Marine Bacterioplankton Diversity and Community Composition in an Antarctic Coastal Environment

Microbial Ecology

Volumn 63, Issue 1, 2012, Pages 210-223

  Giudice, Angelina Lo ^a   Caruso, Consolazione ^a   Mangano, Santina ^a   Bruni, Vivia ^a   De Domenico, Maria ^a   Michaud, Luigi ^a  

^a UNIVERSITY OF MESSINA   (Italy)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; RIBOSOME DNA; RNA 16S; SEA WATER;

ANTARCTICA; AQUATIC SPECIES; ARTICLE; BACTERIUM; BIODIVERSITY; DNA SEQUENCE; ECOSYSTEM; FLUORESCENCE IN SITU HYBRIDIZATION; GENETICS; GROWTH, DEVELOPMENT AND AGING; ISOLATION AND PURIFICATION; MICROBIAL CONSORTIUM; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PLANKTON;

ANTARCTIC REGIONS; AQUATIC ORGANISMS; BACTERIA; BASE SEQUENCE; BIODIVERSITY; DNA, BACTERIAL; DNA, RIBOSOMAL; ECOSYSTEM; IN SITU HYBRIDIZATION, FLUORESCENCE; MICROBIAL CONSORTIA; MOLECULAR SEQUENCE DATA; PLANKTON; RNA, RIBOSOMAL, 16S; SEAWATER; SEQUENCE ANALYSIS, DNA;

ACTINOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; GAMMAPROTEOBACTERIA; GELIDIBACTER; POLARIBACTER; PSEUDOALTEROMONAS; PSYCHROFLEXUS; PSYCHROMONAS;

EID: 84855584104     PISSN: 00953628     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00248-011-9904-x     Document Type: Article

References (58)

1. Agoguè H, Casamayor EO, Bourrain M, Obernosterer I, Joux F, Herndl GJ, Lebaron P (2005) A survey on bacteria inhabiting the sea surface microlayer of coastal ecosystems. FEMS Microbiol Ecol 54: 269-280.
2. Altschul SF, Madden TI, Schäffer AA, Zhang Z, Miller W, Lipman DJ (1997) Gapped blast and psi-blast: a new generation of protein database search programs. Nucleic Acid Res 25: 3389-3402.
3. Baldi F, Marchetto D, Pini F, Fani R, Michaud L, Lo Giudice A, Berto D, Giani M (2010) Biochemical and microbial features of shallow marine sediments along the Terra Nova Bay (Ross Sea, Antarctica). Cont Shelf Res 30: 1614-1625.
4. Bano N, Hollibaugh JT (2002) Phylogenetic composition of bacterioplankton assemblages from the Arctic Ocean. Appl Environ Microbiol 68: 505-518.
5. Bowman JP, McCammon SA, Brown MV, Nichols DS, McMeekin TA (1997) Diversity and association of psychrophilic bacteria in Antarctic sea-ice. Appl Environ Microbiol 63: 3068-3078.
6. Brinkmeyer R, Knittel K, Jurgens J, Weyland H, Amann R, Helmke E (2003) Diversity and structure of bacterial communities in Arctic versus Antarctic pack ice. Appl Environ Microbiol 69: 6610-6619.
7. Brown MV, Bowman JP (2001) A molecular phylogenetic survey of sea-ice microbial communities (SIMCO). FEMS Microbiol Ecol 35: 267-275.
8. Bruni V, Gugliandolo C, Maugeri T, Allegra A (1999) Psychrotrophic bacteria from a coastal station in the Ross Sea (Terra Nova Bay, Antarctica). Microbiologica 22: 357-363.
9. Buchan A, Gonzàlez JM, Moran MA (2005) Overview of the marine Roseobacter lineage. Appl Environ Microbiol 71: 5665-5677.
10. Celussi M, Cataletto B, Fonda Umani S, Del Negro P (2009) Depth profiles of bacterioplankton assemblages and their activities in the Ross Sea. Deep Sea Res 56: 2193-2205.
11. Celussi M, Paoli A, Crevatin E, Bergamasco A, Margiotta F, Saggiomo V, Fonda Umani S, Del Negro P (2009) Short-term under-ice variability of prokaryotic plankton communities in coastal Antarctic waters (Cape Hallett, Ross Sea). Estuar Coast Shelf Sci 81: 491-500.
12. Celussi M, Bergamasco A, Cataletto B, Fonda Umani S, Del Negro P (2010) Water masses' bacterial community structure and microbial activities in the Ross Sea, Antarctica. Antarct Sci 22: 361-370.
13. Church MJ, DeLong EF, Ducklow HW, Karner MB, Preston CM, Karl DM (2003) Abundance and distribution of planktonic Archaea and Bacteria in the waters west of the Antarctic Peninsula. Limnol Oceanogr 48: 1893-1902.
14. Cottrell WT, Kirchman DL (2000) Community composition of marine bacterioplankton determined by 16S rRNA gene clone libraries and fluorescence in situ hybridization. Appl Environ Microbiol 66: 5116-5122.
15. DeLong EF, Wickham G, Pace N (1989) Phylogenetic stains: ribosomal RNA-based probes for the identification of single cells. Science 243: 1360-1363.
16. DeLong EF, Wu KY, Prezelin BB, Jovine RVM (1994) High abundance of Archaea in marine picoplankton. Nature 371: 695-697.
17. Ducklow H (2000) Bacterial production and biomass in the oceans. In: Kirchman O (ed) Microbial ecology of the oceans. Wiley, New York.
18. Egli K, Bosshard F, Werlen C, Lais P, Siegrist H, Zehnder AJB, van der Meer JR (2003) Microbial composition and structure of rotating biological contactor biofilm treating ammonium-rich wastewater without organic carbon. Microb Ecol 45: 419-432.
19. Eilers H, Pernthaler J, Glöckner FO, Amann R (2000) Culturability and in situ abundance of pelagic bacteria from the North Sea. Appl Environ Microbiol 66: 3044-3051.
20. Eilers H, Pernthaler J, Peplies J, Glöckner FO, Gerdts G, Amann R (2001) Isolation of novel pelagic bacteria from the German Bight and their seasonal contributions to surface picoplankton. Appl Environ Microbiol 67: 5134-5142.
21. Ellis RJ, Morgan P, Weightman AJ, Fry JC (2003) Cultivation-dependent and -independent approaches for determining bacterial diversity in heavy-metal-contaminated soil. Appl Environ Microbiol 69: 3223-3230.
22. Fabiano M, Pusceddu A (1998) Total and hydrolizable particulate organic matter (carbohydrates, proteins and lipids) at a coastal station in Terra Nova Bay (Ross Sea, Antarctica). Polar Biol 19: 125-132.
23. Ferguson RL, Buckley EN, Palumbo AV (1984) Response of marine bacterioplankton to differential filtration and confinement. Appl Environ Microbiol 47: 49-55.
24. Gentile G, Giuliano L, D'Auria G, Smedile F, Azzaro M, De Domenico M, Yakimov MM (2006) Study of bacterial communities in Antarctic coastal waters by a combination of 16S rRNA and 16S rDNA sequencing. Environ Microbiol 8: 2150-2161.
25. Glöckner FO, Fuchs BM, Amann R (1999) Bacterioplankton compositions of lakes and oceans: a first comparison based on fluorescence in situ hybridization. Appl Environ Microbiol 65: 3721-3726.
26. Grossart HP, Schlingloff A, Bernhard M, Simon M, Brinkhoff T (2004) Antagonistic activity of bacteria isolated from organic aggregates of the German Wadden Sea. FEMS Microbiol Ecol 47: 387-396.
27. Jaspers E, Nauhaus K, Cypionka H, Overmann J (2001) Multitude and temporal variability of ecological niches as indicated by the diversity of cultivated bacterioplankton. FEMS Microbiol Ecol 36: 153-164.
28. Joint I, Mühling M, Querellou J (2010) Culturing marine bacteria-an essential prerequisite for biodiscovery. Microb Biotechnol 3: 564-575.
29. La Ferla R, Lo Giudice A, Maimone G (2004) Morphology and LPS content for the estimation of the bacterial biomass in the Ionian Sea. Sci Mar 68: 23-31.
30. Lo Giudice A, Michaud L, de Pascale D, De Domenico M, di Prisco G, Fani R, Bruni V (2006) Lipolytic activity of Antarctic cold-adapted marine bacteria (Terra Nova Bay, Ross Sea). J Appl Microbiol 101: 1039-1048.
31. Lo Giudice A, Brilli M, Bruni V, De Domenico M, Fani R, Michaud L (2007) Bacterium-bacterium inhibitory interactions among psychrotrophic bacteria isolated from Antarctic seawaters (Terra Nova Bay, Ross Sea). FEMS Microbiol Ecol 60: 383-396.
32. Lo Giudice A, Bruni V, Michaud L (2007) Characterization of Antarctic psychrotrophic bacteria with antibacterial activities against terrestrial microorganisms. J Basic Microbiol 47: 496-505.
33. Manz W, Amann R, Ludwig W, Wagner M, Schleifer KH (1992) Phylogenetic oligodeoxynucleotide probes for the major subclasses of Proteobacteria-problems and solutions. Syst Appl Microbiol 15: 593-600.
34. Massana R, Taylor LT, Murray AE, Wu KY, Jeffrey WH, DeLong EF (1998) Vertical distribution and temporal variation of marine planktonic Archaea in the Gerlache Strait, Antarctica, during early spring. Limnol Oceanogr 43: 607-617.
35. Meier H, Amann R, Ludwig W, Schleifer K-H (1999) Specific oligonucleotide probes for in situ detection of a major group of Gram-positive bacteria with low DNA G + C content. Syst Appl Microbiol 22: 186-196.
36. Michaud L, Di Cello F, Brilli M, Fani R, Lo Giudice A, Bruni V (2004) Biodiversity of cultivable psychrotrophic marine bacteria isolated from Terra Nova Bay (Ross Sea, Antarctica). FEMS Microbiol Lett 230: 67-71.
37. Murray AE, Grzymski JJ (2007) Diversity and genomics of Antarctic marine micro-organisms. Philos T R Soc B 362: 2259-2271.
38. Murray AE, Preston CM, Massana R, Taylor LT, Blakis A, Wu K, DeLong EF (1998) Seasonal and spatial variability of bacteria and archaeal assemblages in the coastal waters near Anvers Island, Antarctica. Appl Environ Microbiol 64: 2585-2595.
39. Murray AE, Wu K, Moyer C, Karl DM, DeLong EF (1999) Evidence for circumpolar distribution of planktonic Archaea in the Southern Ocean. Aquat Microb Ecol 18: 263-273.
40. Nichols D (2007) Cultivation gives context to the microbial ecologists. FEMS Microbiol Ecol 60: 351-357.
41. Nichols D, Bowman J, Sanderson K, Mancuso Nichols C, Lewis T, McMeekin T, Nichols PD (1999) Development with Antarctic microorganisms: culture collections, bioactivity screening, taxonomy, PUFA production and cold-adapted enzymes. Curr Op Biotechnol 10: 240-246.
42. Piquet AM, Bolhuis H, Davidson AT, Buma AG (2010) Seasonal succession and UV sensitivity of marine bacterioplankton at an Antarctic coastal site. FEMS Microbiol Ecol 73: 68-82.
43. Porter KG, Feig YS (1980) The use of DAPI for identifying and counting aquatic microflora. Limnol Oceanogr 25: 943-948.
44. Prabagaran SR, Manorama R, Delille D, Shivaji S (2007) Predominance of Roseobacter, Sulfitobacter, Glaciecola and Psychrobacter in seawater collected off Ushuaia, Argentina, Sub-Antarctica. FEMS Microbiol Ecol 59: 342-355.
45. Pusceddu A, Cattaneo-Vietti R, Albertelli G, Fabiano M (1999) Origin, biochemical composition and vertical flux of particulate organic matter under the pack ice in Terra Nova Bay (Ross Sea, Antarctica) during late summer 1995. Polar Biol 22: 124-132.
46. Roller C, Wagner M, Amann R, Ludwig W, Schleifer K-H (1994) In situ probing of Gram-positive bacteria with high DNA G + C content using 23S rRNA-targeted oligonucleotides. Microbiology 140: 2849-2858.
47. Selje N, Simon M, Brinkhoff T (2004) A newly discovered Roseobacter cluster in temperate and polar oceans. Nature 427: 445-448.
48. Simon M, Glöckner FO, Amann R (1999) Different community structure and temperature optima of heterotrophic picoplankton in various regions of the Southern Ocean. Aquat Microb Ecol 18: 275-284.
49. Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt P, Murray RG, Wood WA, Krieg NR (eds) Methods for general and molecular microbiology. American Society for Microbiology, Washington DC, pp 611-654.
50. Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA-DNA reassociation and 16S sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44: 846-849.
51. Stahl DA, Amann R (1991) Development and application of nucleic acid probes. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. John Wiley & Sons Ltd., Whichester, England, pp 205-248.
52. Topping JN, Heywood JL, Ward P, Zubkow MV (2006) Bacterioplankton composition in the Scotia Sea, Antarctica, during the austral summer of 2003. Aquat Microb Ecol 45: 229-235.
53. van Trappen S, Mergaert J, van Eygen S, Dawyndt P, Cnockaert MC, Swings J (2002) Diversity of 746 heterotrophic bacteria isolated from microbial mats from ten Antarctic lakes. Syst Appl Microbiol 25: 603-610.
54. Vera J, Alvarez R, Murano E, Slebe JC, Leon O (1998) Identification of a marine agarolytic Pseudoalteromonas isolate and characterization of its extracellular agarase. Appl Environ Microbiol 64: 4378-4383.
55. Vincent WF (2000) Evolutionary origins of Antarctic microbiota: invasion, selection and endemism. Antarct Sci 12: 374-385.
56. Xu Y, Nogi Y, Kato C, Liang Z, Rüger H-R, De Kegel D, Glansdorff N (2003) Psychromonas profunda sp. nov., a psychropiezophilic bacterium from deep Atlantic sediments. Int J Syst Evol Microbiol 53: 527-532.
57. Zeng Y, Liu W, Li H, Yu Y, Chen B (2007) Effect of restriction endonucleases on assessment of biodiversity of cultivable polar marine planktonic bacteria by amplified ribosomal DNA restriction analysis. Extremophiles 11: 685-692.
58. Zhang XF, Yao TD, Tian LD, Xu SJ, An LZ (2008) Phylogenetic and physiological diversity of bacteria isolated from Puruogangri ice core. Microb Ecol 55: 476-488.