Abstract
Dickeya and Pectobacterium species represent an important group of broad-host-range phytopathogens responsible for blackleg and soft rot diseases on numerous plants including many economically important plants. Although these species are commonly detected using cultural, serological, and molecular methods, these methods are sometimes insufficient to classify the bacteria correctly. On that account, this study was undertaken to investigate the feasibility of three individual analytical techniques, capillary zone electrophoresis (CZE), capillary isoelectric focusing (CIEF), and matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS), for reliable classification of Dickeya and Pectobacterium species. Forty-three strains, representing different Dickeya and Pectobacterium species, namely Dickeya dianthicola, Dickeya dadantii, Dickeya dieffenbachiae, Dickeya chrysanthemi, Dickeya zeae, Dickeya paradisiaca, Dickeya solani, Pectobacterium carotovorum, and Pectobacterium atrosepticum, were selected for this purpose. Furthermore, the selected bacteria included one strain which could not be classified using traditional microbiological methods. Characterization of the bacteria was based on different pI values (CIEF), migration velocities (CZE), or specific mass fingerprints (MALDI-TOF MS) of intact cells. All the examined strains, including the undetermined bacterium, were characterized and classified correctly into respective species. MALDI-TOF MS provided the most reliable results in this respect.
Similar content being viewed by others
References
Samson R, Legendre JB, Christen R, Fishcer-Le Saux M, Achouak W, Gardan L (2005) Transfer of Pectobacterium chrysanthemi (Burkholder et al. 1953) Brenner et al. 1973 and Brenneria paradisiaca to the genus Dickeya gen. nov. as Dickeya chrysanthemi comb. nov. and Dickeya paradisiaca comb. nov. and delineation of four novel species, Dickeya dadantii sp. nov., Dickeya dianthicola sp. nov., Dickeya dieffenbachiae sp. nov. and Dickeya zeae sp. nov. Int J Syst Evol Microbiol 55:1415–1427
Ma B, Hibbing ME, Kim HS, Reedy RM, Yedidia I, Breuer J, Breuer J, Glasner JD, Perna NT, Kelman A, Charkowski AO (2007) Host range and molecular phylogenies of the soft rot enterobacterial genera Pectobacterium and Dickeya. Phytopathology 97:1150–1163
Toth IK, van der Wolf JM, Saddler G, Lojkowska E, Helias V, Pirhonen M, Tsror L, Elphinstone JG (2011) Dickeya species: an emerging problem for potato production in Europe. Plant Pathol 60:385–399
Czajkowski R, Grabe G, van der Wolf JM (2009) Distribution of Dickeya spp. and Pectobacterium carotovorum subsp. carotovorum in naturally infected seed potatoes. Eur J Plant Pathol 125:263–275
Czajkowski R, Pérombelon MCM, van Veen JA, van der Wolf JM (2011) Control of blackleg and tuber soft rot of potato caused by Pectobacterium and Dickeya species: a review. Plant Pathol 60:999–1013
Barras F, van Gijsegem F, Chatterjee AK (1994) Extracellular enzymes and pathogenesis of soft-rot Erwinia. Annu Rev Phytopathol 32:201–234
Tsror L, Erlich O, Hazanovsky M, Daniel DB, Zig U, Lebiush S (2012) Detection of Dickeya spp. latent infection in potato seed tubers using PCR or ELISA and correlation with disease incidence in commercial field crops under hot-climate conditions. Plant Pathol 61:161–168
Tsror L, Daniel DB, Chalupowicz L, van der Wolf JM, Lebiush S, Erlich O, Dror O, Barel V, Nijhuis EH, Manulis-Sasson S (2013) Characterization of Dickeya strains isolated from potato grown under hot-climate conditions. Plant Pathol 62:1097–1105
Moleleki LN, Onkendi EM, Mongae A, Kubheka GC (2013) Characterisation of Pectobacterium wasabiae causing blackleg and soft rot diseases in South Africa. Eur J Plant Pathol 135:279–288
Mansfield J, Genin S, Magori S, Citovsky V, Sriariyanum M, Ronald P, Dow M, Verdier V, Beer SV, Machado MA, Toth I, Salmond G, Foster GD (2012) Top 10 plant pathogenic bacteria in molecular plant pathology. Mol Plant Pathol 13:614–629
Nabhan S, De Boer SH, Maiss E, Wydra K (2013) Pectobacterium aroidearum sp. nov., a soft rot pathogen with preference for monocotyledonous plants. Int J Syst Evol Microbiol 63:2520–2525
Van der Wolf JM, Nijhuis EH, Kowalewska MJ, Saddler GS, Parkinson N, Elphinstone JG, Pritchard L, Toth IK, Lojkowska E, Potrykus M, Waleron M, de Vos P, Cleenwerck I, Pirhonen M, Garlant L, Hélias V, Pothier JF, Pflüger V, Duffy B, Tsror L, Manulis S (2014) Dickeya solani sp. nov., a pectinolytic plant-pathogenic bacterium isolated from potato (Solanum tuberosum). Int J Syst Evol Microbiol 64:768–774
Janse JD (2012) Bacterial diseases that may or do emerge, with (possible) economic damage for Europe and the Mediterranean basis: notes on epidemiology, risk, prevention and management on first occurrence. J Plant Pathol 94:S4.5–S4.29
Tsror L, Erlich O, Lebiush S, Hazanovsky M, Zig U, Slawiak M, Grabe G, van der Wolf JM, van der Haar JJ (2009) Assessment of recent outbreaks of Dickeya sp. (syn. Erwinia chrysanthemi) slow wilt in potato crops in Israel. Eur J Plant Pathol 123:311–320
Parkinson N, Stead D, Bew J, Heeney J, Tsror L, Elphinstone J (2009) Dickeya species relatedness and clade structure determined by comparison of recA sequences. Int J Syst Evol Microbiol 59:2388–2393
Sasser M (1990) Technical note 102: tracking a strain using the Microbial Identification System. MIS, North Newark
Czajkowski R, Pérombelon MCM, Jafra S, Lojkowska E, Potrykus M, van der Wolf JM, Sledz W (2015) Detection, identification and differentiation of Pectobacterium and Dickeya species causing potato blackleg and tuber soft rot: a review. Ann Appl Biol 166:18–38
Pritchard L, Humphris S, Saddler GS, Parkinson NM, Bertrand V, Elphinstone JG, Toth IK (2013) Detection of phytopathogens of the genus Dickeya using a PCR primer prediction pipeline for draft bacterial genome sequences. Plant Pathol 62:587–596
Van der Wolf JM, de Haas BH, van Hoof R, de Haan EG, van den Bovenkamp GW (2014) Development and evaluation of Taqman assays for the differentiation of Dickeya (sub)species. Eur J Plant Pathol 138:695–709
Slawiak M, van Doorn R, Szemes M, Speksnijderm AGCL, Waleron M, van der Wolf JM, Lojkowska E, Schoen CD (2013) Multiplex detection and identification of bacterial pathogens causing potato blackleg and soft rot in Europe, using padlock probes. Ann Appl Biol 163:378–393
Liu Z, Wu SS, Pawliszyn J (2007) Characterization of plant growth-promoting rhizobacteria using capillary isoelectric focusing with whole column imaging detection. J Chromatogr A 1140:213–218
Horká M, Horký J, Kubesová A, Mazanec K, Matoušková H, Šlais K (2010) Electromigration techniques—a fast and economical tool for differentiation of similar strains of microorganisms. Analyst 135:1636–1644
Šalplachta J, Kubesová A, Moravcová D, Vykydalová M, Süle S, Matoušková H, Horký J, Horká M (2013) Use of electrophoretic techniques and MALDI-TOF MS for rapid and reliable characterization of bacteria: analysis of intact cells, cell lysates, and “washed pellets”. Anal Bioanal Chem 405:3165–3175
Horká M, Šalplachta J, Karásek P, Kubesová A, Horký J, Matoušková H, Šlais K, Roth M (2013) Combination of capillary isoelectric focusing in a tapered capillary with MALDI-TOF MS for rapid and reliable identification of Dickeya species from plant samples. Anal Chem 85:6806–6812
Subirats X, Blaas D, Kenndler E (2011) Recent developments in capillary and chip electrophoresis of bioparticles: viruses, organelles, and cells. Electrophoresis 32:1579–1590
Lartigue MF (2013) Matrix-assisted laser desorption ionization time-of-flight mass spectrometry for bacterial strain characterization. Infect Genet Evol 13:230–235
Ahmad F, Babalola OO, Tak HI (2012) Potential of MALDI-TOF mass spectrometry as a rapid detection technique in plant pathology: identification of plant-associated microorganisms. Anal Bioanal Chem 404:1247–1255
Rodriguez MA, Armstrong DW (2004) Separation and analysis of colloidal/nano-particles including microorganisms by capillary electrophoresis: a fundamental review. J Chromatogr B 800:7–25
Kremser L, Blaas D, Kenndler E (2004) Capillary electrophoresis of biological particles: viruses, bacteria, and eukaryotic cells. Electrophoresis 25:2282–2291
Petr J, Maier V (2012) Analysis of microorganisms by capillary electrophoresis. Trends Anal Chem 31:9–22
Welker M, Moore ER (2011) Applications of whole-cell matrix-assisted laser-desorption/ionization time-of-flight mass spectrometry in systematic microbiology. Syst Appl Microbiol 34:2–11
Giebel R, Worden C, Rust SM, Kleinheinz GT, Robbins M, Sandrin TR (2010) Microbial fingerprinting using matrix-assisted laser desorption ionization time-of-flight mass spectrometry (MALDI-TOF MS): applications and challenges. Adv Appl Microbiol 71:149–184
Sandrin TR, Goldstein JE, Schumaker S (2013) MALDI TOF MS profiling of bacteria at the strain level: a review. Mass Spectrom Rev 32:188–217
Hirokawa T, Nishino M, Aoki N, Sawamoto YKTY, Akiyama JI (1983) Table of isotachophoretic indices: I. Simulated qualitative and quantitative indices of 287 anionic substances in the range ph 3–10. J Chromatogr A 271:D1–D106
Acevedo F (1991) Use of discrete spacers for the separation of proteins by gel isotachophoresis. J Chromatogr A 545:391–396
Horká M, Růžička F, Holá V, Šlais K (2006) Capillary isoelectric focusing of microorganisms in the pH range 2–5 in a dynamically modified FS capillary with UV detection. Anal Bioanal Chem 385:840–846
Šťastná M, Trávníček M, Šlais K (2005) New azo dyes as colored isoelectric point markers for isoelectric focusing in acidic pH region. Electrophoresis 26:53–59
Šťastná M, Šlais K (2003) Dynamics of gel isoelectric focusing with ampholytic dyes monitored by camera in real-time. J Chromatogr A 1008:193–203
Buyer JS (2006) Rapid and sensitive FAME analysis of bacteria by cold trap injection gas chromatography. J Microbiol Methods 67:187–190
Nassar A, Darrasse A, Lemattre M, Kotoujansky A, Dervin C, Vedel R, Bertheau Y (1996) Characterization of Erwinia chrysanthemi by pectinolytic isoenzyme polymorphism and restriction fragment length polymorphism analysis of PCR-amplified fragments of pel genes. Appl Environ Microbiol 62:2228–2235
Horká M, Růžička F, Horký J, Holá V, Šlais K (2006) Capillary isoelectric focusing of proteins and microorganisms in dynamically modified fused silica with UV detection. J Chromatogr B 841:152–159
Righetti PG (2004) Determination of the isoelectric point of proteins by capillary isoelectric focusing. J Chromatogr A 1037:491–499
Kobayashi H, Aoki M, Suzuki M, Yanagisawa A, Arai E (1997) Evaluation of pH gradient formation of carrier ampholytes with synthesized isoelectric point markers in capillary isoelectric focusing. J Chromatogr A 772:137–144
Acknowledgments
This work was supported by a grant from the Ministry of the Interior of the Czech Republic (No. VG20112015021) and with the institutional support (RVO: 68081715).
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Šalplachta, J., Kubesová, A., Horký, J. et al. Characterization of Dickeya and Pectobacterium species by capillary electrophoretic techniques and MALDI-TOF MS. Anal Bioanal Chem 407, 7625–7635 (2015). https://doi.org/10.1007/s00216-015-8920-y
Received:
Revised:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s00216-015-8920-y