Paenibacillus woosongensis sp. nov., a xylanolytic bacterium isolated from forest soil

International Journal of Systematic and Evolutionary Microbiology

Volumn 58, Issue 3, 2008, Pages 612-616

  Lee, Jae Chan ^a   Yoon, Ki Hong ^b  

^a Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^b Woosong University   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

ALPHA GALACTOSIDASE; AMYLASE; BETA GALACTOSIDASE; BETA GLUCOSIDASE; BETA MANNOSIDASE; CELLULASE; CYTOSINE; GUANOSINE; MENAQUINONE; RNA 16S; XYLAN; XYLAN 1,4 BETA XYLOSIDASE; XYLAN ENDO 1,3 BETA XYLOSIDASE; BACTERIAL DNA; FATTY ACID; RIBOSOME DNA;

ARTICLE; BACTERIAL STRAIN; BACTERIUM ISOLATE; BACTERIUM ISOLATION; CARBON SOURCE; CHEMOTAXONOMY; DNA CONTENT; FOREST; GRAM POSITIVE BACTERIUM; NONHUMAN; NUCLEOTIDE SEQUENCE; PAENIBACILLUS; PAENIBACILLUS JAMILAE; PAENIBACILLUS WOOSONGENSIS; PHYLOGENY; PRIORITY JOURNAL; RNA SEQUENCE; BACTERIUM; BACTERIUM IDENTIFICATION; CLASSIFICATION; DNA BASE COMPOSITION; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; METABOLISM; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEIC ACID HYBRIDIZATION; PHENOTYPE; RNA GENE; SPECIES DIFFERENCE; TREE;

BACTERIA (MICROORGANISMS); PAENIBACILLUS; PAENIBACILLUS JAMILAE;

BACTERIA; BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; DNA, BACTERIAL; DNA, RIBOSOMAL; FATTY ACIDS; GENES, RRNA; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PHENOTYPE; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; SPECIES SPECIFICITY; TREES; XYLANS;

EID: 44449161104     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.65350-0     Document Type: Article

References (35)

1. Ash, C., Priest, F. G. & Collins, M. D. (1993). Molecular identification of rRNA group 3 bacilli (Ash, Farrow, Wallbanks and Collins) using a PCR probe test. Proposal for the creation of a new genus Paenibacillus. Antonie van Leeuwenhoek 64, 253-260.
2. Ash, C., Priest, F. G. & Collins, M. D. (1994). Paenibacillus gen. nov. In Validation of the Publication of New Names and New Combinations Previously Effectively Published Outside the IJSB, List no. 51. Int J Syst Bacteriol 44, 852.
3. Aÿ, J., Goetz, F., Borriss, R. & Heinemann, U. (1998). Structure and function of the Bacillus hybrid enzyme GluXyn-1: native-like jellyroll fold preserved after insertion of autonomous globular domain. Proc Natl Acad Sci U S A 95, 6613-6618.
4. Cole, J. R., Chai, B., Marsh, T. L., Farris, R. J., Wang, Q., Kulam, S. A., Chandra, S., McGarrell, D. M., Schmidt, T. M. & other authors (2003). The ribosomal database project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res 31, 442-443.
5. Cowan, S. T. & Steel, K. J. (1965). Manual for the Identification of Medical Bacteria. London: Cambridge University Press.
6. DeLong, E. F. (1992). Archaea in coastal marine environments. Proc Natl Acad Sci U S A 89, 5685-5689.
7. Felsenstein, J. (1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368-376.
8. Felsenstein, J. (2005). PHYLIP (phylogeny inference package), version 3.65. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
9. Hasegawa, T., Takizawa, M. & Tanida, S. (1983). A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29, 319-322.
10. Hespell, R. B. (1996). Fermentation of xylan, corn fiber, or sugars to acetoin and butanediol by Bacillus polymyxa strains. Curr Microbiol 32, 291-296.
11. Kimura, M. (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111-120.
12. Kluge, A. G. & Farris, F. S. (1969). Quantitative phyletics and the evolution of anurans. Syst Zool 18, 1-32.
13. Komagata, K. & Suzuki, K. (1987). Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19, 161-207.
14. Lamed, R., Bayer, E., Saha, B. C. & Zeikus, J. G. (1988). Biotechnological potential of enzyme from unique thermophiles. In Proceedings of the Eighth International Biotechnology Symposium, pp. 371-383. Edited by G. Durand, L. Bobichon & J. Florent. Paris: French Society for Microbiology.
15. Lanyi, B. (1987). Classical and rapid identification methods for medically important bacteria. Methods Microbiol 19, 1-67.
16. Lee, H. J., Shin, D. J., Cho, N. C., Kim, H. O., Shin, S. Y., Im, S. Y., Lee, H. B., Chum, S. B. & Bai, S. (2000). Cloning, expression and nucleotide sequences of two xylanase genes from Paenibacillus sp. Biotechnol Lett 22, 387-392.
17. MacKenzie, S. L. (1987). Gas chromatographic analysis of amino acids as the N-heptafluorobutyryl isobutyl esters. J Assoc Off Anal Chem 70, 151-160.
18. Morales, P., Madarro, A., Flors, A., Sendra, J. M. & Pérez-González, J. A. (1995). Purification and characterization of a xylanase and an arabinofuranosidase from Bacillus polymyxa. Enzyme Microb Technol 17, 424-429.
19. Nielsen, P. & Sorensen, J. (1997). Multi-target and medium-independent fungal antagonisms by hydrolytic enzymes in Paenibacillus polymyxa and Bacillus pumilus strains from barley rhizosphere. FEMS Microbiol Ecol 22, 183-192.
20. Rhuland, L. E., Work, E., Denman, R. F. & Hoare, D. S. (1955). The behaviour of the isomers of α,ε-diaminopimelic acid on paper chromatograms. J Am Chem Soc 77, 4844-4846.
21. Rivas, R., Mateos, P., Martines-Molina, E. & Velázquez, E. (2005). Paenibacillus xylanilyticus sp. nov., an airborne xylanolytic bacterium. Int J Syst Evol Microbiol 55, 405-408.
22. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
23. Schleifer, K. H. (1985). Analysis of the chemical composition and primary structure of murein. Methods Microbiol 18, 123-156.
24. Schleifer, K. H. & Kandler, O. (1972). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36, 407-477.
25. Smibert, R. M. & Krieg, N. R. (1981). General characterization. In Manual of Methods for General Bacteriology, pp. 409-443. Edited by P. Gerhardt, R. G. E. Murray, R. N. Costilow, E. W. Nester, W. A. Wood, N. R. Krieg & G. B. Phillips. Washington, DC: American Society for Microbiology.
26. Smibert, R. M. & Krieg, N. R. (1994). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607-654. Edited by P. Gerhardt, R. G. E. Murray, W. A. Wood & N. R. Krieg. Washington, DC: American Society for Microbiology.
27. Stackebrandt, E. & Goebel, B. M. (1994). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44, 846-849.
28. Tamaoka, J. & Komagata, K. (1984). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125-128.
29. 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.
30. Timell, T. E. (1967). Recent progress in the chemistry of wood hemicelluloses. Wood Sci Technol 1, 45-70.
31. Velázquez, E., de Miguel, T., Poza, M., Rivas, R., Rosselló-Mora, R. & Villa, T. G. (2004). Paenibacillus favisporus sp. nov., a xylanolytic bacterium isolated from cow faeces. Int J Syst Evol Microbiol 54, 59-64.
32. Viikari, L., Kantelinen, A., Sundquist, J. & Linko, M. (1994). Xylanases in bleaching: from an idea to the industry. FEMS Microbiol Rev 13, 335-350.
33. von der Weid, I., Frois Duarte, G., van Elsas, J. D. & Seldin, L. (2002). Paenibacillus brasilensis sp. nov., a novel nitrogen-fixing species isolated from the maize rhizosphere in Brazil. Int J Syst Evol Microbiol 52, 2147-2153.
34. Yoon, J.-H., Oh, H.-M., Yoon, B.-D., Kang, K. H. & Park, Y.-H. (2003). Paenibacillus kribbensis sp. nov. and Paenibacillus terrae sp. nov., bioflocculants for efficient harvesting of algal cells. Int J Syst Evol Microbiol 53, 295-301.
35. Zamost, B. L., Nielsen, H. K. & Starnes, R. L. (1991). Thermostable enzymes for industrial applications. J Ind Microbiol 8, 71-82.