Stephen Giovannoni

Summary

Affiliation: Oregon State University
Country: USA

Publications

  1. doi request reprint Seasonality in ocean microbial communities
    Stephen J Giovannoni
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Science 335:671-6. 2012
  2. pmc Natural variation in SAR11 marine bacterioplankton genomes inferred from metagenomic data
    Larry J Wilhelm
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Biol Direct 2:27. 2007
  3. pmc Identification of candidate structured RNAs in the marine organism 'Candidatus Pelagibacter ubique'
    Michelle M Meyer
    Department of Molecular Cellular and Developmental Biology, Yale University, New Haven, CT 06520, USA
    BMC Genomics 10:268. 2009
  4. ncbi request reprint Genome streamlining in a cosmopolitan oceanic bacterium
    Stephen J Giovannoni
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Science 309:1242-5. 2005
  5. doi request reprint The small genome of an abundant coastal ocean methylotroph
    Stephen J Giovannoni
    Department of Microbiology, Oregon State University, Corvallis, OR, USA
    Environ Microbiol 10:1771-82. 2008
  6. ncbi request reprint The importance of culturing bacterioplankton in the 'omics' age
    Stephen Giovannoni
    Department of Microbiology, Oregon State University, 220 Nash Hall, Corvallis, Oregon 97333, USA
    Nat Rev Microbiol 5:820-6. 2007
  7. ncbi request reprint Cultivation of the ubiquitous SAR11 marine bacterioplankton clade
    Michael S Rappé
    Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
    Nature 418:630-3. 2002
  8. pmc The SAR92 clade: an abundant coastal clade of culturable marine bacteria possessing proteorhodopsin
    Ulrich Stingl
    Department of Microbiology, Oregon State University, Nash Hall 220, Corvallis, Oregon 97331, USA
    Appl Environ Microbiol 73:2290-6. 2007
  9. ncbi request reprint Polyphyletic photosynthetic reaction centre genes in oligotrophic marine Gammaproteobacteria
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvalis, OR, USA
    Environ Microbiol 9:1456-63. 2007
  10. pmc Transcriptional and translational regulatory responses to iron limitation in the globally distributed marine bacterium Candidatus pelagibacter ubique
    Daniel P Smith
    Molecular and Cellular Biology Program, Oregon State University, Corvallis, Oregon, United States of America
    PLoS ONE 5:e10487. 2010

Collaborators

Detail Information

Publications46

  1. doi request reprint Seasonality in ocean microbial communities
    Stephen J Giovannoni
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Science 335:671-6. 2012
    ..These developments will enable marine scientists to predict changes in geochemical cycles mediated by microbial communities and to gauge their broader impacts...
  2. pmc Natural variation in SAR11 marine bacterioplankton genomes inferred from metagenomic data
    Larry J Wilhelm
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Biol Direct 2:27. 2007
    ....
  3. pmc Identification of candidate structured RNAs in the marine organism 'Candidatus Pelagibacter ubique'
    Michelle M Meyer
    Department of Molecular Cellular and Developmental Biology, Yale University, New Haven, CT 06520, USA
    BMC Genomics 10:268. 2009
    ..The genome of 'Candidatus Pelagibacter ubique' HTCC 1062 is the closest match for approximately 20% of marine metagenomic sequence reads. It is also small, contains little non-coding DNA, and has strikingly low GC content...
  4. ncbi request reprint Genome streamlining in a cosmopolitan oceanic bacterium
    Stephen J Giovannoni
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Science 309:1242-5. 2005
    ..P. ubique has no pseudogenes, introns, transposons, extrachromosomal elements, or inteins; few paralogs; and the shortest intergenic spacers yet observed for any cell...
  5. doi request reprint The small genome of an abundant coastal ocean methylotroph
    Stephen J Giovannoni
    Department of Microbiology, Oregon State University, Corvallis, OR, USA
    Environ Microbiol 10:1771-82. 2008
    ..The discovery that HTCC2181 is an extremely simple specialist in C1 metabolism suggests an unanticipated, important role for oxidized C1 compounds as substrates for bacterioplankton productivity in coastal ecosystems...
  6. ncbi request reprint The importance of culturing bacterioplankton in the 'omics' age
    Stephen Giovannoni
    Department of Microbiology, Oregon State University, 220 Nash Hall, Corvallis, Oregon 97333, USA
    Nat Rev Microbiol 5:820-6. 2007
    ..Here, we review how to cultivate marine oligotrophs and why it is worth the effort...
  7. ncbi request reprint Cultivation of the ubiquitous SAR11 marine bacterioplankton clade
    Michael S Rappé
    Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
    Nature 418:630-3. 2002
    ..Eleven of these cultures have been successfully passaged and cryopreserved for future study. The volume of these cells, about 0.01 micro m(3), places them among the smallest free-living cells in culture...
  8. pmc The SAR92 clade: an abundant coastal clade of culturable marine bacteria possessing proteorhodopsin
    Ulrich Stingl
    Department of Microbiology, Oregon State University, Nash Hall 220, Corvallis, Oregon 97331, USA
    Appl Environ Microbiol 73:2290-6. 2007
    ..Although the growth of HTCC2207 is limited by the amount of available carbon that is present in the medium applied, these cultures do not grow at higher rates nor do they have higher growth yields when incubated under light...
  9. ncbi request reprint Polyphyletic photosynthetic reaction centre genes in oligotrophic marine Gammaproteobacteria
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvalis, OR, USA
    Environ Microbiol 9:1456-63. 2007
    ....
  10. pmc Transcriptional and translational regulatory responses to iron limitation in the globally distributed marine bacterium Candidatus pelagibacter ubique
    Daniel P Smith
    Molecular and Cellular Biology Program, Oregon State University, Corvallis, Oregon, United States of America
    PLoS ONE 5:e10487. 2010
    ..We propose a model in which the RNA-binding activity of CspE and CspL selectively enables protein synthesis of the iron acquisition protein SfuC during transient growth-limiting episodes of iron scarcity...
  11. ncbi request reprint Using lasers to probe the transient light absorption by proteorhodopsin in marine bacterioplankton
    Russell A Desiderio
    College of Oceanic and Atmospheric Sciences, Oregon State University, Corvallis, Oregon 97331, USA
    Appl Opt 46:7329-36. 2007
    ..Such a laser-based approach may prove useful in shipboard studies for identifying proteorhodopsin in whole cell suspensions concentrated from seawater...
  12. ncbi request reprint Improvements of high-throughput culturing yielded novel SAR11 strains and other abundant marine bacteria from the Oregon coast and the Bermuda Atlantic Time Series study site
    Ulrich Stingl
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    ISME J 1:361-71. 2007
    ....
  13. doi request reprint Average genome size: a potential source of bias in comparative metagenomics
    Bank Beszteri
    Department of Microbiology, Oregon State University, Corvallis, OR, USA
    ISME J 4:1075-7. 2010
    ..We illustrate the influence of average genome-size differences on comparative analyses, with an example to highlight the need for further exploration of this bias...
  14. doi request reprint Seasonality and vertical structure of microbial communities in an ocean gyre
    Alexander H Treusch
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    ISME J 3:1148-63. 2009
    ..These richly detailed patterns of community change suggest that highly specialized adaptations and interactions govern the success of microbial populations in the oligotrophic ocean...
  15. ncbi request reprint Robiginitalea biformata gen. nov., sp. nov., a novel marine bacterium in the family Flavobacteriaceae with a higher G+C content
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Int J Syst Evol Microbiol 54:1101-6. 2004
    ..It is proposed, from the polyphasic evidence, that the strains be placed into a novel genus and a novel species named Robiginitalea biformata gen. nov., sp. nov., with strain HTCC2501T (=ATCC BAA-864T=KCTC 12146T) as the type strain...
  16. ncbi request reprint Lentisphaera araneosa gen. nov., sp. nov, a transparent exopolymer producing marine bacterium, and the description of a novel bacterial phylum, Lentisphaerae
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Environ Microbiol 6:611-21. 2004
    ..nov., sp. nov., the cultured marine representative of the Lentisphaerae phyl. nov., and the phylum be divided into two novel orders named the Lentisphaerales ord. nov. and the Victivallales ord. nov...
  17. ncbi request reprint Parvularcula bermudensis gen. nov., sp. nov., a marine bacterium that forms a deep branch in the alpha-Proteobacteria
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Int J Syst Evol Microbiol 53:1031-6. 2003
    ..From this polyphasic evidence, it is proposed that the novel strains should be classified as Parvularcula bermudensis gen. nov., sp. nov. The type strain is HTCC2503T (= ATCC BAA-594T = KCTC 12087T) and the reference strain is HTCC2517...
  18. ncbi request reprint Oceanicola granulosus gen. nov., sp. nov. and Oceanicola batsensis sp. nov., poly-beta-hydroxybutyrate-producing marine bacteria in the order 'Rhodobacterales'
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Int J Syst Evol Microbiol 54:1129-36. 2004
    ..nov., sp. nov. with the type strain HTCC2516T (=ATCC BAA-861T=DSM 15982T=KCTC 12143T) and of Oceanicola batsensis sp. nov. with the type strain HTCC2597T (=ATCC BAA-863T=DSM 15984T=KCTC 12145T)...
  19. pmc Cultivation and growth characteristics of a diverse group of oligotrophic marine Gammaproteobacteria
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
    Appl Environ Microbiol 70:432-40. 2004
    ....
  20. ncbi request reprint The uncultured microbial majority
    Michael S Rappé
    Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
    Annu Rev Microbiol 57:369-94. 2003
    ..Genome sequence information that would allow ribosomal RNA gene trees to be related to broader patterns in microbial genome evolution is scant, and therefore microbial diversity remains largely unexplored territory...
  21. doi request reprint SAR11 marine bacteria require exogenous reduced sulphur for growth
    H James Tripp
    Department of Microbiology, 220 Nash Hall, Oregon State University, Corvallis, Oregon 97331, USA
    Nature 452:741-4. 2008
    ..P. ubique' relies exclusively on reduced sulphur compounds that originate from other plankton...
  22. pmc Proteomic analysis of stationary phase in the marine bacterium "Candidatus Pelagibacter ubique"
    Sarah M Sowell
    Department of Microbiology, Oregon State University, 220 Nash Hall, Corvallis, OR 97331, USA
    Appl Environ Microbiol 74:4091-100. 2008
    ....
  23. doi request reprint Prokaryotic diversity, distribution, and insights into their role in biogeochemical cycling in marine basalts
    Olivia U Mason
    College of Oceanic and Atmospheric Sciences, Oregon State University, Corvallis, OR 97331, USA
    ISME J 3:231-42. 2009
    ..These novel processes could exert a profound influence on ocean chemistry...
  24. ncbi request reprint Croceibacter atlanticus gen. nov., sp. nov., a novel marine bacterium in the family Flavobacteriaceae
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvallis 97331, USA
    Syst Appl Microbiol 26:76-83. 2003
    ..Therefore, it is proposed from the polyphasic studies that strain HTCC2559T (=ATCC BAA-628T = KCTC 12090T) belongs to a new genus and species named Croceibacter atlanticus gen. nov., sp. nov...
  25. ncbi request reprint The phylogeny of endolithic microbes associated with marine basalts
    Olivia U Mason
    College of Oceanic and Atmospheric Sciences, Oregon State University, Corvallis, OR 97331, USA
    Environ Microbiol 9:2539-50. 2007
    ....
  26. ncbi request reprint Bacterial community composition determined by culture-independent and -dependent methods during propane-stimulated bioremediation in trichloroethene-contaminated groundwater
    Stephanie A Connon
    Microbiology Department, Oregon State University, 202 Apperson Hall, Corvallis, OR 97331, USA
    Environ Microbiol 7:165-78. 2005
    ..The dominant cultures from the air-sparged groundwater were from a novel beta-Proteobacterial clade, which we named after isolate HTCC333...
  27. pmc High-throughput methods for culturing microorganisms in very-low-nutrient media yield diverse new marine isolates
    Stephanie A Connon
    Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
    Appl Environ Microbiol 68:3878-85. 2002
    ..This method proved successful for the cultivation of previously uncultured marine bacterioplankton that have consistently been found in marine clone libraries...
  28. ncbi request reprint Molecular diversity and ecology of microbial plankton
    Stephen J Giovannoni
    Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
    Nature 437:343-8. 2005
    ..Genome sequence data are piling up, but most of the key microbial plankton clades have no cultivated representatives, and information about their ecological activities is sparse...
  29. pmc Genome sequences of Pelagibaca bermudensis HTCC2601T and Maritimibacter alkaliphilus HTCC2654T, the type strains of two marine Roseobacter genera
    J Cameron Thrash
    Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
    J Bacteriol 192:5552-3. 2010
    ....
  30. pmc Genome sequences of strains HTCC2148 and HTCC2080, belonging to the OM60/NOR5 clade of the Gammaproteobacteria
    J Cameron Thrash
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    J Bacteriol 192:3842-3. 2010
    ..Isolated from coastal Oregon water, Gammaproteobacteria HTCC2148 and HTCC2080 are two members of this important clade. Here we present the genome sequences of the OM60 Gammaproteobacteria HTCC2148 and HTCC2080...
  31. pmc Genome sequence of the novel marine member of the Gammaproteobacteria strain HTCC5015
    J Cameron Thrash
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    J Bacteriol 192:3838-9. 2010
    ..Here we present the genome sequence of the unique Gammaproteobacterium strain HTCC5015...
  32. ncbi request reprint High intraspecific recombination rate in a native population of Candidatus pelagibacter ubique (SAR11)
    Kevin L Vergin
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Environ Microbiol 9:2430-40. 2007
    ..The eukaryotic model of species sharing a common pool of alleles is more apt for this SAR11 population than a strictly clonal model of inheritance in which allelic diversity is controlled by periodic selection...
  33. pmc Proteomic analysis of novel marine bacteria using MALDI and ESI mass spectrometry
    Martha D Stapels
    Department of Chemistry, 153 Gilbert Hall, Oregon State University, Corvallis, OR 97331 4003, USA
    J Biomol Tech 15:191-8. 2004
    ..With correct choices in sample preparation and ionization process, biologically relevant proteins can be identified out of small samples containing whole proteomes...
  34. pmc Unique glycine-activated riboswitch linked to glycine-serine auxotrophy in SAR11
    H James Tripp
    Department of Microbiology, Oregon State University, Corvallis, OR 97333, USA
    Environ Microbiol 11:230-8. 2009
    ..Comparative genomics and metagenomics indicate that these conclusions may hold throughout much of the SAR11 clade...
  35. ncbi request reprint SAR11 clade dominates ocean surface bacterioplankton communities
    Robert M Morris
    Department of Microbiology, Oregon State University, Corvallis, Oregon 97331, USA
    Nature 420:806-10. 2002
    ..Although the biogeochemical role of the SAR11 clade remains uncertain, these data support the conclusion that this microbial group is among the most successful organisms on Earth...
  36. pmc Genome sequence of Lentisphaera araneosa HTCC2155T, the type species of the order Lentisphaerales in the phylum Lentisphaerae
    J Cameron Thrash
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    J Bacteriol 192:2938-9. 2010
    ..Here we present the genome sequence of L. araneosa HTCC2155(T), importantly, one of only two sequenced members of the phylum Lentisphaerae...
  37. ncbi request reprint Fulvimarina pelagi gen. nov., sp. nov., a marine bacterium that forms a deep evolutionary lineage of descent in the order "Rhizobiales"
    Jang Cheon Cho
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    Int J Syst Evol Microbiol 53:1853-9. 2003
    ..From polyphasic evidence, it is proposed that the strains be placed into a novel genus and species, Fulvimarina pelagi gen. nov., sp. nov. (type strain, HTCC2506(T)=ATCC BAA-666(T)=KCTC 12091(T)=DSM 15513(T))...
  38. pmc Genome sequence of the Marine Janibacter Sp. Strain HTCC2649
    J Cameron Thrash
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    J Bacteriol 193:584-5. 2011
    ..The organism was isolated from a sample collected at Hydrostation S south of Bermuda by using high-throughput culturing techniques. Here we present the genome sequence of Janibacter sp. strain HTCC2649...
  39. pmc Genome sequences of Oceanicola granulosus HTCC2516(T) and Oceanicola batsensis HTCC2597(TDelta)
    J Cameron Thrash
    Department of Microbiology, Oregon State University, Corvallis, OR 97331, USA
    J Bacteriol 192:3549-50. 2010
    ....
  40. ncbi request reprint Maritimibacter alkaliphilus gen. nov., sp. nov., a genome-sequenced marine bacterium of the Roseobacter clade in the order Rhodobacterales
    Kiyoung Lee
    Division of Biology and Ocean Sciences, Inha University, Incheon 402 751, Republic of Korea
    Int J Syst Evol Microbiol 57:1653-8. 2007
    ..nov., sp. nov. is proposed. The type strain is HTCC2654(T) (=KCCM 42376(T)=NBRC 102057(T))...
  41. ncbi request reprint Ruegeria pelagia sp. nov., isolated from the Sargasso Sea, Atlantic Ocean
    Kiyoung Lee
    Division of Biology and Ocean Sciences, Inha University, Incheon 402 751, Republic of Korea
    Int J Syst Evol Microbiol 57:1815-8. 2007
    ..nov. is proposed. The type strain is HTCC2662(T) (=KCCM 42378(T)=NBRC 102038(T))...
  42. ncbi request reprint Proteorhodopsin in the ubiquitous marine bacterium SAR11
    Stephen J Giovannoni
    Department of Microbiology
    Nature 438:82-5. 2005
    ..The gene is expressed by cells grown in either diurnal light or in darkness, and there is no difference between the growth rates or cell yields of cultures grown in light or darkness...
  43. ncbi request reprint Fluids from aging ocean crust that support microbial life
    James P Cowen
    Department of Oceanography, School of Ocean and Earth Science and Technology, University of Hawaii, Honolulu, HI 96822, USA
    Science 299:120-3. 2003
    ....
  44. ncbi request reprint Maribius salinus gen. nov., sp. nov., isolated from a solar saltern and Maribius pelagius sp. nov., cultured from the Sargasso Sea, belonging to the Roseobacter clade
    Dong H Choi
    School of Earth and Environmental Sciences and Research Institute of Oceanography, Seoul National University, Seoul 151 742, Republic of Korea
    Int J Syst Evol Microbiol 57:270-5. 2007
    ..nov., sp. nov. (type species) and Maribius pelagius sp. nov. are proposed. The type strains of Maribius salinus and Maribius pelagius are CL-SP27T (=KCCM 42113T=JCM 13037T) and B5-6T (=KCCM 42336T=JCM 14009T), respectively...
  45. pmc Representative freshwater bacterioplankton isolated from Crater Lake, Oregon
    Kathleen A Page
    Department of Biology, Southern Oregon University, Ashland, Oregon 97520, USA
    Appl Environ Microbiol 70:6542-50. 2004
    ....
  46. ncbi request reprint Pelagibaca bermudensis gen. nov., sp. nov., a novel marine bacterium within the Roseobacter clade in the order Rhodobacterales
    Jang Cheon Cho
    Division of Life and Marine Sciences, Inha University, Incheon 402 751, Republic of Korea
    Int J Syst Evol Microbiol 56:855-9. 2006
    ..On the basis of the taxonomic data obtained in this study, a novel genus and species, Pelagibaca bermudensis gen. nov., sp. nov., is proposed; HTCC2601T (=KCTC 12554T = JCM 13377T) is the type strain of Pelagibaca bermudensis...