Bohannan Research Group

Publications by subject

 

Ecology of Host-Associated Microbes

Bohannan, B. J. M. 2015. Restoration of the human microbiome. In: Bronstein, J. (Ed.), Mutualism. Oxford, UK: Oxford University Press. In press.

Colehour, A. M., J. A. Meadow, M. A. Liebert, T. J. Cepon-Robins, T. E. Gildner, S. S. Urlacher, B. J.M. Bohannan, J. J. Snodgrass, and L. S. Sugiyama. 2014.  Local domestication of lactic acid bacteria via cassava beer fermentation. PeerJ 2: e479 http://dx.doi.org/10.7717/peerj.479.5

Costello, E. K., K. Stagaman, L. Dethlefsen, B. J. M. Bohannan, D. A. Relman. 2012. The application of ecological theory toward an understanding of the human microbiome. Science 336: 1255-1261.

Robinson, C., B. J. M. Bohannan and V. Young. 2010. From structure to function: the ecology of host-associated microbial communities. Microbiology and Molecular Biology Reviews 74: 453-476.

Klepac-Ceraj, V., K. P. Lemon, T. R. Martin, M. Allgaier, S. W. Kembel, A. A. Knapp, S. Lory, E. L. Brodie, S. V. Lynch, B. J. M. Bohannan, J. Green, B. A. Maurer and R. Kolter. 2010. Relationship between cystic fibrosis respiratory tract bacterial communities and age, genotype, antibiotics and Pseudomonas aeruginosa. Environmental Microbiology 12(5): 1293-1303.

Gagneux, S., C. Davis Long, P. M. Small, T. Van, G. Schoolnick, and B. J. M. Bohannan. 2006. The competitive cost of antibiotic resistance in Mycobacterium tuberculosis. Science 312: 1944-1946.

Willeberg, P. W., R. Ruppanner, D. E. Behymer, H. H. Higa, C. E. Franti, R. A. Thompson, and B. Bohannan. 1979. Epidemiologic survey of sylvatic plague by serotesting coyote sentinels with enzyme immunoassay. American Journal of Epidemiology 110(3): 328-334.

 

Microbiology of Built Environments

Meadow, J. F., A. E. Altricher, T. K. O’Connor, S. W. Kembel, G. Z. Brown, J. L. Green, and B. J. M. Bohannan. 2014. Bacterial communities on classroom surfaces vary with human contact. BMC Microbiome 2: 7.

Kembel, S. W., J. F. Meadow, T. K. O'Connor, G. Mhuireach, D. Northcutt, J. Kline, M. Moriyama, G.Z. Brown, B. J. M. Bohannan, and J. L. Green. 2014. Architectural design drives the biogeography of indoor bacterial communities.  PLoS One 9: e87093.

Meadow, J. F., A. E. Altricher, S. W. Kembel, J. Kline, M. Moriyama, D. Northcutt, T. K. O’Connor, A. Womack, G. Z. Brown, J. L. Green,, and B. J. M. Bohannan. 2013. Indoor airborne bacterial communities are influenced by ventilation, occupancy, and outdoor air source. Indoor Air 24: 41–48.

Kembel, S., J. Kline, D. Northcutt, J. Stenson, A. Womack, B. J. M. Bohannan, G. Z. Brown, and J. L. Green. 2012. Architectural design shapes the built environment microbiome. ISME Journal 6:1469-79.

 

Microbial Ecology and Global Change

Paula, F. S. , J. L. M. Rodrigues, J. Zhou, L. Wu, R. C. Mueller, B. S. Mirza . B. J.M. Bohannan, K. Nüsslein , Y. Deng, J. M. Tiedje, and V. H. Pellizari. 2014. Land use change alters functional gene diversity, composition and abundance in Amazon forest soil microbial communities.  Molecular Ecology 23: 2988–2999.

Mueller, R. C., F. S. Paula, B. Mirza, J. L. M. Rodrigues, and B. J. M. Bohannan.  2014. Links between plant and fungal communities across a deforestation chronosequence in the Amazon rainforest. ISME Journal 8: 1548-1550.

Mirza,B., C. Potisap, K. Nusslein, B. J. M. Bohannan, and J. Rodrigues. 2013. Response of free-living nitrogen-fixing microorganisms to land use change in the Amazon rainforest. Applied and Environmental Microbiology 80: 281-288.

Ye, R., Q. Jin, B. J. M. Bohannan, J. K. Keller, and S. D. Bridgham. 2013. Homoacetogenesis: an underappreciated carbon pathway in peatlands. Soil Biology and Biochemistry 68: 385-391.

Rodrigues, J. V. Pellizari, R. Mueller, K. Baek, B. Mirza, G. Hamaoui, S. M. Tsai, B. Feigl, J. M. Tiedje, B. J.M. Bohannan, and K. Nüsslein. 2013. Conversion of the Amazon Rainforest to agriculture results in biotic homogenization of soil bacterial communities. Proceedings of the National Academy of Sciences (USA) 110:988-993.

Ye, R., Q. Jin, B. Bohannan, J. Keller, S. A. McAllister, and S. D. Bridgham. 2012. pH controls over anaerobic carbon mineralization, the efficiency of methane production, and methanogenic pathways in peatlands across an ombrotrophic-minerotrophic gradient. Soil Biology and Biochemistry 54:36-47.

Docherty, K., T. C. Balser, B. J. M. Bohannan and J.L.M. Gutknecht. 2012. Soil microbial responses to fire and interacting global change factors in a California annual grassland. Biogeochemistry 109: 63-83.

Avrahami, S. and B. J. M. Bohannan. 2009. N2O emission rates in a California meadow soil are influenced by fertilizer level, soil moisture and the community structure of ammonia-oxidizing bacteria. Global Change Biology 15:631-642.

Avrahami, S. and B. J. M. Bohannan. 2007. Response of Nitrosospira sp. AF-like ammonia-oxidizers to changes in temperature, soil moisture and fertilizer concentration. Applied and Environmental Microbiology 73:1166-1173.

Kramer, S., J. Reganold, B. J. M. Bohannan, and H. Mooney. 2006. Reduced nitrate leaching and enhanced denitrifier activity and efficiency in organically fertilized soils. Proceedings of the National Academy of Sciences (USA) 103: 4522-4527.

Horz, H.- P., V. Rich, S. Avrahami and B. J. M. Bohannan. 2005. Methane-oxidizing bacteria in a Californian upland grassland: diversity and response to simulated global change. Applied and Environmental Microbiology 71:2642-2652.

Horz, H.- P., A. Barbrook, C. Field and B. J. M. Bohannan. 2004. Ammonia-oxidizing bacteria respond to multifactorial global change. Proceedings of the National Academy of Sciences (USA) 101: 15136 - 15141.

Carney, K, P. Matson, and B. J. M. Bohannan. 2004. Diversity and composition of tropical soil nitrifiers across a plant diversity gradient and among land-use types. Ecology Letters 7: 684 - 694.

 

Microbial Biodiversity and Biogeography

Barberán, A., A. Fernández-Guerra, B. J. M. Bohannan, and E. O. Casamayor. 2012. Exploration of community traits as ecological markers in microbial metagenomes. Molecular Ecology 8:1909-1917.

Morlon, H. , J. Bryant, P. Marquet, T. Rebelo, D. Schwilk, C. Tauss, B. J. M. Bohannan, and J. Green. 2011. Spatial patterns of phylogenetic diversity. Ecology Letters 14: 141–149.

Womack, A., B. J. M. Bohannan and J. Green. 2010. Biogeography of the air. Philosophical Transactions of the Royal Society B 365: 3645–3653.

Green, J. L., B. J. M. Bohannan and R. J. Whitaker. 2008. Microbial biogeography: from taxonomy to traits. Science 320: 1039-1043.

Horner-Devine, M. C., J. Silver, M. A. Leibold, J. B. H. Martiny, B. J. M. Bohannan, R. K. Colwell, J.Fuhrman, J. Green, M. Kane, C. R. Kuske, G. Muyzer, L. Ovreas, A.-L. Reysenbach and V. Smith. 2007. Patterns of taxon co-occurrence: a comparison of assembly rules for macro and microorganisms. Ecology 88:1345-1353.

Green, J. and B. J. M. Bohannan. 2006. Spatial scaling of microbial biodiversity. Trends in Ecology and Evolutionary Biology 21: 501-507.

Horner-Devine, M. C., and B. J. M. Bohannan. 2006. Phylogenetic clustering and overdispersion in bacterial communities. Ecology 87: S100 – S108.

Horner-Devine, M. C., J. Green and B. J. M. Bohannan. 2006. Patterns in prokaryotic biodiversity. In: Prokaryotic Diversity: Mechanisms and Significance. H.M. Lappin-Scott, editor (Society for General Microbiology, Reading, UK).

Martiny, J. B. H., B. J. M. Bohannan, J. H. Brown, R. K. Colwell, J.Fuhrman, J. Green, M. C. Horner-Devine, M. Kane, J. A. Krumins, C. R. Kuske, P. Morin, S. Naeem, L. Ovreas, A.-L. Reysenbach. V. Smith, and J. Staley. 2006. Microbial biogeography: Putting microbes on the map. Nature Reviews Microbiology 4:102 -112.

Green, J. and B. J. M. Bohannan. 2006. Are microbes fundamentally different? Scaling relationships in microbial biodiversity. In: Scaling and Biodiversity, D. Storch, P. Marquet, G. West, and J. Brown, editors (Cambridge University Press, Cambridge, UK).

Horner-Devine, M. C., M. Lage, J. Hughes and B. J. M. Bohannan. 2004. A taxa-area relationship for bacteria. Nature 432: 750 - 753.

Hughes, J. and B. J. M. Bohannan. 2004. Applications of ecological diversity statistics in microbial ecology. In: A. D. L. Akkermans et al, eds. Molecular Microbial Ecology Manual 2nd Edition (Kluwer Academic Publishers: Dordrecht, The Netherlands).

Horner-Devine, M. C., K. Carney, and B. J. M. Bohannan. 2004. An ecological perspective on bacterial biodiversity. Proceedings of the Royal Society B 271: 113-122.

Horner-Devine, M. C., M. A. Leibold, V. H. Smith, and B. J. M. Bohannan. 2003. Bacterial diversity patterns along a gradient of primary productivity. Ecology Letters 6:613 - 622.

Bohannan, B. J. M. and J. Hughes. 2003. New approaches to analyzing microbial diversity data. Current Opinion in Microbiology 6:282 - 287.

Hughes, J., J. Hellman, T. Ricketts, and B. J. M. Bohannan. 2002. Erratum - Counting the uncountable: statistical approaches to estimating microbial diversity. Applied and Environmental Microbiology 68:448.

Hughes, J., J. Hellman, T. Ricketts, and B. J. M. Bohannan. 2001. Counting the uncountable: statistical approaches to estimating microbial diversity. Applied and Environmental Microbiology 67:4399-4406.

 

Experimental Microbial Ecology and Evolution

Jessup, C. and B. J. M. Bohannan. 2008. The shape of an ecological trade-off varies with environment. Ecology Letters 12: 947 - 949.

Forde, S., J. Thompson and B. J. M. Bohannan. 2008. Coevolution drives temporal changes in fitness and diversity across environments in a bacteria–bacteriophage interaction. Evolution 62: 1830 - 1839.

Kerr, B., J. West and B. J. M. Bohannan. 2008. Bacteriophage: Models for Exploring Basic Principles of Ecology. In: Bacteriophage Ecology: Population Growth, Evolution, and Impact of Bacterial Viruses. S. T. Abedon, editor (Cambridge University Press, Cambridge, UK).

Yoshida, T., S. P. Ellner, L. E. Jones, B. J. M. Bohannan, R. E. Lenski and N. G. Hairston Jr. 2007. Cryptic population dynamics: rapid evolution masks trophic interactions. PLoS Biology 5:1868-1879.

Forde, S., J. Thompson and B. J. M. Bohannan. 2007. Gene flow reverses an adaptive cline in a coevolving host-parasitoid interaction. American Naturalist 169: 794-801.

Prosser, J. I., B. J. M. Bohannan, T. P. Curtis, R. J. Ellis, M. K. Firestone, R. P. Freckleton, J. L. Green, L. E. Green, K. Killham, J. J. Lennon, A. M. Osborn, M. Solan, C. J. van der Gast, and J. P. Young. 2007. The role of ecological theory in microbial ecology. Nature Reviews Microbiology 5: 384 – 392.

Kerr, B., C. Neuhauser, B. J. M. Bohannan, and A. M. Dean. 2006. Local migration promotes competitive restraint in a host-pathogen ‘tragedy of the commons’. Nature 442:75-78.

Jessup, C. M., S. Forde and B. J. M. Bohannan. 2005. Microbial experimental systems in ecology. Advances in Ecological Research 37: 273-307.

Forde, S., J. Thompson and B. J. M. Bohannan. 2004. Adaptation changes in space and time in a coevolving host-parasitoid interaction. Nature 431: 841 - 844.

Sandvik, G., C. Jessup, K. Seip and B. J. M. Bohannan. 2004. Using the angle frequency method to detect signals of competition and predation in experimental time series. Ecology Letters 7: 640 - 652 .

Jessup, C. M., R. Kassen, S. E. Forde, B. Kerr, A. Buckling, P. B. Rainey, and B. J.M. Bohannan. 2004. Big questions, small worlds: microbial model systems in ecology. Trends in Ecology and Evolution 19: 189 – 197.

Kerr, B., M. Riley, M. Feldman and B. J. M. Bohannan. 2002. Local dispersal and interaction promote coexistence in a real life game of rock-paper-scissors. Nature 418:171-174.

Bohannan, B. J. M., B. Kerr, C. Jessup, J. Hughes, and G. Sandvik. 2002. Trade-offs and coexistence in microbial microcosms. Antonie von Leeuvenhoek 81: 107-115.

Bohannan, B. J. M. 2001. Effect of resource supply rate on host-pathogen dynamics. In: P. Johnson-Green, ed. Microbial Biosystems: New Frontiers (Acadia University Press, Wolfville, NS).

Bohannan, B. J. M. and R. E. Lenski. 2000. Linking genetic change to community evolution: insights from studies of bacteria and bacteriophage. Ecology Letters 3: 362-377.

Bohannan, B. J. M. and R. E. Lenski. 2000. The relative importance of competition and predation varies with productivity in a model community. American Naturalist 156(4): 329-340.

Bohannan, B. J. M., M. Travisano, and R. E. Lenski. 1999. Epistatic interactions can lower the cost of resistance to multiple consumers. Evolution 53(1): 292-295.

Bohannan, B. J. M., and R. E. Lenski. 1999. Effect of prey heterogeneity on the response of a food chain to resource enrichment. American Naturalist 153(1): 73-82.

Bohannan, B. J. M., and R. E. Lenski. 1997. Effect of resource enrichment on a chemostat community of bacteria and bacteriophage. Ecology 78(8): 2303-2315.