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David Reed, Ph.D.

Senior Staff Scientist

Research Areas:
Critical Materials; Biological Processing

Biography:
David W. Reed, Ph.D., is a Senior Staff Scientist in Idaho National Laboratory’s Biological & Chemical Science and Engineering Department. For 25 years he has been interested in characterizing microorganisms that can live under extreme environmental conditions and engineering their metabolism for improved activity including the dissolution of metals and the production of commodity chemicals and fuels. He currently leads Department of Energy Critical Materials Institute projects related to biological recovery of critical materials from end-of-life wastes. These critical materials, such as rare earth elements, are found in modern and green technologies such as cell phones, computers, electric vehicles, etc. He has mentored undergraduate and graduate students (<35), authored or co-authored ~90 publications, patents, and reports and received the INL Lifetime Achievement Award for Inventorship.

Education:

​Ph.D., Microbiology, Molecular Biology, and Biochemistry - University of Idaho

M.S., Zoology - Brigham Young University

B.S., Microbiology - Brigham Young University

A.A., Arts and Science - Ricks College

Affiliations:

​American Chemical Society

American Society for Microbiology

Publications:

Deblonde, G. J.-P., J. A. Mattocks, D.M. Park, D.W. Reed, J.A. Cotruvo, Jr., & Y. Jiao. 2020. Selective and Efficient Biomacromolecular Extraction of Rare Earth Elements Using Lanmodulin. Accepted ACS Inorganic Chemistry.


Brewer, A., A. Dohnalkova, S. Vaithiyalingam, E. Chang, D. Reed, L. N. Lammers, D. M Park, Yongqin Jiao. 2019. Microbe-embedded polymer materials for selective rare earth recovery from electronic waste leachates. ACS Environmental Science & Technology 53:13888-13897 doi: 10.1021/acs.est.9b04608.


*Jin, H., *D. W. Reed, *V. S. Thompson, Y. Fujita, Y. Jiao, M. Crain-Zamora, J. Fisher, K. Scalzone, M. Griffel, D. Hartley, and J. W. Sutherland. 2019. Sustainable bioleaching of rare earth elements from industrial waste materials using agricultural wastes. ACS Sustainable Chemistry & Engineering 7: 15311-15319. *Equal author contribution.  doi: 10.1021/acssuschemeng.9b02584.


*Antonick, P., *Z. Hu, *Y. Fujita, *D. W. Reed, G. Das, L. Wu, R. Shivaramaiah, P. Kim, A. Eslamimanesh, M. M. Lencka, A. Anderko, A. Navrotsky, Y. Jiao and R. Riman. 2019. Bio- and mineral acid leaching of rare earth elements from synthetic phosphogypsum. J Chemical Thermodynamics 132:491-496 *Equal author contribution. doi: 10.1016/j.jct.2018.12.034.


Wendt, L., A. Murphy, W. Smith, Q. Nguyen, T. Robb, D. Reed, A. Ray, N. Sun, L. Liang, K. Schaller, E. Fillerup, and A. Hoover. 2018. Compatibility of high-moisture storage for biochemical conversion of corn stover: storage performance at laboratory and field scales. Frontiers Bioenergy & Biotechnology 30:1-13. doi: 10.3389/fbioe.2018.00030.


Thompson, V.S., M. Gupta, H. Jin, E. Vahidi, M. Yim, M.A. Jindra, V. Nguyen, Y. Fujita, J. W. Sutherland, Y. Jiao, and D.W. Reed. 2018. Techno-economic and life cycle analysis for bioleaching rare earth elements from waste materials. ACS Sustainable Chemistry & Engineering 6:1602-1609. doi: 10.1021/acssuschemeng.7b02771.


Jin, H., D.M. Park, M. Gupta, A.W. Brewer, L. Ho, S.L. Singer, W.L. Bourcier, S. Woods, D.W. Reed, L.N. Lammers, J. W. Sutherland, Y. Jiao. 2017. Techno-economic assessment for integrating biosorption into rare earth recovery process.  ACS Sustainable Chemistry & Engineering 5:10148-10155. doi: 10.1021/acssuschemeng.7b02147.


Park, D.M., A. Brewer, D.W. Reed, P.L. Hageman, L.N. Lammers, Y. Jiao. 2017. Biomining of rare earth elements from low-grade feedstocks using engineered bacteria. Environmental Science & Technology 51:13471-13480. doi: 10.1021/acs.est.7b02414.


Reed, D.W., Y. Fujita, D.L. Daubaras, D.F. Bruhn, J.H. Reiss, V.S. Thompson and Y. Jiao. 2016. Microbially mediated leaching of rare earth elements from recyclable materials. Proceedings XXVIII International Mineral Processing Congress (IMPC 2016), ISBN: 978-1-926872-29-2. SOURCE-WORK-ID: 0208171258312-19.


Park, D.M., D.W. Reed, M.C. Yung, A. Eslamimanesh, M.M. Lencka, A. Anderko, Y. Fujita, R.E. Riman, A. Navrotsky, Y. Jiao. 2016. Bioadsorption of rare earth elements through cell surface display of lanthanide binding tags. Environmental Science & Technology 50:2735-2742. doi: 10.1021/acs.est.5b06129.


Reed, D.W., Y. Fujita, D.L. Daubaras, Y. Jiao and V.S. Thompson. 2016. Bioleaching of rare earth elements from waste phosphors and cracking catalysts. Hydrometallurgy 166:34-40. doi: 10.1016/j.hydromet.2016.08.006.


Aston, J.E., W.A. Apel, B.D. Lee, D.N. Thompson, J.A. Lacey, D.T. Newby, D.W. Reed and V.S. Thompson. 2016. Degradation of phenolic compounds by the lignocellulose deconstructing Thermoacidophilic Bacterium Alicyclobacillus acidocaldarius. Journal Industrial Microbiology & Biotechnology 43:13-23. doi: 10.1007/s10295-015-1700-z.


Reardon, C.L., T.S. Magnuson, E.S. Boyd, W.D. Leavitt, D.W. Reed, and G.G. Geesey. 2014. Hydrogenase activity of mineral-associated and suspended populations of Desulfovibrio desulfuricans Essex 6. Microbiology Ecology 67:318-326, 488. doi: 10.1007/s00248-013-0308-y.


Fujita, Y., D.W. Reed, K. R. Nowak, V. S. Thompson, T. L. McLing, R.W. Smith and D. C. Cooper. 2013. Microbial impacts on geothermometry temperature predictions. Proceedings Geothermal Reservoir Engineering, 38, SGP-TR-198 (p1-11). SOURCE-WORK-ID: 0208171258312-20.


Fujita, Y., J.L. Taylor, L.M. Wendt, D.W. Reed, and R.W. Smith. 2010. Evaluating the potential of native ureolytic microbes to remediate a 90Sr contaminated environment. Environmental Science & Technology 44:7652-7658. doi: 10.1021/es101752p.


Reed, D.W., J.M. Smith, C.A. Francis, and Y. Fujita. 2010. Responses of ammonia-oxidizing bacterial and archaeal populations to organic nitrogen amendments in low-nutrient groundwater.  Applied & Environmental Microbiology 76:2517-2523. doi: 10.1128/AEM.02436-09.


Colwell, F.S., S. Boyd, M.E. Delwiche, D.W. Reed, T.J. Phelps, and D.T. Newby. 2008. Estimates of biogenic methane production rates in deep marine sediments at Hydrate Ridge, Cascadia Margin.  Applied & Environmental Microbiology 74:3444-3452. doi: 10.1128/AEM.02114-07.


Freeman, S., D. Reed, and Y. Fujita. 2006. Testing the Specificity of Primers to Environmental Ammonia Monooxygenase (Amoa) Genes in groundwater treated with urea to promote calcite precipitation.  U.S. DOE J. Undergraduate Research Vol. 6. 114-118. SOURCE-WORK-ID: 0208171258313-25.


*Newby, D.T., *D.W. Reed, L.M. Petzke, A.L. Igoe, M.E. Delwiche, J.P. McKinley, F.F. Roberto, M.J. Whiticar, and F.S. Colwell. 2004. Diversity of methanotrophic communities from pristine groundwater in a basaltic aquifer. FEMS Microbiology Ecology 48:333-344. *Equal author contribution. doi: 10.1016/j.femsec.2004.02.001.


Colwell, F.S., R. Matsumoto, and D.W. Reed. 2004. A Review of the gas hydrates and the geology, and biology of the Nankai Trough. Chemical Geology 205:391-404. doi: org/10.1016/j.chemgeo.2003.12.023.


Kauffman, M.E., W.K. Keener, S.R. Clingenpeel, M.E. Watwood, D.W. Reed, Y. Fujita, and R.M. Lehman. 2003. Use of 3-hydroxyphenylacetylene for activity-dependent, fluorescent labeling of bacteria that degrade toluene via 3-methylcatechol. J. Microbiology Methods 55:801-805. doi: 10.1016/j.mimet.2003.07.001.


Hartzell, P. and D. Reed. Published online May 12, 2003. The Genus Archaeoglobus, p. 82-100.  In M. Dworkin et al., eds, The Prokaryotes, Archaea. Bacteria: Firmicutes, Actinomycetes. 3 ed, vol. 3. Springer-Verlag, New York. The Prokaryotes: An Evolving Electronic Resource for the Microbiological Community, 3rd edition, release 3.13. doi: 10.1007/0-387-30743-5_6.


Reed, D.W., Y. Fujita, M.E. Delwiche, D.B. Blackwelder, P.P. Sheridan, T. Uchida, and F.S. Colwell. 2002. Microbial communities from methane hydrate-bearing deep marine sediments in a forearc basin. Applied & Environmental Microbiology 68:3759-3770. doi: 10.1128/AEM.68.8.3759-3770.2002.


Pagala, V.R., J. Park, D.W. Reed, and P.L. Hartzell. 2002. Cellular localization of D-Lactate dehydrogenase (Dld) and NADH oxidase (NoxA2) from Archaeoglobus fulgidus. Archaea 1:95-104. doi: 10.1128/JB.183.24.7007-7016.2001.


Reed, D.W., J.H. Millstein, and P.L. Hartzell. 2001. H2O2-Forming NADH oxidase with diaphorase (cytochrome) activity from Archaeoglobus fulgidus. J. Bacteriology 183: 7007-7016. doi: 10.1128/JB.183.24.7007-7016.2001.


Reed, D.W., and P.L. Hartzell. 1999. The Archaeoglobus fulgidus D-lactate dehydrogenase is a Zn+2 flavoprotein. J. Bacteriology 181:7580-7587. WOSUID: WOS:000084137900024.


Dai, Y-R, D.W. Reed, J.H. Millstein, P.L. Hartzell, D.A. Grahame, and E. DeMoll. 1998. Acetyl-CoA decarbonylase/synthase complex from Archaeoglobus fulgidus. Archives Microbiology 169:525-529. doi: 10.1007/s002030050606.


Reed, D.W., W.S. Bradshaw, W. Xie, and D.L. Simmons. 1996. In Vivo and In Vitro Expression of a Non-Mammalian Cyclooxygenase-1. Prostaglandins 52:269-284. doi: 10.1016/S0090-6980(96)00089-5.


Lu, X., W. Xie, D. Reed, W.S. Bradshaw, and D.L. Simmons. 1995. Nonsteroidal anti-inflammatory drugs cause apoptosis and induce cyclooxygenases i in chicken embryo fibroblasts. Proceedings National Academy Science 92:7961-7965. doi: org/10.1073/pnas.92.17.7961.

Patents:

Thompson, V.S., W.A. Apel, J.A. Lacey, Lee, B.D., D.W. Reed, F.F. Roberto, and D.N. Thompson. June 23, 2020. Thermophilic and thermoacidophilic metabolism genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. CIP. United States patent US 10,689,638.


McNally, J.S., L.A. Diaz Aldana, J.R. Klaehn, T.E. Lister, and D.W. Reed. Filed June 14, 2019. Methods of recovering active materials from rechargeable batteries, and related apparatuses. Pending Patent Attorney Docket 2939-14882US (BA-1087).


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, E.D. Henriksen, and J.A. Lacey.  March 24, 2020. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. CIP. United States patent US 10,597,690.


Thompson, V.S., W.A. Apel, D.W. Reed, Lee, B.D., D.N. Thompson, J.A. Lacey and F.F. Roberto. Dec 3, 2019. Thermophilic and thermoacidophilic metabolism genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 10,494,624.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, E.D. Henriksen, and J.A. Lacey.  March 26, 2019. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 10,240,177.


Thompson, V.S., W.A. Apel, D.W. Reed, Lee, B.D., D.N. Thompson, J.A. Lacey and F.F. Roberto. Feb 26, 2019. Thermophilic and thermoacidophilic metabolism genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 10,214,737.


Y. Jiao, D.M. Park, M. C. Yung, D.W. Reed. Feb 5, 2019. Engineered Microbes for Rare Earth Element Adsorption. Original. United States patent US 10,196,708.


Lee, B.D., D.T. Newby, J. A. Lacey, D.N. Thompson, V.S. Thompson, W.A. Apel, F.F. Roberto, and D.W. Reed. May 1, 2018. Type II restriction-modification system methylation subunit of Alicyclobacillus acidocaldarius. Division. United States patent US 9,957,510.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, J.A. Lacey, and E.D. Henriksen.  Feb 20, 2018. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 9,896,707.


Lee, B.D., D.T. Newby, J. A. Lacey, D.N. Thompson, V.S. Thompson, W.A. Apel, F.F. Roberto, and D.W. Reed. Feb 13, 2018. Type II restriction-modification system methylation subunit of Alicyclobacillus acidocaldarius. Division. United States patent US 9,890,385.


Thompson, V.S., W.A. Apel, D.W. Reed, Lee, B.D., D.N. Thompson, F.F. Roberto and J.A. Lacey. Jan 30, 2018. Thermophilic and thermoacidophilic metabolism genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 9,879,247.


Thompson, V.S., D.N. Thompson, D.W. Reed, J.A. Lacey, and W.A. Apel.  Jan 9, 1018. Thermophilic acetylxylanase esterase from Alicyclobacillus acidocaldarius. Original. United States patent US 9,862,981. 


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, and J.A. Lacey.  Jun 13, 1017. Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 9,677,054. 


Lee, B.D., D.T. Newby, J. A. Lacey, D.N. Thompson, V.S. Thompson, W.A. Apel, F.F. Roberto, and D.W. Reed. Feb 14, 2017. Type II restriction-modification system methylation subunit of Alicyclobacillus acidocaldarius. Division. United States patent US 9,567,595.


Lee, B.D., D.N. Thompson, W.A. Apel, V.S. Thompson, D.W. Reed and J.A. Lacey. Nov 22, 2016. Transcriptional control in Alicyclobacillus acidocaldarius and associated genes, proteins, and methods. Division. United States patent US 9,499,824.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, J.A. Lacey, and E.D. Henriksen.  Aug 2, 2016. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. CIP. United States patent US 9,404,134.


Thompson, D.N., D.W. Reed, V.S. Thompson, J.A. Lacey, and W.A. Apel. July 12, 2016. Alteration and modulation of protein activity by varying post-translational modification. Division. United States patent US 9,388,398. 


Thompson, D.N., E.D. Henriksen, D.W. Reed, and J.J. Jensen. Mar 15, 2016. Methods for determining enzymatic activity comprising heating and agitation of closed volumes. Original. United States patent US 9,284,596.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, and J.A. Lacey.  Jan 12, 1016. Thermophilic and thermoacidophilic glycosylation genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Original. United States patent US 9,234,228. 


Thompson, V.S., W.A. Apel, D.W. Reed, Lee, B.D., D.N. Thompson, F.F. Roberto and J.A. Lacey. Dec 29, 2015. Thermophilic and thermoacidophilic metabolism genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 9,222,094.


Lee, B.D., D.N. Thompson, W.A. Apel, V.S. Thompson, D.W. Reed and J.A. Lacey. Nov 17, 2015. Transcriptional control in Alicyclobacillus acidocaldarius and associated genes, proteins, and methods. Division. United States patent US 9,187,753.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, J.A. Lacey, and E.D. Henriksen.  Jun 2, 2015. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. CIP. United States patent US 9,045,741.


Lee, B.D., D.T. Newby, J. A. Lacey, D.N. Thompson, V.S. Thompson, W.A. Apel, F.F. Roberto, and D.W. Reed. May 12, 2015. Type II restriction-modification system methylation subunit of Alicyclobacillus acidocaldarius. Division. United States patent US 9,029,114.


Thompson, D.N., D.W. Reed, V.S. Thompson, J.A. Lacey, and W.A. Apel. Mar. 3, 2015. Alteration and modulation of protein activity by varying post-translational modification. Original. United States patent US 8,969,033. 


Thompson, V.S., W.A. Apel, D.W. Reed, Lee, B.D., D.N. Thompson, J.A. Lacey and F.F. Roberto. May 20, 2014. Thermophilic and thermoacidophilic metabolism genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Original. United States patent US 8,728,803.


Lee, B.D., D.N. Thompson, W.A. Apel, V.S. Thompson, D.W. Reed and J.A. Lacey. May 6, 2014. Transcriptional control in Alicyclobacillus acidocaldarius and associated genes, proteins, and methods. Original. United States patent US 8,716,011.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, and J.A. Lacey.  Nov. 5, 2013. Thermophilic and thermoacidophilic sugar transporter genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 8,575,323.


Lee, B.D., D.T. Newby, J. A. Lacey, D.N. Thompson, V.S. Thompson, W.A. Apel, F.F. Roberto, and D.W. Reed. Oct 29, 2013. Type II restriction-modification system methylation subunit of Alicyclobacillus acidocaldarius. CIP. United States patent US 8,569,030.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, E.D. Henriksen, and J.A. Lacey.  Oct 15, 2013. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. CIP. United States patent US 8,557,557.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, E.D. Henriksen, and J.A. Lacey.  July 30, 2013. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. CIP. United States patent US 8,497,110.


Thompson, D.N., V.S. Thompson, K.D. Schaller, W.A. Apel, D.W. Reed, and J.A. Lacey. April 30, 2013. Thermal and acid tolerant xylosidases, arabinofuranosidases, genes encoding, related organisms and methods. CIP. United States patent US 8,431,379.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, E.D. Henriksen, and J.A. Lacey.  April 23, 2013. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. CIP. United States patent US 8,426,185.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, and J.A. Lacey.  Jan. 29, 2013. Thermophilic and thermoacidophilic sugar transporter genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 8,362,226.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, and J.A. Lacey.  Jan. 15, 2013. Thermophilic and thermoacidophilic sugar transporter genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 8,354,517.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, E.D. Henriksen, and J.A. Lacey.  June 19, 2012. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 8,202,716.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, and J.A. Lacey.  Dec. 6, 2011. Thermophilic and thermoacidophilic sugar transporter genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Division. United States patent US 8,071,748.


Thompson, D.N., V.S. Thompson, K. Schaller, W.A. Apel, J.A. Lacey, and D.W. Reed. Nov. 22, 2011. Thermal and acid tolerant beta-xylosidases, genes encoding, related organisms, and methods. Mexico 292,528.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, and J.A. Lacey.  Jun. 14, 2011. Thermophilic and thermoacidophilic sugar transporter genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Original. United States patent US 7,960,534.


Thompson, D.N., V.S. Thompson, K. Schaller, W.A. Apel, J.A. Lacey, and D.W. Reed. Apr. 12, 2011. Thermal and acid tolerant beta-xylosidases, genes encoding, related organisms, and methods. Original. United States patent US 7,923,234.


Thompson, D.N., W.A. Apel, V.S. Thompson, D.W. Reed, and J.A. Lacey. Dec. 28, 2010. Thermophilic and thermoacidophilic biopolymer-degrading genes and enzymes from Alicyclobacillus acidocaldarius and related organisms, methods. Original. United States patent US 7,858,353.


Thompson, D.N., V.S. Thompson, K. Schaller, W.A. Apel, J.A. Lacey, and D.W. Reed. Jan. 23, 2009. Thermal and acid tolerant beta-xylosidases, genes encoding, related organisms, and methods. New Zealand 585,947.

Awards:

​Inventor's Hall of Fame, Life Time Achievement, Idaho National Laboratory, 2014, 2015, 2017

American Society for Microbiology, Intermountain Branch Secretary, 2011-2013

Research Interests:

​Understanding the physiological activities of microorganisms from extreme environments important for solving energy and environmental challenges.

Version: 34.0
Created at 10/19/2015 4:02 PM by Phyllis L. King
Last modified at 7/9/2020 11:07 AM by hailey.goddard@inl.gov