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Karla Heidelberg

Assistant Professor of Biological Sciences

Contact Information
E-mail: Kheidelb@usc.edu
Phone: (213) 740-0951
Office: AHF 232

LINKS
Faculty Profile on Departmental Website
Wrigley Institute of Environmental Studies
Personal Lab Web page
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Education

Ph.D. Marine-Estuarine Environmental Science (Conc: Biological Oceanography), University of Maryland, College Park, 1999
B.A. (Honors) Individualized Major, Maryville College, TN, 1988
 

Postdoctoral Training

Department of Biology Post-Doctoral Fellow, University of Maryland, College Park, 06/1999-08/2001  
 

Academic Appointment, Affiliation, and Employment History

Tenure Track Appointments

Assistant Professor, Department of Biological Sciences, University of Southern California, 2006-  
 

Visiting and Temporary Appointments

Adjunct Research Scientist, J. Craig Venter Institute, 2006-2010  
Adjunct Research Faculty, Department of Biology, University of Maryland, College Park, 2001-2004  
Adjunct Teaching Faculty, Department of Biology, Hood College, Frederick, MD, 2002-2003   
 

Other Employment

Resident Faculty, USC Wrigley Marine Science Center, 2006-  
Scientists and Coodinator of Global Program, Rockville, MD, J. Craig Venter Institute, 2003-2006  
International Marine Science Policy Advisor (AAAS Science and Diplomacy Fellow), U.S. Department of State, Office of Oceans Affairs, 2001-2003  
 

Description of Research

Summary Statement of Research Interests

I research the genetic, biochemical, and metabolic properties of naturally occurring prokaryotic and eukaryotic microbial assemblages by pairing contemporary genomic technologies with more traditional lab and field approaches. The knowledge gained through genomic approaches provides the basis to evaluate microbial diversity and the fundamental physiological and ecological principles governing the activities and interactions of microbial taxa in studied habitats. Understanding these interactions and their resultant biogeochemical activities is an exciting avenue of research given that much of the energy flow and elemental cycling is not only conducted by microorganisms, but dictated by their trophic interactions. Current research programs focus on microbial consortia from hypersaline environments and functional properties of microbial mixotrophs.
 

Research Keywords

Marine and environmental microbiology and ecology; Microbial diversity, including microbial eukaryotes; Environmental genomics; Effects of environmental change on microbial assemblages.
 

Affiliations with Research Centers, Labs, and Other Institutions

Wrigley Institute of Marine Studies, Resident Faculty, http://wrigley.usc.edu/
 

Publications

Journal Article

Koid, A. E., Liu, Z., Terrado, R., Jones, A. C., Caron, D., Heidelberg, K. B. (2014). Comparative transcriptome analysis of four prymnesiophyte algae. PLoS ONE.
Podell, S., Emerson, J. B., Jones, C. M., Ugalde, J. A., Welch, S., Heidelberg, K. B., Banfield, J. F. (2013). Seasonal fluctuations in ionic concentrations drive microbial succession in a hypersaline lake community. ISME J. article
Emerson, J., Andrade, K., Thomas, B. C., Norman, A., Allen, E., Heidelberg, K. B., Banfield, J. F. (2013). Virus-host and CRISPR dynamics in hypersaline Lake Tyrrell, Victoria, Australia (Accepted). Archaea. http://dx.doi.org/10.1155/2013/370871
Emerson, J. B., Heidelberg, K. B., Norman, A., Banfield, J. F. (2013). Assembly-driven analysis of 71 environmental viromes reveals salinity as a determinant of virome genetic composition. Env. Microbiol. Reports.
Emerson, J. B., Thomas, B. C., Andrade, K., Heidelberg, K. B., Banfield, J. F. (2013). Characterizing the diversity and dynamics of natural viral assemblages, as demonstrated in a hypersaline lake system. J. Virology..
Heidelberg, K. B., Nelson, W. C., Holm, J. B., Eisenkolb, N., Andrade, K., Emerson, J. (2013). Characterization of eukaryotic microbial diversity in hypersaline Lake Tyrrell, Australia. Front. Microbiol. Vol. 4, pp. 1-14. doi: 10.3389/fmicb.2013.00115
Tully, B. J., Sachdeva, R., Heidelberg, K. B., Heidelberg, J. F. (2013). Comparative genomics of planktonic Flavobacteriaceae from the Gulf of Maine using environmentally derived genomes (Submitted). ISME J.
Lopez-Lozano, N. E., Heidelberg, K. B., Nelson, W. C., Garcia-Oliva, F., Eguiarte, L. E., Souza, V. (2013). Microbial secondary sucession in soil microcosms of a desert oasis in the Cuatro Cienegas Basin, Mexico. Peer J. Vol. 1, pp. e47. 10.7717/peerj.47
Podell, S., Ugalde, J. A., Narasingarao, P., Banfield, J. F., Heidelberg, K. B., Allen, E. E. (2013). Assembly-driven community genomics of a hypersaline microbial ecosystem. PLoS ONE. Vol. 8 (4), pp. e61692. PLoS ONE
Emerson, J. B., Thomas, B. C., Andrade, K., Heidelberg, K. B., Banfield, J. F. (2013). New approaches indicate constant viral diversity despite shifts in assemblage structure in an Australian hypersaline lake. Appl. Environ. Microbiol.. Vol. 79, pp. 6755-6764. PubMed Web Address http://aem.asm.org/content/79/21/6755.long
Koid, A., Jones, A., Liu, Z., Caron, D. A., Heidelberg, K. B. (2013). Comparative transcriptome analysis of four prymnesiophytes. PLoS ONE.
Ugalde, J. A., Podell, S., Narisingaro, P., Banfield, J. F., Heidelberg, K. B., Banfield, J. F. Metabolic and functional analysis of a deeply sequenced hypersaline microbial ecosystem. ISME J.
Koid, A. E., Nelson, W. C., Mraz, A., Heidelberg, K. B. (2012). Comparative analysis of eukaryotic marine microbial assemblages from 18S rRNA gene or gene transcript clone libraries using different methods of extraction. Appl. Env. Microbiol.. Vol. 78, pp. 3958-3965. PubMed Web Address
Narasingarao, P., Podell, S., Ugalde, J. A., Brochier-Armanet, C., Emmerson, J. B., Brocks, J. J., Heidelberg, K. B., Banfield, J. F., Allen, E. E. (2012). De Novo Metagenomic Assembly Reveals Abundant Novel Archaea in Hypersaline Microbial Communities. ISME J.. pp. 1-13. PubMed Web Address
Emerson, J. B., Thomas, B. C., Andrade, K., Allen, E. E., Heidelberg, K. B., Banfield, J. F. (2012). Dynamic viral populations in hypersaline systems as revealed by metagenomic assembly. Appl. Environ. Microbiol.. Vol. 78, pp. 6309-6320. PubMed Web Address
Heidelberg, K. B. (2011). Octocorals and ocean acidification studies at Catalina. Ocean Bights: The Magazine of the Catalina Marine Society. Vol. 2, pp. 3-5.
Heidelberg, K. B., Gilbert, J. A., Joint, I. (2010). Marine genomics: at the interface of marine microbial ecology and biodiscovery. Microbial Biotechnology. doi:10.1111/j.1751-7915.2010.00193.x
Thomas, T., Rusch, D., Damaere, M. Z., Young, P. Y., Lewis, M., Halpern, A., Heidelberg, K. B., Egan, S., Steinberg, P. D., Kjelleberg, S. (2010). Functional genomic signatures of sponge bacteria reveal unique and shared features of symbiosis. ISME J. (Epub) PubMed Web Address
Heidelberg, K. B., Bythell, J., Oneill, K. L., Sebens, K. P. (2009). Vertical Distribution and Diel Patterns of Zooplankton over a Florida Coral Reef. J. Plank. Res. Journal
Caron, D. A., Gast, R. J., Countway, P. D., Heidelberg, K. B. (2009). Microbial Eukaryote Ecology: Questions of Diversity and Biogeography. Microbe. Vol. 4 (2), pp. 71-77.
Caron, D. A., Worden, A. Z., Countway, P. D., Demir, E., Heidelberg, K. B. (2009). Protists are Microbes Too: A Perspective. Int. Soc. Microbial Ecol.. Vol. 3, pp. 4-12. PubMed Web Address
Williamson, S., Rusch, D., Yooseph, S., Halpern, A., Heidelberg, K., Glass, J., Andrews-Pfannkoch, C., Fadrosh, D., Miller, C., Sutton, G., Frazier, M., Venter, J. C. (2008). The Sorcerer II Global Ocean Sampling Expedition: Metagenomic Characterization of Viruses within Aquatic Microbial Samples. PLoS ONE. Vol. 3 (1), pp. e1456. PubMed Web Address
Yooseph, S., Sutton, G., Rusch, D. B., Halpern, A. L., Williamson, S. J., Remington, K., Eisen, J. A., Heidelberg, K. B., Manning, G., Li, W., Jaroszewski, L., Cieplak, P., Miller, C. S., Li, H., Mashiyama, S. T., Joachimiak, M. P., van Belle, C., Chandonia, J., Soergel, D. A., Zhai, Y., Natarajan, K., Lee, S., Raphael, B. J., Bafna, V., Friedman, R., Brenner, S. E., Godzik, A., Eisenberg, D., Dixon, J. E., Taylor, S. S., Strausberg, R. L., Frazier, M., Venter, J. C. (2007). The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families (Cover). PLoS Biology. Vol. 5, pp. e16. PubMed Web Address
Rusch, D. B., Halpern, A. L., Sutton, G., Heidelberg, K. B., Williamson, S., Yooseph, S., Wu, D., Eisen, J. A., Hoffman, J. M., Remington, K., Beeson, K., Tran, B., Smith, H., Baden-Tillson, H., Stewart, C., Thorpe, J., Freeman, J., Andrews-Pfannkoch, C., Venter, J. E., Li, K., Kravitz, S., Heidelberg, J. F., Utterback, T., Rogers, Y., Falcon, L. I., Souza, V., Bonilla-Rosso, G., Eguiarte, L. E., Karl, D. M., Sathyendranath, S., Platt, T., Bermingham, E., Gallardo, V., Tamayo-Castillo, G., Ferrari, M. R., Strausberg, R. L., Nealson, K., Friedman, R., Frazier, M., Venter, J. C. (2007). The Sorcerer II Global Ocean Sampling Expedition: Northwest Atlantic through Eastern Tropical Pacific (Cover). PLoS Biology. Vol. 5, pp. e77. PubMed Web Address
Remington, K. A., Heidelberg, K. B., Venter, J. C. (2005). Taking Metagenomic Studies in Context. Trends Microbiol. Vol. 13, pp. 404. PubMed Web Address
Heidelberg, K. B., Heidelberg, J. F. (2005). Marine Environmental Genomics: New Secretes from a Mysterious Ocean. Marine Technology Society Journal. Vol. 39 (3), pp. 94-98.
Heidelberg, K. B., Sebens, K. P., Purcell, J. E. (2004). Composition and Sources of Near Reef Zooplankton on a Jamaican Forereef, with Implications for Coral Feeding. Coral Reefs. Vol. 23, pp. 263-276.
Heidelberg, J. F., Heidelberg, K. B., Colwell, R. R. (2002). Bacteria of the gamma-Subclass Proteobacteria Associated with Zooplankton in Chesapeake Bay. Appl. Env. Microbiol.. Vol. 68, pp. 5498-5507. PubMed Web Address
Heidelberg, J. F., Heidelberg, K. B., Colwell, R. R. (2002). Seasonality of Chesapeake Bay Bacterioplankton Species. Appl. Environ. Microbiol.. Vol. 68 (11), pp. 5488-5497. PubMed Web Address
Kreps, T., Purcell, J. E., Heidelberg, K. B. (1997). Escape of the Ctenophore Mnemiopsis leidyi from the Scyphomedusa Predator Chrysaora quinquecirrha. Mar. Biol.. Vol. 128, pp. 441-446.
Heidelberg, K. B., Sebens, K. P., Purcell, J. E. (1997). Effects of Prey Escape Behavior and Water Flow on Prey Capture by the Scleractinian Coral, Meandrina meandrites. Proc. 8th Int Coral Reef Symp.. Vol. 2, pp. 1081-1086.
Ford, M. D., Costello, J. H., Heidelberg, K. B., Purcell, J. E. (1997). Swimming and Feeding by the Scyphomedusa, Chrysaora quinquecirrha. Mar. Biol.. Vol. 129, pp. 355-362.
 

Other

Heidelberg, K. B. (2008). NSF Sponsored Interactive Outreach for a Deep Sea Hydrothermal vent cruise using DSV Alvin (participation by 23 elem. schools). Website
Heidelberg, K. B. (2008). Antarctica Research Expedition (Jan/Feb 2008) Interactive Educational Outreach (14 elementary. website
Heidelberg, K. B. (1999). Effects of water flow and zooplankton prey behavior on scleractinian coral heterotrophy. University of Maryland.
 

Proceedings

Mele, P., Sawbridge, T., Hayden, H., Methe, B., Stockwell, T., Pfannkoch, C., Lewis, M., Tanenbaum, D., Rusch, D., Heidelberg, K. (2010). How does surface soil geomorphology and land-use influence the soil microbial ecosystems in south eastern Australia? Insights gained from DNA sequencing of the soil metagenome. pp. 12-15. Brisbane. 2010 19th World Congress of Soil Sci., Soil Solutions for a Changing World.. PDF
 

Technical Report

Heidelberg, K. B., Allen, A., Stepanauskas, R., Yildiz, F., Murray, A., Sullivan, M., Yakimov, M. (2009). Marine Molecular Microbiology - The Great Questions. European Commission. Joint EC-US CIESM Workshop on Marine Genomics At the Interface of Marine Microbial Ecology and Biotechnological Applications
 

Working Paper

Edgcomb, V. P., Biddle, J., Caron, D. A., Heidelberg, K. B., Countway, P. D., Teske, A. (2009). New Frontiers: The Evaluation of Eukaryotic Populations in the Deep Marine Subsurface: Scientific Goals and Approaches for Future Ocean Drilling Projects. INVEST. INVEST IODP Renewal Meeting, University of Bremen
 

Multimedia Scholarship and Creative Works

Article and Training/Outreach Video, The Machine that Goes Ping: Article and web-based video http://uscnews.usc.edu/science_technology/the_machine_that_goes_ping.html, 2008-2009   
Magazine, Research featured in USC Trojan Family Magazine Article, "Blurring the Lines Between Earth and Life", 2008-2009   
Newspaper/web article, Ventura County Star highlighted a satellite Q&A with high school students from aboard the submersible Alvin. Education outreach part of 2008 hydrothermal vent cruise. Story included a photo of Heidelberg and colleagues on Alvin. http://www.venturacountystar.com/news/2008/nov/25/high-school-kids-ask-deep-sea-questions/ , 2008-2009   
Radio Interview, Seti Institute Science Friday Radio Program. DNA: The Nucleotide is Turning, 2006-2007   
Discovery Channel Documentary, Science Advisor "Cracking the Ocean Code", 2004-2005   
Article, Research featured in National Geographic Adventure Magazine, 2002-2003   
Interactive Outreach Website, NOAA Sponsored Outreach for Aquarius Underwater Habitat Saturation Research Mission: http://www.uncw.edu/aquarius/, 2000-2001   
Article, Research featured on CNN.com, Nature Section, 1999-2000   
Documentary, Research featured in Jason VII: Adapting to a Changing Sea, 1995-1996   
 

Honors and Awards

USC or School/Dept Award for Teaching, Steven B. Sample Teaching and Mentoring Award, 2012-2013   
USC or School/Dept Award for Teaching, (Nomination) USC Steven B. Sample Teaching and Mentoring Award, 2010-2011   
Superior Honor Award, US Department of State, 2004  
Meritorious Honor Award, US Department of State, 2003  
Maryville College Kin Takahashi Award for Young Alumni, 2001  
 

Service to the Profession

Editorships and Editorial Boards

Editorial Board, Microbiome, 01/2012-  
Associate Editor, Frontiers in Aquatic Microbiology, 06/2010-  
 
 
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