Abstract
Activity and numbers of heterotrophic bacteria have indicated that, as expected, Prévost Lagoon is more eutrophic than Arcachon Bay. Amplification and sequence analysis of the 16S rRNA genes from DNA samples extracted directly from the environment allow the determination of phylogenetic relationships among members of microbial communities in natural ecosystems without the need for cultivation. Analysis of partial 16S rRNA gene sequences obtained from Stations A and 11 revealed that, in both environments, a relatively large number of clones related to Cytophaga/Flexibacter/Bacteroides as well as to α-Proteobacteria were found. One hundred percent similarity with the sequences of the data bases were not found for any of the more than a hundred clones studied. In fact for most clones maximum similarity was below 95% for the nucleotide series sequenced. Similarity was not higher with any of the sequences found for the 14 isolates (pure cultures) obtained from the same samples. Redundancy, i.e. number of identical sequences, was higher in the samples from Arcachon. In addition, sequences related to representatives of ten major phylogenetic branches of Eubacteria were obtained from Prévost Lagoon, however only five branches were represented by the data from Arcachon. These findings indicate a higher bacterial diversity in Prévost Lagoon.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
Preview
Unable to display preview. Download preview PDF.
Similar content being viewed by others
References
Amann, R. I., W. Ludwig & K.-H. Schleifer, 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59: 143–169.
APHA-AWWA-WPCF, 1975. Standard methods for the examination of the water and wastewater. 14th ed., (Rand, M. C., A. E. Greenberg & M. J. Taras, Eds), American Public Health Association, Washington.
Beaucage, S. L. & M. H. Caruthers, 1981. Dideoxynucleotide phosphoramidites — a new class of key intermediates for deoxypoly nucleotide synthesis. Tetrahedrom Lett. 22: 1859–1862.
Benlloch, S., F. Rodríguez-Valera & A. J. Martfnez-Murcia, 1995. Bacterial diversity in two coastal lagoons deduced from 16S rDNA PCR amplification and partial sequencing. FEMS Microbiol. Ecol. 18:267–280.
Bradshaw, L. J., 1992. Laboratory Microbiology. Fourth Edition. Saunders College Publishing.
Brosius, J. P., T. J. Dull, D. D. Sleeter & H. F. Noyer, 1981. Gene organization and primary structure of a ribosomal RNA Operon from E. coli. J. Mol. Biol. 148: 107–127.
Castel, J., P. Caumette & R. Herbert, 1996. Eutrophication gradients in coastal lagoons. Hydrobiologia 329: xi–xxx.
Caumette, P., 1986. Phototrophic sulfur bacteria and sulfate/reducing bacteria causing red waters in a shallow brackish coastal lagoon (Prévost Lagoon, France). FEMS Microbiol. Ecol. 38: 113–124.
DeLong, E. F., 1992. Archaea in coastal marine environments. Proc. Natl. Acad. Sci. USA 89: 5685–5689.
DeLong, E. F., D. G. Franks & A. L. Alldredge, 1993. Phylogenetic diversity of aggregate-attached vs free-living marine bacterial assemblages. Limnol. Oceanogr. 38: 924–934.
DeLong, E. F., K. Y. Wu, B. B. Prézelin & R. V. M. Jovine, 1994. High abundance of Archaea in Antarctic marine picoplankton. Nature 371: 695–697.
Ducklow, H. W. & C. Carlson, 1992. Oceanic Bacterial Production. Adv. Microb. Ecol. 12: 113–181.
Fuhrman, J. A. & F. Azam, 1980. Bacterioplankton secondary production estimates for coastal waters of British Columbia, Antarctica and California. Appl. envir. Microbiol. 39: 1085–1095.
Fuhrman, J. A., D. E. Comeau, A. Hagstron & A. Chan, 1988. Extraction from natural planktonic microorganisms of DNA suitable for molecular biological studies. Appl. envir. Microbiol. 54: 1426–1429.
Fuhrman, J. A., K. McCallum & A. A. Davis, 1992. Novel major archaebacterial group from marine plankton. Nature 356: 148–149.
Fuhrman, J. A., K. McCallum & A. A. Davis, 1993. Phylogenetic diversity of subsurface marine microbial communities from the Atlantic and Pacific Oceans. Appl. envir. Microbiol. 59: 1294–1302.
Giovannoni, S. J., T. B. Britschgi, C. L. Moyer & K. G. Field, 1990. Genetic diversity in Sargasso Sea bacterioplankton. Nature 345: 60–63.
Jannasch, H. W. & G. E. Jones, 1959. Bacterial population in sea water as determined by different methods of enumeration. Limnol. Oceanogr. 4: 128–140.
Lane, D. J., B. Pace, G. J. Olsen, D. A. Stahl, M. L. Sogin & N. R. Pace, 1985. Rapid determination of 16S rDNA sequences for phylogenetic analysis. Proc. natn. Acad. Sci. USA 82: 6955–6959.
Lee, S. & J. A. Fuhrman, 1991. Spatial & temporal variation of Natural Bacterioplankton assemblages studied by total genomic DBA cross-hybridization. Limnol Oceanogr. 36: 1277–1287.
Liesack, W. & E. Stackebrandt, 1992. Occurrence of novel groups of the Domain Bacteria as revealed by analysis of genetic material isolated from an Australian Terrestrial Environment. J. Bacteriol. 174:5072–5078.
Maniatis, T., E. F. Fritsch & J. Sambrook, 1982. Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N.Y.
Marchuk, D., M. Drumm, A. Saulino & F. S. Collins, 1990. Construction of T-vectors, a rapid and general system for direct cloning of unmodified PCR products. Nucl. Acids. Res. 19: 1154.
Martinez-Murcia, A. J., 1993. Doctoral Thesis. Department of Microbiology, University of Reading, Reading, U.K.
Martinez-Murcia, A. J. & F. Rodriguez-Valera, 1994. The use of artibrarily primed PCR (AP-PCR) to develop taxa specific DNA probes of known sequence. FEMS Microbiol. Lett. 124: 265–270.
Moriarty, D. J. W., 1990. Techniques for estimating bacterial growth rates and production of biomass in aquatic environments. Methods in Microbiology. Vol. 22. Pag. 211–234.
Pace, N. R., D. A. Stahl, D. J. Lane & G. J. Olsen, 1986. The analysis of natural microbial populations by ribosomal RNA sequences. Adv. Microb. Ecol. 9: 1–55.
Reichenbach, H., 1991. The Order Cytophagales. In: The Prokaryotes, Second Edition (Balows, A., H. G. Trüper, M. Dworkin, W. Harder & K.-H. Schleifer, Eds), pp. 3631–3675, Springer Verlag, New York.
Sanger, F., S. Nicklen & A. R. Coulson, 1977. DNA sequencing with chain-terminating inhibitors. Proc. natn. Acad. Sci. USA 74: 5463–5467.
Schmidt, T. M., E. F. DeLong & N. R. Pace, 1991. Analysis of a marine picoplankton community by 16S rRNA gene cloning and sequencing. J. Bacteriol. 173: 4371–4378.
Woese, C. R., 1987. Bacterial Evolution. Microbiol. Rev. 51: 221–271.
Wright, R. T. & J. E. Hobbie, 1966. Use of glucose and acetate by bacteria and algae in aquatic ecosystems. Ecology 47: 447–464.
Author information
Authors and Affiliations
Corresponding author
Editor information
Rights and permissions
Copyright information
© 1996 Kluwer Academic Publishers
About this chapter
Cite this chapter
Benlloch, S., Rodríguez-Valera, F., Acinas, S.G., Martínez-Murcia, A.J. (1996). Heterotrophic bacteria, activity and bacterial diversity in two coastal lagoons as detected by culture and 16S rRNA genes PCR amplification and partial sequencing. In: Caumette, P., Castel, J., Herbert, R. (eds) Coastal Lagoon Eutrophication and ANaerobic Processes (C.L.E.AN.). Developments in Hydrobiology, vol 117. Springer, Dordrecht. https://doi.org/10.1007/978-94-009-1744-6_1
Download citation
DOI: https://doi.org/10.1007/978-94-009-1744-6_1
Publisher Name: Springer, Dordrecht
Print ISBN: 978-94-010-7279-3
Online ISBN: 978-94-009-1744-6
eBook Packages: Springer Book Archive