1887

Abstract

A group of rhizobial strains isolated from nodules of multiple legume species grown in different geographical regions of China had identical 16S rRNA genes. Phylogenetic analysis based on the 16S rRNA gene sequences showed that the novel strains formed a subclade in the genus together with , and , with 99.8 % gene sequence similarity between the strains. The DNA–DNA relatedness values between the representative strain CCBAU 05176 and ATCC 43677, S02 and CCBAU 01393 were 22.6 %, 8.9 % and 15.9 %, respectively. The novel strains were distinguished from recognized species of the genus by using a polyphasic approach, including PCR-based restriction fragment length polymorphism analysis (RFLP) of the 16S–23S intergenic spacer (IGS), phenotypic and physiological tests, sequence comparisons of housekeeping genes and cellular fatty acid profiles. Therefore, it is suggested that this group of strains represents a novel species for which the name sp. nov. is proposed. The type strain is CCBAU 05176 (=HAMBI 3039=LMG 25447).

Keyword(s): NJ, neighbour joining
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2011-03-01
2024-04-18
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References

  1. de Lajudie P., Willems A., Nick G., Moreira F., Molouba F., Hoste B., Torck U., Neyra M., Collins M. D. other authors 1998; Characterization of tropical tree rhizobia and descripftion of Mesorhizobium plurifarium sp. nov. Int J Syst Bacteriol 48:369–382 [CrossRef]
    [Google Scholar]
  2. De Ley J., Cattoir H., Reynaerts A. 1970; The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142 [CrossRef]
    [Google Scholar]
  3. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [CrossRef]
    [Google Scholar]
  4. Frank B. 1889; Über die Pilzsysymbiose der Leguminosen. Ber Dtsch Bot Ges 7:332–346
    [Google Scholar]
  5. Gao J. L., Sun J. G., Li Y., Wang E. T., Chen W. X. 1994; Numerical taxonomy and DNA relatedness of tropical rhizobia isolated from Hainan province, China. Int J Syst Bacteriol 44:151–158 [CrossRef]
    [Google Scholar]
  6. García-Fraile P., Rivas R., Willems A., Peix A., Martens M., Martínez-Molina E., Mateos P. F., Velázquez E. 2007; Rhizobium cellulosilyticum sp. nov., isolated from sawdust of Populus alba . Int J Syst Evol Microbiol 57:844–848 [CrossRef]
    [Google Scholar]
  7. Gaunt M. W., Turner S. L., Rigottier-Gois L., Lloyd-Macgilp S. A., Young J. P. W. 2001; Phylogenies of atpD and recA support the small subunit rRNA-based classification of rhizobia. Int J Syst Evol Microbiol 51:2037–2048 [CrossRef]
    [Google Scholar]
  8. Graham P. H., Sadowsky M. J., Keyser H. H., Barnet Y. M., Bradley R. S., Cooper J. E., De Ley D. J., Jarvis B. D. W., Roslycky E. B. other authors 1991; Proposed minimal standards for the description of new genera and species of root- and stem-nodulating bacteria. Int J Syst Bacteriol 41:582–587 [CrossRef]
    [Google Scholar]
  9. Gu J., Wang E. T., Chen W. X. 2007; Genetic diversity of rhizobia associated with Desmodium species grown in China. Lett Appl Microbiol 44:286–292 [CrossRef]
    [Google Scholar]
  10. Hou B. C., Wang E. T., Li Y. Jr, Jia R. Z., Chen W. F., Gao Y., Dong R. J., Chen W. X. 2009; Rhizobium tibeticum sp. nov., a symbiotic bacterium isolated from Trigonella archiducis-nicolai (Sirj.) Vassilcz. Int J Syst Evol Microbiol 59:3051–3057 [CrossRef]
    [Google Scholar]
  11. Jordan D. C. 1984; Family III. Rhizobiaceae Conn; (1938; 321AL . In Bergey's Manual of Systematic Bacteriology vol 1 pp 234–254 Edited by Krieg N. R., Holt J. G. Baltimore: The Williams & Wilkins Co;
    [Google Scholar]
  12. Jukes T. H., Cantor C. R. 1969; Evolution of protein molecules. In Mammalian protein metabolism III pp 21–32 Edited by Munro H. N. New York: Academic Press;
    [Google Scholar]
  13. Kimura M. 1983 The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press;
    [Google Scholar]
  14. Kwon S. W., Park J.-Y., Kim J.-S., Kang J. W., Cho Y. H., Lim C. K., Parker M. A., Lee G. B. 2005; Phylogenetic analysis of the genera Bradyrhizobium , Mesorhizobium , Rhizobium and Sinorhizobium on the basis of 16S rRNA gene and internally transcribed spacer region sequences. Int J Syst Evol Microbiol 55:263–270 [CrossRef]
    [Google Scholar]
  15. Lin D. X., Chen W. F., Wang F. Q., Hu D., Wang E. T., Sui X. H., Chen W. X. 2009; Rhizobium mesosinicum sp. nov., isolated from root nodules of three different legumes. Int J Syst Evol Microbiol 59:1919–1923 [CrossRef]
    [Google Scholar]
  16. Lindström K. 1989; Rhizobium galegae , a new species of legume root nodule bacteria. Int J Syst Bacteriol 39:365–367 [CrossRef]
    [Google Scholar]
  17. Lu Y. L., Chen W. F., Han L. L., Wang E. T., Chen W. X. 2009; Rhizobium alkalisoli sp. nov., isolated from Caragana intermedia growing in saline-alkaline soils in the north of China. Int J Syst Evol Microbiol 59:3006–3011 [CrossRef]
    [Google Scholar]
  18. Marmur J. 1961; A procedure for isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3:208–218 [CrossRef]
    [Google Scholar]
  19. Marmur J., Doty P. 1962; Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5:109–118 [CrossRef]
    [Google Scholar]
  20. Martens M., Dawyndt P., Coopman R., Gillis M., De Vos P., Willems A. 2008; Advantages of multilocus sequence analysis for taxonomic studies: a case study using 10 housekeeping genes in the genus Ensifer (including former Sinorhizobium ). Int J Syst Evol Microbiol 58:200–214 [CrossRef]
    [Google Scholar]
  21. Peng G. X., Tan Z. Y., Wang E. T., Reinhold-Hurek B., Chen W. F., Chen W. X. 2002; Identification of isolates from soybean nodules in Xinjiang Region as Sinorhizobium xinjiangense and genetic differentiation of S . xinjiangense from Sinorhizobium fredii . Int J Syst Evol Microbiol 52:457–462
    [Google Scholar]
  22. Quan Z. X., Bae H. S., Baek J. H., Chen W. F., Im W. T., Lee S. T. 2005; Rhizobium daejeonense sp. nov. isolated from a cyanide treatment bioreactor. Int J Syst Evol Microbiol 55:2543–2549 [CrossRef]
    [Google Scholar]
  23. Rasolomampianina R., Bailly X., Fetiarison R., Rabevohitra R., Béna G., Ramaroson L., Raherimandimby M., Moulin L., De Lajudie P. other authors 2005; Nitrogen-fixing nodules from rose wood legume trees ( Dalbergia spp.) endemic to Madagascar host seven different genera belonging to alpha- and beta-Proteobacteria. Mol Ecol 14:4135–4146 [CrossRef]
    [Google Scholar]
  24. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
    [Google Scholar]
  25. 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 [CrossRef]
    [Google Scholar]
  26. Tan Z. Y., Xu X. D., Wang E. T., Gao J. L., Martinez-Romero E., Chen W. X. 1997; Phylogenetic and genetic relationships of Mesorhizobium tianshanense and related rhizobia. Int J Syst Bacteriol 47:874–879 [CrossRef]
    [Google Scholar]
  27. Terefework Z., Kaijalainen S., Lindström K. 2001; AFLP fingerprinting as a tool to study the genetic diversity of Rhizobium galegae isolated from Galega orientalis and Galega officinalis . J Biotechnol 91:169–180 [CrossRef]
    [Google Scholar]
  28. Tighe S. W., de Lajudie P., Dipietro K., Lindström K., Nick G., Jarvis B. D. W. 2000; Analysis of cellular fatty acids and phenotypic relationships of Agrobacterium , Bradyrhizobium , Mesorhizobium , Rhizobium and Sinorhizobium species using the Sherlock Microbial Identification System. Int J Syst Evol Microbiol 50:787–801 [CrossRef]
    [Google Scholar]
  29. Turner S. L., Young J. P. W. 2000; The glutamine synthetases of rhizobia: phylogenetics and evolutionary implications. Mol Biol Evol 17:309–319 [CrossRef]
    [Google Scholar]
  30. van Berkum P., Elia P., Eardly B. D. 2006; Multilocus sequence typing as an approach for population analysis of Medicago -nodulating rhizobia. J Bacteriol 188:5570–5577 [CrossRef]
    [Google Scholar]
  31. Vandamme P., Vancanneyt M., van Belkum A., Segers P., Quint W. G., Kersters K., Paster B. J., Dewhirst F. E. 1996; Polyphasic analysis of strains of the genus Capnocytophaga and Centers for Disease Control group DF-3. Int J Syst Bacteriol 46:782–791 [CrossRef]
    [Google Scholar]
  32. Vincent J. M. 1970 A Manual for the Practical Study of Root-Nodule Bacteria Oxford, UK: Blackwell Scientific Publications;
    [Google Scholar]
  33. Wang E. T., van Berkum P., Beyene D., Sui X. H., Dorado O., Chen W. X., Martínez-Romero E. 1998 Rhizobium huautlense sp. nov., a symbiont of Sesbania herbacea that has a close phylogenetic relationship with Rhizobium galegae. Int J Syst Bacteriol 48, 687–699. [CrossRef]
  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; Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464 [CrossRef]
    [Google Scholar]
  35. Yan A. M., Wang E. T., Kan F. L., Tan Z. Y., Sui X. H., Reinhold-Hurek B., Chen W. X. 2000; Sinorhizobium meliloti associated with Medicago sativa and Melilotus spp. in arid saline soils in Xinjiang, China. Int J Syst Evol Microbiol 50:1887–1891
    [Google Scholar]
  36. Zhang Y. F., Wang F. Q., Chen W. X. 2006; Numerical taxonomy and 16S rDNA PCR-rFLP analysis of rhizobial strains isolated from root nodules of cowpea and mung bean grown in different regions of China. Wei Sheng Wu Xue Bao 46:861–868 (in Chinese
    [Google Scholar]
  37. Zhao C. T., Wang E. T., Chen W. F., Chen W. X. 2008; Diverse genomic species and evidences of symbiotic gene lateral transfer detected among the rhizobia associated with Astragalus species grown in the temperate regions of China. FEMS Microbiol Lett 286:263–273 [CrossRef]
    [Google Scholar]
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