Enhancement of resistance to soft rot (Pectobacterium carotovorum subsp. carotovorum) in transgenic Brassica rapa

Brassica rapa (chinese cabbage) is one of the main vegetable crops grown in Asian countries. Pectobacterium carotovorum subsp. carotovorum causes severe economic loss in this crop as well as in other Brassica crops through soft rot disease. Cysteine proteases like bromelain, papain or ficin show toxic effects to herbivorous insects and pathogenic bacteria. They have been known to be critical factors in plant defence mechanisms. The current study investigated the effect of bromelain gene (BL1) of pineapple (Ananas comosus L. Merrill) on enhancing resistance to soft rot in transgenic Brassica rapa ‘Seoulbaechu’. Three homozygous T₂ lines were inoculated with Pectobacterium carotovorum subsp. carotovorum and BL8-2 line showed the lowest rate of infected leaves (RIL) in both wound inoculation and non-wound inoculation, when the non-infected line showed 100 % RIL in both cases. The highest expression of BL1 gene was also observed in BL8-2 homozygous line. Thus, the over-expressed BL1 gene conferred enhanced resistance to soft rot in Brassica rapa.     

Occurrence of Pectobacterium wasabiae in potato field samples

During the growing seasons of 1996 and 1997, samples of potato stems and tubers with symptoms of blackleg and soft rot were collected in different regions in Poland. After growing to pure cultures on crystal violet pectate (CVP) medium, isolates of bacteria were identified as Pectobacterium spp. on the basis of their ability to degrade pectate and with the use of biochemical tests. About 43 % strains isolated from 122 different plant samples were identified as Pectobacterium carotovorum subsp. carotovorum, whereas the rest of the pectinolytic bacteria was identified as Pectobacterium atrosepticum. A recent screening of these isolates with recA PCR-RFLP allowed identification of 18 different RFLP groups within the tested P. c. subsp. carotovorum strains. The third largest group of the tested P. c. subsp. carotovorum strains (14 %), which were assigned to the profile 3 recA PCR-RFLP, was re-identified as Pectobacterium wasabiae (formerly Erwinia carotovora subsp. wasabiae) on the basis of recA and 16S rRNA genes sequences. About 50 % of P. wasabiae isolated from potato, in contrast to horseradish isolates of P. wasabiae, have an ability to grow at 37°C and some of them grow on media containing 5 % of NaCl. In a pathogenicity test with 11 strains of P. wasabiae these strains showed a high capacity to rot potato tubers.     

Characterization of Pectobacterium carotovorum subsp. odoriferum causing soft rot of stored vegetables

Pectobacterium carotovorum subsp. odoriferum has been generally considered to have a narrow host range and has been isolated most often from chicory. Research was conducted to identify 91 Pectobacterium spp. strains isolated from different vegetables in Europe, North and South America, Asia, and Africa, and to compare their ability to cause disease in chicory and potato. Among the 91 strains, 22 strains from Europe were identified as P. c. subsp. odoriferum. Based on phylogenetic analysis of 16S rDNA, recA, and rpoS gene sequences, strains isolated from stored vegetables clustered together with the type strain of P. c. subsp. odoriferum and clustered separately from the P. c. subsp. carotovorum isolates. Eleven strains previously identified as P. c. subsp. carotovorum were reclassified as P. c. subsp. odoriferum. All P. c. subsp. odoriferum isolates were able to cause soft rot symptoms on chicory and potato. Moreover, the symptoms on potatoes were more severe at temperatures from 15 to 37 °C with P. c. subsp. odoriferum isolates than with P. atrosepticum or P. c. subsp. carotovorum isolates. Tissue maceration by P. c. subsp. odoriferum isolates was highest at 28 °C, and at that temperature tissue maceration was two-times greater for P. c. subsp. odoriferum isolates than for P. c. subsp. carotovorum isolates. Symptoms on inoculated chicory leaves were more severe with P. c. subsp. odoriferum (regardless of origin) than with other subspecies or species. To our knowledge, this is the first report that P. c. subsp. odoriferum occurs on a wide range of vegetables and has the ability to cause soft rot during potato storage.     

Characterisation of pectobacterium wasabiae causing blackleg and soft rot diseases in South Africa

Pectolytic bacteria were isolated from potato tubers and stems showing tuber soft rot and blackleg symptoms. Approximately half (52 %) of the isolates could grow at both 27 and 37 °C while another half (48 %) failed to grow at 37 °C. All isolates could be amplified with primers specific to the pectate lyase (pel) gene. Carbon utilisation profiles could not conclusively identify these isolates. PCR amplification using primers specific for Pectobacterium carotovorum subsp. brasiliensis was positive for all isolates that grew at 37 °C. However, the group that did not grow at 37 °C failed to amplify with P. atrosepticum specific primers. To characterise this group of isolates, the intergenic transcribed spacer region (ITS) was amplified and PCR products digested with two restriction enzymes (RsaI and CfoI) to generate ITS-PCR-RFLP profiles. The profiles of these new isolates were compared to those of the type strains of other pectolytic bacteria. Profiles of five of the selected atypical strains generated with the enzyme CfoI appeared to be most similar to those of P. wasabiae type strain. Phylogenetic analysis using concatenated partial gene sequences of housekeeping genes mdh and gapA clustered these isolates together with those of P. wasabiae reference strains thus confirming their identity. These strains were virulent on potato tubers and stems but did not elicit hypersensitive response on tobacco plants. This is the first report of P. wasabiae causing soft rot and blackleg of potatoes in South Africa.     

Characterization and differentiation of soft rot causing Pectobacterium carotovorum of Indian origin

Twenty different strains of Pectobacterium carotovorum (Pcc) were recovered from vegetable-growing fields of Vadodara, Gujarat (India) using a plant host enrichment approach during the years 2006–9. The isolated strains, based on differences in physiological and biochemical features, were classified into five different biovars, and then identified as Pectobacterium carotovorum (Pcc) by species-specific PCR and 16S rDNA sequences. Moreover, these Pcc strains were also differentiated based on virulence traits, plant cell wall degrading enzymes production and phylogenetic analysis of 16S rDNA sequence and Repetitive extragenic palindromic—PCR (rep-PCR). High genetic variability, independent of their pathogenicity, was revealed among these Pcc strains by rep-PCR typing using four different primer sets . Factors other than the plant host specificity seem to correlate with genetic variability of these economically important Pcc strains. Significantly, polyphasic characterization of the Pcc strains clearly reveals the heterogeneity among them. The present studies can be considered as useful epidemiological surveillance (or distribution) of soft rot causing Pcc in the semi arid region of India.     

Virulence of Pectobacterium carotovorum subsp. brasiliense on potato compared with that of other Pectobacterium and Dickeya species under climatic conditions prevailing in the Netherlands

In western Europe, Pectobacterium carotovorum subsp. brasiliense is emerging as a causal agent of blackleg disease. In field experiments in the Netherlands, the virulence of this pathogen was compared with strains of other Dickeya and Pectobacterium species. In 2013 and 2014, seed potato tubers were vacuum infiltrated with high densities of bacteria (10⁶ CFU mL^?1) and planted in clay soil. Inoculation with P. carotovorum subsp. brasiliense and P. atrosepticum resulted in high disease incidences (75–95%), inoculation with D. solani and P. wasabiae led to incidences between 5% and 25%, but no significant disease development was observed in treatments with P. carotovorum subsp. carotovorum, D. dianthicola or the water control. Co‐inoculations of seed potatoes with P. carotovorum subsp. brasiliense and D. solani gave a similar disease incidence to inoculation with only P. carotovorum subsp. brasiliense. However, co‐inoculation of P. carotovorum subsp. brasiliense with P. wasabiae resulted in a decrease in disease incidence compared to inoculation with only P. carotovorum subsp. brasiliense. In 2015, seed potatoes were inoculated with increasing densities of P. carotovorum subsp. brasiliense, D. solani or P. atrosepticum (10³–10⁶ CFU mL^?1). After vacuum infiltration, even a low inoculum density resulted in high disease incidence. However, immersion without vacuum caused disease only at high bacterial densities. Specific TaqMan assays were evaluated and developed for detection of P. carotovorum subsp. brasiliense, P. wasabiae and P. atrosepticum and confirmed the presence of these pathogens in progeny tubers of plants derived from vacuum‐infiltrated seed tubers.     

Soft rot of root chicory in Hokkaido and its causal bacteria

In August 2010, bacterial soft rot was found on root chicory (Cichorium intybus var. sativum) in Hokkaido, Japan. Severely infected plants in fields were discolored, had wilted foliage, and black necrosis of petioles near the crown. Wilted leaves subsequently collapsed and died, forming a dry, brown or black rosette. The root and crown became partially or wholly soft-rotted. Slimy masses on infected areas of roots, turned dark brown or black. Gram-negative, rod-shaped, peritrichously flagellated, facultatively anaerobic bacteria were exclusively isolated from rotted roots, and typical symptoms were reproduced after inoculation with the strains. The bacteria were identified as Dickeya dianthicola, Pectobacterium carotovorum subsp. carotovorum, and Pectobacterium carotovorum subsp. odoriferum based on further bacteriological characterization and the sequence analysis of the malate dehydrogenase gene and 16S rRNA gene. These bacteria should be included with the previously reported Dickeya (=Erwinia) chrysanthemi in Saitama Prefecture, Japan, as causal pathogens of bacterial wilt of chicory.     

Effect of a biofilm‐degrading enzyme from an oral pathogen in transgenic tobacco on the pathogenicity of Pectobacterium carotovorum subsp. carotovorum

The hypothesis that dispersin B (DspB), an enzyme from the periodontal pathogen Aggregatibacter actinomycetemcomitans that degrades the extracellular matrix polysaccharide PGA, will inhibit biofilm formation of the soft rot pathogen Pectobacterium carotovorum subsp. carotovorum in infected plants was tested by constitutive expression of DspB in tobacco plants. All the transgenic plants expressed properly folded and active DspB enzyme, although at different expression levels. In virulence assays, even the transgenic plant line D10, which produced a low level of DspB compared to other lines, showed significant resistance against P. carotovorum subsp. carotovorum, suggesting that DspB could be a valuable agent for biological control of P. carotovorum subsp. carotovorum infection in crop plants.     

In vitro antibacterial activity of nanoemulsion formulation on biofilm,AHL production,hydrolytic enzyme activity,and pathogenicity of Pectobacterium carotovorum sub sp. carotovorum

In the present investigation the in vitro activity of nanoemulsion (AUSN1) was evaluated against the plant pathogen Pectobacterium carotovorum sub sp. carotovorum causing the soft rot disease in numerous horticultural crops. With AUSN1 nanoemulsion treatment, minimum inhibitory concentration (MIC) of 0.09 mg ml⁻¹, minimum bacteriostatic concentration (MBC) of 1.30 mg ml⁻¹ and zone of inhibition of 2.90 cm was observed against P. carotovorum. This formulation was able to reduce the bacterial population by 32.2–51.6%, under biofilm formation condition and a complete elimination of population under normal cultivation conditions. When subjected AUSN1 treatment, reduction in biofilm formation, swarming and swimming motility was observed in P. carotovorum strain and also inhibited the N-acyl homoserine lactones (AHL) activity by 13.27–62.3% and AHL production by 32.4–76.13%. Reduction in exo polysaccharide (EPS) synthesis and hydrolytic enzymes production in P. carotovorum strain was observed due to AUSN1 treatment. Reduced hydrophobicity (36.9–56.4%) and adhesion to polystyrene (22.9–47.5%) and potato tuber surfaces (19.5–46.8%) was observed with AUSN1 treatment. All these collective evidences clearly show that, under laboratory conditions, AUSN1 treatment was able to inhibit the soft root incidence in potato tubers.     

The use of two complementary DNA assays,AFLP and MLSA,for epidemic and phylogenetic studies of pectolytic enterobacterial strains with focus on the heterogeneous species Pectobacterium carotovorum

Amplified fragment length polymorphism (AFLP) markers and multilocus sequence analysis (MLSA) were used to analyse 63 bacterial strains, including 30 soft‐rot‐causing bacterial strains collected from Syrian potato fields and 33 reference strains. For the MLSA, additional sequences of 41 strains of Pectobacterium and Dickeya, available from the NCBI GenBank, were included to produce a single alignment of the 104 taxa for the seven concatenated genes (acnA, gapA, proA, icd, mtlD, mdh and pgi). The results indicate the need for a revision of the previously classified strains, as some potato‐derived Pectobacterium carotovorum strains were re‐identified as P. wasabiae. The strains that were classified as P. carotovorum during the analyses demonstrated high heterogeneity and grouped into five P. carotovorum highly supported clusters (PcI to PcV). The strains represented a wide range of host plants including potatoes, cabbage, avocados, arum lilies, sugar cane and more. Host specificity was detected in PcV, in which four of the six strains were isolated from monocotyledonous plants. The PcV strains formed a clearly distinct group in all the constructed phylogenetic trees. The number of strains phylogenetically classified as subspecies ‘P. c. subsp. brasiliensis’ in PcIV dramatically increased in size as a result of the characterization of new isolates or re‐identification of previous P. carotovorum and P. atrosepticum strains. The P. carotovorum strains from Syria were grouped into PcI, PcII and PcIV. This grouping indicates a lack of correlation between the geographical origin and classification of these pathogens.     

Characterization of <Emphasis Type="Italic">Dickeya</Emphasis> and <Emphasis Type="Italic">Pectobacterium</Emphasis> strains obtained from diseased potato plants in different climatic conditions of Norway and Poland

Soft rot and blackleg of potato caused by pectinolytic bacteria lead to severe economic losses in potato production worldwide. To investigate the species composition of bacteria causing soft rot and black leg of potato in Norway and Poland, bacteria were isolated from potato tubers and stems. Forty-one Norwegian strains and 42 Polish strains that formed cavities on pectate medium were selected for potato tuber maceration assays and sequencing of three housekeeping genes (dnaX, icdA and mdh) for species identification and phylogenetic analysis. The distribution of the species causing soft rot and blackleg in Norway and Poland differed: we have demonstrated that mainly P. atrosepticum and P. c. subsp. carotovorum are the causal agents of soft rot and blackleg of potatoes in Norway, while P. wasabiae was identified as one of the most important soft rot pathogens in Poland. In contrast to the other European countries, D. solani seem not to be a major pathogen of potato in Norway and Poland. The Norwegian and Polish P. c. subsp. carotovorum and P. wasabiae strains did not cluster with type strains of the respective species in the phylogenetic analysis, which underlines the taxonomic complexity of the genus Pectobacterium. No correlation between the country of origin and clustering of the strains was observed. All strains tested in this study were able to macerate potato tissue. The ability to macerate potato tissue was significantly greater for the P. c. subsp. carotovorum and Dickeya spp., compared to P. atrosepticum and P. wasabiae.     

Pectinolytic bacteria associated with potato soft rot and blackleg in South Africa and Zimbabwe

Soft rot and blackleg can cause severe economic losses in potato production in South Africa and Zimbabwe depending on climatic conditions. The aim of the study was to identify the predominant bacteria causing potato soft rot and blackleg in these countries. Samples, comprising of stems and tubers from potato plants with blackleg and soft rot symptoms were collected from 2006?C2009 from potato production areas where disease outbreaks occurred. The isolates from these plants and tubers yielded Gram negative, pectinolytic bacteria on crystal violet pectate and inoculated tubers. Identification was based on biochemical and phenotypic characteristics, rep-PCR, Amplified Fragment Length Polymorphisms and sequences of gyrB and recA genes. Isolates from Zimbabwe were identified as Pectobacterium carotovorum subsp. brasiliensis (Pcb) (21 isolates), Dickeya dadantii subsp. dadantii (Dd) (20 isolates), P. c. subsp. carotovorum (Pcc) (16 isolates) and P. atrosepticum (Pa) (4 isolates). Pcb, Pcc and Dd subsp. dadantii were isolated from samples collected from all the regions, while Pa was isolated from Nyanga the coolest region in Zimbabwe. In South Africa, however, Pcb was the most common causal agent of soft rot and blackleg. P. atrosepticum was the only pathogen isolated from samples collected in Nyanga, Zimbabwe, and was not isolated from any South African samples. AFLP analysis separated the Pcb strains into 12 clusters, reflecting subdivision in terms of geographic origin, and Pcc isolates were clearly differentiated from Pcb isolates. A large degree of DNA polymorphism was evident among these 12 clusters. The study identified all the pathogens associated with the blackleg/soft rot disease complex.     

Characterization of Pectobacterium brasiliense strains from potato and vegetables in Israel

Pectobacterium brasiliense (Pbr) infects a wide range of crops worldwide, causing potato blackleg and soft rot and vegetable soft rots. This study aimed to characterize the genetic diversity and virulence variability among 68 Pbr strains isolated from either symptomless potato progeny tubers, diseased potato plants, ware potatoes wash water, or vegetables grown in Israel, as well as strains isolated from symptomless seed tubers grown in Europe, or diseased potato plants grown in France. The collection was typed using PCR and TaqMan real-time PCR analyses, dnaX sequence analysis, pulsed-field gel electrophoresis (PFGE), and pectolytic activity. dnaX phylogeny grouped almost all strains in a common genetic clade related to Pbr, which was distinct from the other Pectobacterium species. PFGE analysis identified two main clusters, including one major group of 47 strains with 95%–100% similarity. Maceration assays on two potato cultivars showed significant differences between strains but with no correlations with the source of the strains nor the status of the host (with/without symptoms). Molecular (dnaX sequences and PFGE profiles) and phenotypic analyses (tuber maceration tests) showed that the tested Pbr strains are not a homogeneous group. Analysis of the tested Pbr strains isolated from potato and vegetables grown in fields with a history of potato cultivation suggests that seed tubers imported from Europe may be the main source for Pbr in Israel. To the best of our knowledge, this is the first study that describes biodiversity and population structure of P. brasiliense isolated from potato and vegetables under hot climate conditions.     

A pith necrosis caused by Xanthomonas perforans on tomato plants

Pith necrosis is a common disease of tomato in Europe, mainly caused by Pseudomonas corrugata and other soil-borne species of Pseudomonas. During 2011–2012 a survey was conducted in soil-grown tomato crops in southeastern Sicily (Italy). Plants showed pith necrosis, brown discolouration of the vascular tissues, leaf chlorosis and sometimes wilting of leaves. Thirty bacterial isolates from symptomatic tissues, forming colonies on NA and KB, were identified by morphological, biochemical and physiological tests. Among them, seven isolates were analyzed for their 16S rDNA and 16S–23S spacer region sequence that resulted in 99 % identity to that of the Xanthomonas perforans type strain (GenBank accession number GQ46173over 2.085 bp.). Additional sequences of fusA, gapA, gltA, gyrB, lacF, and lepA from one selected isolate were 100% identical to sequences of the Xanthomonas perforans type strain. X. perforans local isolates showed similar genomic patterns with REP-PCR and fAFLP, and were clearly distinguished from other Xanthomonas spp. type strains. In stem-inoculation assays, bacteria isolated from symptomatic tomato plants identified as P. fluorescens, P. putida, P. marginalis, P. citronellolis, P. straminea, and Pantoea agglomerans induced discolouration of vascular tissues, while Pectobacterium carotovorum subsp. atrosepticum isolates induced soft rot. Conversely, the isolates here identified as Xanthomonas perforans were able to induce pith necrosis, vascular discolouration, longitudinal splits and external lesions on stems. This report of X. perforans causing pith necrosis on tomato represents a potentially serious problem that may limit the productivity of tomato crops.     

Present status of bacterial blight in cotton genotypes evaluated at Busia and Siaya counties of Western Kenya

Bacterial blight (BB) incited by Xanthomonas citri subsp. malvacearum (Xcm) is an important bacterial disease occurring in all cotton growing areas throughout the world, including parts of Western Kenya, that are characterized by a hot and humid climate. The disease causes seedling blight, angular leaf spot, boll rot and black arm on petioles and branches leading to a loss of fruiting branches with yield losses of up to 35 %. Fifty- one Kenyan cotton genotypes (Gossypium hirsutum L.) were established in the two counties of Siaya and Busia famous for their cotton cultivation in the western region. The BB symptoms caused by natural Xcm infection in the field were scored for each cotton accession. In addition artificial inoculation with the same strains was done to confirm the status under controlled greenhouse conditions. The results of BB disease scoring revealed that some accessions (e.g. T 24A and T 24B) possess a reasonable level of resistance. However, most of the Kenyan genotypes surveyed showed medium to severe symptoms of BB, including KSA 81 M, the only commercially grown cultivar in the region of Western Kenya. Overall, 71 % of the genotypes showed susceptibility and 29 % were classified as either resistant or moderately resistant. There is therefore need to improve the local commercial genotypes by introducing new genetic resources with a more durable BB resistance to ensure a successful revitalization of the Kenyan cotton sector.     

Characterization of Malaysian Pectobacterium spp. from vegetables using biochemical, molecular and phylogenetic methods

In August 2011, vegetable crops showing symptoms of maceration and water soaked lesions on their tuber, leaf, and fruit were collected from four major vegetable growing states in Malaysia including Pahang, Johor, Melaka and Selangor. The majority of the causal organisms isolated from infected tissues (52 strains) were identified as Pectobacterium spp. based on PCR amplification of the pectate lyase (pel) gene and amplification of the 16S-23S rRNA (ITS) with G1 and L1 primers. Physiological and biochemical assays divided Malaysian Pectobacterium species into two main groups: Pectobacterium wasabiae and Pectobacterium carotovorum subsp carotovorum. Partial sequence of PCR product from reaction of putative Pectobacterium spp. with 16S rRNA confirmed the results obtained from physiological and biochemical assays used for identification of the bacterium. Application of specific primers such as Eca1F/Eca2r, Br1f/L1r, EXPCCF/EXPCCR, and also ITS-PCR following by RFLP by restriction enzyme (RsaI) successfully differentiated Malaysian P. wasabiae and P. carotovorum subsp carotovorum isolates from other species and subspecies of Pectobacterium. Phylogenetic analysis of Malaysian isolates with housekeeping genes (mdh, gapA) grouped Malaysian P. carotovorum subsp carotovorum and P. wasabiae in the same cluster with P. carotovorum subsp carotovorum (Ecc380) and P. wasabiae (SCRI488) respectively.     

萝卜软腐病生防菌株Hy11的筛选、鉴定及定殖特性

为探讨银杏内生细菌对萝卜软腐病的防病作用,通过块根接种和温室盆栽试验筛选对萝卜软腐菌Pectobacterium carotovorum subsp.carotovorum具有高效抑制作用的生防菌株,共获得8株拮抗作用较强的内生细菌,其中菌株Hy11抑菌作用明显.对生防菌株Hy11进行了形态观察、生理生化特性测定、16S rDNA和gyrB基因序列分析,并应用绿色荧光蛋白基因标记菌株Hy11,研究该菌株在萝卜体内的定殖动态.结果显示,该菌株对萝卜软腐病具有较好的防效,对萝卜块根和幼苗的防治效果分别为77.9％和66.7％;对萝卜幼苗的促生率达113.28％.经鉴定,菌株Hy11为解淀粉芽胞杆菌Bacillus amyloliquefaciens.标记菌株Hy11-gfp在喷雾接种银杏叶片后0～3 d种群数量呈急剧下降趋势,10d后保持相对稳定;其在萝卜的根、茎和叶中均能够定殖,在根中的定殖数量最高可达1.2×104 CFU/g.     

Variability among isolates of <Emphasis Type="Italic">Fusarium udum</Emphasis> and the effect on progression of wilt in pigeonpea

Soft rot of Chinese cabbage is a disease of great economic importance to the State of Pernambuco, Brazil. The present study aimed to evaluate the effect of two calcium sources in different concentrations (calcium nitrate [Ca(NO₃)₂] at 0, 0.15 and 0.3 g l^?1 and calcium chloride (CaCl₂) at 0, 1 and 5 g l^?1) that were applied through two methods (leaf spraying and soil drenching) on the control of soft rot. Further, it aimed to analyze calcium absorption by the plant and to determine calcium’s role in leaf and cell structure using microscopy. Ca(NO₃)₂ applied by both methods was effective in controlling soft rot caused by Pectobacterium carotovorum subsp. carotovorum, as it reduced the disease by up to 48.5 % when sprayed onto the leaves (0.15 g l^?1). A significant increase in the leaf calcium content was observed only in the plants that were sprayed with higher doses of Ca(NO₃)₂ and CaCl₂. In all of the calcium treatments, light microscopy analyses revealed an increased number of chloroplasts and improved structuring of the palisade parenchyma, while transmission electron microscopy analyses revealed an increased cell wall thickness that was especially evident for the 0.15 g l^?1 Ca(NO₃)₂ treatment applied by leaf spraying and soil drenching.     

Evaluation of a diagnostic microarray for the detection of major bacterial pathogens of potato from tuber samples

Potato can be infected with many bacterial pathogens, the detection of which is necessary in seed certification. In this study, a diagnostic microarray previously tested for specificity of probes for detecting the potato bacteria causing blackleg and soft rot (Pectobacterium atrosepticum, Pectobacterium carotovorum, and Dickeya spp.), ring rot (Clavibacter. michiganensis subsp. sepedonicus), scab (Streptomyces scabies and Streptomyces turgidiscabies) and brown rot (Ralstonia solanacearum) from pure culture was evaluated for analytical sensitivity when testing directly from tuber samples. The microarray readily detected all the bacterial species when 100 ng of the target bacterial DNA from pure culture was mixed with DNA from soil microbes and potato. However, detection was inconsistent when total DNA isolated directly from infected tubers or enriched bacterial culture was used. While the high specificity of the probes could be confirmed from the results of the DNA cocktail experiment used as a control, the study demonstrated that the level of analytical sensitivity of the microarray under the tested condition was not sufficient to detect bacteria directly from tubers. Therefore, in addition to the cost and organizational complexities, the low analytical sensitivity and limited reproducibility of the microarray are constraints for establishing the platform for routine detection of potato bacterial pathogens from tuber samples.     

Bacterial leaf and peduncle soft rot caused byPectobacterium carotovorum on tulips in Konya, Turkey

The etiology of a new soft rot disease of tulips, causing leaf spots, leaf blight, neck and bulb rot in Konya, Turkey, was investigated. This disease occurred in tulip fields grown for seed bulbs of various varieties in 2002. Bacteria were isolated from the lesions on leaf, bud neck and bulbs and the causal bacterium was identified asPectobacterium carotovorum on the basis of biochemical and physiological tests. Cells were Gram-negative, rod-shaped, fermentative, potato-rot positive. Colonies were capable of growth at 37°C. On nutrient agar the colonies were creamy-white. The isolates were non-fluorescent on King’s B medium, positive for acetoin production, gelatin liquefaction, acid-production-from-lactose, and catalase; and negative for gas from glucose, reducing substances from sucrose, and phosphatase activity. Additionally, tests for egg yolk (lecithin), sensitivity to erythromycin, and pigmentation on yeast dextrose carbonate agar were negative; growth on 5% sodium chloride was positive. All the bacterial isolates obtained from the leaf, bud neck and bulbs produced the original symptoms following inoculation to the susceptible tulip variety ‘Gander’. The rate of damage caused by this bacterium was evaluated on several tulip varieties under field and storage conditions. Gander was the most susceptible variety in the field whereas ‘Salmon Parrot’ exhibited the highest rate of bulb rot in storage. Disease severity was lower in 2003 than 2002. http://www.phytoparasitica.org posting May 14, 2006.