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Refereed Publications
Hobbie JE, Bahr M, Reysenbach AL (in press) Ecology at Long Term Research Sites: Integrating Microbes and Ecosystems. In: ASM Manual of Environmental Microbiology, 3rd Edition. ASM Press. Bahr M, Crump BC, Klepac-Ceraj V, Teske A, Sogin ML, Hobbie JE (2005) Molecular characterization of sulfate-reducing bacteria in a New England salt marsh. Environmental Microbiology 7:1175-1185 Bernhard AE, Donn T, Giblin AE, Stahl DA (2005) Loss of diversity of ammonia-oxidizing bacteria correlates with increasing salinity in an estuary system. Environmental Microbiology 7:1289-1297 Crump BC, Hobbie JE (2005) Synchrony and seasonality of bacterioplankton communities in two temperate rivers. Limnology And Oceanography 50:1718-1729 Konneke M, Bernhard AE, de la Torre JR, Walker CB, Waterbury JB, Stahl DA (2005) Isolation of an autotrophic ammonia-oxidizing marine archaeon. Nature 437:543-546 Thompson JR, Pacocha S, Pharino C, Klepac-Ceraj V, Hunt DE, Benoit J, Sarma-Rupavtarm R, Distel DL, Polz MF (2005) Genotypic diversity within a natural coastal bacterioplankton population. Science 307:1311-1313 Acinas SG, Klepac-Ceraj V, Hunt DE, Pharino C, Ceraj I, Distel DL, Polz MF (2004) Fine-scale phylogenetic architecture of a complex bacterial community. Nature 430:551-554 Crump BC, Hopkinson CS, Sogin ML, Hobbie JE (2004) Microbial biogeography along an estuarine salinity gradient: Combined influences of bacterial growth and residence time. Applied and Environmental Microbiology 70:1494-1505 Klepac-Ceraj V, Bahr M, Crump BC, Teske AP, Hobbie JE, Polz MF (2004) High overall diversity and dominance of microdiverse relationships in salt marsh sulphate-reducing bacteria. Environmental Microbiology 6:686-698 Nielsen JL, Schramm A, Bernhard AE, van den Engh GJ, Stahl DA (2004) Flow cytometry-assisted clone sorting after fluorescence in situ hybridization (FACS-FISH) of 16S rRNA gene clone libraries. Applied And Environmental Microbiology 70:7550-7554 El Fantroussi S, Urakawa H, Bernhard AE, Kelly JJ, Noble PA, Smidt H, Yershov GM, Stahl DA (2003) Direct profiling of environmental microbial populations by thermal dissociation analysis of native rRNAs hybridized to oligonucleotide microarrays. Applied And Environmental Microbiology 69:2377-2382 Zwart G, van Hannen EJ, Kamst-van Agterveld MP, Van der Gucht K, Lindstrom ES, Van Wichelen J, Lauridsen T, Crump BC, Han SK, Declerck S (2003) Rapid screening for freshwater bacterial groups by using reverse line blot hybridization. Applied and Environmental Microbiology 69:5875-5883 Boschker HTS, Middelburg JJ (2002) Stable isotopes and biomarkers in microbial ecology. Fems Microbiology Ecology 40:85-95 Levine UY, Crump BC (2002) Bacterioplankton community composition in flowing waters of the Ipswich River watershed. Biological Bulletin 203:251-252 Zwart G, Crump BC, Agterveld M, Hagen F, Han SK (2002) Typical freshwater bacteria: an analysis of available 16S rRNA gene sequences from plankton of lakes and rivers. Aquatic Microbial Ecology 28:141-155 Hobbie JE (2000) Estuarine Science, a synthetic approach to research and practice. Island Press, Washington, D.C. 539 p. Hobbie JE (2000) Estuarine science: the key to progress in coastal ecological research, pages 1-16. In - J. Hobbie (ed.) Estuarine Science, a synthetic approach to research and practice. Island Press, Washington, D.C. Hopkinson CS, Buffam I, Hobbie J, Vallino J, Perdue M, Eversmeyer B, Prahl F, Covert J, Hodson R, Moran MA, Smith E, Baross J, Crump B, Findlay S, Foreman K (1998) Terrestrial inputs of organic matter to coastal ecosystems: An intercomparison of chemical characteristics and bioavailability. Biogeochemistry 43:211-234 Hullar MAJ, Fry B, Peterson BJ, Wright RT (1996) Microbial utilization of estuarine dissolved organic carbon: A stable isotope tracer approach tested by mass balance. Applied And Environmental Microbiology 62:2489-2493 Vallino JJ, Hopkinson CS, Hobbie JE (1996) Modeling bacterial utilization of dissolved organic matter: Optimization replaces Monod growth kinetics. Limnology and Oceanography 41:1591-1609 Abstracts Crump BC (2005) Short residence time and niche instability limits the development of estuarine bacterioplankton communities and may also limit their ecological function. The Ecological Society of America, 90th annual meeting, Montréal, Canada, Bernhard AE, Giblin AE, Tucker J, Donn TM, Stahl DA (2004) Investigating the link between ammonia oxidizing bacterial diversity and activity in estuarine sediments. American Society of Microbiology General Meeting, New Orleans, LA. Klepac-Ceraj V, Polz M (2004) High overall diversity and dominance of microdiversity among co-existing salt-marsh sulfate reducers. The Oceanographic Society / American Society of Limnology and Oceanography Ocean Sciences Meeting, Honolulu, HI. Bahr M, Teske A, Crump BC (2003) Seasonal patterns of diversity of sulfate reducing bacteria in a salt marsh: analysis by sequencing dissimilatory sulfite reductase genes. American Society of Limnology and Oceanography Aquatic Sciences Meeting, Salt Lake City, UT, February 8 to 14, 2003 Bernhard AE, Donn TM, Stahl DA (2003) Community structure of ammonia-oxidizing bacteria in estuarine sediments based on the diversity of the functional gene, ammonia monooxygenase. Estuarine Research Federation, Biennial Meeting, Seattle, WA. Crump BC, Hopkinson CS, Baross JA, Hobbie JE (2003) Estuarine bacterioplankton: residence time, growth rate and community composition. 17th Biennial Conference of the Estuarine Research Federation, Seattle, WA, September 14-18, 2003. Crump BC, Hopkinson CS, Hobbie JE (2003) Estuarine bacterioplankton: physical and biological influences on growth and diversity. American Society of Limnology and Oceanography Aquatic Sciences Meeting, Salt Lake City, UT, February 8 to 14, 2003 Klepac-Ceraj V, Polz M (2003). 16S rRNA diversity of sulfate-reducing bacteria belonging to delta-proteobacteria in salt marsh sediments. 8th Croatian Biological Conference, Zagreb, Croatia. Klepac-Ceraj V, Bahr M, Crump BC, Teske AP, Hobbie JE, Polz MF (2003) Molecular diversity of delta-proteobacterial sulfate reducers in salt marsh sediments. General Meeting of the American Society for Microbiology, Washington D.C., May 18-22, 2003 Bernhard AE, Giblin AE, Tucker J, Waterbury JB, Stahl DA (2002) Salinity effects on community structure and numbers of ammonia-oxidizing bacteria and nitrification rates in estuarine sediments. American Society of Limnology and Oceanography, Victoria, B.C. Bernhard AE, Schramm A, Stahl DA (2002) Shifts in community structure of ammonia-oxidizing bacteria along a salinity gradient. American Society of Microbiology General Meeting, Salt Lake City, UT. Crump BC, Hobbie JE, Zwart G, Hopkinson CS (2001) Microbial biogeography along an estuarine gradient in the Parker River and Plum Island Sound, Massachusetts. American Society of Limnology and Oceanography Aquatic Sciences Meeting, Albuquerque, NM, February 12 to 16, 2001 van Hannen EJ, van Agterveld MP, Crump BC, Zwart G (2001) The Detection of Typical Freshwater Bacteria by Multiprobe Array. International Symposium on Microbial Ecology, Amsterdam, The Netherlands, August 26-31, 2001 Invited Presentations Crump BC. Microbial biogeography in estuaries: the combined influences of growth rate, advection, and residence time. Seminar given at the Oregon Health and Sciences University, School of Science and Engineering, Mar. 12, 2004. Crump BC. Microbial Diversity and Ecosystems: A Strategy for Linking Structure and Function in Aquatic Systems. Seminar given for the workshop Outcomes of Genome-Genome Interaction. Woods Hole, MA. May 1, 2002 Crump BC. Contemporary molecular techniques for studying microbial diversity: How do they work? Seminar given at the Marine Biological Laboratory, Woods Hole, MA. December 5, 2000 Crump BC. The ecology and diversity of estuarine microbes: the Columbia River Estuary and Plum Island Sound. Seminar given at the University of Connecticut, Avery Point, CT. October 27, 2000
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