Distinguishing features of 16S rDNA gene for five dominating bacterial genus observed in bioremediation

Journal of Computational Biology

Volumn 9, Issue 6, 2002, Pages 819-829

  Raje, D V ^a   Purohit, H J ^a   Singh, R N ^a  

^a NATIONAL ENVIRONMENTAL ENGINEERING RESEARCH INSTITUTE   (India)

Author keywords

Bioremediation; Discriminant loadings; Step wise feature selection; Tolerance; Wilk's lambda

Indexed keywords

DNA 16S; NUCLEOTIDE; RIBOSOME DNA;

ACCURACY; ACINETOBACTER; ALCALIGENES; AMINO ACID SEQUENCE; ANALYTIC METHOD; ARTICLE; BACTERIAL GENETICS; BACTERIOPHAGE LAMBDA; BIOREMEDIATION; BURKHOLDERIA; CLINICAL FEATURE; CORRELATION ANALYSIS; DRUG EFFICACY; GENE; GENE PROBE; GENUS; GEOMETRY; MORAXELLA; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PSEUDOMONAS; UNINDEXED SEQUENCE;

ACINETOBACTER; ALCALIGENES; BACTERIA (MICROORGANISMS); BACTERIOPHAGE LAMBDA; BURKHOLDERIA; MORAXELLA; PSEUDOMONAS;

EID: 0037000630     PISSN: 10665277     EISSN: None     Source Type: Journal    
DOI: 10.1089/10665270260518290     Document Type: Article

References (17)

1. Amann, R.I., Ludwig, W., and Schleifer, K.-H. 1995. Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59, 143-169.
2. Atuanya, E.I., Purohit, H.J., and Chakrabarti, T. 2000. Anaerobic and aerobic biodegradation of chlorophenols using UASB and ASG bioreactors. World J. Microbiol. Biotechnol. 16, 95-98.
3. Chhatre, S.A., Purohit, H.J., Shanker, R., Chakrabarti, T., and Khanna, P. 1996. Bacterial consortia for crude oil spill remediation. Wat. Sci. Technol. 34, 187-193.
4. Chuzhanova, N.A, Jones, A.J., and Margetts, S. 1998. Feature selection for genetic sequence classification. Bioinformatics 14, 139-143.
5. Dash, M., and Liu, H. 1997. Feature Selection for Classification, Intelligent Data Analysis, www.elsevier.com/locate/ida.
6. Dillon, W.R., and Goldstein, M. 1984. Multivariate Analysis: Methods and Applications, Wiley, New York.
7. Durbin, R., Eddy, S., Krough, A., and Mitchinson, G. 1998. Biological Sequence Analysis, Cambridge University Press, London.
8. Kapley, A., Lampel, K., and Purohit, H.J. 2000. Thermocycling steps and optimization of multiplex PCR. Biotechnol. Letts. 22, 1913-1918.
9. Kapley, A., Purohit, H.J., Chatre, S., Shanker, R., Chakrabarti, T., and Khanna, P. 1999. Osmotolerance and hydrocarbon degradation by genetically engineered bacterial consortium. Bio-Resource Technology 67, 241-245.
10. Kapley, A., and Purohit, H.J. 2001. Tracking of phenol degrading genotype. Environ. Sci. Poll. Res. 8, 89-90.
11. Kutty, R., Purohit, H.J., and Khanna, P. 2000. Isolation and Characterization of a Pseudomonas sp. strain PH1 utilizing meta-aminophenol. Can. J. Microbiol. 46, 211-217.
12. Nussinov, R. 1984. Strong doublet preferences in nucleotide sequences and DNA geometry. J. Mol. Evol. 20, 111-119.
13. Purohit, H.J., Raje, D.V., and Singh, R.N. 2001. Feature selection to discriminate five dominating bacteria typically observed in effluent treatment plant. Proc. ISMB 2001, Copenhagen, ismb01.cbs.dtu.dk/DNARNAStructure.html#A221.
14. Qureshi, A., Prabhu, S.K., and Purohit, H.J. 2000. Isolation and characterization of Pseudomonas strains for utilization of p-nitrophenol. Microbes Environ. 16, 49-52.
15. Spain, J.C. 1995. Biodegradation of nitroaromatic compounds. Ann. Rev. Microbiol. 49, 523-555.
16. Van der Meer, J.R., de Vos, W.M., Harayama, S., and Zehnder, A.J.B. 1992. Molecular mechanisms of genetic adaptation of xenobiotic compounds. Microbiol. Rev. 56, 677-694.
17. Zhang, C.-T., and Wang, J. 2000. Recognition of protein coding genes in the yeast genome at better than 95% accuracy based on the Z-curve. Nucl. Acids Res. 28, 2804-2814.