Burkholderia ginsengiterrae sp. nov. and Burkholderia panaciterrae sp. nov., antagonistic bacteria against root rot pathogen Cylindrocarpon destructans, isolated from ginseng soil

Archives of Microbiology

Volumn 197, Issue 3, 2015, Pages 439-447

  Farh, Mohamed El Agamy ^a   Kim, Yeon Ju ^a   Van An, Hoang ^a   Sukweenadhi, Johan ^a   Singh, Priyanka ^a   Huq, Md Amdadul ^a   Yang, Deok Chun ^a  

^a Kyung Hee University   (South Korea)

Author keywords

Antagonistic activity; Burkholderia ginsengiterrae; Burkholderiapanaciterrae; Proteobacteria; Taxonomy

Indexed keywords

3 HYDROXYBENZOIC ACID; ACETIC ACID; ARABINOSE; CARBENICILLIN; CATALASE; CEFTAZIDIME; CHLORAMPHENICOL; DECANOIC ACID; DNA TOPOISOMERASE (ATP HYDROLYSING) B; ERYTHROMYCIN; GENOMIC DNA; GLUCOSE; INOSITOL; LACTIC ACID; MALTOSE; MANNITOL; N ACETYLGLUCOSAMINE; NEOMYCIN; OLEANDOMYCIN; PENICILLIN DERIVATIVE; PHOSPHATIDYLETHANOLAMINE; POLYAMINE; QUINONE DERIVATIVE; RECA PROTEIN; RHAMNOSE; RNA 16S; SORBITOL; TETRACYCLINE; UBIQUINONE; VANCOMYCIN; ANTIINFECTIVE AGENT; FATTY ACID; PHOSPHOLIPID;

ANTIBIOTIC RESISTANCE; ANTIBIOTIC SENSITIVITY; ARTICLE; BACTERIAL GROWTH; BACTERIAL STRUCTURES; BOTRYTIS CINEREA; BURKHOLDERIA; BURKHOLDERIA FUNGORUM; BURKHOLDERIA GINSENGITERRAE; BURKHOLDERIA PANACITERRAE; CHEMOTAXONOMY; CONTROLLED STUDY; CYLINDROCARPON; CYLINDROCARPON DESTRUCTANS; DNA BASE COMPOSITION; DNA DNA HYBRIDIZATION; ENZYME ACTIVITY; FATTY ACID ANALYSIS; FUSARIUM OXYSPORUM; FUSARIUM SOLANI; GENE SEQUENCE; GINSENG; GLOMERELLA CINGULATA; HYDROLYSIS; LIPID ANALYSIS; LIPID COMPOSITION; NONHUMAN; PRIORITY JOURNAL; ROOT ROT; SALT TOLERANCE; ANTIBIOSIS; BACTERIAL GENE; CLASSIFICATION; DRUG EFFECTS; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; PANAX; PHYLOGENY; PHYSIOLOGY; SOUTH KOREA; SPECIES DIFFERENCE;

ANTI-BACTERIAL AGENTS; ANTIBIOSIS; BASE COMPOSITION; BURKHOLDERIA; FATTY ACIDS; GENES, BACTERIAL; MOLECULAR SEQUENCE DATA; PANAX; PHOSPHOLIPIDS; PHYLOGENY; REPUBLIC OF KOREA; SOIL MICROBIOLOGY; SPECIES SPECIFICITY;

EID: 84925537748     PISSN: 03028933     EISSN: 1432072X     Source Type: Journal    
DOI: 10.1007/s00203-014-1075-y     Document Type: Article

References (40)

1. Anzai Y, Kudo Y, Oyaizu H (1997) The phylogeny of the genera Chryseomonas, Flavimonas, and Pseudomonas supports synonymy of these three genera. Int J Syst Bacteriol 47:249–251
2. Busse HJ, Auling G (1988) Polyamine pattern as a chemotaxonomic marker within the Proteobacteria. Syst Appl Microbiol 11:1–8
3. Coenye T, Laevens S, Willems A, Ohlen M, Hannant W, Govan JRW, Gillis M, Falsen E, Vandamme P (2001) Burkholderia fungorum sp. nov. and Burkholderia caledonica sp. nov., two new species isolated from the environment, animals and human clinical samples. Int J Syst Evol Microbiol 51:1099–1107
4. Coenye T, Henry D, Speert DP, Vandamme P (2004) Burkholderia phenoliruptrix sp. nov., to accommodate the 2,4, 5-trichlorophenoxyacetic acid and halophenol-degrading strain AC1100. Syst Appl Microbiol 27:623–627
5. Collins MD (1985) Isoprenoid quinone analyses in bacterial classification and identification. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics (Society for Applied Bacteriology Technical Series no. 20). Academic Press, London, pp 267–287
6. Cowan ST, Steel KJ (1974) Manual for the identification of medical bacteria. Cambridge University Press, Cambridge
7. Da K, Nowa KJ, Flinn B (2011) Potato cytosine methylation and gene expression changes induced by a beneficial bacterial endophyte, Burkholderia phytofirmans strain PsJN. Plant Phys Biochem J 50:24–34
8. Ezaki T, Hashimoto Y, Yabuuchi E (1989) Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39:224–229
9. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791
10. Fitch WM (1971) Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416
11. 2-fixing isolates from rice in Vietnam. Int J Syst Bacteriol 45:274–289
12. Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
13. Hankins A (2009) Producing and Marketing Wild Simulated Ginseng in Forest and Agroforestry Systems. Produced by Communications and Marketing, College of Agriculture and Life Sciences, Virginia Polytechnic Institute and State University
14. Howieson JG, Yates RJ, Foster K, Real D, Besier B (2008) Prospects for the future use of legumes. In: Dilworth MJ, James EK, Sprent JI, Newton WE (eds) Nitrogen-fixing leguminous symbioses. Elsevier, London, UK, pp 363–394
15. Kim HB, Park MJ, Yang HC, An DS, Jin HZ, Yang DC (2006) Burkholderia ginsengisoli sp. nov., a β-glucosidase-producing bacterium isolated from soil of a ginseng field. Int J Syst Bacteriol 56:2529–2533
16. Kimura M (1983) The neutral theory of molecular evolution. Cambridge University Press, Cambridge
17. Lane DJ (1991) 16S/23S rRNA sequencing. In: Goodfellow M, Chichester, Stackebrandt E (eds) Nucleic acid techniques in bacterial systematics. Wiley, London, pp 115–176
18. Lee SS (2007) Korean ginseng (ginseng cultivation), Korean ginseng and T. Research institute, pp 18–40
19. Leung KW, Wong AS (2010) Pharmacology of ginsenosides: a literature review. Chin Med J. doi:10.1186/1749-8546-5-20
20. Lu P, Zheng LQ, Sun JJ, Liu HM, Li SP, Hong Q, Li WJ (2012) Burkholderia zhejiangensis sp. nov., a methyl-parathiondegrading bacterium isolated from a wastewater-treatment system. Int J Syst Evol Microbiol 62:1337–1341
21. Mesbah M, Premachandran U, Whitman WB (1989) Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167
22. 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
23. Mishra RP, Tisseyre P, Melkonian R, Chaintreuil C, Miche´ L, Klonowska A, Gonzalez S, Bena G, Laguerre G, Moulin L (2012) Genetic diversity of Mimosa pudicarhizobial symbionts in soils of French Guiana: investigating the origin and diversity of Burkholderia phymatum and other beta-rhizobia. FEMS Microbiol Ecol 79:487–503
24. Prescott LM, Harley JP (2001) The effects of chemical agents on bacteria II: antimicrobial agents (Kirby–Bauer method). In: Prescott LM, Harley JP (eds) Laboratory Exercises in Microbiology, 5th edn. McGraw-Hill Inc, New York, pp 57–262
25. Rahman M, Punja ZK (2005) Factors influencing development of root rot on ginseng caused by Cylindrocarpon destructans. Phytopathol J 95(12):1381–1390
26. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
27. Sasser M (1990). Identification of bacteria by gas chromatography of cellular fatty acids, MIDI Technical Note 101. MIDI Inc, Newark
28. Sheu SY, Chou JH, Bontemps C, Elliott GN, Gross E, Junior FBDR, Melkonian R, Moulin L, James EK, Sprent JI, Young JP, Chen WM (2013) Burkholderia diazotrophica sp. nov., isolated from root nodules of Mimosa spp. Int J Syst Evol Microbiol 63:435–441
29. Spilker T, Baldwin A, Bumford A, Dowson CG, Mahenthiralingam E, LiPuma JJ (2009) Expanded multilocus sequence typing for Burkholderia species. J Clin Microbiol 47:2607–2610
30. Suárez-Moreno ZR, Coutinho BG, Mendonça-Previato L, Previato L, James EK, Venturi V (2012) Common features of environmental and potentially beneficial plant-associated Burkholderia. Microbial Ecol 63:249–266
31. Taibi G, Schiavo MR, Gueli MC, Rindina PC, Muratore R, Nicotra CM (2000) Rapid and simultaneous high–performance liquid chromatography assay of polyamines and monoacetylpolyamines in biological specimens. J Chromatogr Biomed Sci Appl 745:431–437
32. Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596–1599
33. 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 25:4876–4882
34. Tian Y, Kong BH, Liu SL, Li CL, Yu R, Liu L, Li YH (2013) Burkholderia grimmiae sp. nov., isolated from a xerophilous moss (Grimmiamontana). Int J Syst Evol Microbiol 63:2108–2113
35. Vandamme P, Opelt K, Knochel N, Berg C, Schonmann S, Brandt E, Eberl L, Falsen E, Berg G (2007) Burkholderia bryophila sp. nov. and Burkholderia megapolitana sp. nov., moss-associated species with antifungal and plant-growth-promoting properties. Syst Evol Microbiol 57:2228–2235
36. Vandamme P, Brandt ED, Houf K, Salles JF, Elsas JDV, Spilker T, LiPuma JJ (2013) Burkholderia humi sp. nov., Burkholderia choica sp. nov., Burkholderia telluris sp. nov., Burkholderia terrestris sp. nov., and Burkholderia udeis sp. nov.: Burkholderia glathei-like bacteria from soil and rhizosphere soil. Syst Evol Microbiol. doi:10.1099/ijs.0.048900-0
37. Vanlaere E, van der Meer JR, Falsen E, Salles JF, Brandt ED, Vandamme P (2008) Burkholderia sartisoli sp. nov., isolated from a polycyclic aromatic hydrocarbon-contaminated soil. Int J Syst Evol Microbiol 58:420–423
38. Wayne L, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore EC, Murray RGE, Stackebrandt E, Starr MP, Truper HG (1987) Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464
39. Yabuuchi E, Kosako Y, Oyaizu H, Yano I, Hotta H, Hashimoto Y, Ezaki T, Arakawa M (1992) Proposal of Burkholderia gen. nov. and transfer of seven species of the genus Pseudomonas homology group II to the new genus, with the type species Burkholderia cepacia (Palleroni and Holmes 1981) comb. nov. Microbiol Immunol 36:1251–1275
40. Zhao X, Gao J, Song C, Fang Q, Wang N, Zhao T, Liu D, Zhou Y (2012) Fungal sensitivity to and enzymatic deglycosylation of ginsenosides. Phytochem J 78:65–71