Phylogenetic analysis of the succession of bacterial communities in the Great South Bay (Long Island)

FEMS Microbiology Ecology

Volumn 35, Issue 1, 2001, Pages 85-95

  Kelly, Karen M ^a   Chistoserdov, Andrei Y ^a  

^a STONY BROOK UNIVERSITY   (United States)

Author keywords

16S rRNA clone library; Phylogenetic diversity; Succession

Indexed keywords

BACTERIUM; MICROBIAL COMMUNITY; PHYLOGENETICS; SUCCESSION;

ARTICLE; BACTERIUM ISOLATION; GRAM NEGATIVE BACTERIUM; MARINE ENVIRONMENT; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; SYMBIOSIS; UNITED STATES;

GREAT SOUTH BAY; NEW YORK; UNITED STATES;

ALPHAPROTEOBACTERIA; ALTEROMONAS; AUREOCOCCUS ANOPHAGEFFERENS; BACTERIA (MICROORGANISMS); BETAPROTEOBACTERIA; CYANOBACTERIA; CYTOPHAGA; FLEXIBACTER; GAMMAPROTEOBACTERIA; GELIDIBACTER; PELAGOPHYCEAE; POSIBACTERIA; PSEUDOALTEROMONAS; RALSTONIA; RALSTONIA SP.; SULFUR-OXIDIZING SYMBIONTS; SYNECHOCOCCUS; SYNECHOCOCCUS SP.;

EID: 0035022795     PISSN: 01686496     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0168-6496(00)00115-X     Document Type: Article

References (37)

1. A.S Rehnstam S Backman D.C Smith F Azam A Hagstrom Blooms of sequence-specific culturable bacteria in the sea FEMS Microbiol. Ecol. 102 1993 161 166
2. H Eilers J Pernthaler F.O Glockner R Amann Culturability and in situ abundance of pelagic bacteria from the North Sea Appl. Environ. Microbiol. 66 2000 3044 3051
3. J.M Gonzalez M.A Moran Numerical dominance of a group of marine bacteria in the α-subclass of the class Proteobacteria in coastal seawater Appl. Environ. Microbiol. 63 1997 4237 4242
4. J Pinhassi U.L Zweifel A Hagstrom Dominant marine bacterioplankton species found among colony-forming bacteria Appl. Environ. Microbiol. 63 1997 3359 3366
5. S.J Giovannoni T.B Britschgi C.L Moyer K.G Field Genetic diversity in Sargasso Sea bacterioplankton Nature (London) 345 1990 60 63
6. T.B Britschgi S.J Giovannoni Phylogenetic analysis of a natural marine bacterioplankton population by rRNA gene cloning and sequencing Appl. Environ. Microbiol. 57 1991 1707 1713
7. T.D Mullins T.B Britschgi R.L Krest S.J Giovannoni Genetic comparisons reveal the same unknown bacterial lineages in Atlantic and Pacific bacterioplankton communities Limnol. Oceanogr. 40 1995 148 158
8. J.A Fuhrman K McCallum A.A Davis Phylogenetic diversity of subsurface marine microbial communities from the Atlantic and Pacific Oceans Appl. Environ. Microbiol. 59 1993 1294 1302
9. S.J Giovannoni S.C Cary Probing marine systems with ribosomal RNAs Oceanography 6 1993 95 104
10. F.O Glockner B.M Fuchs R Amann Bacterioplankton compositions of lakes and oceans: a first comparison based on fluorescence in situ hybridization Appl. Environ. Microbiol. 65 1999 3721 3726
11. B.A Methe W.D Hiorns J.P Zehr Contrasts between marine and freshwater bacterial community composition: analyses of communities in Lake George and six other Adirondak lakes Limnol. Oceanogr. 43 1998 368 374
12. S Benlloch F Rodriguez-Valera A.J Martinez-Murcia Bacterial diversity in two coastal lagoons deduced from 16S rDNA PCR amplification and partial sequencing FEMS Microbiol. Ecol. 18 1995 267 280
13. M.S Rappe P.F Kemp S.J Giovannoni Phylogenetic diversity of marine coastal picoplankton 16S rRNA genes cloned from the continental shelf off Cape Hatteras, North Carolina Limnol. Oceanogr. 42 1997 811 826
14. J.E Hobbie R.J Daley S Jasper Use of Nucleopore filters for counting bacteria by fluorescence microscopy Appl. Environ. Microbiol. 33 1977 1225 1228
15. Anderson, D.M., Kulis, D.M. and Cosper, E.M. (1989) Immunofluorescent detection of the brown tide organism, Aureococcus anophagefferens . In: Novel Phytoplankton Blooms: Causes and Impacts of Recurrent Brown Tides and Other Unusual Blooms (Cosper, E.M., Bricelj, V.M. and Carpenter, E.J., Eds.), pp. 214–227. Springer-Verlag, Berlin.
16. Kelly, K.M. (1999) Community diversity of the bacteria that co-occur with the brown tide phytoplankton Aureococcus anophagefferens as determined by partial 16S rRNA sequence variation. M.S. Thesis, Marine Sciences Research Center, SUNY, Stony Brook, NY.
17. J Marmur A procedure for the isolation of deoxyribonucleic acid from microorganisms J. Mol. Biol. 3 1961 208 218
18. H.H Xu F.R Tabita Ribulose-1,5-bisphosphate carboxylase/oxygenase gene expression and diversity of Lake Erie planktonic microorganisms Appl. Environ. Microbiol. 62 1996 1913 1921
19. Maniatis, T., Fritsch, E.J. and Sambrook, J. (1982) Molecular Cloning: A Laboratory Manual. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
20. J Borneman P.W Skroch K.M O’Sullivan J.A Palus N.G Rumjanek J.L Jansen J Nienhuis E.W Triplett Molecular microbial diversity of an agricultural soil in Wisconsin Appl. Environ. Microbiol. 62 1996 1935 1943
21. G Morelle A plasmid extraction procedure on a miniprep scale Focus 11 1989 7 8
22. B.L Maidak J.R Cole C.T Parker Jr. G.M Garrity N Larsen B Li T.G Lilburn M.J McCaughey G.J Olsen R Overbeek S Pramanik T.M Schmidt J.M Tiedje C.R Woese A new version of the RDP (Ribosomal Database Project) Nucleic Acids Res. 27 1999 171 173
23. J.D Thompson D.G Higgins T.J Gibson CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res. 9 1994 3251 3270
24. Felsenstein, J. (1993) PHYLIP (Phylogeny Inference Package) version 3.5c. Department of Genetics, University of Washington, Seattle, WA.
25. J Borneman E.W Triplett Molecular microbial diversity in soils from eastern Amazonia: evidence for unusual microorganisms and microbial population shifts associated with deforestation Appl. Environ. Microbiol. 63 1997 2647 2653
26. S.G Acinas J Anton F Rodriguez-Valera Diversity of free-living and attached bacteria in offshore Western Mediterranean waters as depicted by analysis of genes encoding 16S rRNA Appl. Environ. Microbiol. 65 1999 514 522
27. K.G Field D Gordon T Wright M.S Rappe E Urback K Vergin S.J Giovannoni Diversity and depth-specific distribution of SAR11 cluster rRNA genes from marine planktonic bacteria Appl. Environ. Microbiol. 63 1997 63 70
28. E.F DeLong Archaea in coastal marine environment Proc. Natl. Acad. Sci. USA 89 1992 5685 5689
29. R Massana A.E Murray C.M Preston E.F DeLong Vertical distribution and phylogenetic characterization of marine planktonic Archaea in the Santa Barbara Channel Appl. Environ. Microbiol. 63 1997 50 56
30. J.R Todorov A.Y Chistoserdov J.Y Aller Molecular analysis of microbial communities in mobile deltaic muds of Southeastern Papua New Guinea FEMS Microbiol. Ecol. 33 2000 147 155
31. K Pedersen L Hallbeck J Arlinger A Erlandson N Jahromi Investigation of the potential for microbial contamination of deep aquifers during drilling using 16S rRNA gene sequencing and culturing methods J. Microbiol. Methods 30 1997 179 192
32. L Li C Kato K Horikoshi Bacterial diversity in the deep-sea sediments from different depths Biodivers. Conserv. 8 1999 659 677
33. K Ravenschlag K Sahm J Pernthaler R Amann High bacterial diversity in permanently cold marine sediments Appl. Environ. Microbiol. 65 1999 3982 3989
34. J.M Sieburth P.W Johnson P.W Hargraves Ultrastructure and ecology of Aureococcus anophagefferens gen. et sp. nov. ( Chrysopheceae ): the dominant picoplankter during a bloom in Narragansett Bay, Rhode Island, summer 1985 J. Phycol. 24 1988 416 425
35. M.D Keller R.L Rice Effect of nutrient enrichment on natural populations of the brown tide phytoplankton Aureococcus anophagefferens ( Chrysopheceae ) J. Phycol. 25 1989 636 646
36. C Lovejoy J.P Bowman G.M Hallegraeff Algicidal effects of a novel Pseudoalteromonas isolate (class Proteobacteria, γ subdivision) on harmful algal bloom species of the genera Chattonella , Gymnodinium , and Heterosigma Appl. Environ. Microbiol. 64 1998 2806 2813
37. D.K Button F Schut P Quang R Martin B Robertson Viability and isolation of marine bacteria by dilution culture: theory, procedures, and initial results Appl. Environ. Microbiol. 59 1993 881 891