Abstract
The species Pectobacterium carotovorum include a diverse subspecies of bacteria that cause disease on a wide variety of plants. In Morocco, approximately 95 % of the P. carotovorum isolates from potato plants with tuber soft rot are P. carotovorum subsp carotovorum. The aim was to monitor this Moroccan population in time and to continue the work carried out to understand the genetic diversity of these subspecies. The diversity of 30 strains of P. carotovorum subsp carotovorum collected between 2012 and 2013 from potato soft rot from different Moroccan regions was evaluated. On the basis of phenotypic characteristics, the isolates were classified into four different biovars and in three groups based on the aggressiveness traits. Moreover, the genetic variability was also investigated by fingerprint analysis. The typing by ERIC and REP sequences of the new collection compared to ERIC-PCR and phylogenetic analysis of pmrA sequences, demonstrated that there is a considerable genetic diversity in P. carotovorum subsp. carotovorum strains, which can be divided into two distinct groups, independently to their source of isolation, by their pathogenicity.
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Achbani, E., Maazouz, H., & Boulif, M. (1993). Inventaire et importance des maladies fongiques et bactériennes de la pomme de terre dans la région de Meknès. Al AWAMIA, 80, 82–83.
Anajjar, B., Ait M’hand, R., Timinouni, M., & Ennaji, M. (2007). Caractérisation par PCR de deux souches d’Erwinia carotovora isolées de la rhizosphère de la pomme de terre dans la région du grand Casablanca au Maroc. EPPO Bull, 37, 175–180.
Anita, N. S., Andreas, R., & Harald, H. (2005). Specificity of enterobacterial repetitive intergenic consensus and repetitive extragenic palindromic polymerase chain reaction for the detection of clonality within the Enterobacter cloacae complex. Diagnostic Microbiology and Infectious Disease, 53, 9–16.
Barras, F., van Gijsegem, F., & Chatterjee, A. K. (1994). Extracellular enzymes and pathogenesis of soft-rot Erwinia. Annual Review of Phytopathology, 32, 201–234.
Czajkowski, R., Perombelon, M. C. M., van Veen, J. A., & van der Wolf, J. M. (2011). Control of blackleg and tuber soft rot of potato caused by Pectobacteriumand Dickeya species. Plant Pathology, 60, 999–1013.
Czajkowski, R., de Boer, W. J., van Veen, J. A., & van der Wolf, J. M. (2012). Characterization of bacterial isolates from rotting potato tuber tissue showing antagonism to Dickeya sp. biovar 3 in vitro and in planta. Plant Pathology, 61, 169–182.
Darrasse, A., Kotoujansky, A., & Bertheau, Y. (1994). Isolation by genomic subtraction of DNA probes specific for Erwinia carotovora subsp. atroseptica. Applied and Environmental Microbiology, 60, 298–306.
De Boer, S. H. (2003). Characterization of pectolytic Erwinias as highly sophisticated pathogens of plants. European Journal of Plant Pathology, 109, 893–899.
Dye, D. W. (1969). A taxonomic study of the genus Erwinia. II. The “carotovora” group. New Zealand Journal of Science, 12, 81–97.
Frank, J. L., Dennis, W. F., Christine, T. S., & Frans, J. B. (1994). Specific genomic fingerprints of phytopathogenic Xanthomonas and Pseudomonas pathovars and strains generated with repetitive sequencesand PCR. Applied and Environmental Microbiology, 60(7), 2286–2295.
Gallelli, A., Galli, M., De Simone, D., Zaccardelli, M., & Loreti, S. (2009). Phenotypic and genetic variability of Pectobacterium carotovorum isolated from artichoke in the Sele valley. Journal of Plant Pathology, 91, 757–761.
Garcia-Vallve, S., Palau, J., & Romeu, A. (1999). Horizontal gene transfer in glycosyl hydrolases inferred from codon usage in Escherichia coli and Bacillus subtilis. Molecular Biology and Evolution, 9, 1125–1134.
Gardan, L., Gouy, C., Christen, R., & Samson, R. (2003). Elevation of three subspecies of Pectobacterium carotovorum to species level: Pectobacterium atrosepticum sp. nov., Pectobacterium betavasculorum sp. nov. and Pectobacterium wasabiae sp. nov. International Journal of Systematic and Evolutionary Microbiology, 53, 381–391.
Kaewnum, S., Prathuangwong, S., & Burr, T. J. (2006). A Pectate Lyase Homolog, xagP, in Xanthomonas axonopodis pv. glycines is associated with hypersensitive response induction on tobacco. Phytopathology, 96, 1230–1236.
Kang, H. W., Kwon, S. W., & Go, S. J. (2003). PCR-based specific and sensitive detection of Pectobacterium carotovorum ssp. carotovorum by primers generated from a URP-PCR fingerprinting-derived polymorphic band. Plant Pathology, 52, 127. doi:10.1046/j.1365-3059.2003.00822.x.
Kettani-Halabi, M., Terta, M., Amdan, M., Elfahime, E., Bouteau, F., & Ennaji, M. M. (2013). An easy, simple inexpensive test for the specific detection of Pectobacterium carotovorum subsp. carotovorum based on sequence analysis of the pmrA gene. BMC Microbiology, 13, 176.
Li, X., & De Boer, S. H. (1995). Selection of Polymerase Chain Reaction primers from an RNA intergenic spacer region for specific detection of Clavibacter michiganensis subsp sepedonicus. Phytopathology, 85, 837–842.
Lojkowska, E., & Kelman, A. (1994). Comparison of the effectiveness of different methods of Screening for bacterial soft rot resistance of potato tubers. American Potato Journal, 71, 99–112.
Ma, B., Hibbing, M. E., Kim, H. S., Reedy, R. M., Yedidia, I., Breuer, J., Glasner, J. D., Perna, N. T., et al. (2007). Host range and molecular phylogenies of the soft rot enterobacterial genera Pectobacterium and Dickeya. Phytopathology, 97, 1150–1163.
Muiru, W. M., Koopmann, B., Tiedemann, A. V., Mutitu, E. W., & Kimenju, J. W. (2010). Use of Repetitive Extragenic Palindromic (REP), Enterobacterial Repetitive Intergenic Consensus (ERIC) and BOX sequences to fingerprint Exserohilum turcicum isolates. Journal of Applied Biosciences, 30, 1828–1338.
Perombelon, M. C. M. (2002). Potato diseases caused by soft rot Erwinias: an overview of pathogenesis. Plant Pathology, 51, 1–12.
Perombelon, M. C. M., & Kelman, A. (1980). Ecology of the soft rot Erwinias. Annual Review of Phytopathology, 18, 361–387.
Pitman, A. R., Wright, P. J., Galbraith, M. D., & Harrow, S. A. (2008). Biochemical and genetic diversity of pectolytic enterobacteria causing soft rot disease of potatoes in New Zealand. Australasian Plant Pathology, 37, 559–568.
Priscilla, E. D., Leeann, K. J., Sara, T. Z., & Michael, J. S. (2000). Use of repetitive DNA sequences and the PCR to differentiate Escherichia coli isolates from human and animal sources. Applied and Environmental Microbiology, 66(6), 2572–2577.
Sambrook, J., Fritsch, E. F., & Maniatis, T. (1989). Molecular cloning: A laboratory manual (2nd ed.). New York (USA): Cold Spring Harbor Laboratory Press.
Samson, R., Legendre, J. B., Christen, R., Fischer-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. International Journal of Systematic and Evolutionary Microbiology, 55, 1415–1427.
Seo, S. T., Furuya, N., Lim, C. K., Takanami, Y., & Tsuchiya, K. (2002). Phenotypic and genetic diversity of Erwinia carotovora ssp. carotovora strains from Asia. Journal of Phytopathology, 150, 120–127.
Starr, M. P., & Chatterjee, A. K. (1972). The genus Erwinia: enterobacteria pathogenic to plants and animals. Annual Review of Microbiology, 26, 389–426.
Terta, M., El Karkouri, A., Ait M'hand, R., Achbani, E., Barakate, M., Amdan, M., Annajar, B., Ennaji, M. M., et al. (2010). Occurrence of Pectobacterium carotovorum Strains isolated from potato soft rot in Morocco. Cellular and Molecular Biology, 56, 1324–1333.
Terta, M., Azelmat, S., Ait M’hand, R., Achbani, E., Barakate, M., Bouteau, F., & Ennaji, M. M. (2012). Molecular typing of Pectobacterium carotovorum isolated from potato tuber soft rot in Morocco. Annals of Microbiology, 7, 1–7.
Toth, I. K., van der Wolf, J. M., Saddler, G., Lojkowska, E., Hélias, V., Pirhonen, M., Tsror, L., & Elphinstone, J. G. (2011). Dickeya species: an emerging problem for potato production in Europe. Plant Pathology, 60, 385–399.
Versalovic, J., Koueth, T., & Lupski, J. R. (1991). Distribution of repetitive DNA sequences in eubacteria and application to fingerprinting of bacterial genomes. Nucleic Acids Research, 19, 6823–6831.
Vimal, B. M., & Anuradha, S. N. (2013). Characterization and differentiation of soft rot causing Pectobacterium carotovorum of Indian origin. European Journal of Plant Pathology, 136, 87–102.
Vitale, S., Alberino, S., Zoina, A., Parisi, B., & Corazza, L. (2004). Evaluation of resistance to dry and soft rot of potato clones adapted to Mediterranean regions. Phytopathologia Polonica, 34, 13–20.
Williams, J. G., Kubelik, A. R., Livak, K. J., Rafalski, J. A., & Tingey, S. V. (1990). DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Research, 18(22), 6531–6535.
Yahiaoui-Zaidi, R., Jouan, B., & Andrivon, D. (2003). Biochemical and molecular diversity among Erwinia isolates from potato in Algeria. Plant Pathology, 52, 28–40.
Yap, M. N., Barak, J. D., & Charkowski, A. O. (2004). Genomic diversity of Erwinia carotovora subsp. carotovora and its correlation with virulence. Applied and Environmental Microbiology, 70, 3013–3023.
Zulkifli, Y., Alitheen, N. B., Son, R., Raha, A. R., Samuel, L., Yeap, S. K., & Nishibuchi, M. (2009). Random amplified polymorphic DNA-PCR and ERIC-PCR analysis on Vibrio parahaemolyticus isolated from cockles in Padang, Indonesia. Food Research International Journal, 16, 141–150.
Acknowledgments
This work was supported by project ARIMNET PoHMed (Potato Health – Managed for Efficacy and Durability) from Coordination of the Agricultural Research in the Mediterranean Area and Moroccan cooperation. The authors wish to thank sir Rachid Tahziman for his valuable assistance.
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Authors FH and AM have received a research fellowship from project ARIMNET PoHMed (Potato Health – Managed for Efficacy and Durability)
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The authors declare that they have no competing interests.
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M. Mustapha Ennaji and Rajaa Ait Mhand contributed equally to this work.
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Faquihi, H., Terta, M., Amdan, M. et al. Phenotypic and genotypic diversity of Pectobacterium carotovorum subsp carotovorum causing soft rot disease of potatoes in Morocco. Eur J Plant Pathol 143, 801–811 (2015). https://doi.org/10.1007/s10658-015-0732-6
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DOI: https://doi.org/10.1007/s10658-015-0732-6