Chapter 46
Isolation and Characterization of Alkane Hydroxylases from a Metagenomic Library of Pacific Deep-Sea Sediment
Fengping Wang,
Meixiang Xu, Xiang Xiao,
Fengping Wang
Key Laboratory of Marine Biogenetic Resources, State Oceanic Administration, Xiamen, China
Shanghai JiaoTong University, Shanghai, China
Search for more papers by this authorXiang Xiao
Key Laboratory of Marine Biogenetic Resources, State Oceanic Administration, Xiamen, China
Shanghai JiaoTong University, Shanghai, China
Search for more papers by this authorFengping Wang,
Meixiang Xu, Xiang Xiao,
Fengping Wang
Key Laboratory of Marine Biogenetic Resources, State Oceanic Administration, Xiamen, China
Shanghai JiaoTong University, Shanghai, China
Search for more papers by this authorXiang Xiao
Key Laboratory of Marine Biogenetic Resources, State Oceanic Administration, Xiamen, China
Shanghai JiaoTong University, Shanghai, China
Search for more papers by this authorBook Editor(s):Frans J. de Bruijn,
Frans J. de Bruijn
Laboratory of Plant Micro-organism Interaction, CNRS-INRA, Castanet Tolosan, France
Search for more papers by this authorSummary
This chapter contains sections titled:
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Introduction
-
Methods
-
Results
-
Discussion
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Internet Resources
-
References
INTERNET RESOURCES
- GeneMark Program (http://opal.biology.gatech.edu/GeneMark/)
- blastN and blastX (http://www.ncbi.nlm.nih.gov/BLAST/)
- Wu-blast (http://www.ebi.ac.uk/blast2/)
- REFERENCES
- Amann RI, Ludwig W, Schleifer KH. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59: 143–169.
- B ühler M, Schindler J. 1991. Aliphatic hydrocarbons. InKieslich K, ed. Biotransformations, Vol 6a. Weinheim: Verlag Chemie Weinheim, pp. 329–385.
- Ditta G, Stanfield S, Corbin D, Helinski DR. 1980. Broad host range DNA cloning system for Gram-negative bacteria: construction of a gene bank of Rhizobium meliloti. Proc Natl Acad Sci USA. 77: 7347–7351.
- Fernando R. 2005. Specificity at the end of the tunnel: Understanding substrate length discrimination by the AlkB alkane hydroxylase. J. Bacteriol. 187: 19–22.
- Henne A, Schmitz RA, Bömeke M, Gottschalk G, Daniel R. 2000. Screening of environmental DNA libraries for the presence of genes conferring lipolytic activity on Escherichia coli. Appl. Environ. Microbiol. 66: 3113–3116.
- Højberg O, Schnider U, Winteler HV, Sørensen J, Haas D. 1999. Oxygen-sensing reporter strain of Pseudomonas fluorescens for monitoring the distribution of low-oxygen habitats in soil. Appl. Environ. Microbiol. 65: 4085–4093.
- Knietsch A, Bowien S, Whited G, Gottschalk G, Daniel R. 2003. Identification and characterization of coenzyme B-12-dependent glycerol dehydratase- and diol dehydratase-encoding genes from metagenomic DNA libraries derived from enrichment cultures. Appl. Environ. Microbiol. 69: 3048–3060.
- Labinger JA, Bercaw JE. 2002. Understanding and exploiting C–H bond activation. Nature 417: 507–514.
- Li Z, Feiten HJ, Chang D, Duetz WA, van Beilen JB, et al. 2001. Preparation of (R)- and (S )-N-protected 3-hydroxypyrrolidines by hydroxylation with Sphingomonas sp. HXN-200, a highly active, regio- and stereoselective, and easy to handle biocatalyst. J. Org. Chem. 66: 8424–8430.
- Rondon MR, August PR, Bettermann AD, Brady SF, Grossman TH, et al. 2003. Prospecting for novel biocatalysts in a soil metagenome. Appl. Environ. Microbiol. 69: 6235–6242.
-
Rosenberg E, Ron EZ. 1996. Bioremediation of petroleum contamination. InCrawford RL, Crawford DL, eds. Bioremediation: Principles and Applications, Vol. 6. Cambridge: Cambridge University Press, pp. 100–124.
10.1017/CBO9780511608414.006 Google Scholar
- Smits THM., Balada SB, Witholt B, van Beilen JB. 2002. Functional analysis of alkane hydroxylases from gram-negative and gram positive bacteria. J. Bacteriol. 184: 1733–1742.
- van Beilen JB, Funhoff EG. 2005. Expanding the alkane oxygenase toolbox: New enzymes and applications. Curr. Opin. Biotechnol. 16: 308–314.
- van Beilen JB, Panke S, Lucchini S, Franchini AG, Röthlisberger M, et al. 2001. Analysis of Pseudomonas putida alkane degradation gene clusters and flanking insertion sequences: Evolution and regulation of the alk-genes. Microbiology 147: 1621–1630.
- van Beilen JB, Li Z, Duetz WA, Smits THM, Witholt B. 2003. Diversity of alkane hydroxylase systems in the environment. Oil Gas Sci. Technol. 58: 427–440.
- van Beilen JB, Smits THM, Roos FF, Brunner T, Balada SB, et al. 2005. Identification of an amino acid position that determines the substrate range of integral membrane alkane hydroxylases. J. Bacteriol. 187: 85–91.
- Witholt B, de Smet MJ, Kingma J, van Beilen JB, Kok M, et al. 1990. Bioconversions of aliphatic compounds by Pseudomonas oleovorans in multiphase biorectors: Background and economic potential. Trends Biotechnol. 8: 46–52.
- Xu MX, Wang FP, Men J, Xiao X. 2007. Construction and preliminary analysis of a metagenomic library from a deep-sea sediment of east Pacific Nodule Province. FEMS Microbiol. Ecol. 62: 233–241.
- Xu MX, Xiao X, Wang FP. 2008. Isolation and characterization of alkane hydroxylases from a metagenomic library of Pacific deep-sea sediment. Extremophiles 12: 255–262.
