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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo International Journal of Systematic and Evolutionary Microbiology

Volume 74, Issue 12

sp. nov., and sp. nov., isolated from watermelon in Florida Open Access

Abstract

Three fluorescent bacterial strains, K1, K13 and K18, were obtained from watermelon () foliage symptomatic of bacterial leaf spot of cucurbits in Florida. The strains underwent phenotypic characterization, including LOPAT (levan production, oxidase activity, pectolytic activity on potato, arginine dihydrolase production and hypersensitive response (HR) on both tobacco and tomato) and pathogenicity testing on watermelon and squash seedlings. Whole-genome sequencing of the isolates was performed, and multi-locus sequence analysis (MLSA) utilizing housekeeping genes , , and placed the isolates into two distinct clades within the genus. Average nucleotide identity based on (ANIb) was used to compare the isolates to reference genomes. Using ANIb, the closest relatives to the novel strains were identified as (K1 : 82.58%; K13 : 83.77%) and (K18 : 87.16%), although ANIb values were below the 95% threshold for species delineation. DNA–DNA hybridization (genome–genome distance calculation method), comparison to the online Type Genome Server, Biolog biochemical profiling and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry were also unable to identify the isolates as any known species of . Based on the combination of genetic and phenotypic data, we conclude that these isolates represent two novel species, for which we propose the names sp. nov. (K1, K13, NCPPB 4759=LMG 33364) and sp. nov. (K18, NCPPB 4761=LMG 33365). The specific epithet was chosen for the geographic location of isolation (northern Florida), while designates the host of origin ().

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): bacteria , cucurbits , plant pathology , Pseudomonas and watermelon
Funding
This study was supported by the:
  • National Institute of Food and Agriculture (Award 2019-51181-30019)
    • Principal Award Recipient: ApplicableNot
© 2024 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution License. This article was made open access via a Publish and Read agreement between the Microbiology Society and the corresponding author’s institution.
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2024-12-03
2026-01-22

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References

  1. Lalucat J, Mulet M, Gomila M, García-Valdés E. Genomics in bacterial taxonomy: impact on the genus Pseudomonas. Genes 2020; 11:139 [View Article] [PubMed]
     [Google Scholar]
  2. Parte AC, Sardà Carbasse J, Meier-Kolthoff JP, Reimer LC, Göker M. List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. Int J Syst Evol Microbiol 2020; 70:5607–5612 [View Article] [PubMed]
     [Google Scholar]
  3. Morris CE, Sands DC, Vinatzer BA, Glaux C, Guilbaud C et al. The life history of the plant pathogen Pseudomonas syringae is linked to the water cycle. ISME J 2008; 2:321–334 [View Article] [PubMed]
     [Google Scholar]
  4. Spiers AJ, Buckling A, Rainey PB. The causes of Pseudomonas diversity. Microbiology 2000; 146:2345–2350 [View Article] [PubMed]
     [Google Scholar]
  5. Peix A, Ramírez-Bahena MH, Velázquez E. The current status on the taxonomy of Pseudomonas revisited: an update. Infect Genet Evol 2018; 57:106–116 [View Article] [PubMed]
     [Google Scholar]
  6. Peix A, Ramírez-Bahena MH, Velázquez E. Historical evolution and current status of the taxonomy of genus Pseudomonas. Infect Genet Evol 2009; 9:1132–1147 [View Article] [PubMed]
     [Google Scholar]
  7. Gomila M, Peña A, Mulet M, Lalucat J, García-Valdés E. Phylogenomics and systematics in Pseudomonas. Front Microbiol 2015; 6:00214 [View Article] [PubMed]
     [Google Scholar]
  8. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the Prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article]
     [Google Scholar]
  9. Bull CT, Koike ST. Practical benefits of knowing the enemy: modern molecular tools for diagnosing the etiology of bacterial diseases and understanding the taxonomy and diversity of plant-pathogenic bacteria. Annu Rev Phytopathol 2015; 53:157–180 [View Article] [PubMed]
     [Google Scholar]
  10. Gevers D, Cohan FM, Lawrence JG, Spratt BG, Coenye T et al. Re-evaluating Prokaryotic species. Nat Rev Microbiol 2005; 3:733–739 [View Article] [PubMed]
     [Google Scholar]
  11. Tindall BJ, Rosselló-Móra R, Busse HJ, Ludwig W, Kämpfer P. Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 2010; 60:249–266 [View Article] [PubMed]
     [Google Scholar]
  12. Timilsina S, Minsavage GV, Preston J, Newberry EA, Paret ML et al. Pseudomonas floridensis sp. nov., a bacterial pathogen isolated from tomato. Int J Syst Evol Microbiol 2018; 68:64–70 [View Article] [PubMed]
     [Google Scholar]
  13. Carvalho R, Albu S, Timilsina S, Minsavage GV, Paret ML et al. Pseudomonas californiensis sp. nov. and Pseudomonas quasicaspiana sp. nov., isolated from ornamental crops in California. Int J Syst Evol Microbiol 2022; 72: [View Article]
     [Google Scholar]
  14. Rychert J. Benefits and limitations of MALDI-TOF mass spectrometry for the identification of microorganisms. J Infect 2019; 2:1–5 [View Article]
     [Google Scholar]
  15. Baltrus DA, McCann HC, Guttman DS. Evolution, genomics and epidemiology of Pseudomonas syringae: challenges in bacterial molecular plant pathology. Mol Plant Pathol 2017; 18:152–168 [View Article] [PubMed]
     [Google Scholar]
  16. Berge O, Monteil CL, Bartoli C, Chandeysson C, Guilbaud C et al. A user’s guide to a data base of the diversity of Pseudomonas syringae and its application to classifying strains in this phylogenetic complex. PLoS One 2014; 9:e105547 [View Article] [PubMed]
     [Google Scholar]
  17. Xin XF, Kvitko B, He SY. Pseudomonas syringae: what it takes to be a pathogen. Nat Rev Microbiol 2018; 16:316–328 [View Article] [PubMed]
     [Google Scholar]
  18. Lamichhane JR, Messéan A, Morris CE. Insights into epidemiology and control of diseases of annual plants caused by the Pseudomonas syringae species complex. J Gen Plant Pathol 2015; 81:331–350 [View Article]
     [Google Scholar]
  19. Bhat NA, Bhat KA, Zargar MY, Teli MA, Nazir M et al. Current status of angular leaf spot (Pseudomonas syringae pv. lachrymans) of cucumber: a review. Int J Curr Res 2010; 8:901–911
     [Google Scholar]
  20. Keinath AP, Wintermantel WM, Zitter TA. eds Compendium of Cucurbit Diseases and Pests, 2nd. edn St Paul: APS Press; 2018
     [Google Scholar]
  21. Fullem KR, Pena MM, Potnis N, Goss EM, Minsavage GV et al. Unexpected diversity of Pseudomonads associated with bacterial leaf spot of cucurbits in the southeastern United States. Plant Dis 2024; 108:592–598 [View Article] [PubMed]
     [Google Scholar]
  22. Newberry EA, Jardini TM, Rubio I, Roberts PD, Babu B et al. Angular leaf spot of cucurbits is associated with genetically diverse Pseudomonas syringae strains. Plant Dis 2016; 100:1397–1404 [View Article] [PubMed]
     [Google Scholar]
  23. Newberry EA, Ritchie L, Babu B, Sanchez T, Beckham KA et al. Epidemiology and management of bacterial leaf spot on watermelon caused by Pseudomonas syringae. Plant Dis 2017; 101:1222–1229 [View Article] [PubMed]
     [Google Scholar]
  24. Schaad NW, Jones JB, Chun W. eds Laboratory Guide for Identification of Plant Pathogenic Bacteria, 3rd. edn St.Paul: APS Press; 2001
     [Google Scholar]
  25. Lelliott RA, Billing E, Hayward AC. A determinative scheme for the fluorescent plant pathogenic pseudomonads. J Appl Bacteriol 1966; 29:470–489 [View Article] [PubMed]
     [Google Scholar]
  26. Prjibelski A, Antipov D, Meleshko D, Lapidus A, Korobeynikov A. Using SPAdes de novo assembler. Curr Protoc Bioinformatics 2020; 70:e102 [View Article] [PubMed]
     [Google Scholar]
  27. Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J. JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 2016; 32:929–931 [View Article] [PubMed]
     [Google Scholar]
  28. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M, Oker MG. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article] [PubMed]
     [Google Scholar]
  29. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007; 57:81–91 [View Article] [PubMed]
     [Google Scholar]
  30. Davis Ii EW, Weisberg AJ, Tabima JF, Grunwald NJ, Chang JH. Gall-ID: tools for genotyping gall-causing phytopathogenic bacteria. PeerJ 2016; 4:e2222 [View Article] [PubMed]
     [Google Scholar]
  31. Nguyen LT, Schmidt HA, Von Haeseler A, Minh BQ. IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Mol Biol Evol 2015; 32:268–274 [View Article] [PubMed]
     [Google Scholar]
  32. Letunic I, Bork P. Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation. Bioinformatics 2007; 23:127–128 [View Article] [PubMed]
     [Google Scholar]
  33. 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]
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Pseudomonas boreofloridensis sp. nov., and Pseudomonas citrulli sp. nov., isolated from watermelon in Florida
Int J Syst Evol Microbiol 74, 006596 (2024); https://doi.org/10.1099/ijsem.0.006596
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