1887

Abstract

A Gram-strain-negative, rod-shaped, motile bacterium, designated MIM27, was isolated from the sand of the Mu Us Desert, PR China. The strain could grow at 4–45 °C (optimum, 37 °C), at pH 6.6–9.0 (optimum, 8.0) and in the presence of 0–3 % (w/v) NaCl (optimum, 0 % in RNA liquid medium). The results of phylogenetic analysis of 16S rRNA gene sequences indicated that the strain represented a member of the genus , with the highest similarity (96.5 %) to BN-19. The results of analysis of the sequences of the nitrogen fixation gene and three housekeeping genes, , and , also indicated that MIM27 was most closely related to the species of the genus with validly published names but the similarities were low (≤90.7 %). MIM27 did not form nodules on , , and . The major respiratory quinone of MIM27 was Q-10. The genomic DNA G+C content was 59.8 mol%. Major fatty acids of MIM27 were summed feature 8 (Cω7 and/or Cω6), Cω7 11-methyl, C, summed feature 3 (Cω7 and/or Cω6) and summed feature 2 (C aldehyde and/or unknown ECL 10.9525). On the basis of the physiological, chemotaxonomic and phenotypic data, MIM27 is suggested to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is MIM27 (=KCTC 52299=MCCC 1K03215).

Keyword(s): nifH , nodulation , rhizobium and sand soil
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2017-07-01
2024-03-29
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References

  1. Lee KB, Liu CT, Anzai Y, Kim H, Aono T et al. The hierarchical system of the 'Alphaproteobacteria': description of Hyphomonadaceae fam. nov., Xanthobacteraceae fam. nov. and Erythrobacteraceae fam. nov. Int J Syst Evol Microbiol 2005; 55:1907–1919 [View Article][PubMed]
    [Google Scholar]
  2. Frank B. U ber die pilzsymbiose der leguminosen. Ber Dtsch Bot Ges 1889; 7:332–346
    [Google Scholar]
  3. Sheu SY, Huang HW, Young CC, Chen WM. Rhizobium alvei sp. nov., isolated from a freshwater river. Int J Syst Evol Microbiol 2015; 65:472–478 [View Article][PubMed]
    [Google Scholar]
  4. Boonsnongcheep P, Prathanturarug S, Takahashi Y, Matsumoto A. Rhizobium puerariae sp. nov., an endophytic bacterium from the root nodules of the medicinal plant Pueraria candollei var. candollei . Int J Syst Evol Microbiol 2016; 66:1236–1241 [View Article]
    [Google Scholar]
  5. Chen W, Sheng XF, He LY, Huang Z. Rhizobium yantingense sp. nov., a mineral-weathering bacterium. Int J Syst Evol Microbiol 2015; 65:412–417 [View Article][PubMed]
    [Google Scholar]
  6. Parag B, Sasikala C, Ramana C. Molecular and culture dependent characterization of endolithic bacteria in two beach sand samples and description of Rhizobium endolithicum sp. nov. Antonie van Leeuwenhoek 2013; 104:1235–1244 [View Article][PubMed]
    [Google Scholar]
  7. Grison CM, Jackson S, Merlot S, Dobson A, Grison C. Rhizobium metallidurans sp. nov., a symbiotic heavy metal resistant bacterium isolated from the Anthyllis vulneraria Zn-hyperaccumulator. Int J Syst Evol Microbiol 2015; 65:1525–1530 [View Article][PubMed]
    [Google Scholar]
  8. dall'agnol RF, Ribeiro RA, Delamuta JRM, Ormeno-Orrillo E, Rogel MA et al. Rhizobium paranaense sp. nov., an effective N2-fixing symbiont of common bean (Phaseolus vulgaris L.) with broad geographical distribution in Brazil. Int J Syst Evol Microbiol 2014; 64:3222–3229 [View Article][PubMed]
    [Google Scholar]
  9. Rozahon M, Ismayil N, Hamood B, Erkin R, Abdurahman M et al. Rhizobium populi sp. nov., an endophytic bacterium isolated from Populus euphratica . Int J Syst Evol Microbiol 2014; 64:3215–3221 [View Article][PubMed]
    [Google Scholar]
  10. Jiao YS, Yan H, Ji ZJ, Liu YH, Sui XH et al. Rhizobium sophorae sp. nov. and Rhizobium sophoriradicis sp. nov., nitrogen-fixing rhizobial symbionts of the medicinal legume Sophora flavescens . Int J Syst Evol Microbiol 2015; 65:497–503 [View Article][PubMed]
    [Google Scholar]
  11. Lin SY, Hsu YH, Liu YC, Hung MH, Hameed A et al. Rhizobium straminoryzae sp. nov., isolated from the surface of rice straw. Int J Syst Evol Microbiol 2014; 64:2962–2968 [View Article][PubMed]
    [Google Scholar]
  12. Mnasri B, Liu TY, Saidi S, Chen WF, Chen WX et al. Rhizobium azibense sp. nov., a nitrogen fixing bacterium isolated from root-nodules of Phaseolus vulgaris . Int J Syst Evol Microbiol 2014; 64:1501–1506 [View Article][PubMed]
    [Google Scholar]
  13. Lin SY, Hung MH, Hameed A, Liu YC, Hsu YH et al. Rhizobium capsici sp. nov., isolated from root tumor of a green bell pepper (Capsicum annuum var. grossum) plant. Antonie van Leeuwenhoek 2015; 107:773–784 [View Article][PubMed]
    [Google Scholar]
  14. Gu T, Sun LN, Zhang J, Sui XH, Li SP. Rhizobium flavum sp. nov., a triazophos-degrading bacterium isolated from soil under the long-term application of triazophos. Int J Syst Evol Microbiol 2014; 64:2017–2022 [View Article][PubMed]
    [Google Scholar]
  15. Reasoner DJ, Geldreich EE. A new medium for the enumeration and subculture of bacteria from potable water. Appl Environ Microbiol 1985; 49:1–7[PubMed]
    [Google Scholar]
  16. Khalid R, Zhang YJ, Ali S, Sui XH, Zhang XX et al. Rhizobium pakistanensis sp. nov., isolated from groundnut (Arachis hypogaea) nodules grown in rainfed Pothwar, Pakistan. Antonie van Leeuwenhoek 2015; 107:281–290 [View Article][PubMed]
    [Google Scholar]
  17. du HL, Jiao NZ, Hu YH, Zeng YH. Diversity and distribution of pigmented heterotrophic bacteria in marine environments. FEMS Microbiol Ecol 2006; 57:92–105 [View Article][PubMed]
    [Google Scholar]
  18. Chun J, Lee JH, Jung Y, Kim M, Kim S et al. EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 2007; 57:2259–2261 [View Article][PubMed]
    [Google Scholar]
  19. du Y, Yuan B, Zeng YH, Meng JY, Li H et al. Draft genome sequence of the cellulolytic bacterium Clavibacter sp. CF11, a strain producing cold-active cellulase. Genome Announc 2015; 3:e01304e01314 [View Article][PubMed]
    [Google Scholar]
  20. Poly F, Monrozier LJ, Bally R. Improvement in the RFLP procedure for studying the diversity of nifH genes in communities of nitrogen fixers in soil. Res Microbiol 2001; 152:95–103 [View Article][PubMed]
    [Google Scholar]
  21. Sarita S, Sharma PK, Priefer UB, Prell J. Direct amplification of rhizobial nodC sequences from soil total DNA and comparison to nodC diversity of root nodule isolates. FEMS Microbiol Ecol 2005; 54:1–11 [View Article][PubMed]
    [Google Scholar]
  22. Kimura M. The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press; 1983 [CrossRef]
    [Google Scholar]
  23. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
    [Google Scholar]
  24. Nei M, Kumar S. Molecular Evolution and Phylogenetics New York: Oxford University Press; 2000
    [Google Scholar]
  25. Rzhetsky A, Nei M. A simple method for estimating and testing minimum evolution trees. Mol Biol Evol 1992; 9:945–967
    [Google Scholar]
  26. Rogers JS, Swofford DL. A fast method for approximating maximum likelihoods of phylogenetic trees from nucleotide sequences. Syst Biol 1998; 47:77–89[PubMed] [CrossRef]
    [Google Scholar]
  27. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article]
    [Google Scholar]
  28. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA 5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28:2731–2739 [View Article][PubMed]
    [Google Scholar]
  29. Zhang XX, Li BM, Wang HS, Sui XH, Ma XT et al. Rhizobium petrolearium sp. nov., isolated from oil-contaminated soil. Int J Syst Evol Microbiol 2012; 62:1871–1876 [View Article][PubMed]
    [Google Scholar]
  30. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. and (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp. 607–654
    [Google Scholar]
  31. Dong X, Cai M. Determinative Manual for Routine Bacteriology Beijing: Scientific Press (English translation); 2001
    [Google Scholar]
  32. Bauer AW, Kirby WM, Sherris JC, Turck M. Antibiotic susceptibility testing by a standardized single disk method. Am J Clin Pathol 1966; 45:493–496[PubMed]
    [Google Scholar]
  33. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977; 100:221–230 [View Article][PubMed]
    [Google Scholar]
  34. Tamaoka J, Katayama-Fujimura Y, Kuraishi H. Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 1983; 54:31–36 [View Article]
    [Google Scholar]
  35. Ramana CV, Parag B, Girija KR, Ram BR, Ramana VV et al. Rhizobium subbaraonis sp. nov., an endolithic bacterium isolated from beach sand. Int J Syst Evol Microbiol 2013; 63:581–585 [View Article][PubMed]
    [Google Scholar]
  36. Turdahon M, Osman G, Hamdun M, Yusuf K, Abdurehim Z et al. Rhizobium tarimense sp. nov., isolated from soil in the ancient Khiyik River. Int J Syst Evol Microbiol 2013; 63:2424–2429 [View Article][PubMed]
    [Google Scholar]
  37. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
    [Google Scholar]
  38. Jordan DC. Genus I. Rhizobium Frank 1889, 338AL. In Krieg NR, Holt JG. (editors) Bergey’s Manual of Systematic Bacteriology vol. 1 Baltimore: Williams & Wilkins; 1984 pp. 235–242
    [Google Scholar]
  39. Zhang XX, Gao JS, Cao YH, Sheirdil RA, Wang XC et al. Rhizobium oryzicola sp. nov., potential plant-growth-promoting endophytic bacteria isolated from rice roots. Int J Syst Evol Microbiol 2015; 65:2931–2936 [View Article][PubMed]
    [Google Scholar]
  40. Quan ZX, Bae HS, Baek JH, Chen WF, Im WT et al. Rhizobium daejeonense sp. nov. isolated from a cyanide treatment bioreactor. Int J Syst Evol Microbiol 2005; 55:2543–2549 [View Article][PubMed]
    [Google Scholar]
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