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Chemical and Biological Process Development

Jon Magnuson

Jon Magnuson

Pacific Northwest National Laboratory
PO Box 999
Richland, WA 99352

Biography

Jon Magnuson is a biochemist with more than 20 years of research experience studying enzymes and metabolic pathways in bacteria and fungi. Dr. Magnuson is currently part of a team utilizing filamentous fungi in the development of processes for converting renewable biomass to fuels, chemicals and enzymes. This research involves the discovery and manipulation of genes encoding the enzymes of biosynthetic pathways or the regulation of those pathways. Complementary to this work is his major interest in fungal genomics. He is involved in the annotation and analysis of many fungal genomes with particular focus on the enzymes involved in the breakdown of plant biomass into sugars. Another area of his research is developing tools to assess and understand the diversity of fungi and other eukaryotic microbes found in different natural environments. This research has culminated in the development of a microarray based on a highly variable region of the ribosomal RNA gene, which is useful for the study of the diverse fungi, diatoms and green algae found in soils, sediments and natural biofilms.

PNNL Patents

Education and Credentials

  • Ph.D., Biochemistry, University of Minnesota, 1993
  • B.S., Biochemistry, University of Minnesota, 1986

PNNL Publications

2018

  • Butcher M.G., P.A. Meyer, R.T. Hallen, K.O. Albrecht, C.K. Clayton, E. Polikarpov, and K.G. Rappe, et al. 2018. "Fungal Metabolites as Precursors to Renewable Transportation Fuels." Fuel 215. PNNL-SA-126614. doi:10.1016/j.fuel.2017.10.052
  • Deng S., K.R. Pomraning, P. Bohutskyi, and J.K. Magnuson. 2018. "Draft Genome Sequence of Aspergillus oryzae ATCC 12892." Genome Announcements 8, no. 18:Article No. e00251-18. PNNL-SA-132840. doi:10.1128/genomeA.00251-18
  • Kjaerbolling I., T.C. Vesth, J.C. Frisvad, J. Nybo, S. Theobald, A. Kuo, and P. Bowyer, et al. 2018. "Linking secondary metabolites to gene clusters through genome sequencing of six diverse Aspergillus species." Proceedings of the National Academy of Sciences of the United States of America 115, no. 4:E753-E761. PNNL-SA-131168. doi:10.1073/pnas.1715954115
  • Reilly M.C., J. Kim, J.J. Lynn, B.A. Simmons, J.M. Gladden, J.K. Magnuson, and S.E. Baker. 2018. "Forward genetics screen coupled with whole-genome resequencing identifies novel gene targets for improving heterologous enzyme production in Aspergillus niger." Applied Microbiology and Biotechnology 102, no. 4:1797-1807. PNNL-SA-132880. doi:10.1007/s00253-017-8717-3

2017

  • Campen S.A., J.J. Lynn, S. Sibert, S. Srikrishnan, P.A. Phatale, T. Feldman, and J. Guenther, et al. 2017. "Expression of naturally ionic liquid-tolerant thermophilic cellulases in Aspergillus niger." PLoS One 12, no. 12:Article No. e0189604. PNNL-SA-132873. doi:10.1371/journal.pone.0189604
  • Dai Z., S. Deng, D.E. Culley, K.S. Bruno, and J.K. Magnuson. 2017. "Agrobacterium tumefaciens-mediated transformation of oleaginous yeast Lipomyces species." Applied Microbiology and Biotechnology 101, no. 15:6099-6110. PNNL-SA-123451. doi:10.1007/s00253-017-8357-7
  • Mondo S.J., R.O. Dannebaum, R.C. Kuo, K.B. Louie, A.J. Bewick, K.M. LaButti, and S. Haridas, et al. 2017. "Widespread Adenine N6-methylation of Active Genes in Fungi." Nature Genetics 49, no. 6:964-968. PNNL-26468. doi:10.1038/ng.3859
  • Unkefer C.J., R.T. Sayre, J.K. Magnuson, D.B. Anderson, I. Baxter, I.K. Blaby, and J.K. Brown, et al. 2017. "Review of the algal biology program within the National Alliance for Advanced Biofuels and Bioproducts." Algal Research 22. PNNL-SA-125672. doi:10.1016/j.algal.2016.06.002

2014

  • Elliott D.C., T.R. Hart, G.G. Neuenschwander, L.J. Rotness, G. Roesijadi, A.H. Zacher, and J.K. Magnuson. 2014. "Hydrothermal Processing of Macroalgal Feedstocks in Continuous-Flow Reactors." ACS Sustainable Chemistry & Engineering 2, no. 2:207-215. PNNL-SA-97137. doi:10.1021/sc400251p
  • Jambovane S.R., S.A. Prost, A.M. Sheen, J.K. Magnuson, and R.T. Kelly. 2014. "ON-DEMAND SERIAL DILUTION USING QUANTIZED NANO/PICOLITER-SCALE DROPLETS." In Proceedings of the 18th International Conference on Miniaturized Systems for Chemistry and Life Sciences (MicroTAS 2014), October 26-30, 2014, San Antonio, Texas, 1247-1249. San Diego, California:Chemical and Biological Microsystems Society. PNNL-SA-107700.

2013

  • Dai Z., U.K. Aryal, A.K. Shukla, W. Qian, R.D. Smith, J.K. Magnuson, and W.S. Adney, et al. 2013. "Impact of alg3 gene deletion on growth, development, pigment production, protein secretion, and functions of recombinant Trichoderma reesei cellobiohydrolases in Aspergillus niger." Fungal Genetics and Biology : FG & B 61. PNNL-SA-93855. doi:10.1016/j.fgb.2013.09.004
  • Meyer P., I.J. Tews, J.K. Magnuson, S.A. Karagiosis, and S.B. Jones. 2013. "Techno-economic analysis of corn stover fungal fermentation to ethanol." Applied Energy 111. PNNL-SA-89776. doi:10.1016/j.apenergy.2013.04.085
  • Meyer P.A., I.J. Tews, J.K. Magnuson, S.A. Karagiosis, and S.B. Jones. 2013. "Techno-economic analysis of corn stover fungal fermentation to ethanol." Applied Energy 111. PNNL-SA-93582. doi:10.1016/j.apenergy.2013.04.085
  • Simmons B.A., and J.K. Magnuson. 2013. "A Conversation with Blake Simmons, Vice President, Deconstruction Division, and Jon Magnuson, Director, Fungal Biotechnology Group, Joint BioEnergy Institute, Emeryville, CA." Industrial Biotechnology 9, no. 3:108-112. PNNL-SA-95145. doi:10.1089/ind.2013.1568

2011

  • Andersen M.R., M. Salazar, P. Schaap, P. van de Vondervoort, D.E. Culley, J. Thykaer, and J.C. Frisvad, et al. 2011. "Comparative genomics of citric-acid producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88." Genome Research 21, no. 6:885-897. PNNL-SA-78790. doi:10.1101/gr.112169.110
  • Berka R., I.V. Grigoriev, R.P. Otillar, A. Salamov, J. Grimwood, I. Reid, and N. Ishmael, et al. 2011. "Comparative genomic analysis of the thermophilic biomass-degrading fungi Myceliophthora thermophila and thielavia terrestris." Nature Biotechnology 29, no. 10:922-927. PNNL-SA-83457. doi:10.1038/nbt.1976
  • de Vries R.P., I. Benoit, G. Doehlemann, T. Kobayashi, J.K. Magnuson, E.A. Panisko, and S.E. Baker, et al. 2011. "Post-genomic approaches to understanding interactions between fungi and their environment." IMA Fungus 2, no. 1:81-86. PNNL-SA-80280. doi:10.5598/imafungus.2011.02.01.12
  • Grigoriev I.V., D. Cullen, S.X. Goodwin, D. Hibbett, T.W. Jeffries, C.P. Kubicek, and C.R. Kuske, et al. 2011. "Fueling the future with fungal genomics." Mycology 2, no. 3:192-209. PNNL-SA-80132.
  • Ryu J.S., S. Shary, C.J. Houtman, E.A. Panisko, P. Korripally, F.J. St John, and C. Crooks, et al. 2011. "Proteomic and Functional Analysis of the Cellulase System Expressed by Postia placenta during Brown Rot of Solid Wood." Applied and Environmental Microbiology 77, no. 22:7933-7941. PNNL-SA-84670. doi:10.1128/AEM.05496-11
  • Zhang F., J. Vierock, O. Yizhar, L.E. Fenno, S. Tsunoda, A. Kianianmomeni, and M. Prigge, et al. 2011. "The Microbial Opsin Family of Optogenetic Tools." Cell 147, no. 7:1446-1457. PNNL-SA-85517. doi:10.1016/j.cell.2011.12.004

2010

  • Ohm R.A., J.F. de Jong, L.G. Lugones, A. Aerts, E. Kothe, J.E. Stajich, and R.P. de Vries, et al. 2010. "Genome sequence of the model mushroom Schizophyllum commune." Nature Biotechnology 28, no. 9:957-963. PNNL-SA-75499. doi:10.1038/nbt.1643
  • Smith D.R., R.W. Lee, J.C. Cushman, J.K. Magnuson, D. Tran, and J.E. Polle. 2010. "The Dunaliella salina organelle genomes: large sequences, inflated with intronic and intergenic DNA." BMC Plant Biology 10. PNNL-SA-73608.

2009

  • Baker S.E., K.S. Bruno, M.G. Butcher, J.R. Collett, D.E. Culley, Z. Dai, and J.K. Magnuson, et al. 2009. PNNL Fungal Biotechnology Core DOE-OBP Project. PNNL-18820. Richland, WA: Pacific Northwest National Laboratory.
  • Jovanovic I., J.K. Magnuson, F.R. Collart, B. Robbertse, W.S. Adney, M.E. Himmel, and S.E. Baker. 2009. "Fungal glycoside hydrolases for saccharification of lignocellulose: outlook for new discoveries fueled by genomics and functional studies." Cellulose 16, no. 4:687-697. PNNL-SA-66360.
  • Le Crom S., W. Schackwitz, L. Pennacchiod, J.K. Magnuson, D.E. Culley, J.R. Collett, and J.X. Martin, et al. 2009. "Tracking the roots of cellulase hyperproduction by the fungus Trichoderma reesei using massively parallel DNA sequencing." Proceedings of the National Academy of Sciences of the United States of America 106, no. 38:16151-16156. PNNL-SA-67636.
  • Martinez D., J. Challacombe, I. Morgenstern, D. Hibbett, M. Schmoll, C.P. Kubicek, and P. Ferreira, et al. 2009. "Genome, transcriptome, and secretome analysis of wood decay fungus Postia placenta supports unique mechanisms of lignocellulose conversion." Proceedings of the National Academy of Sciences of the United States of America 106, no. 6:1954-1959. PNNL-SA-64450. doi:10.1073/pnas.0809575106
  • Miracle A.L., V.L. Bailey, S.E. Baker, A.L. Bunn, J.K. Magnuson, and B.M. Webb-Robertson. 2009. "Integration of 'omics technologies for characterization of complex microbial ecosystems - 8119." In Waste Management Symposium 2008, 832-841. Tucson, Arizona:WM Symposia. PNNL-SA-58003.

2008

  • Martinez A.D., R. Berka, B. Henrissat, B. Henrissat, M. Saloheimo, M. Arvas, and S.E. Baker, et al. 2008. "Genome Sequencing and Analysis of the Biomass-Degrading Fungus Trichoderma reesei (syn. Hypocrea jecorina)." Nature Biotechnology 26, no. 5:553-560. PNNL-SA-60199.
  • Shary S., A.N. Kapich, A.N. Kapich, E.A. Panisko, J.K. Magnuson, D. Cullen, and K. Hammel, et al. 2008. "Differential Expression in Phanerochaete chrysosporium of Membrane-Associated Proteins Relevant to Lignin Degradation." Applied and Environmental Microbiology 74, no. 23:7252-7257. PNNL-SA-63951. doi:10.1128/AEM.01997-08

2007

  • Baker S.E., C.F. Wend, A.D. Martinez, J.K. Magnuson, E.A. Panisko, Z. Dai, and K.S. Bruno, et al. 2007. "Genome and Proteome Analysis of Industrial Fungi." In Exploitation of Fungi, edited by GD Robson, P van West and G Gadd. 3-9. New York, New York:Cambridge University Press. PNNL-SA-51617. doi:10.1017/CBO9780511902451.002
  • Cuomo C.A., U. Guldener, J.R. Xu, F. Trail, B.G. Turgeon, A. Di Pietro, and A. Di Pietro, et al. 2007. "The Fusarium Graminearum Genome Reveals a Link Between Localized Polymorphism and Pathogen Specialization." Science 317, no. 5843:1400-1402. PNNL-SA-57387. doi:10.1126/science.1143708

2006

  • Elliott D.C., J.K. Magnuson, and C.F. Wend. 2006. 3.1.1.2 Feed Processing and Handling DL2 Final Report. PNNL-16079. Richland, WA: Pacific Northwest National Laboratory.
  • Lei C., Y. Shin, J.K. Magnuson, G.E. Fryxell, L.L. Lasure, D.C. Elliott, and J. Liu, et al. 2006. "Characterization of Functionalized Nanoporous Supports for Protein Confinement." Nanotechnology 17, no. 22:5531-5538. PNNL-SA-51297. doi:10.1088/0957-4484/17/22/001

2004

  • Dai Z., X. Mao, J.K. Magnuson, and L.L. Lasure. 2004. "Identification of Genes Associated with Morphology in Aspergillus Niger by Using Suppression Subtractive Hybridization." Applied and Environmental Microbiology 70, no. 4:2474-2485. PNNL-SA-40898.
  • Magnuson J.K., and L.L. Lasure. 2004. "Organic Acid Production by Filamentous Fungi." In ADVANCES IN FUNGAL BIOTECHNOLOGY FOR INDUSTRY, AGRICULTURE, AND MEDICINE, edited by Jan S. Tkacz and Lene Lange. 307-340. New York, New York:Kluwer Academic/Plenum Publishers. PNNL-SA-41208.
  • Syn C.K., J.K. Magnuson, M.T. Kingsley, and S. Swarup. 2004. "Characterization of Pseudomonas putida Genes Responsive to Nutrient Limitation." Microbiology 150. PNNL-SA-40683.

2003

  • Driver C.J., T.J. Johnson, Y. Su, M.L. Alexander, R.J. Fellows, J.K. Magnuson, and R.S. Disselkamp, et al. 2003. The Impact of Humidity, Temperature and Ultraviolet Light on the Near-Field Environmental Fate of Pinacolyl Alcohol, Methyl Iodide, Methylphosphonic Dichloride (DCMP) and Thionyl Chloride Using an Environmental Wind Tunnel. PNNL-14172. Richland, WA: Pacific Northwest National Laboratory.

2002

  • de Henestrosa A.R., J. Cune, I. Erill, J.K. Magnuson, and J. Barbe. 2002. "A Green Nonsulfur Bacterium, Dehalococcoides ethenogenes, with the LexA-binding sequence found in Gram-positive organisms." Journal of Bacteriology 184, no. 21:6073-6080. PNWD-SA-5962.

2000

  • Magnuson J.K., M.F. Romine, D.R. Burris, and M.T. Kingsley. 2000. "Trichloroethene Reductive Dehalogenase from Dehalococcoides ethenogenes: Sequence of tceA and Substrate Range Characterization." Applied and Environmental Microbiology 66. PNNL-SA-33788.

Chemical and Biological Process Development

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