Method for recovery of intact DNA for community analysis of marine intertidal microbial biofilms

Molecular Biotechnology

Volumn 30, Issue 1, 2005, Pages 51-55

  Narváez Zapata, José A ^a   Rodríguez Ávila, Norma ^a   Ortega Morales, Benjamín O ^a  

^a UNIVERSIDAD AUTÓNOMA DE CAMPECHE   (Mexico)

Author keywords

DNA extraction; Exopolysaccharides; Hot phenol; Marine biofilms; Microbial community

Indexed keywords

BIOMASS; ENZYMES; MICROORGANISMS; PLANTS (BOTANY); POLYSACCHARIDES; TISSUE;

DNA EXTRACTION; EXOPOLYSACCHARIDES; HOT PHENOL; MARINE BIOFILMS; MICROBIAL COMMUNITY;

DNA;

BUFFER; DNA; EXOPOLYSACCHARIDE; GENE PRODUCT; PHENOL;

ARTICLE; BIOFILM; CHEMICAL MODIFICATION; DNA ISOLATION; EMBEDDING; EXTRACTION; HEATING; INCUBATION TIME; INTERTIDAL ZONE; MARINE ENVIRONMENT; MICROBIAL BIOMASS; MICROFLORA; PLANT TISSUE; POLYMERASE CHAIN REACTION; SAMPLE;

EID: 26244459805     PISSN: 10736085     EISSN: None     Source Type: Journal    
DOI: 10.1385/mb:30:1:051     Document Type: Article

References (18)

1. Wilson, I. G. (1997) Inhibition and facilitation of nucleic acid amplification. Appl. Environ. Microbiol. 63, 3741-3751.
2. Gilbert, P. and Lappin-Scott, H. (2000) Biofilms: united they stand, divided they fall. Microbiol. Today 27, 136-137.
3. Flemming, H. C., Wingender, J., Moritz, R., Brochard, W., and Mayer, C. (1999) Physico-chemical properties of biofilms - a short review. In: Biofilms in the Aquatic Environment (Keevil, C. W., Godfree, A., Holt, D., and Dow, C., eds.). Royal Society of Chemistry, UK, pp. 1-12.
4. Porteus, L. R. and Armstrong, J. L. (1993) A simple mini-method to extract DNA directly from soil for use with polymerase chain reaction amplification. Curr. Microbiol. 27, 115-118.
5. Gillan, D., Speksnijder, A., Zwart, G., and De Ridder, C. H. (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. Appl. Environ. Microbiol. 64, 3464-3472.
6. Billi, D., Caiola, M. G., Paolozzi, L., and Ghelardini, P. (1998) A method for DNA extraction from the desert cyanobacterium Chroococcidiopsis and its application to identification of ftsZ. Appl. Environ. Microbiol. 64, 4053-4056.
7. De Vries, S., Hoge, H., and Biseeing, T. (1988) Isolation of total and polysomal RNA from plant tissues. Plant Mol. Biol. Manual B6, 64-71.
8. Narváez-Zapata, J. A., Flores-Pérez, P., Herrera-Valencia, V., Castillo, F., Ku-Cauich, R., Canto-Canché, B., et al. (2001) Development of molecular techniques for studying the metabolism of carotenoids in Bixa orellana L. Hortscience 36, 982-986.
9. Garcia-Pichel, F., Lopez-Cortes, A., and Nübel, U. (2001) Phylogenetic and morphological diversity of cyanobacteria in soil desert crusts from the Colorado plateau. Appl. Environ. Microbiol. 67, 1902-1910.
10. Ortega-Morales, B. O., Narvaez-Zapata, J. A., Schmalenberger, A., Sosa-Lopez, A., and Tebbe, C. (2004) Biofilms fouling ancient limestone Mayan monuments in Uxmal, Mexico: a cultivation-independent analysis. Biofilms 2, 79-91.
11. Schuler, M. A. and Zielinski, R. E. (1989) RNA isolation from light- and dark-grown seedlings. In: Methods Plant Mol. Biol. (Schuler, M. A. and Zielinski, R. E., eds.). Academic Press, London, pp. 89-96.
12. Sambrook, J. and Rusell, D. (2001) Molecular cloning: a laboratory manual. 3rd. ed., Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
13. Schwieger, F. and Tebbe, C. (1998) A new approach to utilize PCR-single-strand-conformation polymorphisms for 16S rRNA gene-based microbial community analysis. Appl. Environ. Microbiol. 64, 4870-4876.
14. Kumar, R. and Kumar, A. V. (1999) Biodeterioration of stone in tropical environments. Library of Congress, Washington, D.C.
15. Lowry, O. H., Farr, A. L., and Randall, R. J. (1955) Protein measurement with the Folin phenol reagent. J. Biol. Chem. 193, 265-275.
16. Ortega-Morales, B. O., López-Cortés, A., Hernández-Duque, G., Crassous, P., and Guezennec, J. (2001) Extracellular polymers of microbial communities colonising limestone surfaces. Methods Enzymol. 336, 331-339.
17. Nagarkar, S. and Williams, G. (1997) Comparative techniques to quantify cyanobacteria dominated epilithic biofilms on tropical rocky shores. Mar. Ecol. Prog. Ser. 154, 281-291.
18. Tandeau de Marsac, N. and Houmard, J. (1988) Complementary chromatic adaptation: physiological conditions and action spectra. Methods Enzymol. 67, 318-328.