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Hakdong Shin - One of the best experts on this subject based on the ideXlab platform.
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complete genome sequence of the Pectobacterium carotovorum subsp carotovorum virulent bacteriophage pm1
Archives of Virology, 2014Co-Authors: Hakdong ShinAbstract:PM1, a novel virulent bacteriophage that infects Pectobacterium carotovorum subsp. carotovorum, was isolated. Its morphological features were examined by electron microscopy, which indicated that this phage belongs to the family Myoviridae. It has a 55,098-bp genome, including a 2,665-bp terminal repeat. A total of 63 open reading frames (ORFs) were predicted, but only 20 ORFs possessed homology with functional proteins. There is one tRNA coding region, and the GC-content of the genome is 44.9 %. Most ORFs in bacteriophage PM1 showed high homology to enterobacteria phage ΦEcoM-GJ1 and Erwinia phage νB EamM-Y2. Like these bacteriophages, PM1 encodes an RNA polymerase, which is a hallmark of T7-like phages. There is no integrase or repressor, suggesting that PM1 is a virulent bacteriophage.
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complete genome sequence of Pectobacterium carotovorum subsp carotovorum bacteriophage my1
Journal of Virology, 2012Co-Authors: Hakdong Shin, Samnyu Ji, Kyusuk Jung, Jaehyuk ChoiAbstract:Pectobacterium carotovorum subsp. carotovorum, a member of the Enterobacteriaceae family, is an important plant-pathogenic bacterium causing significant economic losses worldwide. P. carotovorum subsp. carotovorum bacteriophage My1 was isolated from a soil sample. Its genome was completely sequenced and analyzed for the development of an effective biological control agent. Sequence and morphological analyses revealed that phage My1 is a T5-like bacteriophage and belongs to the family Siphoviridae. To date, there is no report of a Pectobacterium-targeting siphovirus genome sequence. Here, we announce the complete genome sequence of phage My1 and report the results of our analysis.
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complete genome sequence of phytopathogenic Pectobacterium carotovorum subsp carotovorum bacteriophage pp1
Journal of Virology, 2012Co-Authors: Hakdong Shin, Samnyu Ji, Shweta Malhotra, Mukesh KumarAbstract:Pectobacterium carotovorum subsp. carotovorum is a phytopathogen causing soft rot disease on diverse plant species. To control this plant pathogen, P. carotovorum subsp. carotovorum-targeting bacteriophage PP1 was isolated and its genome was completely sequenced to develop a novel biocontrol agent. Interestingly, the 44,400-bp genome sequence does not encode any gene involved in the formation of lysogen, suggesting that this phage may be very useful as a biocontrol agent because it does not make lysogen after host infection. This is the first report on the complete genome sequence of the P. carotovorum subsp. carotovorum-targeting bacteriophage, and it will enhance our understanding of the interaction between phytopathogens and their targeting bacteriophages.
Mohedine Moumni - One of the best experts on this subject based on the ideXlab platform.
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elevation of Pectobacterium carotovorum subsp odoriferum to species level as Pectobacterium odoriferum sp nov proposal of Pectobacterium brasiliense sp nov and Pectobacterium actinidiae sp nov emended description of Pectobacterium carotovorum and des
International Journal of Systematic and Evolutionary Microbiology, 2019Co-Authors: Perrine Portier, Jacques Pedron, Geraldine Taghouti, Marion Fischerle Saux, Emma Caullireau, Claire Bertrand, Angelique Laurent, Khaoula Chawki, Said Oulgazi, Mohedine MoumniAbstract:The Pectobacterium carotovorum species corresponds to a complex, including two subspecies with validly published names, two proposed subspecies and two new species, Pectobacterium polaris and Pectobacterium aquaticum . Recent studies suggested that this complex needed revision. We examined the taxonomic status of 144 Pectobacterium strains isolated from a wide range of plant species, various geographical origins and waterways. Sequences of the leuS, dnaX and recA housekeeping genes clustered 114 of these Pectobacterium strains together within a not yet described clade. We sequenced eight strains of this clade and analysed them together with the 102 Pectobacterium genomes available in the NCBI database. Phylogenetic analysis, average nucleotide identity calculation and in silico DNA–DNA hybridization allowed us to differentiate seven clades. This led us to propose the elevation of Pectobacterium carotovorum subsp. odoriferum to species level as Pectobacterium odoriferum sp. nov. (type strain CFBP 1878T=LMG 5863T=NCPPB 3839T=ICMP 11533T), the proposal of Pectobacterium actinidiae sp. nov. (type strain KKH3=LMG 26003 T=KCTC 23131T) and Pectobacterium brasiliense sp. nov. (type strain CFBP 6617T= LMG 21371T=NCPPB 4609T), to emend the description of Pectobacterium carotovorum (type strain CFBP 2046T=LMG 2404T=NCPPB 312T=ICMP 5702T), and to propose a novel species, Pectobacterium versatile sp. nov (type strain CFBP6051T= NCPPB 3387T=ICMP 9168T) which includes the strains previously described as ‘Candidatus Pectobacterium maceratum’. Phenotypic analysis performed using Biolog GENIII plates on eight strains of P. versatile sp. nov. and related strains completed our analysis.
Kerstin Wydra - One of the best experts on this subject based on the ideXlab platform.
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taxonomic relatedness between Pectobacterium carotovorum subsp carotovorum Pectobacterium carotovorum subsp odoriferum and Pectobacterium carotovorum subsp brasiliense subsp nov
Journal of Applied Microbiology, 2012Co-Authors: S Nabhan, Solke H. De Boer, Edgar Maiss, Kerstin WydraAbstract:Aims: Pectobacterium carotovorum is a heterogeneous species consisting of two named subspecies, P. carotovorum subsp. carotovorum and P. carotovorum subsp. odoriferum. A third subspecies, P. carotovorum subsp. brasiliense, was previously proposed. The study aimed to confirm the subspecies status and validate the proposed name of P. carotovorum subsp. brasiliense using a novel and standard microbial taxonomy. Methods and Results: DNA-DNA hybridization confirmed that P. carotovorum subsp. brasiliense is a different species from P. wasabiae, P. betavasculorum and P. atrosepticum, with 28, 35 and 55% similarity values, respectively, but is a member of the P. carotovorum species with 73–77% similarity values. Sequencing the entire 16S rRNA gene of two polymorphic copies from strains of each of the P. carotovorum subspecies demonstrated that the average 16S rRNA gene sequence diversity between P. carotovorum subsp. brasiliense and P. carotovorum subsp. carotovorum was lower than the maximum genetic distances between two sequence types obtained from the same strain. Multilocus sequence analysis based on eight housekeeping genes (mtlD, acnA, icdA, mdh, pgi, gabA, proA and rpoS) differentiated the subspecies and delineated two P. carotovorum subsp. brasiliense clades. Conclusion: Pectobacterium carotovorum subsp. brasiliense clade I was comprised of strains isolated from Brazil and Peru, while clade II included strains from Asia, North America and Europe. Strains in clade I but not clade II were phenotypically consistent with the original description of P. carotovorum subsp. brasiliense in that they produced reducing substances from sucrose and acid from a-methyl glucoside. The type strain for P. carotovorum subsp. brasiliense 212 T (= LMG2137 T = IBSBF1692 T = CFBP6617 T ) was previously designated. The GC mol content of the type strain is 517%. Significant and Impact of the Study: the study introduces a full description for the strains belonging to the two different clades assigned to P. carotovorum subsp. brasiliense.
Lucy N Moleleki - One of the best experts on this subject based on the ideXlab platform.
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Susceptible and tolerant potato leaf-responses post challenge with Pectobacterium carotovorum subsp. brasiliense 1692
European Journal of Plant Pathology, 2018Co-Authors: G.k.e Mosina, Lucy N MolelekiAbstract:Leaf responses of a susceptible potato cultivar (S. tuberosum cv. Valor) were compared to those of a tolerant potato cultivar (S. tuberosum cv. BP1) following challenge by Pectobacterium carotovorum subsp. brasiliense 1692 (Pcb 1692). Leaves of the susceptible cultivar showed excessive maceration and water soaking symptoms as well as increased proliferation of the bacteria. In leaves of the tolerant cultivar, bacteria appeared to be restricted to the point of inoculation,subsequently; there was very little multiplication of bacterial cells. Furthermore we demonstrated that disease is associated with the extensive spread of cell death in S. tuberosum cv. Valor while in S. tuberosum cv. BP1 cell death was observed to be associated with lack of disease development. Another response associated with challenge by Pcb 1692 in the susceptible and tolerant potato cultivar leaf tissue was the oxidative burst. Generally, the accumulation of hydrogen peroxide and superoxide in leaf-tissue appeared to correlate with tolerance levels.
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draft genome sequence of a virulent Pectobacterium carotovorum subsp brasiliense isolate causing soft rot of cucumber
Genome Announcements, 2016Co-Authors: Lucy N Moleleki, Edward Makori Onkendi, Aadi Moolam Ramesh, Stanford Kwenda, Sanushka NaidooAbstract:ABSTRACT Pectobacterium carotovorum subsp. brasiliense causes soft rot and blackleg diseases on potatoes, ornamentals, and other crops of economic importance. Here, we report a draft genome sequence of a highly virulent P. carotovorum subsp. brasiliense strain, PcbHPI01, isolated from a cucumber in South Africa.
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characterization of Pectobacterium carotovorum subsp carotovorum and brasiliense from diseased potatoes in kenya
European Journal of Plant Pathology, 2014Co-Authors: Edward Makori Onkendi, Lucy N MolelekiAbstract:Using a DNA-based typing method, 48 bacterial strains isolated from infected potato (Solanum tuberosum) tubers originating from Kenya were characterized. The pel gene specific primers showed that all the 48 bacterial strains were pectolytic. Subspecies-specific primers EXPCCF/EXPCCR and Br1f/L1r identified 66 % of the strains as Pectobacterium carotovorum subsp. carotovorum while 34 % were identified as Pectobacterium carotovorum subsp. brasiliense based on their characteristic band sizes of 550 and 322 bp, respectively. Amplification of the 16S-23S rDNA (ITS) region did not yield observable differences in banding patterns between the Kenyan strains. However, PCR-RFLP analysis together with partial nucleotide sequences of the housekeeping mdh and gapA genes confirmed the results obtained by the specific primers. Phylogenetic analysis of the concatenated partial gene sequences grouped Pectobacterium carotovorum subsp. carotovorum and Pectobacterium carotovorum subsp. brasiliense Kenyan strains together with those identified in other parts of the world with 90 % and 99 % bootstrap support values, respectively. Pathogenicity assays using representative Kenyan strains demonstrated varied levels of tuber maceration ability. The Pectobacterium carotovorum subsp. carotovorum and Pectobacterium carotovorum subsp. brasiliense Kenyan strains were shown to be less aggressive in causing soft rot when compared to type strains. This study describes for the first time the genetic diversity of pectolytic bacteria causing soft rot disease of potatoes in Kenya.
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colonization patterns of an mcherry tagged Pectobacterium carotovorum subsp brasiliense strain in potato plants
Phytopathology, 2013Co-Authors: Gugulethu Cresentia Kubheka, Teresa A Coutinho, Ntsane Moleleki, Lucy N MolelekiAbstract:ABSTRACT Pectobacterium carotovorum subsp. brasiliense is a newly identified member of the potato soft rot enterobacteriaceae. The pathogenesis of this pathogen is still poorly understood. In this study, an mCherry-P. carotovorum subsp. brasiliense-tagged strain was generated to study P. carotovorum subsp. brasiliense—potato plant interactions. Prior to use, the tagged strain was evaluated for in vitro growth, plasmid stability, and virulence on potato tubers and shown to be similar to the wild type. Four potato cultivars were evaluated for stem-based resistance against P. carotovorum subsp. brasiliense. Confocal laser-scanning microscopy and in vitro viable cell counts showed that P. carotovorum subsp. brasiliense is able to penetrate roots of a susceptible potato cultivar as early as 12 h postinoculation and migrate upward into aerial stem parts. Due to the phenotypic differences observed between tolerant and susceptible cultivars, a comparison of P. carotovorum subsp. brasiliense colonization patterns ...
Moulay Mustapha Ennaji - One of the best experts on this subject based on the ideXlab platform.
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Use of Arabidopsis thaliana cells to analyse the pathogenicity of Pectobacterium carotovorum
2020Co-Authors: Mohamed Kettani-halabi, Meriam Terta, R. Ait Mhand, Moulay Mustapha Ennaji, Daniel Tran, François BouteauAbstract:Use of Arabidopsis thaliana cells to analyse the pathogenicity of Pectobacterium carotovorum
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Molecular Analysis of Genetic Diversity of Pectobacterium carotovorum Subsp carotovorum Isolated in Morocco by PCR Amplification of the 16S-23S Intergenic Spacer Region
British Biotechnology Journal, 2015Co-Authors: Mohamed Amdan, Meriam Terta, Moulay Mustapha Ennaji, H Faquihi, R. Ait MhandAbstract:Aims: Pectobacterium carotovorum is a ubiquitous bacterium that causes soft rot in different crop plants throughout the world. In Morocco, approximately 95% of the Strains isolates from potato plants with tuber soft rot are P. carotovorum. In this study, we test whether PCR ribotyping can be used to distinguish strains of Pectobacterium carotovorum isolated from soft rot potato and to differentiate among strains from different geographic regions. Place and Duration of Study: Laboratory of Virology, Microbiology and Quality / Ecotoxicology and Biodiversity, department Biology, Faculty of Sciences and Techniques, University Hassan-II Mohammedia Casablanca. Methodology: Eighty-three pectolytic enterobacteria were collected from potatoes rotten in Morocco, the strains were isolated in the Cristal Violet Pectate (CVP) medium and were purified in Original Research Article Amdan et al.; BBJ, 7(3): 102-110, 2015; Article no.BBJ.2015.051 103 LPGA agar (yeast extract, peptone, glucose and agar). After purification, strains were identified by physiological and biochemical tests. The confirmation of species was performed by PCR using primers Y1 and Y2. The genetic diversity of Pectobacterium carotovoum was investigated by PCR ribotyping using primers G1/L1, which are complementary to conserved regions of the rRNA operon. Furthermore, the profiles obtained were compared by the Unweighted Pair Group Method. Results: The biochemical and physiological analysis demonstrated that the predominant pectolytic enterobacterium present in Morocco is Pectobacterium carotovorum subsp carotovorum. The specific confirmation of species P. carotovorum by PCR has yielded a 434 bp DNA fragment of the pelY gene with all isolates. Further, PCR amplification of the 16S-23S Intergenic spacer Region (ITS-PCR) has presented a specific pattern made of 2-6 fragments ranging from 300 bp to 800 bp. The UPGMA tree has shown that there is considerable genetic diversity in P. carotovorum strains, which can be divided into four distinct groups.
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an easy simple inexpensive test for the specific detection of Pectobacterium carotovorum subsp carotovorum based on sequence analysis of the pmra gene
BMC Microbiology, 2013Co-Authors: Mohamed Kettanihalabi, Meriam Terta, Mohamed Amdan, François Bouteau, Elmostafa El Fahime, Moulay Mustapha EnnajiAbstract:Background The species Pectobacterium carotovorum includes 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. However, identification of this pathogen is not always related to visual disease symptoms. This is especially true when different pathogen cause similar diseases on potato, citing as an example, P. carotovorum, P. atrosepticum and P. wasabiae. Numerous conventional methods were used to characterize Pectobacterium spp., including biochemical assays, specific PCR-based tests, and construction of phylogenetic trees by using gene sequences. In this study, an alternative method is presented using a gene linked to pathogenicity, in order to allow accuracy at subspecies level. The pmrA gene (response regulator) has been used for identification and analysis of the relationships among twenty nine Pectobacterium carotovorum subsp. carotovorum and other Pectobacterium subspecies.
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molecular typing of Pectobacterium carotovorum isolated from potato tuber soft rot in morocco
Annals of Microbiology, 2012Co-Authors: Meriam Terta, R. Ait Mhand, El Hassan Achbani, Mustapha Barakate, François Bouteau, Souad Azelmat, Moulay Mustapha EnnajiAbstract:Twenty-two isolates of Pectobacterium carotovorum were collected from soft-rotted potato tubers originating from different production areas in Morocco, and their phenotypic and genetic characteristics were investigated. All of the isolates were identified as P. carotovorum by API 20E (identification kit) system, and yielded a 434-bp DNA fragment of the pectate-lyase-encoding pel gene in PCR experiments. Collected strains were also evaluated for their susceptibility to 11 different antibiotics: Sulfamethoxazole/trimethoprim (SXT), Ceftazidime (CAZ), Ciprofloxacin (CIP), Cefotaxime sodium (CTX), Imipenem (IPM), Gentamicin (CN), Amikacin (AK), Colistin sulphate (CT), Netilmicin (NET), Ampicillin (AMP) and Cephalothin (KF). Of the total P. carotovorum strains isolated, 5 were resistant to only two antibiotics: Ampicillin and Cephalothin. Evaluation of genetic diversity was performed on all isolates by molecular typing with Enterobacterial Repetitive Intergenic Consensus (ERIC-PCR). Results showed the isolates to be distributed on 2 major clusters subdivided into many subclusters. The genetic diversity within the potato strains of P. carotovorum subspecies is shown. No correlation between ERIC-PCR analyses, suscebtibility patterns, geographic areas and year isolated was observed. These results may indicate that the tuber could be the main source of contamination. In conclusion, the ability to distinguish Pectobacterium carotovorum strains from diseased potato with PCR based assay will be useful for strain relatedness studies of this pathogen in Morocco.
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Arabidopsis thaliana cells: a model to evaluate the virulence of Pectobacterium carotovorum.
Molecular Plant-microbe Interactions, 2010Co-Authors: Meriam Terta, Hayat El-maarouf-bouteau, Mohamed Kettani-halabi, K. Ibenyassine, Patrice Meimoun, Raja Ait M'hand, Moulay Mustapha Ennaji, Daniel Tran, François BouteauAbstract:Pectobacterium carotovorum are economically important plant pathogens that cause plant soft rot. These enterobacteria display high diversity world-wide. Their pathogenesis depends on production and secretion of virulence factors such as plant cell wall-degrading enzymes, type III effectors, a necrosis-inducing protein, and a secreted virulence factor from Xanthomonas spp., which are tightly regulated by quorum sensing. Pectobacterium carotovorum also present pathogen-associated molecular patterns that could participate in their pathogenicity. In this study, by using suspension cells of Arabidopsis thaliana, we correlate plant cell death and pectate lyase activities during coinfection with different P. carotovorum strains. When comparing soft rot symptoms induced on potato slices with pectate lyase activities and plant cell death observed during coculture with Arabidopsis thaliana cells, the order of strain virulence was found to be the same. Therefore, Arabidopsis thaliana cells could be an alternative tool to evaluate rapidly and efficiently the virulence of different P. carotovorum strains.