The Hallam Lab
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Dr. Steven J. Hallam

Canada Research Chair in Environmental Genomics
Department of Microbiology & Immunology
Life Sciences Institute
2.552-2350 Health Sciences Mall
Vancouver, BC Canada V6T 1Z3

e-mail: shallam@interchange.ubc.ca
office phone: 604-827-3420
fax: 604-822-6041

Research interests:

  • Construction and interpretation of environmental genomic libraries
  • Generation of computational tools and workflows for taxonomic and functional binning, population genome assembly, and comparative community analysis
  • Development of functional screens to interrogate environmental genomic libraries for bioactive small molecules and biocatalysis

Employment & Education:

2008 Marine Biological Laboratory Microbial Diversity Course
2008 - present Associate Professor, CIHR/UBiC Bioinformatics program, University of British Columbia
2006 - present Assistant Professor, Dept of Microbiology & Immunology, University of British Columbia
2004-2005 Postdoctoral Fellow, Massachusetts Institute of Technology
2002-2004 Research Associate, Monterey Bay Aquarium Research Institute
2000-2002 Postdoctoral Fellow, Monterey Bay Aquarium Research Institute
1995-2000 Ph.D., Molecular Cellular & Developmental Biology, University of California Santa Cruz
1992-1995 Research Associate, Department of Oncology, Montefiore Medical Center
1988-1992 B.A., Liberal Arts, focus on Religion & Biology, Sarah Lawrence College

Fieldwork:

  • Line-P Seasonal transect (2007- present)
  • Saanich Inlet, Vancouver Island, British Columbia Canada, Monthly time-series (2006- present)
  • Sakinaw Lake (2007- present)
  • Gulf of California (GoC) MBARI Expedition R/V Western Flyer, (2003)
  • Gulf of Mexico (GoM) USGS Gas Hydrate Expedition, R/V Marion Dufresne, (2002)
  • Mid-Atlantic Ridge (MAR) Expedition, R/V Atlantis, (2001)
  • El Cielo Biosphere Reserve, Tamaulipas Mexico (1994)

Scholarly Publications

  • Walsh, D. A., E. Zaikova, C. G. Howes, Y. C. Song., J.J. Wright, S. Tringe, P. D. Tortell, and S. J. Hallam, 2009. Metagenome of a versatile chemolithoautotroph from expanding oceanic dead zones, Science, 326(5952):578-82

  • Zaikova, E., D. A. Walsh, C. P. Stilwell, W.W. Mohn, P. D. Tortell, and S. J. Hallam, 2009. Microbial community dynamics in a seasonally anoxic fjord: Sannich Inlet British Columbia, Environmental Microbiology, 12(1):172-91

  • Schmidtova, J., S.J. Hallam, S.A. Baldwin, 2009. Bacterial community diversity in the transition and anoxic zones of the stratified Nitinat Lake, Environmental Microbiology, 11(12):3233-51

  • Hartmann, M., S. Lee, S. J. Hallam and W.W. Mohn, 2009. Bacterial, archaeal and eukaryal community structures throughout soil horizons of harvested and naturally disturbed forest stands, Environmental Microbiology 11(12):3045-62

  • Lobban, C. S., S. J. Hallam, P. Mukherjee, and J. W. Petrich. 2007. Photophysics and multifunctionality of hypericin-like pigments in heterotrich ciliates: a phylogenetic perspective. Photochem Photobiol 83:1074-94.

  • Hallam, S. J., K. T. Konstantinidis, N. Putnam, C. Schleper, Y. Watanabe, J. Sugahara, C. Preston, J. de la Torre, P. M. Richardson, and E. F. DeLong. 2006. Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum. Proc Natl Acad Sci U S A 103:18296-301.

  • Yoshinari, S., T. Itoh, S. J. Hallam, E. F. DeLong, S. Yokobori, A. Yamagishi, T. Oshima, K. Kita, and Y. Watanabe. 2006. Archaeal pre-mRNA splicing: a connection to hetero-oligomeric splicing endonuclease. Biochem Biophys Res Commun 346:1024-32.

  • Hallam, S. J., T. J. Mincer, C. Schleper, C. M. Preston, K. Roberts, P. M. Richardson, and E. F. DeLong. 2006. Pathways of carbon assimilation and ammonia oxidation suggested by environmental genomic analyses of marine Crenarchaeota. PLoS Biol 4:e95.

  • DeLong, E. F., C. M. Preston, T. Mincer, V. Rich, S. J. Hallam, N. U. Frigaard, A. Martinez, M. B. Sullivan, R. Edwards, B. R. Brito, S. W. Chisholm, and D. M. Karl. 2006. Community genomics among stratified microbial assemblages in the ocean's interior. Science 311:496-503.

  • Cubonova, L., K. Sandman, S. J. Hallam, E. F. Delong, and J. N. Reeve. 2005. Histones in crenarchaea. J Bacteriol 187:5482-5.

  • Salerno, J. L., S. A. Macko, S. J. Hallam, M. Bright, Y. J. Won, Z. McKiness, and C. L. Van Dover. 2005. Characterization of symbiont populations in life-history stages of mussels from chemosynthetic environments. Biol Bull 208:145-55.

  • Hallam, S. J., N. Putnam, C. M. Preston, J. C. Detter, D. Rokhsar, P. M. Richardson, and E. F. DeLong. 2004. Reverse methanogenesis: testing the hypothesis with environmental genomics. Science 305:1457-62.

  • Hallam, S. J., P. R. Girguis, C. M. Preston, P. M. Richardson, and E. F. DeLong. 2003. Identification of methyl coenzyme M reductase A (mcrA) genes associated with methane-oxidizing archaea. Appl Environ Microbiol 69:5483-91.

  • Girguis, P. R., V. J. Orphan, S. J. Hallam, and E. F. DeLong. 2003. Growth and methane oxidation rates of anaerobic methanotrophic archaea in a continuous-flow bioreactor. Appl Environ Microbiol 69:5472-82.

  • Goffredi, S. K., L. A. Hurtado, S. J. Hallam, and R. C. Vrijenhoek. 2003. Evolutionary relationships of deep-sea vent and cold seep clams (Mollusca : Vesicomyidae) of the "pacifica/lepta" species complex, p. 311-320. Mar Biol, vol. 142.

  • Won, Y., S. J. Hallam, G. D. O'Mullan, and R. C. Vrijenhoek. 2003. Cytonuclear disequilibrium in a hybrid zone involving deep-sea hydrothermal vent mussels of the genus Bathymodiolus. Mol Ecol 12:3185-90.

  • Won, Y. J., S. J. Hallam, G. D. O'Mullan, I. L. Pan, K. R. Buck, and R. C. Vrijenhoek. 2003. Environmental acquisition of thiotrophic endosymbionts by deep-sea mussels of the genus Bathymodiolus. Appl Environ Microbiol 69:6785-92.

  • Hallam, S. J., A. Goncharov, J. McEwen, R. Baran, and Y. Jin. 2002. SYD-1, a presynaptic protein with PDZ, C2 and rhoGAP-like domains, specifies axon identity in C. elegans. Nat Neurosci 5:1137-46.

  • Hallam, S. J., E. Singer, D. Waring, and Y. Jin. 2000. The C. elegans NeuroD homolog cnd-1 functions in multiple aspects of motor neuron fate specification. Development 127:4239-52.

  • Hallam, S. J., and Y. Jin. 1998. lin-14 regulates the timing of synaptic remodelling in Caenorhabditis elegans. Nature 395:78-82.

  • Zhou, D. C., S. J. Hallam, S. J. Lee, R. S. Klein, P. H. Wiernik, M. S. Tallman, and R. E. Gallagher. 1998. Constitutive expression of cellular retinoic acid binding protein II and lack of correlation with sensitivity to all-trans retinoic acid in acute promyelocytic leukemia cells. Cancer Res 58:5770-6.

  • Wadler, S., X. Mao, R. Bajaj, S. J. Hallam, and E. L. Schwartz. 1993. N-(phosphonacetyl)-L-aspartate synergistically enhances the cytotoxicity of 5-fluorouracil/interferon-alpha-2a against human colon cancer cell lines. Mol Pharmacol 44:1070-6.

  • Schwartz, E. L., S. J. Hallam, R. E. Gallagher, and P. H. Wiernik. 1995. Inhibition of all-trans-retinoic acid metabolism by fluconazole in vitro and in patients with acute promyelocytic leukemia. Biochem Pharmacol 50:923-8.

  • Sagayadan, G. E., P. H. Wiernik, N. Sun, G. Ahearn, D. Thompson, S. J. Hallam, X. P. Hu, J. P. Dutcher, and R. E. Gallagher. 1994. Effect of retinoic acid and interferon alpha on granulocyte-macrophage colony forming cells in chronic myeloid leukemia: increased inhibition by all-trans- and 13-cis-retinoic acids in advanced stage disease. Leuk Res 18:741-8.

  • Wadler, S., E. L. Schwartz, H. Haynes, R. Rameau, A. Quish, J. Mandeli, R. Gallagher, S. J. Hallam, A. Fields, G. Goldberg, F. McGill, S. Jennings, R. C. Wallach, and C. D. Runowicz. 1997. All-trans retinoic acid and interferon-alpha-2a in patients with metastatic or recurrent carcinoma of the uterine cervix: clinical and pharmacokinetic studies. New York Gynecologic Oncology Group. Cancer 79:1574-80.


Technical Reports

  • Ussler W. III, C.K. Paull , S. J. Hallam, T. Lorenson, Y. Chen, and R. Matsumoto. 2005. Microbially-mediated diagenesis of methane carbon across the sulfate-methane interface in a methane-rich core from the Gulf of Mexico. In: Proceedings of the Fifth International Conference on Gas Hydrates, V.3, Exploration, Resources and Environment, Trondheim, Norway, pp. 1056-1062.

  • Hallam S. J., E.F. DeLong, W. Ussler III and C.K. Paull. 2005. Methanogenic and methanotrophic archaeal diversity in gulf of mexico sediments, USGS Digital Data publication for the July 2002 Marion Dufresne Gulf of Mexico Cruise


On-line Video Protocols

  • Weidner M, M. Taupp and S.J. Hallam. Expression of Recombinant Proteins in the Methylotrophic Yeast Pichia pastoris. J Vis Exp. 2010 Feb 25;(36). pii: 1862. doi: 10.3791/1862.

  • Lee, S and S.J. Hallam. Extraction of high molecular weight genomic DNA from soils and sediments. J Vis Exp. 2009 Nov 10;(33). pii: 1569. doi: 10.3791/1569.

  • Taupp M, Lee S, Hawley A, Yang J, S. J. Hallam. Large insert environmental genomic library production. J Vis Exp. 2009 Sep 23;(31). pii: 1387. doi: 10.3791/1387.

  • Wright J.J., Lee S, Zaikova E, Walsh D.A. and S. J. Hallam. DNA extraction from 0.22 micron Sterivex filters and cesium chloride density gradient centrifugation. J Vis Exp. 2009 Sep 18;(31). pii: 1352. doi: 10.3791/1352

  • Walsh D.A., Zaikova E, and S. J. Hallam. Small volume filtration of coastal seawater samples. J Vis Exp. 2009 Jun 19;(28). pii: 1163. doi: 10.3791/1163.

  • Walsh D.A., Zaikova E, and S. J. Hallam. Large volume filtration of coastal seawater samples. J Vis Exp. 2009 Jun 18;(28). pii: 1161. doi: 10.3791/1161.

  • Zaikova E, Hawley A, Walsh D. A., and S. J. Hallam. Seawater sampling and collection. J Vis Exp. 2009 Jun 17;(28). pii: 1159. doi: 10.3791/1159.


Book Chapters

  • Taupp, M. and S. J. Hallam. 2009. The “meta-methanoxgenome” Part 23 in the Handbook of Hydrocarbon Microbiology, doi: 10.1007/978-3-540-77587-4_162

  • Taupp, M., L. Constan L., S. J. Hallam. 2009. The biochemistry of anaerobic methane oxidation Part 17 in the Handbook of Hydrocarbon Microbiology, doi: 10.1007/978-3-540-77587-4_63


Invited Talks

  • Metagenome of a versatile chemolithoautotroph from expanding oxygen minimum zones at the Molecular Basis of Microbial One-Carbon Metabolism Gordon Research Conference (2010), Bates College, Lewiston MA, USA

  • From Fjords to open seas: Ecological genomics of expanding oxygen minimum zones at the JGI Users Meeting (2010), Walnut Creek CA, USA

  • One gene is may hypotheses, at the CHiBi Launch Symposium, University of British Columbia (2009), Vancouver, British Columbia, Canada

  • Exploring the ocean floor with proteomics at the Pacific Northwest National Laboratories (2009), Richland WA, USA

  • Ecological genomics of expanding oceanic dead zones, Dalhousie University (2009), Halifax, Nova Scotia, Canada

  • Metagenome of a versatile chemolithoautotroph from expanding oxygen minimum zones, Simon Fraser University (2009), Burnaby BC, Canada

  • Strain Resolved Community Proteomics of Sulfate Methane Transition Zones from the Eel River Basin at the Pacific Northwest National Laboratories (2008), Richland WA, USA

  • The Microbial Foundations of Ecosystem Function in Marine Oxygen Minimum Zones at the CIFAR Oceans workshop (2008), Toronto, Ontario, Canada

  • The Microbial Foundations of Ecosystem Function in Saanich Inlet at the Headwaters to Deep Waters Symposium (2008), Saanich Inlet, Vancouver Island, British Columbia Canada

  • From Fjords to Open Seas at the Canadian Institute for Advanced Research (CIFAR) Integrated Microbial Biobiversity Meeting (2008), Lac Carling, Quebec, Canada

  • Beautiful Monsters: Assembly Problems and Solutions in Metagenome Analysis Simon Fraser University (2008), Vancouver, British Columbia, Canada

  • Beautiful Monsters: Assembly Problems and Solutions in Metagenome Analysis at the Linnaeus Symposium, Vancouver Aqaurium (2007), Vancouver, British Columbia, Canada

  • Assembling a functional mosaic: The Composite Genome of Cenarchaeum symbiosum, Archaea: Ecology, Metabolism & Molecular Biology Gordon Conference (2007), Proctor Academy, Andover NH, USA

  • Beautiful Monsters: Assembly Problems and Solutions in Metagenome Analysis at the Structural, Functional & Evolutionary Genomics Gordon Conference (2007), Wellcome Trust Conference Centre, Cambridge, UK

  • Environmental Genomic Perspectives on Anaerobic Methane Oxidation Virginia Tech (2006), Blacksburg, VA, USA

  • Metagenomic Perspectives on Biological Methane Transformation in the Deep Blue Sea at The University of Victoria (2006), Vancouver Island, British Columbia, Canada

  • On the Origins of Biological Methane Transformation: Primitive Cycles and Convergent States Within the Archaeal Domain at the Origins of Life Gordon Research Conference (2006), Bates College, Lewiston, ME, USA

  • Assembling a functional mosaic: The population genome of Cenarchaeum symbiosum at the Canadian Institute for Advanced Research (CIFAR) Microbial Diversity Workshop Meeting (2006), Banff, Alberta, Canada

  • Beautiful Monsters: Assembly Problems and Solutions in Metagenome Analysis at the Canadian Institute for Advanced Research (CIFAR) Annual Meeting (2005), Parksville, British Columbia, Canada

  • Environmental Genomic Analysis of Methanotrophic Archaea at the International Union of Microbiological Sciences (IUMS) meeting (2005), San Francisco, California, USA

  • Assembling a Functional Mosaic: The Draft Genome Sequence of Cenarchaeum symbiosum at the Archaea: Ecology, Metabolism & Molecular Biology Gordon Research Conference (2005), Magdalen College, Oxford, UK

  • Translating a Genomic Wilderness: Community Metabolism of Uncultured Microorganisms at the Canadian Institute for Advanced Research (CIFAR) workshop on microbial diversity (2005), Vancouver, British Columbia, Canada

  • Remapping the Body of the World: A microbial paradigm for Earth systems science at the, Oregon State University (2004), Corvallis, Oregon, USA

  • Remapping the Body of the World: A microbial paradigm for Earth systems science at the University of British Columbia (2004), Vancouver, British Columbia, Canada

  • Environmental Genomic Analysis of Methanotrophic Archaea and Biochemical Pathways of the Anaerobic Oxidation of Methane at the Molecular Basis of Microbial One-Carbon Metabolism Gordon Research Conference (2004), Mount Holyoke College, South Hadley MA, USA


Conference Proceedings

  • Bacterial Community Structure Along the Redoxcline of a Stratified Coastal Salt Pond Revealed Through V6-Tag Pyrosequencing and Gradient Cultivation Methods, American Society for MIcrobiology (ASM), May 17-21, 2009 Philadelphia PA, USA

  • Microbial Community Strucutre in a Seasonally Anoxic Fjord: Saanich Inlet, American Society of Limnology and Oceanography (ASLO), January 22-30, 2009 Nice, France

  • Ecological Genomics of Marine Oxygen Minimum Zones, American Society of Limnology and Oceanography (ASLO), January 22-30, 2009 Nice, France

  • Functional Metagenomic Analysis: expanding the SIGEX concept to large insert metagenomic libraries, Canadian Society of Microbiologists, June 9-12, 2008 Calgary Alberta, Canada

  • Tracing the nature of anaerobic methane oxidizing archaeal subgroup partitioning along geochemical gradients Geochemical Society Goldschmidt Conference, July 13-18, 2008 Vancouver British Columbia, Canada

  • Functional Metagenomic Analysis of Anaerobic Methane Oxidizing Communities, American Society for Microbiology (ASM), May 20-25, 2007 Toronto Ontario, Canada

  • Environmental Proteomic Analysis of Anaerobic Methane Oxidizing Communities in the Eel River Basin, American Society for Microbiology (ASM), May 20-25, 2007 Toronto Ontario, Canada

  • Functional and Structural Studies of Serpin Homologues from the Mesophilic Crenarchaeote Cenarchaeum symbiosum, American Society for Microbiology (ASM), May 20-25, 2007 Toronto Ontario, Canada

  • Environmental Genomic Analysis of a Model Marine Oxygen Minimum Zone: Saanich Inlet, American Society for Microbiology (ASM), May 20-25, 2007 Toronto Ontario, Canada

  • Microbial Community Structure in Sannich Inlet: Preliminary Insights into Biological Methane Cycling in a Seasonally Anoxic Fjord, American Society for Microbiology (ASM), May 20-25, 2007 Toronto Ontario, Canada

  • Assembling Mosaic Genomes from Uncultivated Archaeal Populations, The Biology of Genomes, May 11-14, 2005, Cold Spring Harbor, NY

  • Microbial Genome Sequencing: The Cenarchaeum Symbiosum Genome Project: Genome Sequence from a Psychrophilic Archaeon, the Ocean's Single-most Abundant Microbes, Interagency NSF/USDA-CSREES Microbial Microbial Genome Sequencing Program, January 15, 2005, SanDiego CA

  • Genome Sequence of a Cold-dwelling Marine Crenarchaeote, Cenarchaeum symbiosum, American Society for Microbiology (ASM), May 23-27, 2004 New Orleans LA

  • Geomicrobial Anatomy of a Deep Sulfate-Methane Interface from the Blake Ridge, Offshore Southeastern United States, American Society for Microbiology (ASM), May 23-27, 2004 New Orleans LA

  • The Anatomy of the Sulfate Methane Interface in a Methane-Rich Core from the Gulf of Mexico, Geological Society of America, November 2-5, 2003

  • Diversity of Methyl Coenzyme M Reductase A (mcrA) genes from Seep Associated, Anaerobic Methane Oxidizing Archaea, American Society for Microbiology (ASM), May 17-22 2003, Washington D.C.

  • Construction and Analysis of Shotgun and Fosmid Genomic Libraries of Anaerobic Methane-oxidizing Archaea from Deep-sea Methane Seeps, American Society of Microbiology (ASM), May 19-23, 2002, Salt Lake City UT

  • Evolutionary Scaling in Vestimentiferan Symbiosis, California Population and Evolutionary Genetics Group (CalPEG), December 14-16, 2001, Santa Barbara CA

  • Development of Genosensor Technology for in situ Larval Detection, Larval Biology, Dispersal and Gene Flow at Hydrothermal Vents, Results Symposium, May 20-22, 2001, Ogden UT

  • Gene Flow and Host Specificity of Hydrothermal Vent and Cold Seep Symbionts, Second International Symposium on Deep-Sea Hydrothermal Vent Biology, October 8-12, 2001, Brest France

  • The C. elegans Neuro-D Homolog cnd-1 Functions in Multiple Aspects of Motor Neuron Fate Specification, Presented West Coast Worm Meeting June 2000

  • Bridging the GAP: New Insights into SYD-1 Structure and Function, June 1999, 11th International C. elegans Meeting, University of Wisconsin, Madison, WI

  • SYD-1, A Potential Nexus Building Protein at the Synapse, June 1998, Westcoast Worm Meeting, University of California, San Francisco, CA

  • The Heterochronic Gene lin-14 Regulates the Timing of Type DD Neuron Synaptic Remodeling, May 1997, 11th International C. elegans Meeting, University of Wisconsin, Madison, WI

  • syd-1 May Regulate Type D Motorneuron Synaptic Specificity, May 1997, 11th International C. elegans Meeting, University of Wisconsin, Madison, WI

  • Cytoplasmic Retinoic Acid Binding Protein II mRNA Measurements in Acute Promyelocytic Leukemia, March 1995, 86th Annual Meeting of the American Association for Cancer Research (AACR), Toronto, Ontario, Canada


Teaching

  • GENE502 Genome Sciences and Technology Training Course (Winter 2010)

  • MICB409 Microbial Genetics (Winter 2007-2010)

  • MICB405 Bioinformatics (Fall 2007)

  • EOS475 Marine Microbiology (Fall 2007)


Current and Past Research Support

  • Tunnicliffe, Hallam and 6 others , CFI-LEF (Infrastructure), Subsea Laboratories on VENUS: enhancing the capabilities of Canada's cabled ocean networks 2010-2013

  • Voordouw, Hallam and 11 others, Genome Canada ABC (Operating), Hydrocarbon Metagenomics Project, Role Co-PI, 2010-2013

  • Hallam, Genome BC SOF (Operating), Time resolved community genomics of Subarctic Pacific oxygen minimum zones Role: PI, 2010

  • Hallam, CFI and BCKDF (Infrastructure), A high throughput platform for functional genomic screening and analysis, Role: PI, 2008 - 2011

  • Eltis, Mohn & Hallam, Genome BC AGIP (Operating), Genomic Studies of Exploves Biodegradation, Role Co-PI, 2008 - 2011

  • Mohn & Hallam, Genome BC AGIP (Operating), Genomic approaches to microbial community monitoring as a forest management tool, Role Co-PI, 2008 - 2011

  • Baldwin & Hallam, Genome BC AGIP (Operating), The Development of Genomic Tools for Monitoring and Improving Passive Mitigation of Mine Drainage, Role Co-PI, 2008 - 2011

  • Hallam , DOE Joint Genome Institute CSP (Sequencing), Community genome analysis of Eastern North Pacific Coastal and Open Ocean OMZs, Role: PI, 2009

  • Hallam, NSERC Strategic (Operating), Comparative Community Genome Analysis of Eastern North Pacific Coastal and Open Ocean OMZs, Role: PI, 2008 - 2010

  • Hallam, CIHR (Operating), Functional Metagenomics of Archaeal Serine Protease Inhibitors, Role: PI, 2008 - 2011

  • Hallam, DOE Joint Genome Institute CSP (Sequencing), Genome Analysis of the Uncultivated Methane Oxidizing Archaeon ANME-1, Role: PI, 2008

  • Hallam, NSERC (Operating), Functional metagenomic analysis of anaerobic methane oxidizing communities, Role: PI, 2007 - 2012

  • Hallam, Tortelll & Mohn, DOE Joint Genome Institute CSP (Sequencing), Community genome analysis of a near-shore anoxic basin, Role: PI, 2007

  • Hallam & Tortell, CEBIC Seed award (Operating), Environmental genomic analysis of microbial diversity in Saanich Inlet, Role: Co-PI, 2007

  • Hallam, CFI and BCKDF (Infrastructure), The molecular basis of anaerobic methane oxidation, Role: PI, 2006 - 2009

  • Tortell & Hallam, CEBIC Seed award (Operating), Unraveling the methane cycle in suboxic marine waters: A pilot study in Saanich Inlet, Role: Co-PI, 2006


Honors & Awards

  • Peter Wall Institute for Advanced Studies Early Career Scholar (2007)

  • CIFAR Scholar in Integrated Microbial Diversity Program (2007)

  • Canada Research Chair in Environmental Genomics (2006)

  • MBARI Postdoctoral Fellowship (2000)


Professional Activities

  • Convener: Systems Ecology of Expanding Marine Oxygen Minimum Zones at the 13th international symposium of the International Society of Microbial Ecology (ISME13), Seattle WA USA, August 22-27, 2010.

  • Organizer: CIFAR bigDATA workshop, Vancouver BC, Canada, May 28-30th, 2010. A workshop that brings together experts and trainees to explore problems and solutions in analyzing environmental sequence data at different levels of biological organization. Responsible for planning and coordinating meeting for 40+ participants including invited speakers from around the globe.

  • Organizer: Annual CMDE Interaction Meetings (2007, 2008, 2009). Responsible for planning and coordinating meeting for 50+ centre participants each year including transportation, meals, accommodations, identifying and booking external speakers and developing meeting schedule.

  • Journal reviewer for PLoS Biology, PNAS, Environmental Microbiology, Biogeochemistry, FEMS, Canadian Journal of Microbiology, Microbiology, Nature Geomicrobiology

  • Grant reviewer for CIHR Genomics Panel (GMX 2008, 2009), Canada Research Chairs (2008), JGI Community Sequencing Program Panel (2007, 2008, 2009), JGI users Group (2009), National Science Foundation (2007), EMSL User Program (2007, 2008, 2009), NSERC Discovery (2008)


Mentoring

  • Ph.D., Jody Wright (2008 – present)

  • M.Sc., ALyse Hawley (2008 – present), Elena Zaikova (2008 – present), Claire Stilwell (2006 - 2008) currently enrolled in UBC Law

  • Postdoctoral Researchers, Nicole Sukdeo (2009 – present), Kendra Mitchell (2009 – present), Antoine Page (2008 – present), Sangwon Lee (2007 – present), Marcus Taupp (2006– present), David Walsh (2007 – 2010) presently assistant professor Concordia Univeristy, Anissa Merzouk postdoctoral fellow (2007 – 2008)

  • Visiting Scholars, Jennifer Knorr (2010), Maria Weidner (2008 - 2009), Jan Fuchs (2007 - 2008),

  • Science Co-op, Simon Eng computer science (2009), David Liou UBC Biotechnology (2008-2009), Charles Howes UBC Biotechnology (2008-2009)

  • Workstudy, Sijia Lun (2010 - present), Sean Povill (2009 - present), Laura Mai (2008-2009),

  • Undergraduate Research Assistant, Karl Schiffmacher (2009 - present), Young Song (2007 - present)

  • Directed Studies, Lyndon Chung (2009-2010), Simon Eng (2008-2009), Gareth Mercer (2008-2009), Helen Schevchuk (2008-2009), Wayne Hsu (2008-2009), Claudia Biskupski (2007-2008), Tagh Sira (2007-2008), Michelle Chan (2007-2008), Krista Petty (2006-2007), Elena Zaikova (2006-2007)


Service to University

  • Program Committee for the Biodiversity Training Program (BRITE) (2009-present)

  • Microbiology Curriculum Committee (2009-present)

  • Microbiology IT Committee (2008-present)

  • Centre for Microbial Diversity and Evolution (CMDE) board member (2007-present)

  • LSC Safety Committee Second Floor Chair (2006-2008)


Memberships

  • Canadian Society of Microbiologists (2010)

  • American Society of Microbiology (ASM) (2002-present)

  • American Association for the Advancement of Science (AAAS) (1997-present)

  • International Society of Microbial Ecology (ISME) (2006-present)

  • Divers Alert Network (DAN) (1998-present)

  • National Association of Underwater Instructors (NAUI) (1998-2009)

  • American Association of Underwater Scientists (AAUS) (1999-present)


Science Outreach

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