Professor Gene Tyson

ARC Future Fellow

School of Chemistry and Molecular Biosciences
Faculty of Science
g.tyson@uq.edu.au
+61 7 336 53829

Overview

Qualifications

  • PhD, Calif.Berk
  • Bachelor of Science (Honours), The University of Queensland

Publications

  • Nguyen, Marcus, Long, S. Wesley, McDermott, Patrick F., Olsen, Randall J., Olson, Robert, Stevens, Rick L., Tyson, Gregory H., Zhao, Shaohua and Davis, James J. (2019) Using machine learning to predict antimicrobial MICs and associated genomic features for nontyphoidal Salmonella. Journal of Clinical Microbiology, 57 2: . doi:10.1128/JCM.01260-18

  • Amann, Rudolf I., Baichoo, Shakuntala, Blencowe, Benjamin J., Bork, Peer, Borodovsky, Mark, Brooksbank, Cath, Chain, Patrick S. G., Colwell, Rita R., Daffonchio, Daniele G., Danchin, Antoine, de Lorenzo, Victor, Dorrestein, Pieter C., Finn, Robert D., Fraser, Claire M., Gilbert, Jack A., Hallam, Steven J., Hugenholtz, Philip, Ioannidis, John P. A., Jansson, Janet K., Kim, Jihyun F., Klenk, Hans-Peter, Klotz, Martin G., Knight, Rob, Konstantinidis, Konstantinos T., Kyrpides, Nikos C., Mason, Christopher E., McHardy, Alice C., Meyer, Folker, Ouzounis, Christos A., Patrinos, Aristides A. N., Podar, Mircea, Pollard, Katherine S., Ravel, Jacques, Munoz, Alejandro Reyes, Roberts, Richard J., Rossello-Mora, Ramon, Sansone, Susanna-Assunta, Schloss, Patrick D., Schriml, Lynn M., Setubal, Jogo C., Sorek, Rotem, Stevens, Rick L., Tiedje, James M., Turjanski, Adrian, Tyson, Gene W., Ussery, David W., Weinstock, George M., White, Owen, Whitman, William B. and Xenarios, Ioannis (2019) Toward unrestricted use of public genomic data. Science, 363 6425: 350-352. doi:10.1126/science.aaw1280

  • Evans, Paul N., Boyd, Joel A., Leu, Andy O., Woodcroft, Ben J., Parks, Donovan H., Hugenholtz, Philip and Tyson, Gene W. (2019) An evolving view of methane metabolism in the Archaea. Nature Reviews Microbiology, . doi:10.1038/s41579-018-0136-7

View all Publications

Supervision

  • Doctor Philosophy

  • Doctor Philosophy

  • Doctor Philosophy

View all Supervision

Publications

Book Chapter

  • Hugenholtz, Philip, Tyson, Gene W. and Blackall, Linda L. (2018). Design and evaluation of 16S rRNA-targeted oligonucleotide probes for fluorescence in situ hybridization. In Marilena Aquino de Muro and Ralph Rapley (Ed.), Gene probes: principles and protocols (pp. 029-042) New Jersey, United States: Humana Press. doi:10.1385/1-59259-238-4:029

  • Bragg,Lauren and Tyson, Gene W. (2014). Metagenomics using next-generation sequencing. In Ian T. Paulsen and Andrew J. Holmes (Ed.), Environmental Microbiology: Methods and Protocols (pp. 183-201) New York, NY United States: Humana Press Inc.. doi:10.1007/978-1-62703-712-9_15

  • Carvalhais, Lilia C., Dennis, Paul G., Tyson, Gene W. and Schenk, Peer M. (2013). Rhizosphere Metatranscriptomics: Challenges and Opportunities. In Frans J. de Bruijn (Ed.), Molecular Microbial Ecology of the Rhizosphere (pp. 1137-1144) Hoboken, NJ United States: Wiley-Blackwell. doi:10.1002/9781118297674.ch109

  • Tyson, Gene W. and Hugenholtz, Philip (2005). Environmental shotgun sequencing. In Lynn B. Jorde (Ed.), Encyclopedia of genetics, genomics, proteomics, and bioinformatics (pp. 1386-1391) West Sussex, U.K.: John Wiley & Sons. doi:10.1002/047001153X.g205313

  • Banfield, Jillian, F., Tyson, Gene W., Allen, E. E. and Whitaker, B. J. (2005). The search for a molecular-level understanding of the processes that underpin the Earth's biogeochemical cycles. In Banfield, Jillian F., Cervini-Silva, Javiera and Nealson, Kenneth M. (Ed.), Molecular geomicrobiology (pp. 1-7) Chantilly, U.S.: Mineralogical Society of America, Geochemical Society.

  • Hugenholtz, P., Tyson, G. and Blackall, L. L. (2002). Design and evaluation of 16S rRNA-targeted oligonucleotide probes for fluorescence in situ hybridisation (FISH). In Aquino de Muro. M and Rapley. R (Ed.), Gene Probes - Principles and Protocols (pp. 1-17) London: Humana Press.

Journal Article

Conference Publication

  • Santini, T. C., Warren, K., Raudsepp, M., Carter, N., Hamley, D., McCosker, C., Couperthwaite, S., Southam, G., Tyson, G. W. and Warren, L. A. (2019). Accelerating bauxite residue remediation with microbial biotechnology. In: Light Metals, 2019. Light Metals Symposium held at the TMS Annual Meeting and Exhibition, 2019, San Antonio, TX, (69-77). March 10, 2019-March 14, 2019. doi:10.1007/978-3-030-05864-7_10

  • Woodcroft, Ben J., Boyd, Joel A. and Tyson, Gene W. (2016) OrfM: a fast open reading frame predictor for metagenomic data. Bioinformatics, 32 17: 2702-2703. doi:10.1093/bioinformatics/btw241

  • Golding, S. D., Hamilton, S. K., Baublys, K. A., Esterle, J. S., Tyson, G., Robbins, S., Rudolph, V., Zheng, H., Gilcrease, P. C. and Papendick, S. L. (2013). Future gas through bioconversion of waster coal. In: Goldschmidt Conference Abstracts 2013. Goldschmidt Conference 2013, Florence, Italy, (1187-1187). 25-30 August 2013. doi:10.1180/minmag.2013.077.5.7

  • Pervin, H.P., Hastie, M., Dennis, P.G., Jensen, P., Gorman, J., Tyson, G.W., Batstone, D. and Bond, P.L. (2013). Microbial community composition and function associated with enhanced anaerobic digestion of organic biosolids.. In: 2nd Water Research Conference, Singapore EXPO, Singapore, (). 20-23 January, 2013.

  • Pervin, H.P., Dennis, P.G., Lim, H.J., Tyson, G.W., Batstone, D. and Bond, P.L. (2013). Microbial community dynamics correlate to reactor parameters and performance in a pre-treatment stage of temperature–phased anaerobic digestion.. In: 2nd Water Research Conference, Singapore International Convention and Exhibition Centre, (). 20-23 January 2013.

  • Pervin, H. P., Hastie, M., Dennis, P. G., Gorman, J., Tyson, G. W., Batstone, D. and Bond, P. L. (2012). Determining ecosystem community and function important for enhanced anaerobic digestion of organic biosolids. In: Australian Society for Microbiology Annual Scientific Meeting (ASM2012), Brisbane, Australia, (). 1-4 July 2012.

  • Barr, Jeremy, Dutilh, Bas, Cook, Andrew, Fukushima, Toshikazu, Hastie, Marcus, Gorman, Jeffery, Pan, Chongle, Hettich, Rorbert, Tyson, Gene and Bond, Philip (2012). Metaproteomic and metagenomic characterisation of floccular and granular phosphorus removal biofilms. In: 14th International Symposium on Microbial Ecology (ISME14), Copenhagan, Denmark, (). 19-24 August 2012.

  • Cayford, Barry I., Dennis, Paul G., Tyson, Gene W. and Bond, Philip L. (2012). Microbial communities involved in the corrosion of concrete sewer infrastructure. In: 14th International Symposium on Microbial Ecology (ISME14), Copenhagan, Denmark, (). 19-24 August 2012.

  • Cayford, B. I., Tyson, G. W., Dennis, P. G., Keller, J. and Bond, P .L. (2012). Microbial corrosion of concrete sewer pipes. In: Australian Society for Microbiology Annual Scientific Meeting (ASM2012), Brisbane, Australia, (). 1-4 July 2012.

  • Papendick, Samuel, Tyson, Gene, Esterle, Joan, Golding, Suzanne D., Rudolph, Victor and Gilcrease, Patrick C. (2011). Coal-to-biomethane potential of microbial consortia native to coal seam formation waters. In: Sustainable Engineering Forum: Core Programming Topic at the 2011 AIChE Annual Meeting. Sustainable Engineering Forum: Core Programming Topic at the 2011 AIChE Annual Meeting, Minneapolis, MN, (1302-1303). October 16, 2011-October 21, 2011.

  • Papendick, Samuel, Tyson, Gene, Esterle, Joan, Golding, Suzanne D., Rudolph, Victor and Gilcrease, Patrick C. (2011). Coal-to-biomethane potential of microbial consortia native to coal seam formation waters. In: Catalysis and Reaction Engineering Division - Core Programming Topic at the 2011 AIChE Annual Meeting. Catalysis and Reaction Engineering Division - Core Programming Topic at the 2011 AIChE Annual Meeting, Minneapolis, MN, (1110-1110). October 16, 2011-October 21, 2011.

  • Cayford, B. I., Tyson, G. W., Keller, J and Bond, P. L. (2011). Microbial community composition associated with sewer corrosion. In: Engineers Australia Queensland Water Panel's Post-Graduate Presentation Evening, Engineers Australia Queensland Branch, (). 18 May 2011.

  • Bender, Robert A., Downs, Diana, Kiley, Patricia, LaRossa, Robert A., Sonenshein, Abraham L., Storz, Gisela, Bender, Robert, Roth, John, Schilling, Christoff, Rine's, Jasper, Merrick, Mike, Tyson, Gene, Skovran, Elizabeth, Liao, J., Stephanopolous', Greg, Anesiades, Nikolas, San, Kai-Yu, Durot, Maxim, Reich, Claudia, De Crecy-Legard, Valerie, Dean's, Dennis, Barras, Frederic, Dwyer, Daniel, De Reuse, Hilde, Massé, Eric, Hwa, Terrance, Vanderpool, Carin, Henkin's, Tina, Warner, Digby, Ron, Eliora, Gourse, Rick, Wang, Jade, Nicholson, Wayne, Burkholder, Bill, Gon, Stephanie, Ellison, Michael, Savchenko, Alexei, Pichersky, Eran, Wanner, Barry, Mori, Hirotada, LaRossa, Bob and Straight, Paul (2008). Bridges cnd Chasms: Summary of the IMAGE 2 meeting in Montreal, Canada, 30 April to 3 May 2007. In: , , (792-797). . doi:10.1128/JB.01097-07

  • Ram, RJ, VerBerkmoes, N, Tyson, GW, Baker, BJ, Thelen, MP, Hettich, RL and Banfield, JF (2005). Challenges of life in an extremely acidic environment. In: 229th National Meeting of the American-Chemical-Society, San Diego Ca, (U889-U889). Mar 13-17, 2005.

Other Outputs

Grants (Administered at UQ)

PhD and MPhil Supervision

Current Supervision

  • Doctor Philosophy — Principal Advisor

    Other advisors:

  • Doctor Philosophy — Principal Advisor

    Other advisors:

  • Doctor Philosophy — Principal Advisor

    Other advisors:

  • Doctor Philosophy — Principal Advisor

    Other advisors:

  • Doctor Philosophy — Principal Advisor

    Other advisors:

  • Doctor Philosophy — Principal Advisor

    Other advisors:

  • Doctor Philosophy — Associate Advisor

    Other advisors:

  • Doctor Philosophy — Associate Advisor

  • Doctor Philosophy — Associate Advisor

  • Doctor Philosophy — Associate Advisor

    Other advisors:

  • Doctor Philosophy — Associate Advisor

Completed Supervision