Diversity and abundance of Bolidophyceae (Heterokonta) in two oceanic regions

Applied and Environmental Microbiology

Volumn 65, Issue 10, 1999, Pages 4528-4536

  Guillou, Laure ^a   Moon Van Der Staay, Seung Yeo ^a,c   Claustre, Herve ^b   Partensky, Frederic ^a   Vaulot, Daniel ^a  

^a STATION BIOLOGIQUE   (France)

^b LABORATOIRE D OCÉANOGRAPHIE DE VILLEFRANCHE   (France)

^c UNIVERSITY OF COLOGNE   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CAROTENOID; CHLOROPHYLL A; FUCOXANTHIN;

ABUNDANCE; PICOPLANKTON; SPECIES DIVERSITY;

ARTICLE; BIODIVERSITY; CONTROLLED STUDY; GENE AMPLIFICATION; GENE ISOLATION; GENE SEQUENCE; MEDITERRANEAN SEA; NONHUMAN; NUCLEOTIDE SEQUENCE; OCEANIC REGIONS; PACIFIC OCEAN; PHYTOPLANKTON; SEQUENCE ANALYSIS;

(EQUATORIAL); MEDITERRANEAN SEA; PACIFIC OCEAN;

ALGAE; BACILLARIOPHYTA; BOLIDOMONAS MEDITERRANEA; BOLIDOMONAS PACIFICA; BOLIDOPHYCEAE; EUKARYOTA;

EID: 0032833036     PISSN: 00992240     EISSN: None     Source Type: Journal    
DOI: 10.1128/aem.65.10.4528-4536.1999     Document Type: Article

References (62)

1. Aim, E. W., D. B. Oerther, N. Larsen, D. A. Stahl, and L. Raskin. 1996. The oligonucleotide probe database. Appl. Environ. Microbiol. 62:3557-3559.
2. Amann, R. I., J. Snaidr, M. Wagner, W. Ludwig, and K.-H. Schleifer. 1996. In situ visualization of high genetic diversity in a natural microbial community. J. Bacteriol. 178:3496-3500.
3. Andersen, R. A., R. R. Bidigare, M. D. Keller, and M. Latasa. 1996. A comparison of HPLC pigment signatures and electron microscopic observations for oligotrophic waters of the North Atlantic and Pacific Oceans. Deep-Sea Res. Part II Top. Stud. Oceanogr. 43:517-537.
4. Andersen, R. A., R. W. Brett, D. Potter, and J. P. Sexton. 1998. Phylogeny of the Eustigmatophyceae based upon 18S rDNA, with emphasis on Nannochloropsis. Protist 149:61-74.
5. Andersen, R. A., G. W. Saunders, M. P. Paskind, and J. Sexton. 1993. Ultrastructure and 18S rRNA gene sequence for Pelagomonas calceolata gen. and sp. nov. and the description of a new algal class, the Pelagophyceae classis nov. J. Phycol. 29:701-715.
6. Bidigare, R. R., and M. E. Ondrusek. 1996. Spatial and temporal variability of phytoplankton pigment distributions in the central equatorial Pacific Ocean. Deep-Sea Res. Part II Top. Stud. Oceanogr. 43:809-833.
7. Booth, B. C., and H. J. Marchant. 1987. Parmales, a new order of marine chrysophytes, with descriptions of three new genera and seven new species. J. Phycol. 23:245-260.
8. Buchheim, M. A., J. A. Buchheim, and R. L. Chapman. 1997. Phylogeny of Chloromonas (Chlorophyceae): a study of 18S ribosomal RNA gene sequences. J. Phycol. 33:286-293.
9. Bustillos-Guzman, J., H. Claustre, and J. C. Marty. 1995. Specific phytoplankton signatures and their relationship to hydrographic conditions in the coastal northwestern Mediterranean Sea. Mar. Ecol. Prog. Ser. 124:247-258.
10. Campbell, L., H. A. Nolla, and D. Vaulot. 1994. The importance of Prochlorococcus to community structure in the central North Pacific Ocean. Limnol. Oceanogr. 39:954-961.
11. Chavez, F. P., K. R. Buck, and R. T. Barber. 1990. Phytoplankton taxa in relation to primary production in the equatorial Pacific. Deep-Sea Res. 37:1733-1752.
12. Chisholm, S. W., R. J. Olson, E. R. Zettler, J. Waterbury, R. Goericke, and N. Welschmeyer. 1988. A novel free-living prochlorophyte occurs at high cell concentrations in the oceanic euphotic zone. Nature 334:340-343.
13. Cilia, V., B. Lafay, and R. Christen. 1996. Sequence heterogeneities among 16S ribosomal RNA sequences, and their effect on phylogenetical analyses at the species level. Mol. Biol. Evol. 13:451-461.
14. Claustre, H. 1994. The trophic status of various oceanic provinces as revealed by phytoplankton pigment signatures. Limnol. Oceanogr. 39:1206-1210.
15. Claustre, H., P. Kerhervé, J.-C. Marty, L. Prieur, C. Videau, and J. H. Hecq. 1994. Phytoplankton distribution associated with a geostrophic front: ecological and biochemical implications. J. Mar. Res. 52:711-742.
16. Claustre, H., A. Morel, M. Babin, C. Cailliau, D. Marie, J.-C. Marty, and D. Vaulot. 1999. Variability in particle attenuation and stimulated fluorescence in the tropical and equatorial Pacific: scales, patterns and some biogeochemical implications. J. Geophys. Res. 104:3401-3422.
17. Clayton, R. A., G. Sutton, P. S. Hinkle, C. Bult, and C. Fields. 1995. Intraspecific variation in small-subunit rRNA sequences in GenBank: why single sequences may not adequately represent prokaryotic taxa. Int. J. Syst. Bacteriol. 45:595-599.
18. Dandonneau, Y. 1999. Introduction to special section: biogeochemical conditions in the equatorial Pacific in late 1994. J. Geophys. Res. 104:3291-3295.
19. Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791.
20. Felsenstein, J. 1993. PHYLIP (Phylogeny Inference Package), 3.5c ed. Department of Genetics, University of Washington, Seattle.
21. Ferris, M. J., and B. Palenik. 1998. Niche adaptation in ocean cyanobacteria. Nature 396:226-228.
22. Galtier, N., M. Gouy, and C. Gautier. 1996. SEAVIEW and PHYLO_WIN: two graphic tools for sequence alignment and molecular phylogeny. Comput. Appl. Biosci. 12:543-548.
23. Giovannoni, S. J., T. B. Britschgi, C. L. Moyer, and K. G. Field. 1990. Genetic diversity in Sargasso Sea bacterioplankton. Nature 345:60-63.
24. Giovannoni, S. J., E. F. DeLong, G. J. Olsen, and N. R. Pace. 1988. Phylogenetic group-specific oligonucleotide probes for identification of single microbial cells. J. Bacteriol. 170:720-726.
25. Giovannoni, S. J., M. S. Rappé, K. L. Vergin, and N. L. Adair. 1996. 16S rRNA genes reveal stratified open ocean bacterioplankton populations related to the green non-sulfur bacteria. Proc. Natl. Acad. Sci. USA 93:7979-7984.
26. Gordon, D. A., and S. J. Giovannoni. 1996. Detection of stratified microbial populations related to Chlorobium and Fibrobacter species in the Atlantic and Pacific Oceans. Appl. Environ. Microbiol. 62:1171-1177.
27. Guillard, R. R. L. 1975. Culture of phytoplankton for feeding marine invertebrates, p. 29-60. In W. L. Smith and M. H. Chanley (ed.), Culture of marine invertebrate animals. Plenum Publishing Corporation, New York, N.Y.
28. Guillou, L., M. J. Chretiennot Dinet, L. K. Medlin, H. Claustre, S. Loiseaux de Goer, and D. Vaulot 1999. Bolidomonas: a new genus with two species belonging to a new algal class, the Bolidophycease (Heterokonta). J. Phycol. 35:368-381.
29. Gupta, R. S. 1998. Protein phylogenies and signature sequences: a reappraisal of evolutionary relationships among archaebacteria, eubacteria, and eukaryotes. Microb. Mol. Biol. Rev. 62:1435-1491.
30. Ishizaka, J., K. Harada, K. Ishikawa, H. Kiyosawa, H. Furusawa, Y. Watanabe, H. Ishida, K. Suzuki, N. Handa, and M. Takahashi. 1997. Size and taxonomic plankton community structure and carbon flow at the equator, 175°E during 1990-1994. Deep-Sea Res. Part II Top. Stud. Oceanogr. 44: 1927-1949.
31. Jeffrey, S. W. 1980. Algal pigment system, p. 33-58. In P. G. Falkowski (ed.), Primary productivity in the sea. Plenum Publishing Corporation, New York, N.Y.
32. Jeffrey, S. W., and S. W. Wright. 1997. Qualitative and quantitative analysis of SCOR reference algal cultures, p. 343-360. In S. W. Jeffrey, R. F. C. Mantoura, and S. W. Wright (ed.), Phytoplankton pigments in oceanography: guidelines to modern methods. UNESCO, Paris, France.
33. Johnson, P. W., and J. M. Sieburth. 1982. In-situ morphology and occurrence of eucaryotic phototrophs of bacterial size in the picoplankton of estuarine and oceanic waters. J. Phycol. 18:318-327.
34. Keller, M. D., R. C. Selvin, W. Claus, and R. R. L. Guillard. 1987. Media for the culture of oceanic ultraphytoplankton. J. Phycol. 23:633-638.
35. Kimura, M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol. Evol. 16:111-120.
36. Lange, M., L. Guillou, D. Vaulot, N. Simon, R. I. Amann, W. Ludwig, and L. K. Medlin. 1996. Identification of the class Prymnesiophyceae and the genus Phaeocystis with ribosomal RNA-targeted nucleic acid probes detected by flow cytometry. J. Phycol. 32:858-868.
37. Letelier, R. M., R. R. Bidigare, D. V. Hebel, M. Ondrusek, C. D. Winn, and D. M. Karl. 1993. Temporal variability of phytoplankton community structure based on pigment analyses. Limnol. Oceanogr. 38:1420-1437.
38. Lewis, L. A. 1997. Diversity and phylogenetic placement of Bracteacoccus Tereg (Chlorophyceae, Chlorophyta) based on 18S ribosomal RNA gene sequence data. J. Phycol. 33:279-285.
39. Li, W. K. W. 1994. Primary productivity of prochlorophytes, cyanobacteria, and eucaryotic ultraphytoplankton: measurements from flow cytometric sorting. Limnol. Oceanogr. 39:169-175.
40. Mantoura, R. F. C., and D. Repeta. 1997. Calibration methods for HPLC, p. 407-428. In S. W. Jeffrey, R. F. C. Mantoura, and S. W. Wright (ed.), Phytoplankton pigments in oceanography: guidelines to modern methods. UNESCO, Paris, France.
41. Medlin, L. K., G. L. A. Barker, L. Campbell, J. C. Green, P. K. Hayes, D. Marie, S. Wrieden, and D. Vaulot. 1996. Genetic characterization of Emiliania huxleyi (Haptophyta). J. Mar. Syst. 9:13-31.
42. Medlin, L. K., H. J. Elwood, S. Stickel, and M. L. Sogin. 1991. Morphological and genetic variation within the diatom Skeletonema costatum (Bacillariophyta): evidence for a new species, Skeletonema pseudocostatum. J. Phycol. 27:514-524.
43. Medlin, L. K., M. Lange, and M. E. M. Baumann. 1994. Genetic differentiation among three colony-forming species of Phaeocystis: further evidence for the phylogeny of the Prymnesiophyta. Phycologia 33:199-212.
44. Moon-van der Staay, S.-Y., G. W. M. van der Staay, L. Guillou, H. Claustre, L. K. Medlin, and D. Vaulot. Abundance and diversity of Prymnesiophyceae in the picoplankton community from the equatorial Pacific Ocean inferred from 18S rDNA sequences, in press.
45. Moon-van der Staay, S.-Y. Unpublished data.
46. Moore, L. R., G. Rocap, and S. W. Chisholm. 1998. Physiology and molecular phylogeny of coexisting Prochlorococcus ecotypes. Nature 393:464-467.
47. Partensky, F., W. R. Hess, and D. Vaulot. 1999. Prochlorococcus, a marine photosynthetic prokaryote of global significance. Microbiol. Mol. Biol. Rev. 63:106-127.
48. Raimbault, P. Personal communication.
49. Raimbault, P., G. Slawyk, B. Boudjellal, C. Coatanoan, P. Conan, B. Coste, N. Garcia, T. Moutin, and M. Pujo-Pay. 1999. Carbon and nitrogen uptake and export in the equatorial Pacific at 150°W: evidence of an efficient regenerated production cycle. J. Geophys. Res. 104:3341-3356.
50. Rappé, M. S., M. T. Suzuki, K. L. Vergin, and S. J. Giovannoni. 1998. Phylogenetic diversity of ultraplankton plastid small-subunit rRNA genes recovered in environmental nucleic acid samples from the Pacific and Atlantic coasts of the United States. Appl. Environ. Microbiol. 64:294-303.
51. Roscoff Culture Collection. January 1999, revision date. [Online.] http: //www.sb-roscoff.fr/Phyto/collect.html. [15 April 1999, last date accessed.]
52. Saitou, N., and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
53. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular cloning: a laboratory manual, 2nd ed. Cold Spring Harbor Press, Cold Spring Harbor, N.Y.
54. Sarokin, D. J., and E. J. Carpenter. 1982. Ultrastructure and taxonomy observations on marine isolates of the genus Nannochloris (Chlorophyceae). Bot. Acta 25:483-491.
55. Simon, N., R. G. Barlow, D. Marie, F. Partensky, and D. Vaulot. 1994. Flow cytometry analysis of oceanic photosynthetic picoeucaryotes. J. Phycol. 30: 922-935.
56. Stackebrandt, E., and B. Goebel. 1994. Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int. J. Syst. Bacteriol. 44:846-849.
57. Stoens, A., C. Menkes, M.-H. Radenac, Y. Dandonneau, N. Grima, G. Eldin, L. Memery, C. Navarette, J.-M. Andre, T. Moutin, and P. Raimbault. 1999. The coupled physical-new production system in the equatorial Pacific during the 1992-1995 El Niño. J. Geophys. Res. 104:3323-3339.
58. Strunk, O., O. Gross, B. Reichel, M. May, S. Hermann, N. Stuckmann, B. Nonhoff, M. Lenke, T. Ginhart, A. Vilbig, T. Ludwig, A. Bode, K.-H. Schleifer, and W. Ludwig. 1998. ARB: a software environment for sequence data. http://www.mikro.biologie.tu-muenchen.de/pub/ARB. Department of Microbiology, Technical University of Munich, Munich, Germany.
59. Vidussi. F., H. Claustre, J. Bustillos-Guzman, C. Cailliau, and J. C. Marty. 1996. Determination of chlorophylls and carotenoids of marine phytoplankton: separation of chlorophyll a from divinyl-chlorophyll a and zeaxanthin from lutein. J. Plankton Res. 18:2377-2382.
60. von Wintzingerode, F., U. B. Göbel, and E. Stackebrandt. 1997. Determination of microbial diversity in environmental samples: pitfalls of PCR-based rRNA analysis. FEMS Microbiol. Rev. 21:213-229.
61. Waterbury, J. B., S. W. Watson, F. W. Valois, and D. G. Franks. 1986. Biological and ecological characterization of the marine unicellular cyanobacterium Synechococcus. Can. Bull. Fish. Aquat. Sci. 214:71-120.
62. Wayne, L. G., D. J. Brenner, R. R. Colwell, P. A. D. Grimont, O. Kandler, M. I. Krichevsky, L. H. Moore, W. E. C. Moore, R. G. E. Murray, E. Stackebrandt, M. P. Starr, and H. G. Trüper. 1987. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int. J. Syst. Bacteriol. 37:463-475.