Here, the authors present the 7.2-megabase genome of the marine bacterium Hahella …

• Abstract
• Introduction
• Materials and Methods
• Results and Discussion
• Conclusions
• Acknowledgements
• References
• Figures
• Table

Biology Articles » Biotechnology » Blue Biotechnology » Genomic blueprint of Hahella chejuensis, a marine microbe producing an algicidal agent » References

References

- Genomic blueprint of Hahella chejuensis, a marine microbe producing an algicidal agent

  
Burkholder, J.M. (1999) The lurking perils of Pfiesteria Sci. Am, . 281, 42–49 . Kaiser, J. (2002) Microbiology The science of Pfiesteria: elusive, subtle, and toxic Science, 298, 346–349 . In Anderson, D.M., Cembella, A.D., Hallegraeff, G.H. (Eds.). Physiological Ecology of Harmful Algal Blooms, (1998) New York Springer-Verlag . Morris, J.G.J. (1999) Harmful algal blooms: an emerging public health problem with possible links to human stress on the environment Annu. Rev. Energy Environ, . 24, 367–390. Sellner, K.G., Doucette, G.J., Kirkpatrick, G.J. (2003) Harmful algal blooms: causes, impacts and detection J. Ind. Microbiol. Biotechnol, . 30, 383–406. In Taylor, F.J. and Trainer, V.L. (Eds.). Harmful Algal Blooms in the PICES Region of the North Pacific, (2002) Sidney BC V8L 4B2 North Pacific Marine Science Organization . Sengco, M.R. and Anderson, D.M. (2004) Controlling harmful algal blooms through clay flocculation J. Eukaryot. Microbiol, . 51, 169–172. Lee, H.K., Chun, J., Moon, E.Y., Ko, S.H., Lee, D.S., Lee, H.S., Bae, K.S. (2001) Hahella chejuensis gen. nov, sp. nov., an extracellular-polysaccharide-producing marine bacterium Int. J. Syst. Evol. Microbiol, . 51, 661–666. González, J.M. and Whitman, W.B. (2002) Oceanospirillum and related genera In Dworkin, M. and Dworkin, M. (Eds.), et al. The Prokaryotes: An Evolving Electronic Resource for the Microbiological Community, 3rd edn New York Springer-Verlag Release 3.9 . Giovannoni, S. and Rappé, M. (2000) Evolution, diversity, and molecular ecology of marine prokaryotes In Kirchman, D.L. (Ed.). Microbial Ecology of the Oceans, John Wiley & Sons, New Jersey pp. 47–84 . Venter, J.C., Remington, K., Heidelberg, J.F., Halpern, A.L., Rusch, D., Eisen, J.A., Wu, D., Paulsen, I., Nelson, K.E., Nelson, W., et al. (2004) Environmental genome shotgun sequencing of the Sargasso Sea Science, 304, 66–74. Identifying Harmful Marine Dinoflagellates Faust, M.A. and Gulledge, R.A. (2002) Contributions from the United States National Herbarium . Mayali, X. and Azam, F. (2004) Algicidal bacteria in the sea and their impact on algal blooms J. Eukaryot. Microbiol, . 51, 139–144. Grigoriev, A. (1998) Analyzing genomes with cumulative skew diagrams Nucleic Acids Res, . 26, 2286–2290. Salzberg, S.L., Salzberg, A.J., Kerlavage, A.R., Tomb, J.F. (1998) Skewed oligomers and origins of replication Gene, 217, 57–67. Badger, J.H. and Olsen, G.J. (1999) CRITICA: coding region identification tool invoking comparative analysis Mol. Biol. Evol, . 16, 512–524. Delcher, A.L., Harmon, D., Kasif, S., White, O., Salzberg, S.L. (1999) Improved microbial gene identification with GLIMMER Nucleic Acids Res, . 27, 4636–4641. Rutherford, K., Parkhill, J., Crook, J., Horsnell, T., Rice, P., Rajandream, M.A., Barrell, B. (2000) Artemis: sequence visualization and annotation Bioinformatics, 16, 944–945. Kanehisa, M., Goto, S., Kawashima, S., Okuno, Y., Hattori, M. (2004) The KEGG resource for deciphering the genome Nucleic Acids Res, . 32, D277–D280. Karp, P.D., Paley, S., Romero, P. (2002) The Pathway Tools software Bioinformatics, 18, 225–232 . Harris, J.K., Kelley, S.T., Spiegelman, G.B., Pace, N.R. (2003) The genetic core of the universal ancestor Genome Res, . 13, 407–412. Thompson, J.D., Higgins, D.G., Gibson, T.J. (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice Nucleic Acids Res, . 22, 4673–4680. Felsenstein, J. PHYLIP (Phylogeny Inference Package) 3.6b edn, (2004) Seattle Department of Genetics, University of Washington . Yoon, S.H., Hur, C.-G., Kang, H.-Y., Kim, Y.H., Oh, T.K., Kim, J.F. (2005) A computational approach for identifying pathogenicity islands in prokaryotic genomes BMC Bioinformatics, 6, 184. Moran, M.A., Buchan, A., Gonzalez, J.M., Heidelberg, J.F., Whitman, W.B., Kiene, R.P., Henriksen, J.R., King, G.M., Belas, R., Fuqua, C., et al. (2004) Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment Nature, 432, 910–913. Stover, C.K., Pham, X.Q., Erwin, A.L., Mizoguchi, S.D., Warrener, P., Hickey, M.J., Brinkman, F.S., Hufnagle, W.O., Kowalik, D.J., Lagrou, M., et al. (2000) Complete genome sequence of Pseudomonas aeruginosa PA01, an opportunistic pathogen Nature, 406, 959–964. Siebold, C., Flukiger, K., Beutler, R., Erni, B. (2001) Carbohydrate transporters of the bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) FEBS Lett, . 504, 104–111. Hayashi, M., Nakayama, Y., Unemoto, T. (2001) Recent progress in the Na(+)-translocating NADH-quinone reductase from the marine Vibrio alginolyticus Biochim. Biophys. Acta, 1505, 37–44. Doolittle, W.F. (1999) Phylogenetic classification and the universal tree Science, 284, 2124–2129. Yim, J.H., Kim, S.J., Aan, S.H., Lee, H.K. (2004) Physiochemical and rheological properties of a novel emulsifier, EPS-R, produced by the marine bacterium Hahella chejuensis Biotechnol. Bioprocess Eng, . 9, 405–413 . Dougherty, B.A. and van de Rijn, I. (1993) Molecular characterization of hasB from an operon required for hyaluronic acid synthesis in group A streptococci. Demonstration of UDP-glucose dehydrogenase activity J. Biol. Chem, . 268, 7118–7124. Whitfield, C. and Roberts, I.S. (1999) Structure, assembly and regulation of expression of capsules in Escherichia coli Mol. Microbiol, . 31, 1307–1319. Lally, E.T., Hill, R.B., Kieba, I.R., Korostoff, J. (1999) The interaction between RTX toxins and target cells Trends Microbiol, . 7, 356–361. Cornelis, G.R. (2002) The Yersinia Ysc-Yop ‘type III’ weaponry Nature Rev. Mol. Cell Biol, . 3, 742–752. Kim, J.F. (2001) Revisiting the chlamydial type III protein secretion system: clues to the origin of type III protein secretion Trends Genet, . 17, 65–69. Cerdeño, A.M., Bibb, M.J., Challis, G.L. (2001) Analysis of the prodiginine biosynthesis gene cluster of Streptomyces coelicolor A3(2): new mechanisms for chain initiation and termination in modular multienzymes Chem. Biol, . 8, 817–829. Fürstner, A. (2003) Chemistry and biology of roseophilin and the prodigiosin alkaloids: a survey of the last 2500 years Angew. Chem. Int. Ed. Engl, . 42, 3582–3603. Peréz-Tomás, R., Montaner, B., Llagostera, E., Soto-Cerrato, V. (2003) The prodigiosins, proapoptotic drugs with anticancer properties Biochem. Pharmacol, . 66, 1447–1452. Matz, C., Deines, P., Boenigk, J., Arndt, H., Eberl, L., Kjelleberg, S., Jurgens, K. (2004) Impact of violacein-producing bacteria on survival and feeding of bacterivorous nanoflagellates Appl. Environ. Microbiol, . 70, 1593–1599.