1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 73, Issue 10

sp. nov., a plant hormone producing bacterium isolated from Arctic grass, Ellesmere Island, Canada No Access

Abstract

Bacterial strain G20-18 was previously isolated from the rhizosphere of an Arctic grass on Ellesmere Island, Canada and was characterized and described as . However, new polyphasic analyses coupled with phenotypic, phylogenetic and genomic analyses reported here demonstrate that the affiliation to the species was incorrect. The strain is Gram-stain-negative, rod-shaped, aerobic and displays growth at 5–25 °C (optimum, 20–25 °C), at pH 5–9 (optimum, pH 6–7) and with 0–4 % NaCl (optimum, 2 % NaCl). The major fatty acids are C (35.6 %), C cyclo 7 (26.3 %) and summed feature C/C ω7 (13.6 %). The respiratory quinones were determined to be Q9 (93.5 %) and Q8 (6.5 %) and the major polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. Strain G20-18 was shown to synthesize cytokinin and auxin plant hormones and to produce 1-aminocyclopropane-1-carboxylate deaminase. The DNA G+C content was determined to be 59.1 mol%. Phylogenetic analysis based on the 16S rRNA gene and multilocus sequence analysis (concatenated 16S rRNA, , and sequences) showed that G20-18 was affiliated with the subgroup within the genus . Comparisons of the G20-18 genome sequence and related type strain sequences showed an average nucleotide identity value of ≤93.6 % and a digital DNA–DNA hybridization value of less than 54.4 % relatedness. The phenotypic, phylogenetic and genomic data support the hypothesis that strain G20-18 represents a novel species of the genus . As strain G20-18 produces or modifies hormones, the name sp. nov. is proposed. The type strain is G20-18 (=LMG 33086=NCIMB 15469).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): ACC deaminase , auxin , cytokinin , IAA , phylogenomics , plant hormones and Pseudomonas mandelii subgroup
Funding
This study was supported by the:
  • Novo Nordisk Fonden (Award NNF19SA0059360)
    • Principle Award Recipient: PeterStougaard
© 2023 The Authors
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.006119
2023-10-27
2024-05-08
Loading full text...

Full text loading...

References

  1. Kloepper JW, Scher FM, Laliberte M, Tipping B. Emergence-promoting rhizobacteria: description and implications for agricuture. In Swinburne TR. eds Iron, Siderophores, and Plant Diseases New York: Plenum Press; 1986 pp 155–164
     [Google Scholar]
  2. García de Salamone IE, Hynes RK, Nelson LM. Cytokinin production by plant growth promoting rhizobacteria and selected mutants. Can J Microbiol 2001; 47:404–411 [View Article] [PubMed]
     [Google Scholar]
  3. Pallai R, Hynes RK, Verma B, Nelson LM. Phytohormone production and colonization of canola (Brassica napus L.) roots by Pseudomonas fluorescens 6-8 under gnotobiotic conditions. Can J Microbiol 2012; 58:170–178 [View Article] [PubMed]
     [Google Scholar]
  4. Mekureyaw MF, Pandey C, Hennessy RC, Nicolaisen MH, Liu F et al. The cytokinin-producing plant beneficial bacterium Pseudomonas fluorescens G20-18 primes tomato (Solanum lycopersicum) for enhanced drought stress responses. J Plant Physiol 2022; 270:153629 [View Article] [PubMed]
     [Google Scholar]
  5. Großkinsky DK, Tafner R, Moreno MV, Stenglein SA, García de Salamone IE et al. Cytokinin production by Pseudomonas fluorescens G20-18 determines biocontrol activity against Pseudomonas syringae in Arabidopsis. Sci Rep 2016; 6:23310 [View Article] [PubMed]
     [Google Scholar]
  6. Ahmad HM, Fiaz S, Hafeez S, Zahra S, Shah AN et al. Plant growth-promoting rhizobacteria eliminate the effect of drought stress in plants: a review. Front Plant Sci 2022; 13:875774 [View Article]
     [Google Scholar]
  7. Chandra D, Srivastava R, Glick BR, Sharma AK. Rhizobacteria producing ACC deaminase mitigate water-stress response in finger millet (Eleusine coracana (L.) Gaertn.). 3 Biotech 2020; 10:65 [View Article] [PubMed]
     [Google Scholar]
  8. Gamalero E, Glick BR. Recent advances in bacterial amelioration of plant drought and salt stress. Biology 2022; 11:437 [View Article] [PubMed]
     [Google Scholar]
  9. Saleem M, Arshad M, Hussain S, Bhatti AS. Perspective of plant growth promoting rhizobacteria (PGPR) containing ACC deaminase in stress agriculture. J Ind Microbiol Biotechnol 2007; 34:635–648 [View Article] [PubMed]
     [Google Scholar]
  10. Verhille S, Baida N, Dabboussi F, Izard D, Leclerc H. Taxonomic study of bacteria isolated from natural mineral waters: proposal of Pseudomonas jessenii sp. nov. and Pseudomonas mandelii sp. nov. Syst Appl Microbiol 1999; 22:45–58 [View Article] [PubMed]
     [Google Scholar]
  11. Verhille S, Baïda N, Dabboussi F, Hamze M, Izard D et al. Pseudomonas gessardii sp. nov. and Pseudomonas migulae sp. nov., two new species isolated from natural mineral waters. Int J Syst Bacteriol 1999; 49 Pt 4:1559–1572 [View Article] [PubMed]
     [Google Scholar]
  12. Nielsen TK, Mekureyaw MF, Hansen LH, Nicolaisen MH, Roitsch TG et al. Complete genome sequence of the cytokinin-producing biocontrol strain Pseudomonas fluorescens G20-18. Microbiol Resour Announc 2021; 10:e0060121 [View Article] [PubMed]
     [Google Scholar]
  13. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: Molecular Evolutionary Genetics Analysis across computing platforms. Mol Biol Evol 2018; 35:1547–1549 [View Article] [PubMed]
     [Google Scholar]
  14. Mulet M, Lalucat J, García-Valdés E. DNA sequence-based analysis of the Pseudomonas species. Environ Microbiol 2010; 12:1513–1530 [View Article] [PubMed]
     [Google Scholar]
  15. Duman M, Mulet M, Altun S, Saticioglu IB, Gomila M et al. Pseudomonas piscium sp. nov., Pseudomonas pisciculturae sp. nov., Pseudomonas mucoides sp. nov. and Pseudomonas neuropathica sp. nov. isolated from rainbow trout. Int J Syst Evol Microbiol 2019; 71: [View Article]
     [Google Scholar]
  16. Girard L, Lood C, Höfte M, Vandamme P, Rokni-Zadeh H et al. The ever-expanding Pseudomonas genus: description of 43 new species and partition of the Pseudomonas putida group. Microorganisms 2021; 9:1766 [View Article] [PubMed]
     [Google Scholar]
  17. Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW. CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 2015; 25:1043–1055 [View Article] [PubMed]
     [Google Scholar]
  18. Meier-Kolthoff JP, Carbasse JS, Peinado-Olarte RL, Göker M. TYGS and LPSN: a database tandem for fast and reliable genome-based classification and nomenclature of prokaryotes. Nucleic Acids Res 2022; 50:D801–D807 [View Article] [PubMed]
     [Google Scholar]
  19. Yoon S-H, Ha S-M, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article] [PubMed]
     [Google Scholar]
  20. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461–466 [View Article] [PubMed]
     [Google Scholar]
  21. Olm MR, Brown CT, Brooks B, Banfield JF. dRep: a tool for fast and accurate genomic comparisons that enables improved genome recovery from metagenomes through de-replication. ISME J 2017; 11:2864–2868 [View Article] [PubMed]
     [Google Scholar]
  22. Ondov BD, Treangen TJ, Melsted P, Mallonee AB, Bergman NH et al. Mash: fast genome and metagenome distance estimation using MinHash. Genome Biol 2016; 17:132 [View Article] [PubMed]
     [Google Scholar]
  23. Varghese NJ, Mukherjee S, Ivanova N, Konstantinidis KT, Mavrommatis K et al. Microbial species delineation using whole genome sequences. Nucleic Acids Res 2015; 43:6761–6771 [View Article] [PubMed]
     [Google Scholar]
  24. Katoh K, Standley DM. MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 2013; 30:772–780 [View Article] [PubMed]
     [Google Scholar]
  25. Stamatakis A. RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics 2014; 30:1312–1313 [View Article] [PubMed]
     [Google Scholar]
  26. Miller LT. Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids. J Clin Microbiol 1982; 16:584–586 [View Article] [PubMed]
     [Google Scholar]
  27. Kuykendall LD, Roy MA, O’neill JJ, Devine TE. Fatty acids, antibiotic resistance, and deoxyribonucleic acid homology groups of Bradyrhizobium japonicum. Int J Syst Bacteriol 1988; 38:358–361 [View Article]
     [Google Scholar]
  28. Tindall BJ, Sikorski J, Smibert RM, Kreig NR et al. Phenotypic characterization and the principles of comparative systematics. In Reddy CA, Beveridge TJ, Breznak JA, Marzluf G, Schmidt TM. eds Methods for General and Molecular Microbiology Wiley; 2007 pp 330–393 [View Article]
     [Google Scholar]
  29. Tindall BJ. A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 1990; 13:128–130 [View Article]
     [Google Scholar]
  30. Kim CM, Jeong JW, Lee DH, Kim SB. Pseudomonas guryensis sp. nov. and Pseudomonas ullengensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2021; 71: [View Article]
     [Google Scholar]
  31. Honma M, Shimomura T. Metabolism of 1-aminocyclopropane-1-carboxylic acid. Agric Biol Chemist 1978; 42:1825–1831 [View Article]
     [Google Scholar]
  32. Suslow TV. Application of a rapid method for Gram differentiation of plant pathogenic and saprophytic bacteria without staining. Phytopathology 1982; 72:917 [View Article]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.006119
Loading
Pseudomonas hormoni sp. nov., a plant hormone producing bacterium isolated from Arctic grass, Ellesmere Island, Canada
Int J Syst Evol Microbiol 73, 006119 (2023); https://doi.org/10.1099/ijsem.0.006119
/content/journal/ijsem/10.1099/ijsem.0.006119
/content/journal/ijsem/10.1099/ijsem.0.006119
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited Most Cited RSS feed

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