Flavobacterium aquidurense sp. nov. and Flavobacterium hercynium sp. nov. from a hard-water creek

International Journal of Systematic and Evolutionary Microbiology

Volumn 57, Issue 2, 2007, Pages 243-249

  Cousin, Sylvie ^a   Päuker, Orsola ^a   Stackebrandt, Erko ^a  

^a LEIBNIZ INSTITUTE DSMZ GERMAN COLLECTION OF MICROORGANISMS AND CELL CULTURES   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; CYTOSINE; FATTY ACID; FRESH WATER; GUANINE; RNA 16S;

ARTICLE; BACTERIAL CELL; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM ISOLATE; BACTERIUM ISOLATION; CONTROLLED STUDY; DNA CONTENT; DNA DNA HYBRIDIZATION; FLAVOBACTERIACEAE; FLAVOBACTERIUM; FLAVOBACTERIUM AQUIDURENSE; FLAVOBACTERIUM FRIGIDIMARIS; FLAVOBACTERIUM HERCYNIUM; FLAVOBACTERIUM SACCHAROPHILUM; GERMANY; LIPID COMPOSITION; MOLECULAR PHYLOGENY; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PRIORITY JOURNAL; RNA SEQUENCE; SEQUENCE HOMOLOGY; STRAIN DIFFERENCE;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; DNA, BACTERIAL; DNA, RIBOSOMAL; FATTY ACIDS; FLAVOBACTERIUM; FRESH WATER; GENES, RRNA; GERMANY; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; ORGANIC CHEMICALS; PHYLOGENY; PIGMENTS, BIOLOGICAL; RNA, BACTERIAL; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, NUCLEIC ACID; WATER MICROBIOLOGY;

FLAVOBACTERIUM; FLAVOBACTERIUM FRIGIDIMARIS; FLAVOBACTERIUM SACCHAROPHILUM; NEGIBACTERIA;

EID: 33847224921     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.64556-0     Document Type: Article

References (38)

1. Anacker, R. L. & Ordal, E. J. (1955). Study of a bacteriophage infecting the myxobacteriurn Chondrococcus columnaris. J Bacteriol 70, 738-741.
2. Aslam, Z., Im, W.-T., Kim, M. K. & Lee, S.-T. (2005). Flavobacterium granuli sp. nov., isolated from granules used in a wastewater treatment plant. Int J Syst Evol Microbiol 35, 747-751.
3. Barrow, G. I. & Feltham, R. K. A. (1993). Cowan and Steel's Manual for the Identification of Medical Bacteria, 3rd edn. Cambridge: Cambridge University Press.
4. Bergey, D. H., Harrison, F. C., Breed, R. S., Hammer, B. W. & Huntoon, F. M. (editors) (1923). Bergey's Manual of Determinative Bacteriology. Baltimore: Williams & Wilkins.
5. Bernardet J.-F. & Bowman, J. P. (2005). The genus Flavobacterium. In The Prokaryotes: an Evolving Electronic Resource for the Microbiological Community, release 3.20. Edited by M. Dworkin, S. Falkow, E. Rosenberg, K. H. Schleifer & E. Stackebrandt. New York: Springer. http://141.150.157.117:8080/prokPUB/index.htm
6. Bernardet, J.-F., Nakagawa, Y. & Holmes, B. (2002). Proposed minimal standards for describing new taxa of the family Flavobacteriaceae and emended description of the family. Int J Syst Evol Microbiol 52, 1049-1070.
7. Bernardet, J.-F., Segers, P., Vancanneyt M., Berthe, F., Kersters, K. & Vandamme, P. (1996). Cutting a Gordian knot: emended classification and description of the genus Flavobacterium, emended description of the family Flavobacteriaceae, and proposal of Flavobacterium hydatis nom. nov. (basonym, Cytophaga aquatilis Strohl and Tait 1978). Int J Syst Bacteriol 46, 128-148.
8. Brambilla, E., Päuker, O., Cousin, S., Steiner, U., Reimer, A. & Stackebrandt, E. (2007). High phylogenetic diversity of Flavobacterium spp. in a hardwater creek, Harz Mountain, Germany. Org Divers Evol (in press).
9. Cashion, P., Holder-Franklin, M. A., McCully, J. & Franklin, M. (1977). A rapid method for the base ratio determination of bacterial DNA. Anal Biochem 81, 461-466.
10. De Ley, J., Cattoir, H. & Reynaerts, A. (1970). The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12, 133-142.
11. De Soete, G. (1983). A least squares algorithm for fitting additive trees to proximity data. Psychometrika 48, 621-626.
12. DSMZ (2001). Catalogue of Strains, 7th edn. Braunschweig, Germany: DSMZ. http://www.dsmz.de
13. Escara, J. F. & Hutton, J. R. (1980). Thermal stability and renaturation of DNA in dimethyl sulfoxide solutions: acceleration of the renaturation rate. Biopolymers 19, 1315-1327.
14. Felsenstein, J. (1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783-791.
15. Felsenstein, J. (1993). PHYLIP (phylogeny inference package), version 3.5.1. Distributed by the author. Department of Genome Sciences, University of Washington. Seattle, USA.
16. Frank-Kamenetskii, F. (1971). Simplification of the empirical relationship between melting temperature of DNA, its GC content and concentration of sodium ions in solution. Biopolymers 10, 2623-2624.
17. Gerhardt, P., Murray, R. G. E., Costilow, R. N., Nester, E. W., Wood, W. A., Krieg, N. R. & Phillips, G. R. (1981). Manual of Methods for General Bacteriology. Washington, DC: American Society for Microbiology.
18. 2O-producing bacteria isolated from the gut of the earthworm Aporrectodea caliginosa. Int J Syst Evol Microbiol 55, 1255-1265.
19. Humphry, D. R., George, A., Black, G. W. & Cummings, S. P. (2001). Flavobacterium frigidarium sp. nov., an aerobic, psychrophilic, xylanolytic and laminarinolytic bacterium from Antarctica. Int J Syst Evol Microbiol 51, 1235-1243.
20. Huß, V. A. R., Festl, H. & Schleifer, K. H. (1983). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184-192.
21. Kämpfer, P. & Kroppenstedt, R. M. (1996). Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42, 989-1005.
22. Kim, B.-Y., Weon, H. Y., Cousin, S., Yoo, S.-H., Kwon, S.-W., Go, S. J. & Stackebrandt, E. (2006). Flavobacterium daejeonense sp. nov. and Flavobacterium suncheonense sp. nov., isolated from greenhouse soil in Korea. Int J Syst Evol Microbiol 56, 1635-1638.
23. McCammon, S. A. & Bowman, J. P. (2000). Taxonomy of Antarctic Flavobacterium species: description of Flavobacterium gillisiae sp. nov., Flavobacterium tegetincola sp. nov. and Flavobacterium xanthum sp. nov., nom. rev. and reclassification of [Flavobacterium] salegens as Salegentibacter salegens gen. nov., comb. nov. Int J Syst Evol Microbiol 50, 1055-1063.
24. Miller, L. T. (1982). A single derivatization method for bacterial fatty acid methyl esters including hydroxy acids. J Clin Microbiol 16, 584-586.
25. Nogi, Y., Soda, K. & Oikawa, T. (2005). Flavobacterium frigidimaris sp. nov., isolated from Antarctic seawater. Syst Appl Microbiol 28, 310-315.
26. O'Sullivan, L. A., Rinna, J., Humphreys, G., Weightman, A. J. & Fry, J. C. (2006). Culturable phylogenetic diversity of the phylum 'Bacteroidetes' from river epilithon and coastal water and description of novel members of the family Flavobacteriaceae: Epilithonimonas tenax gen. nov., sp. nov. and Persicivirga xylanidelens gen. nov., sp. nov. Int J Syst Evol Microbiol 56, 169-180.
27. Rainey, F. A., Ward-Rainey, N., Kroppenstedt, R. M. & Stackebrandt, E. (1996). The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsaceae fam. nov. Int J Syst Bacteriol 46, 1088-1092.
28. Reichenbach, H. & Dworkin, M. (1981). Introduction to the gliding bacteria. In The Prokaryotes, vol. 1, pp. 315-327. Edited by M. P. Starr, H. Stolp, H. G. Trüper, A. Balows & H. G. Schlegel. Berlin: Springer.
29. Tamaki, H., Hanada, S., Kamagata, Y., Nakamura, K., Nomura, N., Nakano, K. & Matsumura, M. (2003). Flavobacterium limicola sp. nov., a psychrophilic, organic-polymer-degrading bacterium isolated from freshwater sediments. Int J Syst Evol Microbiol 53, 519-526.
30. Van Trappen, S., Mergaert J. & Swings, J. (2003). Flavobacterium gelidilacus sp. nov., isolated from microbial mats in Antarctic lakes. Int J Syst Evol Microbial 53, 1241-1245.
31. Van Trappen, S., Vandecandelaere, I., Mergaert, J. & Swings, J. (2004). Flavobacterium degerlachei sp. nov., Flavobacterium frigoris sp. nov., and Flavobacterium micromati sp. nov., novel psychrophilic bacteria isolated from microbial mats in Antarctic lakes. Int J Syst Evol Microbiol 54, 85-92.
32. Van Trappen, S., Vandecandelaere, I., Mergaert, J. & Swings, J. (2005). Flavobacterium fryxellicola sp. nov. and Flavobacterium psychrolimnae sp. nov., novel psychrophilic bacteria isolated from microbial mats in Antarctic lakes. Int J Syst Evol Microbiol 55, 769-772.
33. Wang, Z.-W., Liu, Y.-H., Dai, X., Wang, B.-J., Jiang, C.-Y. & Liu, S.-J. (2006). Flavobacterium saliperosum sp. nov., isolated from freshwater lake sediment. Int J Syst Evol Microbiol 56, 439-442.
34. Wayne, L. G., Brenner, D. J., Colwell, R. R., Grimont, P. A. D., Kandler, O., Krichevsky, M. I., Moore, L. H., Moore, W. E. C., Murray, R. G. E. & other authors (1987). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37, 463-464.
35. Yi, H. & Chun, J. (2006). Flavobacterium weaverense sp. nov. and Flavobacterium segetis sp. nov., novel psychrophiles isolated from the Antarctic. Int J Syst Evol Microbiol 56, 1239-1244.
36. Yi, H., Oh, H.-M., Lee, J.-H., Kim, S.-J. & Chun, J. (2005). Flavobacterium antarcticum sp. nov., a novel psychrotolerant bacterium isolated from the Antarctic. Int J Syst Evol Microbiol 55, 637-641.
37. Yoon, J.-H., Kang, S.-J. & Oh, T.-K. (2006). Flavobacterium soli sp. nov., isolated from soil. Int J Syst Evol Microbiol 56, 997-1000.
38. Zhu, F., Wang, S. & Zhou, P. (2003). Flavobacterium xinjiangense sp. nov. and Flavobacterium omnivorum sp. nov., novel psychrophiles from the China No. I glacier. Int J Syst Evol Microbiol 53, 853-857.