Nocardioides islandiensis sp. nov., isolated from soil in Bigeum Island Korea

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 93, Issue 4, 2008, Pages 401-406

  Dastager, Syed G ^a   Lee, Jae Chan ^a   Ju, Yoon Jung ^a   Park, Dong Jin ^a   Kim, Chang Jin ^a  

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

Author keywords

16S rRNA; Nocardioides islandiensis sp. nov; Polyphasic taxonomy

Indexed keywords

6 DIAMINOPIMELIC ACID; BACTERIAL DNA; BACTERIAL PROTEIN; CARDIOLIPIN; CYTOSINE; FATTY ACID; GUANINE; LIPID; MENAQUINONE; PHOSPHATIDYLGLYCEROL; PHOSPHOLIPID; PROTEIN LL 2; PROTEIN MK 4; RNA 16S; UNCLASSIFIED DRUG;

ACTINOMYCETALES; ARTICLE; BACTERIAL CELL WALL; BACTERIAL STRAIN; BACTERIUM ISOLATE; BIOCHEMISTRY; CHEMICAL ANALYSIS; CHEMOTAXONOMY; CONTROLLED STUDY; KOREA; NEW SPECIES; NOCARDIOIDACEAE; NOCARDIOIDES AQUATICUS; NOCARDIOIDES ISLANDIENSIS; NOCARDIOIDES KRIBBENSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PH; PHYLOGENY; PRIORITY JOURNAL; RNA SEQUENCE; SEQUENCE HOMOLOGY; SOIL;

ACTINOMYCETALES; BASE COMPOSITION; DNA, BACTERIAL; DNA, RIBOSOMAL; KOREA; MOLECULAR SEQUENCE DATA; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY;

NOCARDIOIDES; NOCARDIOIDES AQUATICUS; NOCARDIOIDES KRIBBENSIS;

EID: 41149136822     PISSN: 00036072     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10482-007-9217-8     Document Type: Article

References (38)

1. Becker B, Lechevalier MP, Lechevalier HA (1965) Chemical composition of cell-wall preparation from strains of various form genera of aerobic actinomycetes. Appl Microbiol 13:236-243
2. Collins MD, Cockcroft S, Wallbanks S (1994) Phylogenetic analysis of a new LL-diaminopimelic acid-containing coryneform bacterium from herbage, Nocardioides plantarum sp. nov. Int J Syst Bacteriol 44:523-526
3. Felsenstein J (1993) PHYLIP (Phylogeny Inference Package) version 3.5c. Department of Genetics, University of Washington, Seattle
4. Felsenstein J (1985) Conference limits on phylogenies: An approach using the bootstrap. Evolution 39:783-789
5. Fitch WM, Margoliash E (1967) Construction of phylogenetic trees: A method based on mutation distances as estimated from cytochrome c sequences is of general applicability. Science 155:279-284
6. Kämpfer P, Kroppenstedt RM (1996) Numerical analysis of fatty acid patterns of coryneform bacteria and related taxa. Can J Microbiol 42:989-1005
7. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequence. J Mol Evol 16:111-120
8. Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, Cambridge
9. Kluge AG, Farris FS (1969) Quantitative phyletics and the evolution of anurans. Syst Zool 18:1-32
10. Kroppenstedt RM (1982) Separation of bacterial menaquinones by HPLC using reverse phase (RP 18) and a silver loaded ion exchanger as stationery phases. J Liq Chromatogr 5:2359-2367
11. Kumar S, Tamura K, Jakobsen IB, Nei M (2001) MEGA2: Molecular evolutionary genetics analysis software. Bioinformatics 17:1244-1245
12. Lawson PA, Collins MD, Schumann P, Tindall BJ, Hirsch P, Labrenz M (2000) New LL-diaminopimelic acid-containing actinomycetes from hypersaline, heliothermal and meromictic Antarctic Ekho Lake: Nocardioides aquaticus sp. nov. and Friedmanniella lacustris sp. nov. Syst Appl Microbiol 23:219-229
13. Lechevalier MPA, Lechevalier HA (1980) The chemotaxonomy of Actinomycetes. In: Dietz T. (eds) Actinomycete Taxonomy, Society for Industrial Microbiology, Arlington, VA, p 22
14. Lee SD, Kang SO, Hah YC (2000) Hongia gen. nov., a new genus of the order Actinomycetales. Int J Syst Evol Microbiol 50:191-199
15. Mesbah M, Premachandran U, Whitmann W (1989) Precise measurement of the G + C content of deoxyribonucleic acid by high performance liquid chromatography. Int J Syst Bacteriol 39:159-167
16. Miller ES, Woese CR, Brenner S (1991) Description of the erythromycin-producing bacterium Arthrobacter sp. strain NRRL B- 3381 as Aeromicrobium erythreum gen. nov., sp. nov. Int J Syst Bacteriol 41:363-368
17. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233-241
18. Moaledji K (1986) Comparison of gram-staining and alternate methods, KOH test and aminopeptidase activity in aquatic bacteria: Their application to numerical taxonomy. J Microbiol Methods 5:303-310
19. Park YH, Yoon JH, Shin YK, Suzuki K, Kudo T, Seino A, Kim HJ, Lee JS, Lee S T (1999) Classification of - Nocardioides fulvus - IFO 14399 and Nocardioides sp. ATCC 39419 in Kribbella gen. nov., as Kribbella flavida sp. nov. and Kribbella sandramycini sp. nov. Int J Syst Bacteriol 49:743-752
20. Reasoner DJ, Geldreich EE (1985) A new medium for the enumeration and subculture of bacteria from potable water. Appl Environ Microbiol 49(1):1-7
21. Saitou N, Nei M (1987) The neighbor-joining method: A new method for reconstructing phylogenetic tree. Mol Biol Evol 4:406-425
22. Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. USFCC News Lett 20:1-6
23. Schippers A, Schumann P, Spröer C (2005) Nocardioides oleivorans sp. nov., a novel crude oil-degrading bacterium. Int J Syst Evol Microbiol 55:1501-1504
24. Sohn K, Hong SG, Bae SK, Chun J (2003) Transfer of Hongia koreensis Lee et al. 2000 to the genus Kribbella Park et al.1999 as Kribbella koreensis comb.nov. Int J Syst Evol Microbiol 53:1505-1507
25. Stackebrandt E, Goebel BM (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
26. Stackebrandt E, Rainey FA, Ward-Rainey NL (1997) Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47:479-491
27. Staneck JL, Roberts GD (1974) Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226-231
28. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The Clustal X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 24:4876-4888
29. Urzì C, Salamone P, Schumann P, Stackebrandt E (2000) Marmoricola aurantiacus gen. nov., sp. nov., a coccoid member of the family Nocardioidaceae isolated from a marble statue. Int J Syst Evol Microbiol 50:529-536
30. Wang YM, Zhang ZS, Xu XL, Ruan JS, Wang Y (2001) Actinopolymorpha singaporensis gen. nov., sp. nov., a novel actinomycete from the tropical rainforest of Singapore. Int J Syst Evol Microbiol 51:467-473
31. Xu P, Li WJ, Xu LH, Jiang CL (2003) A microwave-based method for genomic DNA extraction from actinomycetes. Microbiology (in Chinese) 30:82-84
32. Yi H, Chun J (2004a) Nocardioides ganghwensis sp. nov., isolated from tidal flat sediment. Int J Syst Evol Microbiol 54:1295-1299
33. Yi H, Chun J (2004b) Nocardioides aestuarii sp. nov., isolated from tidal flat sediment. Int J Syst Evol Microbiol 54:2151-2154
34. Yoon JH, Rhee SK, Lee JS, Park YH, Lee ST (1997) Nocardioides pyridinolyticus sp.nov., a pyridine degrading bacterium isolated from the oxic zone of an oil shale column. Int J Syst Bacteriol 47:933-938
35. Yoon JH, Lee ST, Park YH (1998) Inter- and intra specific phylogenetic analysis of the genus Nocardioides and related taxa based on 16S rRNA gene sequences. Int J Syst Bacteriol 48:187-194
36. Yoon JH, Kim IG, Kang KH, Oh TK, Park YH (2004) Nocardioides aquiterrae sp. nov., isolated from groundwater in Korea. Int J Syst Evol Microbiol 54:71-75
37. Yoon JH, Kim IG, Lee MH, Lee CH, Oh TK (2005a) Nocardioides alkalitolerans sp. nov., isolated from an alkaline serpentinite soil in Korea. Int J Syst Evol Microbiol 55:809-814
38. Yoon JH, Kim IG, Lee MH, Oh TK (2005b) Nocardioides kribbensis sp. nov., isolated from an alkaline soil. Int J Syst Evol Microbiol 55:1611-1614