenome analysis of a methanogenic community within an algal fed anaerobic digester. Canadian Journal of Microbiology, 60:7, 431-435.
- Sathish, A., Glaittli, K., Sims, R.C, Miller, C.D, (2014). Algae biomass based media for poly(3-Hydroxybutyrate) (PHB) production by Escherichia coli. Journal of Polymers and the Environment, 22, 272-277.
- Ellis, J.T, Hengge, N., Sims, R.C, Miller, C.D, (2014). Microbial bioproducts from cheese whey through fermentation with wastewater sludge isolates. Canadian Journal of Microbiology, 60, 431-435.
- Bernstein, H.C, Kesano, M., Moll, K., Smith, T., Gerlach, R., Carlson, R.P, Miller, C.D, Peyton, B.P, Cooksey, K.E, Gardner, R.D, Sims, R.C, (2014). Direct measurement and characterization of active photosynthesis zones inside biofuel producing and waste-water remediating algal biofilms. Bioresource Technology, 156, 206-215.
- Rahman, A., Anthony, R.J, Sathish, A., Sims, R.C, Miller, C.D, (2014). Effects of wastewater microalgae harvesting methods on polyhydroxybutyrate production. Bioresource Technology, 156, 364-367.
- McLean, J.E, Pabst, M., Miller, C.D, Dimkpa, C., Anderson, A.J, (2013). Effect of complexing ligands on the surface adsorption, internalization, and bioresponse of copper and cadmium in a soil bacterium, Pseudomonas putida. Chemosphere, 91, 374-382 . doi: 10.1016/j.chemosphere.2012.11.071
- Anthony, R.J, Ellis, J.T, Sathish, A., Rahman, A., Miller, C.D, Sims, R.C, (2013). Effect of coagulant/flocculants on bioproducts from microalgae.. Bioresource Technology, 149, 65-70.
- Rahman, A., Linton, E., Hatch, A., Sims, R.C, Miller, C.D, (2013). Secretion of polyhydroxybutyrate in Escherichia coli using a synthetic biological engineering approach. Journal of Biological Engineering, 7, 24-32.
- Tang, M., McEwen, G.D, Wu, Y., Miller, C.D, Zhou, A., (2013). Characterization and analysis of Gram-positive and Gram-negative bacteria and co-culture mixtures by Raman microspectroscopy, FTIR, and atomic force microscopy. Analytical and Bioanalytical Chemistry, 405, 1577-1591.
- Rahman, A., Ellis, J.T, Miller, C.D, (2012). Bioremediation of domestic wastewater and production of bioproducts from microalgae using waste stabilization ponds. . Journal of Bioremediation and Biodegradation., 3:6, 113.
- Ellis, J.T, Tramp, C.A, Sims, R.C, Miller, C.D, (2012). Characterization of a methanogenic community within and algae fed anaerobic digester. ISRN Microbiology, 2012, doi: doi:10.5402/2012/753892
- Linton, E., Rahman, A., Viamajala, S., Sims, R.C, Miller, C.D, (2012). Polyhydroxyalkanoate quantification in organic wastes and pure cultures using a single-step extraction and 1H NMR analysis. Water Science and Technology, 66:5, 1000-1006.
- Ellis, J.T, Hengge, N., Sims, R.C, Miller, C.D, (2012). Acetone, Butanol, and Ethanol Production from Wastewater Algae. Bioresource Technology, 111, 491-495.
- Wagh, A., Shen, S., Shen, F., Miller, C.D, Walsh, M.K, (2012). Investigating the Effect of Lactose Monolaurate on Pathogenic and Non-Pathogenic Bacteria. . Applied and Environmental Microbiology. , 78:9, 3465-3468.
- Linton, E., Walsh, M.K, Sims, R.C, Miller, C.D, (2012). Translocation of green fluorescent protein by comparative analysis with multiple signal peptides. Biotechnology Journal, 7:5, 667-676. doi: doi: 10.1002/biot.201100158
- Mortensen, T., Shen, S., Shen, F., Walsh, M.K, Sims, R.C, Miller, C.D, (2012). Investigating the effectiveness of St. John's Wort herb as an antimycobacterial agent against mycobacteria. Phytotherapy Research , 26:9, 1327-1333.
- Davis, M.L, Mounteer, L.C, Stevens, L.K, Miller, C.D, Zhou, A., (2011). 2D motility tracking of Pseudomonas putida KT2440 in growth phases using video microscopy. Journal of Bioscience and Bioengineering, 111:5, 605-611.
- Pabst, M., Miller, C.D, Dimkpa, C., Anderson, A.J, McLean, J.E, (2010). Defining the surface adsorption and internalization of copper and cadmium in a soil bacterium, Pseudomonas putida. Chemosphere/ELSEVIER, 81, 904–910. doi: doi:10.1016/j.chemosphere.2010.07.069
- Pabst, M., Miller, C.D, Dimkpa, C., Anderson, A.J, McLean, J.E, (2010). Defining the surface adsorption and internalization of copper and cadmium in a soil bacterium, Pseudomonas putida. Chemosphere 18 , 81:7, 904-910. doi: 10.1016/j.chemoshere.2010.07.069
- Miller, C.D, Pettee, B., Zhang, C., Pabst, M., McLean, J.E, Anderson, A.J, (2009). Copper and cadmium: responses in Pseudomonas putida KT2440. Letters in Applied Microbiology , 49, 775-783.
- Miller, C.D, Zhang, M.W, Pettee, B., Pabst, M., McLean, J.E, Anderson, A.J, (2009). Copper and cadmium: responses in Pseudomonas putida KT2440. Letter in Applied Microbiol, 49, 775-783.
- Miller, C.D, Child, R., Hughes, J., Benscai, M., Der, J., Sims, R.C, Anderson, A.J, (2007). Diversity of soil mycobacterium isolates from three sites that degrade polycyclic aromatic hydrocarbons. Journal of Applied Microbiology, 102, 1612-1624.
- Child, R., Miller, C.D, Liang, Y., Narasimham, G., Chatterton, J., Harrison, P., Sims, R.C, Britt, D., Anderson, A.J, (2007). Polycyclic aromatic hydrocarbon-degrading Mycobacterium isolates: their association with plant roots. Microbiol Biotechnol, 75, 655-663.
- Child, R., Miller, C.D, Liang, Y., Sims, R.C, Anderson, A.J, (2007). Pyrene mineralization by Mycobacterium strain KMS in a barley rhizosphere. J. Environmental Quality, 36, 1260-1265.
- Liang, Y., Gardner, D., Miller, C.D, Chen, D., Anderson, A., Weimer, B., Sims, R.C, (2006). Biochemical pathway and enzymatic study of pyrene degradation by Mycobacterium sp. KMS. Applied & Env. Microbiol, 72, 7821-7828.
- Hall, K., Miller, C.D, Sorensen, D.L, Anderson, A.J, Sims, R.C, (2005). Development of a catabolically significant genetic probe for polycyclic aromatic hydrocarbon-degrading Mycobacteria in soil. Biodegradation, 16, 475-484.
- Miller, C.D, Braga, G., Flint, S.D, Kwon, S.I, Messias, C.L, Roberts, D.W, Anderson, A.J, (2004). Enzyme activities associated with oxidative stress in Metarhizium anisopliae during development and after near-UV irradiation. Canadian Journal of Microbiology , 50, 41-49.
- Miller, C.D, Rangel, D., Braga, G.U, Flint, S., Kwon, S., Messias, C.L, Roberts, D.W, Anderson, A.J, (2004). Enzyme activities associated with oxidative stress in Metarhizium anisopliae during germination, mycelial growth, and conidiation and in response to near-UV irradiation. Canadian Journal of Microbiology, 50:1, 41-9.
- Miller, C.D, Liang, Y.N, Nieman, K., Hall, K., Sorensen, D.L, Anderson, A.J, Sims, R.C, (2004). Isolation and characterization of polycyclic aromatic hydrocarbon-degrading mycobacterium isolates from soil. Microbial Ecology , 50, 41-49.
- Miller, C.D, Liang, Y.N, Nieman, K., Hall, K., Sorensen, D.L, Anderson, A.J, Sims, R.C, (2004). Isolation and Characterization of Polycyclic Aromatic Hydrocarbon-degrading Mycobacterium Isolates from Soil. Journal of Microbial Ecology, 48:2, 230-238.
- Miller, C.D, Rangel, D., Braga, G.U, Flint, S., Kwon, S., Messias, C.L, Roberts, D.W, Anderson, A.J, (2004). Enzyme activities associated with oxidative stress in Metarhizium anisopliae during germination, mycelial growth, and conidiation and in response to near-UV irradiation.. Canadian journal of microbiology, 50:1, 41-9.
- Holman, H.N, Nieman, K., Sorensen, D.L, Miller, C.D, Martin, M.C, Borch, T., McKinney, W.R, Sims, R.C, (2002). Catalysis of PAH Biodegradation by humic acid shown in synchrotron infrared studies. Environmental Science and Technology , 36, 1276-1280.
- Holman, H.Y, Nieman, J., Sorensen, D.L, Miller, C.D, Martin, M.C, Borch, T., McKiney, W.R, Sims, R.C, (2002). Catalysis of PAH Biodegradation by Humic Acid Shown in Synchrotron Infrared Studies. Environ. Sci. Technol., 36:6, 1276-1280.
- Braga, G., Rangel, D., Flint, S.D, Miller, C.D, Anderson, A.J, Roberts, D.W, (2002). Damage and recovery from UV-B exposure in conidia of the entomopathogens Verticillium lecanii and Aphanocladium album. Mycologia, 94, 912-920.
- Braga, G.U, Rangel, D.E, Flint, S.D, Miller, C.D, Anderson, A.J, Roberts, D.W, (2002). Damage and recovery from UV-B exposure in conidia of the entomopathogens Verticillium lecanii and Aphanocladium album.. Mycologia, 94:6, 912-20.
- Miller, C.D, Braga, G., Flint, S.D, Anderson, A.J, Roberts, D.W, (2001). Both solar UV-A and UV-B radiation impair conidial culturability and delay germination in the entomopathogenic fungus Metarhizium anisopliae. Photochemistry and Photobiology , 74, 734-9.
- Braga, G.U, Flint, S.D, Miller, C.D, Anderson, A.J, Roberts, D.W, (2001). Both solar UVA and UVB radiation impair conidial culturability and delay germination in the entomopathogenic fungus Metarhizium anisopliae. Photochemistry and Photobiology, 74:5, 734-739.
- Anderson, A.J, Miller, C.D, (2001). Catalase activity and the survival of Pseudomonas putida, a root colonizer, upon treatment with peracetic acid. Canadian Journal of Microbiology , 47, 222-228.
- Miller, C.D, Kim, Y.C, Anderson, A.J, (2001). Competitiveness in root colonization by Pseudomonas putida requires the rpoS gene. Canadian Journal of Microbiology , 47, 41-48.
- Miller, C.D, Mortensen, W.S, Braga, G., Anderson, A.J, (2001). The rpoS gene in Pseudomonas syringae is important in survival from near-UV in sunlight. Current Microbiology , 43, 374-377.
- Braga, G.U, Flint, S.D, Miller, C.D, Anderson, A.J, Roberts, D.W, (2001). Variability in response to UV-B among species and strains of Metarhizium isolated from sites at latitudes from 61 degrees N to 54 degrees S. Journal of Invertebrate Pathology, 78:2, 98-108.
- Braga, G., Flint, S.D, Miller, C.D, Anderson, A.J, Roberts, D.W, (2001). Variability in response to UV-B among species and strains of Metarhizium isolated from sites at latitudes from 61o N to 54o S. . J. of Invertebrate Pathology , 78, 98-108.
- Miller, C.D, Kim, Y.C, Walsh, M.K, Anderson, A.J, (2000). Characterization and expression of the Pseudomonas putida bacterioferritin alpha subunit gene. . Gene, 247, 199-207.
- Kim, Y.C, Miller, C.D, Anderson, A.J, (2000). Superoxide dismutase activity in Pseudomonas putida affects utilization of sugars and growth on root surfaces. Applied and Environmental Microbiology , 66, 1460-7.
- Kim, Y.C, Miller, C.D, Anderson, A.J, (1999). Transcriptional regulation by iron and role during plant pathogenesis of genes encoding iron- and manganese-superoxide dismutases of Pseudomonas syringae pv. syringae B728a. Physiological and Molecular Plant Pathology , 55, 327-339.
- Kim, Y.C, Miller, C.D, Anderson, A.J, (1999). Transcriptional regulation by iron of genes encoding iron- and manganese-superoxide dismutases from Pseudomonas putida. Gene, 239, 129-135.
- Miller, C.D, Kim, Y.C, Anderson, A.J, (1997). Cloning and mutational analysis of the gene for the stationary-phase inducible catalase (catC) from Pseudomonas putida. Journal of Bacteriology , 179, 5241-5245.
- Kim, Y.C, Miller, C.D, Anderson, A.J, (1997). Identification of adjacent genes encoding the major catalase and a bacterioferritin from the plant-beneficial bacterium Pseudomonas putida. Gene, 199, 219-224.
- Miller, C.D, Miller, W.L, (1996). Identification of a novel DNA element involved in the transcriptional repression of the ovine FSH- gene by 17 -estradiol. Endocrinology
- Guzman, K., Miller, C.D, Phillips, C., Miller, W.L, (1991). The gene encoding ovine follicle-stimulating hormone : isolation, characterization, and comparison to a related ovine genomic sequence. DNA and Cell Biology , 10, 593-601.
- Goodspeed, D.C, Dunn, T.J, Miller, C.D, Pitot, H.C, (1989). Human gamma-glutamyl transpeptidase cDNA: comparison of hepatoma and kidney mRNA in the human and rat. Gene, 76, 1-9.
In-House Journal
Professional Journal
An asterisk (*) at the end of a publication indicates that it has not been peer-reviewed.
Publications | Other
An asterisk (*) at the end of a publication indicates that it has not been peer-reviewed.