1887

Abstract

Three strains of Gram-stain-negative, rod-shaped bacteria were isolated from root nodules and authenticated on this host. Based on the 16S rRNA gene sequence phylogeny, they were shown to belong to the genus , with the representative strain WSM3556 being most closely related to LMG 23644 (98.70 % 16S rRNA gene sequence similarity) and WSM3937 (98.50 %). Additionally, these strains formed a distinct group in phylogenetic trees of the housekeeping genes and . Chemotaxonomic data, including fatty acid profiles and analysis of respiratory quinones, supported the assignment of our strains to the genus . Results of DNA–DNA hybridizations, MALDI-TOF MS analysis and physiological and biochemical tests allowed genotypic and phenotypic differentiation of our strains from their nearest neighbour species. Therefore, these strains represent a novel species, for which the name sp. nov. is proposed, with the type strain WSM3556 ( = LMG 27173 = HAMBI 3353).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.058602-0
2014-04-01
2024-12-10
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/4/1090.html?itemId=/content/journal/ijsem/10.1099/ijs.0.058602-0&mimeType=html&fmt=ahah

References

  1. Aizawa T., Bao Ve N., Nakajima M., Sunairi M. ( 2010a ). Burkholderia heleia sp. nov., a nitrogen-fixing bacterium isolated from an aquatic plant, Eleocharis dulcis, that grows in highly acidic swamps in actual acid sulfate soil areas of Vietnam. . Int J Syst Evol Microbiol 60, 11521157. [View Article] [PubMed]
    [Google Scholar]
  2. Aizawa T., Bao Ve N., Vijarnsorn P., Nakajima M., Sunairi M. ( 2010b ). Burkholderia acidipaludis sp. nov., aluminium-tolerant bacteria isolated from Chinese water chestnut (Eleocharis dulcis) growing in highly acidic swamps in South-East Asia. . Int J Syst Evol Microbiol 60, 20362041. [View Article] [PubMed]
    [Google Scholar]
  3. Aizawa T., Vijarnsorn P., Nakajima M., Sunairi M. ( 2011 ). Burkholderia bannensis sp. nov., an acid-neutralizing bacterium isolated from torpedo grass (Panicum repens) growing in highly acidic swamps. . Int J Syst Evol Microbiol 61, 16451650. [View Article] [PubMed]
    [Google Scholar]
  4. Ardley J. K., Parker M. A., De Meyer S. E., Trengove R. D., O’Hara G. W., Reeve W. G., Yates R. J., Dilworth M. J., Willems A., Howieson J. G. ( 2012 ). Microvirga lupini sp. nov., Microvirga lotononidis sp. nov. and Microvirga zambiensis sp. nov. are alphaproteobacterial root-nodule bacteria that specifically nodulate and fix nitrogen with geographically and taxonomically separate legume hosts. . Int J Syst Evol Microbiol 62, 25792588. [View Article] [PubMed]
    [Google Scholar]
  5. Chen W. M., James E. K., Coenye T., Chou J. H., Barrios E., de Faria S. M., Elliott G. N., Sheu S. Y., Sprent J. I., Vandamme P. ( 2006 ). Burkholderia mimosarum sp. nov., isolated from root nodules of Mimosa spp. from Taiwan and South America. . Int J Syst Evol Microbiol 56, 18471851. [View Article] [PubMed]
    [Google Scholar]
  6. Chen W. M., de Faria S. M., James E. K., Elliott G. N., Lin K. Y., Chou J. H., Sheu S. Y., Cnockaert M., Sprent J. I., Vandamme P. ( 2007 ). Burkholderia nodosa sp. nov., isolated from root nodules of the woody Brazilian legumes Mimosa bimucronata and Mimosa scabrella . . Int J Syst Evol Microbiol 57, 10551059. [View Article] [PubMed]
    [Google Scholar]
  7. Chen W. M., de Faria S. M., Chou J. H., James E. K., Elliott G. N., Sprent J. I., Bontemps C., Young J. P. W., Vandamme P. ( 2008 ). Burkholderia sabiae sp. nov., isolated from root nodules of Mimosa caesalpiniifolia . . Int J Syst Evol Microbiol 58, 21742179. [View Article] [PubMed]
    [Google Scholar]
  8. De Meyer S. E., Cnockaert M., Ardley J. K., Trengove R. D., Garau G., Howieson J. G., Vandamme P. ( 2013a ). Burkholderia rhynchosiae sp. nov., isolated from Rhynchosia ferulifolia root nodules. . Int J Syst Evol Microbiol 63, 39443949. [View Article] [PubMed]
    [Google Scholar]
  9. De Meyer S. E., Cnockaert M., Ardley J. K., Maker G., Yates R., Howieson J. G., Vandamme P. ( 2013b ). Burkholderia sprentiae sp. nov., isolated from Lebeckia ambigua root nodules. . Int J Syst Evol Microbiol 63, 39503957. [View Article] [PubMed]
    [Google Scholar]
  10. Elliott G. N., Chen W. M., Bontemps C., Chou J. H., Young J. P. W., Sprent J. I., James E. K. ( 2007a ). Nodulation of Cyclopia spp. (Leguminosae, Papilionoideae) by Burkholderia tuberum . . Ann Bot (Lond) 100, 14031411. [View Article] [PubMed]
    [Google Scholar]
  11. Elliott G. N., Chen W. M., Chou J. H., Wang H. C., Sheu S. Y., Perin L., Reis V. M., Moulin L., Simon M. F. & other authors ( 2007b ). Burkholderia phymatum is a highly effective nitrogen-fixing symbiont of Mimosa spp. and fixes nitrogen ex planta . . New Phytol 173, 168180. [View Article] [PubMed]
    [Google Scholar]
  12. 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, 224229. [View Article]
    [Google Scholar]
  13. Garau G., Yates R. J., Deiana P., Howieson J. G. ( 2009 ). Novel strains of nodulating Burkholderia have a role in nitrogen fixation with papilionoid herbaceous legumes adapted to acid, infertile soils. . Soil Biol Biochem 41, 125134. [View Article]
    [Google Scholar]
  14. Garrity G. M., Bell J. A., Liburn T. ( 2005 ). Family I. Burkholderiaceae . . In Bergey’s Manual of Systematic Bacteriology, , 2nd edn., vol. 2C, p. 575. Edited by Brenner D. J., Krieg N. R., Staley J. T. . New York:: Springer;. [View Article]
    [Google Scholar]
  15. Gevers D., Huys G., Swings J. ( 2001 ). Applicability of rep-PCR fingerprinting for identification of Lactobacillus species. . FEMS Microbiol Lett 205, 3136. [View Article] [PubMed]
    [Google Scholar]
  16. Gillis M., Van Van T., Bardin R., Goor M., Hebbar P., Willems A., Segers P., Kersters K., Heulin T., Fernandez M. P. ( 1995 ). Polyphasic taxonomy in the genus Burkholderia leading to an emended description of the genus and proposition of Burkholderia vietnamiensis sp. nov. for N2-fixing isolates from rice in Vietnam. . Int J Syst Bacteriol 45, 274289. [View Article]
    [Google Scholar]
  17. Goris J., Suzuki K., De Vos P., Nakase T., Kersters K. ( 1998 ). Evaluation of a microplate DNA-DNA hybridization method compared with the initial renaturation method. . Can J Microbiol 44, 11481153. [View Article]
    [Google Scholar]
  18. Gyaneshwar P., Hirsch A. M., Moulin L., Chen W. M., Elliott G. N., Bontemps C., Estrada-de Los Santos P., Gross E., Dos Reis F. B. Jr & other authors ( 2011 ). Legume-nodulating betaproteobacteria: diversity, host range, and future prospects. . Mol Plant Microbe Interact 24, 12761288. [View Article] [PubMed]
    [Google Scholar]
  19. Howieson J. G., De Meyer S. E., Vivas-Marfisi A., Ratnayake S., Ardley J. K., Yates R. J. ( 2013 ). Novel Burkholderia bacteria isolated from Lebeckia ambigua – a perennial suffrutescent legume of the fynbos. . Soil Biol Biochem 60, 5564. [View Article]
    [Google Scholar]
  20. Kim O.-S., Cho Y.-J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H. & other authors ( 2012 ). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. . Int J Syst Evol Microbiol 62, 716721. [View Article] [PubMed]
    [Google Scholar]
  21. le Roux M. M., Van Wyk B.-E. ( 2007 ). A revision of Lebeckia sect. Lebeckia: the L. sepiaria group. . S Afr J Bot 73, 118130. [View Article]
    [Google Scholar]
  22. Ludwig W., Strunk O., Westram R., Richter L., Meier H., Yadhukumar, Buchner A., Lai T., Steppi S. & other authors ( 2004 ). arb: a software environment for sequence data. . Nucleic Acids Res 32, 13631371. [View Article] [PubMed]
    [Google Scholar]
  23. Mesbah M., Premachandran U., Whitman W. B. ( 1989 ). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. . Int J Syst Bacteriol 39, 159167. [View Article]
    [Google Scholar]
  24. Pitcher D. G., Saunders N. A., Owen R. J. ( 1989 ). Rapid extraction of bacterial genomic DNA with guanidium thiocyanate. . Lett Appl Microbiol 8, 151156. [View Article]
    [Google Scholar]
  25. Pruesse E., Quast C., Knittel K., Fuchs B. M., Ludwig W., Peplies J., Glöckner F. O. ( 2007 ). silva: a comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with arb . . Nucleic Acids Res 35, 71887196. [View Article] [PubMed]
    [Google Scholar]
  26. Sheu S.-Y., Chou J.-H., Bontemps C., Elliott G. N., Gross E., James E. K., Sprent J. I., Young J. P. W., Chen W.-M. ( 2012 ). Burkholderia symbiotica sp. nov., isolated from root nodules of Mimosa spp. native to north-east Brazil. . Int J Syst Evol Microbiol 62, 22722278. [View Article] [PubMed]
    [Google Scholar]
  27. Sheu S.-Y., Chou J.-H., Bontemps C., Elliott G. N., Gross E., dos Reis F. B. Jr, Melkonian R., Moulin L., James E. K. & other authors ( 2013 ). Burkholderia diazotrophica sp. nov., isolated from root nodules of Mimosa spp.. Int J Syst Evol Microbiol 63, 435441. [View Article] [PubMed]
    [Google Scholar]
  28. Spilker T., Baldwin A., Bumford A., Dowson C. G., Mahenthiralingam E., LiPuma J. J. ( 2009 ). Expanded multilocus sequence typing for Burkholderia species. . J Clin Microbiol 47, 26072610. [View Article] [PubMed]
    [Google Scholar]
  29. Tamura K., Peterson D., Peterson N., Stecher G., Nei M., Kumar S. ( 2011 ). mega5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. . Mol Biol Evol 28, 27312739. [View Article] [PubMed]
    [Google Scholar]
  30. Valverde A., Delvasto P., Peix A., Velázquez E., Santa-Regina I., Ballester A., Rodríguez-Barrueco C., García-Balboa C., Igual J. M. ( 2006 ). Burkholderia ferrariae sp. nov., isolated from an iron ore in Brazil. . Int J Syst Evol Microbiol 56, 24212425. [View Article] [PubMed]
    [Google Scholar]
  31. Vancanneyt M., Mengaud J., Cleenwerck I., Vanhonacker K., Hoste B., Dawyndt P., Degivry M. C., Ringuet D., Janssens D., Swings J. ( 2004 ). Reclassification of Lactobacillus kefirgranum Takizawa et al. 1994 as Lactobacillus kefiranofaciens subsp. kefirgranum subsp. nov. and emended description of L. kefiranofaciens Fujisawa et al. 1988. . Int J Syst Evol Microbiol 54, 551556. [View Article] [PubMed]
    [Google Scholar]
  32. Vandamme P., Goris J., Chen W. M., De Vos P., Willems A. ( 2002 ). Burkholderia tuberum sp. nov. and Burkholderia phymatum sp. nov., nodulate the roots of tropical legumes. . Syst Appl Microbiol 25, 507512. [View Article] [PubMed]
    [Google Scholar]
  33. Vincent J. M. ( 1970 ). A Manual for the Practical Study of the Root-Nodule Bacteria. Oxford:: Blackwell Scientific;.
    [Google Scholar]
  34. Wieme A., Cleenwerck I., Van Landschoot A., Vandamme P. ( 2012 ). Pediococcus lolii DSM 19927T and JCM 15055T are strains of Pediococcus acidilactici . . Int J Syst Evol Microbiol 62, 31053108. [View Article] [PubMed]
    [Google Scholar]
  35. 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, 12511275. [View Article] [PubMed]
    [Google Scholar]
  36. Yates R. J., Howieson J. G., Reeve W. G., Nandasena K. G., Law I. J., Bräu L., Ardley J. K., Nistelberger H. M., Real D., O’Hara G. W. ( 2007 ). Lotononis angolensis forms nitrogen fixing, lupinoid nodules with phylogenetically unique, fast-growing, pink-pigmented bacteria, which do not nodulate L. bainesii or L. listii . . Soil Biol Biochem 39, 16801688. [View Article]
    [Google Scholar]
/content/journal/ijsem/10.1099/ijs.0.058602-0
Loading
/content/journal/ijsem/10.1099/ijs.0.058602-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF
This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error