Genetic diversity and amplification of different clostridial [FeFe] hydrogenases by group-specific degenerate primers

Letters in Applied Microbiology

Volumn 53, Issue 4, 2011, Pages 473-480

  Calusinska, M ^a   Joris, B ^a   Wilmotte, A ^a  

^a UNIVERSITY OF LIÈGE   (Belgium)

Author keywords

Clostridium ssp.; Degenerate primers; FeFe hydrogenases

Indexed keywords

BIODIVERSITY; GENES; HYDROGEN PRODUCTION; RNA;

CLOSTRIDIA SP; CLOSTRIDIUM SSP.; CLUSTER-BASED; DEGENERATE PRIMERS; GENETICS DIVERSITIES; HYDROGEN PRODUCING STRAINS; HYDROGENASES; PHYLOGENETICS; [FEFE] HYDROGENASE; [FEFE]HYDROGENASES;

CLOSTRIDIUM;

HYDROGEN; IRON HYDROGENASE; IRON IRON HYDROGENASE; PRIMER RNA; RNA 16S; UNCLASSIFIED DRUG;

BACTERIUM; ENZYME ACTIVITY; GENE EXPRESSION; GENETIC VARIATION; HYDROGEN; METABOLISM; PHYLOGENETICS; POLYMERASE CHAIN REACTION;

ARTICLE; BACTERIAL GENOME; BACTERIAL STRAIN; CLOSTRIDIA; CLOSTRIDIUM FELSINEUM; CLOSTRIDIUM PASTEURIANUM; CLOSTRIDIUM ROSEUM; CLOSTRIDIUM SARTAGOFORME; CONTROLLED STUDY; GENE AMPLIFICATION; GENETIC VARIABILITY; GENOTYPE; NONHUMAN; PHYLOGENY; POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS;

CLOSTRIDIUM; CLOSTRIDIUM FELSINEUM; CLOSTRIDIUM PASTEURIANUM; CLOSTRIDIUM ROSEUM; CLOSTRIDIUM SARTAGOFORME; CLOSTRIDIUM SP.;

EID: 80052615932     PISSN: 02668254     EISSN: 1472765X     Source Type: Journal    
DOI: 10.1111/j.1472-765X.2011.03135.x     Document Type: Article

References (17)

1. Adams, M.W.M. (1990) The structure and mechanism of iron-hydrogenases. Biochim Biophys Acta 1020, 115-145.
2. Boyd, E.S., Spear, J.R. and Peters, J.W. (2009) [FeFe] hydrogenase genetic diversity provides insights into molecular adaptation in a saline microbial mat community. Appl Environ Microbiol 75, 4620-4623.
3. Boyles, D. (1984) Bioenergy, Technology, Thermodynamics and Costs. New York: John Wiley and Sons, p. 41.
4. Brentner, L.B., Peccia, J. and Zimmerman, J.B. (2010) Challenges in developing biohydrogen as a sustainable energy source, implications for a research agenda. Environ Sci Technol 44, 224-2254.
5. Calusinska, M., Happe, T., Joris, B. and Wilmotte, A. (2010) The surprising diversity of clostridial hydrogenases, a comparative genomic perspective. Microbiology 156, 1575-1588.
6. Cornish-Bowden, A. (1985) IUPAC-IUB symbols for nucleotide nomenclature. Nucleic Acids Res 13, 3021-3030.
7. Hallenbeck, P.C. and Dipankar, G. (2009) Advances in fermentative biohydrogen production, the way forward? Trends Biotechnol 27, 287-297.
8. Katoh, K. and Toh, H. (2008) Recent developments in the MAFFT multiple sequence alignment program. Brief Bioinform 9, 286-298.
9. Masset, J., Hiligsmann, S., Hamilton, C., Beckers, L., Franck, F. and Thonart, P. (2010) Effect of pH on glucose and starch fermentation in batch and sequenced-batch mode with a recently isolated strain of hydrogen-producing Clostridium butyricum CWBI1009. Int J Hydrogen Energy 35, 3371-3378.
10. Meyer, J. (2007) [FeFe] hydrogenases and their evolution, a genomic perspective. Cell Mol Life Sci 64, 1063-1084.
11. Peters, J.W., Lanzilotta, W.N., Lemon, B.J. and Seefeldt, L.C. (1998) X-ray crystal structure of the Fe-only hydrogenase (CpI) from Clostridium pasteurianum to 1.8Angstrom resolution. Science 282, 1853-1858.
12. Savichtcheva, O., Joris, B., Wilmotte, A. and Calusinska, M. (2011) Novel FISH and quantitative PCR protocols to monitor artificial consortia composed of different hydrogen-producing Clostridium spp. Int J Hydrogen Energy 36, 7530-7542.
13. Schmidt, O., Drake, H.L. and Horn, M.A. (2010) Hitherto unknown [Fe-Fe]-hydrogenase gene diversity in anaerobes and anoxic enrichments from a moderately acidic fen. Appl Environ Microbiol 76, 2027-2031.
14. Tamura, K., Dudley, J., Nei, M. and Kumar, S. (2007) MEGA4, Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol Biol Evol 24, 1596-1599.
15. Vignais, P.M., Billoud, B. and Meyer, J. (2001) Classification and phylogeny of hydrogenases. FEMS Microbiol Rev 25, 455-501.
16. Wang, M.Y., Olson, B.H. and Chang, J.S. (2008) Relationship among growth parameters for Clostridium butyricum, hydA gene expression, and biohydrogen production in a sucrose-supplemented batch reactor. Appl Microbiol Biotechnol 78, 525-532.
17. Wiegel, J., Tanner, R. and Rainey, F.A. (2006) An introduction to the family Clostridiaceae. in The Prokaryotes. Part 1, Section 1.2, pp. 654-678. New York: Springer.