Molecular diversity and biomass of epilithic biofilms from intertidal rocky shores in the Gulf of Mexico

Biofilms

Volumn 2, Issue 2, 2005, Pages 93-103

  Narvaez Zapata J ^a   Tebbe, C C ^b   Ortega Morales, B O ^a  

^a UNIVERSIDAD AUTÓNOMA DE CAMPECHE   (Mexico)

^b INSTITUTE FOR EPIDEMIOLOGY AND PATHOGEN DIAGNOSTICS   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

CHLOROPHYLL; PHYCOBILIPROTEIN; RIBOSOME RNA; SEA WATER;

ACTINOBACTERIA; ALLELOPATHY; ARITHMETIC; ARTICLE; BACTERIAL MEMBRANE; BACTERIUM; BACTEROIDETES; BIOFILM; BIOLOGICAL ACTIVITY; BIOMASS; CYANOBACTERIUM; DESICCATION; ECOSYSTEM; ENVIRONMENTAL CHANGE; EVOLUTIONARY ADAPTATION; GENE AMPLIFICATION; GENETIC HETEROGENEITY; INTERTIDAL ZONE; MEXICO; MICROBIAL DIVERSITY; MICROORGANISM; MOLECULAR DYNAMICS; NUCLEOTIDE SEQUENCE; PHYSICAL CHEMISTRY; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; PROTEIN SYNTHESIS; PROTEOBACTERIA; RNA SEQUENCE; ROCK; STATISTICAL SIGNIFICANCE; STRESS; SURFACE PROPERTY; WATER SAMPLING;

ACTINOBACTERIA; BACTERIA (MICROORGANISMS); BACTEROIDETES; CHROOCOCCIDIOPSIS; CYANOBACTERIA; MYXOSARCINA; PROTEOBACTERIA; XENOCOCCUS;

EID: 26444619879     PISSN: 14790505     EISSN: 14790513     Source Type: Journal    
DOI: 10.1017/S147905050500178X     Document Type: Article

References (63)

1. Brinkhoff, T., Bach, G., Heidorn, T., Liang, L., Schlingloff, A. & Simon, M. (2004) Antibiotic production by a Roseobacter clade-affiliated species from the German Wadden sea and its antagonistic effects on indigenous isolates. Applied and Environmental Microbiology 70, 2560-2565
2. Brockman, F. J. & Murray, C. J. (1997) Microbiological heterogeneity. In Microbiology of the Terrestrial Subsurface, CRC Press series on Microbiology of Extreme and Unusual Environments, pp. 75-102. Edited by P. Amy & D. Haldeman. Boca Raton, FL: CRC Press
3. Burchard, R. P. & Sorongon, M. L. (1998) A gliding bacterium strain inhibits adhesion and motility of another gliding bacterium strain in a marine biofilm. Applied and Environmental Microbiology 64, 4079-4083
4. Burgess, J. G., Jordan, E. M., Bregu, M., Mearns-Spragg, A. & Boyd, K. G. (1999) Microbial antagonism: a neglected avenue of natural products research. Biotechnology 70, 27-32
5. Callow, M. (2000) Algal biofilms. In Biofilms: Recent Advances in their Study and Control, pp. 189-209. Edited by L. D. Evans. Amsterdam: Hardwood Academic Publishers
6. Castenholz, R. W. (2001) Phylum BX. Cyanobacteria Oxygenic Photosynthetic bacteria. Subsection II. In Bergey's Manual® of Systematic Bacteriology, 2nd edn, pp. 514-538. Edited by D. R. Boone & R. W. Castenholz. New York: Springer-Verlag
7. Cifuentes, A., Antón, J., Benlloch, S., Donnelly, A., Herbert, R. A. & Rodriguez-Valera, F. (2000) Prokaryotic diversity in Zostera noltii-colonized marine sediments. Applied and Environmental Microbiology 66, 1715-1719
8. Colijn, F. & Dijkema, K. S. (1981) Species composition of benthic diatoms and distribution of chlorophyll on an intertidal sand flat in the Dutch Wadden Sea. Netherlands Journal of Sea Research 15, 196-216
9. Cottrell, M. T. & Kirchman, D. L. (2000) Natural assemblages of marine proteobacteria and Cytophaga-Elavobacter consuming low- and high-molecular weight dissolved organic matter. Applied and Environmental Microbiology 66, 1692-1697
10. Crump, B. C., Armbrust, E. V. & Baross, J. A. (1999) Phylogenetic analysis of particle-attached and free-living bacterial communities in the Columbia river, its estuary, and the adjacent coastal ocean. Applied and Environmental Microbiology 65, 3192-3204
11. de la Torre, J. R., Goebel, B. M., Friedmann, E. I. & Pace, N. R. (2003) Microbial diversity of cryptoendolithic communities from the McMurdo dry valleys, Antarctica. Applied and Environmental Microbiology 69, 3858-3867
12. Delgado, M. (1989) Abundance and distribution of microphytobenthos in the Bays ot Ebro Delta (Spain). Estuarine Coastal Shelf Science 29, 183-194
13. Farrelly, V., Rainey, F. A. & Stackebrandt, E. (1995) Effect of genome size and rrn gene copy number on PCR amplification of 16S rRNA genes from a mixture of bacterial species. Applied and Environmental Microbiology 61, 2798-2801
14. Frias-López, J., Zerkle, A. L., Bonheyo, G. T. & Fouke, B. W. (2002) Partitioning of bacterial communities between seawater and healthy, black band diseased, and dead coral surfaces. Applied and Environmental Microbiology 68, 2214-2228
15. Frostegard, A., Courtois, S., Ramisse, V., Clerc, S., Bernillon, D., Le Gall, F., et al. (1999) Quantification of bias related to the extraction of DNA directly from soils. Applied and Environmental Microbiology 165, 5409-5420
16. García-Pichel, F., López-Cortés, A. & Nübel, U. (2001) Phylogenetic and morphological diversity of cyanobacteria in soil desert crust from Colorado plateau. Applied and Environmental Microbiology 67, 1902-1910
17. Gillan, D. C., Arjen, G., Speksnijder, C. L., Zwart, G. & de Ridder, C. (1998) Genetic diversity of the biofilm covering Montacuta ferruginosa (Mollusca, Bivalvia) as evaluated by denaturing gradient gel electrophoresis analysis and cloning of PCR-amplified gene fragments coding for 16S rRNA. Applied and Environmental Microbiology 64, 3464-3472
18. Giovannoni, S. & Rapé, M. (2000) Evolution, diversity and molecular ecology of marine prokaryotes. In Microbial Ecology of the Oceans, pp. 47-84. Edited by D. L. Kirchman. New York: Wiley-Liss
19. Golubic, S. & Schneider, J. (2003) Microbial endoliths as internal biofilms. In Fossil and Recent Biofilms, pp. 249-263. Edited by W. E. Krumbein, T. Dornieden & M. Volkmann. Dordrecht: Kluwer Academic Publishers
20. Graeme, W., Nicol, L., Glover, A. & Prosser, J. I. (2003) Spatial analysis of archaeal community structure in grassland soil. Applied and Environmental Microbiology 69, 7420-7429
21. Guillitte, O. & Dressen, M. (1995) Laboratory chamber studies and petrographical analysis as bioreceptivity assessment tools of building materials. Science of the Total Environment 167, 365-374
22. Hawkes, C. V. & Flechtner, V. R. (2002) Biological soil crusts in a xeric Florida shrubland: composition, abundance and spatial heterogeneity of crusts with different disturbance histories. Microbial Ecology 43, 1-12
23. Hawkins, S. J., Hartnoll, R. G., Kain, J. M. & Norton, T. A. (1992) Plant-animal interactions on hard substrata in the Northeast Atlantic. In Plant-Animal Interactions in the Marine Benthos, pp. 1-32. Edited by D. M. lohn, S. J. Hawkins & J. H. Price. Oxford: Oxford University Press
24. Hills, A. S. & Hawkins, S. J. (1991) Seasonal and spatial variation of epilithic microalgae distribution and abundance and its ingestion by Patella vulgata on a moderately exposed rocky shore. Journal of the Marine Biological Association of the United Kingdom 71, 403-423
25. Hiraishi, A. & Ueda, Y. (1995) Isolation and characterization of Rhodovulum strictum sp. nov. and some other purple nonsulfur bacteria from colored blooms in tidal and seawater pools. International Journal of Systematic Bacteriology 45, 319-326
26. Huss-Danell, K. (1997) Actinorhizal symbioses and their N-2 fixation. Tansley review no. 93. New Phytology 136, 375-405
27. Kirchman, D. L. (2002) The ecology of Cytophaga-Flavobacteria in aquatic environments. FEM S Microbiology Ecology 39, 91-100
28. Lanoil, B. D., Sassen, R., La Duc, M. T., Sweet, S. T. & Nealson, K. H. (2001) Bacteria and Archaea physically associated with Gulf of Mexico gas hydrates. Applied and Environmental Microbiology 67, 5143-5153
29. Lau, S. C. K., Thiyagarajan, V. & Qian, P-Y. (2003) The bioactivity of bacterial isolates in Hong Kong waters for the inhibition of barnacle (Balanus amphrite Darwin) settlement. Journal of Experimental Marine Biology and Ecology 282, 43-60
30. Long, R. A. & Azam, F. (2001) Antagonistic interactions among marine pelagic bacteria. Applied and Environmental Microbiology 67, 4975-4983
31. Lowry, O. H., Rosenbrough, P., Farr, A. L. & Randall, R. J. (1951) Protein measurement with the Folin phenol reagent. Journal of Biology Chemistry 193, 265-275
32. MacLulich, J. H. (1987) Variations in the density and variety of intertidal epilithic microflora. Marine Ecology Progress Series 40, 285-293
33. Magalhães, C. M., Bordalo, A. A. & Wiebe, W. J. (2003) Intertidal biofilms on rocky substratum can play a major role in estuarine carbon and nutrients dynamics. Marine Ecology Progress Series 258, 275-281
34. Menge, B. A. & Branch, G. M. (2001) Rocky intertidal communities. In Marine Community Ecology, pp. 221-251. Edited by M. D. Bertness, S. D. Gaines & M. E. Hay. Sunderland, MA: Sinauer Associates, Inc.
35. Mincer, T. J., Jensen, P. R., Kauffman, C. A. & Fenical, W. (2002) Widespread and persistent populations of a major new marine actinomycete taxon in ocean sediments. Applied and Environmental Microbiology 68, 5005-5011
36. Mittelman, M. W. (1998) Laboratory studies of bacterial biofilms. In Techniques in Microbial Ecology, pp. 337-353. Edited by R. S. Burlage, R. Atlas, D. Stahl, G. Geesey & G. Sayler. Oxford: Oxford University Press
37. Nagarkar, S. & Williams, G. A. (1997) Comparative techniques to quantify cyanobacteria dominated epilithic biofilms on tropical rocky shores. Marine Ecology Progress Series 154, 281-291
38. Olabarria, C. & Chapman, M. G. (2001) Comparison of patterns of spatial variation of microgastropods between two contrasting intertidal habitats. Marine Ecology Progress Series 220, 201-211
39. Ortega-Morales, O. & Chan-Bacab, M. J. (2004) Antifouling activity of intertidal biofilm bacteria. In Proceedings of the Fifth Latin American Biodeterioration and Biodegradation Symposium, pp. 83-93. Edited by B. O. Ortega-Morales, C. C. Gaylarde & P. M. Gaylarde. Campeche, Mexico: Universidad Autónoma de Campeche
40. Ortega-Morales, O., Guezennec, J., Hernández-Duque, G., Gaylarde, C. & Gaylarde, P. (2000) Phototrophic biofilms on ancient Mayan buildings in Yucatan, Mexico. Current Microbiology 40, 81-85
41. Ortega-Morales, O., López-Cortés, A., Hernández- Duque, G., Crassous, P. & Guezennec, J. (2001) Extracellular polymers of microbial communities colonizing limestone surfaces. Methods in Enzymology 336, 331-339
42. Ortega-Morales, O., Narváez-Zapata, J. A., Schmalenberger, A., Sosa-López, A. & Tebbe, C. C. (2004) Biofilms fouling ancient limestone Mayan monuments in Uxmal, Mexico - a cultivation-independent analysis. Biofilms 1, 79-91
43. Ortega-Morales, O., Santiago-García, J. L. & López-Cortés, A. (2005) Biomass and taxonomic richness of epilithic cyanobacteria in a tropical intertidal rocky habitat. Botanica Marina, in press
44. Perona, E., Bonilla, I. & Mateo, P. (1998) Epilithic cyanobacterial communities and water quality: an alternative tool for monitoring eutrophication in the Alberche River (Spain). Journal of Applied Phycology 10, 183-191
45. Peters, S., Koschinsky, S., Schwieger, F. & Tebbe, C. C. (2000) Succession of microbial communities during hot composting as detected by PCR-single-strand-conformation polymorphism-based genetic profiles of small-subunit rRNA genes. Applied and Environmental Microbiology 66, 930-936
46. Potts, M. (1994) Desiccation tolerance of prokaryotes. Microbiological Review 58, 775-805
47. Reed, D. W., Fujita, Y., Delwiche, M. E., Blackwelder, D. B., Sheridan, P. P., Uchida, T. & Colwell, F. S. (2002) Microbial communities from methane hydrate-bearing deep marine sediments in a forearc basin. Applied and Environmental Microbiology 68, 3759-3770
48. Saburova, M. A., Polikarpov, I. G. & Burkovsky, I. V. (1995) Spatial structure of an intertidal sandflat microphytobenthic community as related to different spatial scales. Marine Ecology Progress Series 129, 229-239
49. Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989) Molecular Cloning: A Laboratory Manual, 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press
50. Schmalenberger, A., Schwieger, F. & Tebbe, C. C. (2001) Effect of primers hybridizing to different evolutionarily conserved regions of the small-subunit rRNA gene in PCR-based microbial community analyses and genetic profiling. Applied and Environmental Microbiology 67, 3557-3563
51. Schwieger, F. & Tebbe, C. C. (1998) A new approach to utilize PCR-single-strand-conformation polymorphisms for 16S rRNA gene-based microbial community analysis. Applied and Environmental Microbiology 64, 4870-4876
52. Secretaría de Marina (2002) Reporte de Mareas del Golfo de México. Campeche, Mexico
53. Stoodley, P., Sauer, K., Davies, D. G. & Costerton, J. W. (2002) Biofilms as complex differentiated communities. Annual Review of Microbiology 56, 187-209
54. Suzuki, M. T. & Giovannoni, S. J. (1996) Bias caused by template annealing in the amplification of mixtures of 16S rRNA genes by PCR. Applied and Environmental Microbiology 62, 625-630
55. Tandeau de Marsac, N. & Houmard, J. (1988) Complementary chromatic adaptation: physiological conditions and action spectra. Methods in Enzymology 167, 318-328
56. Teske, A. & Stahl, D. A. (2002) Microbial mats and biofilms: evolution, structure and function of fixed microbial communities. In Biodiversity of Microbial Life. Edited by J. T. Staley & A. L. Reysenbach. New York: Wiley-Liss
57. Thompson, R. C., Roberts, M. F., Norton, T. A. & Hawkins, S. J. (2000) Feast or famine for intertidal grazing molluscs: a mismatch between seasonal variations in grazing intensity and the abundance of microbial sources. Hydrobiologia 440, 357-367
58. Thompson, R. C., Norton, T. A. & Hawkins. S. J. (2004) Physical stress and biological control regulate the producer-consumer balance in intertidal biofilms. Ecology 85, 1372-1382
59. Tolker-Nielsen, T. & Molin, S. (2000) Spatial organization of microbial biofilm communities. Microbial Ecology 40, 75-84
60. Torsvik, V. & Øvreås, L. (2002) Microbial diversity and function in soil: from genes to ecosystems. Current Opinion in Microbiology 5, 240-245
61. Watermann, F., Hillebrand, H., Gerdes, G., Krumbein, W. E. & Sommer, U. (1999) Competition between benthic cyanobacteria and diatoms as influenced by different grain sizes and temperatures. Marine Ecology Progress Series 187, 77-87
62. Webster, G. T., Embley, M. & Prosser, J. I. (2002) Grassland management regimes reduce small-scale heterogeneity and species diversity of β-proteobacterial ammonia oxidizer populations. Applied and Environmental Microbiology 68, 20-30
63. Williams, G. A., Davies, M. S. & Nagarkar, S. (2000) Primary succession on seasonal tropical rocky shore: the relative roles of spatial heterogeneity and herbivory. Marine Ecology Progress Series 203, 81-94