Identification of<i>Erwinia carotovora</i>from Soft Rot Diseased Plants by Random Amplified Polymorphic DNA (RAPD) Analysis

Parent, Jean-Guy; Lacroix, M.-H.; Pagé, Danièle; Vézina, Louis‐P.; Vegiard, S.

doi:10.1094/pd-80-0494

Cited by 41 publications

(25 citation statements)

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“…RAPD has already been evaluated as a potential tool for the differentiation of individual strains within certain species belonging to the ysubclass of the Proteobacteria (Aznar et al, 1993;Martin-Kearley et al, 1994). However, its differential power for species, strains or even lower clearly depends on the primer used or the combination of results obtained with various primers (Parent et al, 1996). In this investigation, when the M 13 primer was applied, a differentiation from other species could easily be achieved at a correlation value of less than 30%, whereas within the nine isolates highly similar patterns were observed (Fig.…”

Section: Discussionmentioning

confidence: 99%

Carnimonas nigrificans gen. nov., sp. nov., a bacterial causative agent for black spot formation on cured meat products

Garriga

Ehrmann

Arnau

et al. 1998

International Journal of Systematic Bacteriology

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Nine different strains, CTCBSIT to CTCBS9, were identified to be the causative agents of black spots on the surface of raw cured meat products. The formation of black spots under aerobic conditions is reproducible upon reinoculation of meat products with any of these strains, indicating that they are the causative agent. The strains were Gram-negative, catalase-positive and obligately aerobic rods. The G+C content of DNA of strain CTCBSIT is 56.0203 mol%. The content of non-polar main fatty acids were 16:0,16:1,18:1 and 19:0 cyc. Its phylogenetic position was elucidated by comparative sequence analysis of the 165 rRNA gene. Overall sequence similarity to other bacteria does not exceed 93.3 %. Isolate CTCBSIT clustered phylogenetically within the y-subclass of the Proteobacteria and is closely related to members of Halomonas (90.5-91.9 %) and to Zymobacter palmae (93-3 %). A genetic homogeneity of the nine strains was demonstrated by M13 random amplified polymorphic DNA-PCR, whereas differentiation from other genera, e.g. Zymobacter and Pseudomonas, could easily be achieved by their chemotaxonomic characteristics. Taxonomic data revealed the status of a separate genus for which the name Carnimonas gen. nov., sp., nov. is proposed. Despite chemotaxonomic and physiological similarities, the new genus is at present not a member of the family Halomonadaceae because of the lack of two out of 15 descriptive 165 rRNA signature sequences. The first member of the new genus is Carnimonas nigrificans. The use of a specific, 165 rRNA-targeted oligonucleotide primer allowed the identification of all nine strains of C. nigrificans in a PCR assay. Toxicological studies showed no pathogenic potential for C. nigrificans strain CTCBSIT (CECT 44379.

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Section: Discussionmentioning

confidence: 99%

Carnimonas nigrificans gen. nov., sp. nov., a bacterial causative agent for black spot formation on cured meat products

Garriga

Ehrmann

Arnau

et al. 1998

International Journal of Systematic Bacteriology

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“…Studies on the genetic diversity of temperate Rubus species have been carried out, such as R. idaeus (Parent and Fortin 1993, Graham and Mcnicol 1995, Graham et al 1997b) and R. occidentalis (Parent and Page 1998), as well as Asian species (Amsellem et al 2000). These studies used RAPD (Random Amplified Polymorphic DNA), RFLP (Restriction Fragment Lenght polymorphism), and SCAR (Sequence Characterized Amplified Region) markers as well as SSR (Single Sequence Repeats) (Antonius-Klemola 1999).…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity of wild and cultivated Rubus species in Colombia using AFLP and SSR markers

Marulanda¹,

López²,

Aguilar³

2007

CBAB

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-The Andean blackberry belongs to the genus Rubus, the largest of the Rosaceae family and one of the most diverse of the plant kingdom. In Colombia Rubus glaucus Benth, known as the Andean raspberry or blackberry, is one of the nine edible of the genus out of forty-four reported species. In this study wild and cultivated genotypes, collected in the Central Andes of Colombia were analyzed by AFLP and SSR markers. Sexual reproduction seems to play an important role in maintaining the genetic variability in R. glaucus, and the viability of using the SSR of Rubus alceifolius to characterize Colombian Rubus species was clearly demonstrated. All species evaluated produced very specific banding patterns, differentiating them from the others. Both AFLP and SSR produced bands exclusive to each of the following species: R. robustus, R. urticifolius, R. glaucus, and R. rosifolius. The SSR markers differentiated diploid and tetraploid genotypes of R. glaucus.

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“…Nevertheless, in such a case, a RAPD fingerprint is produced from the bacterial DNA, but this pattern is usually nonreproducible, since the selected genomic fragments to be amplified may change from one experiment to another, resulting in different RAPD fingerprints (29). Therefore, by using a set of eight different bacteria (four X. cynarae, two xanthomonad-like bacteria isolated from artichoke but nonpathogenic to this plant, and two other Xanthomonas species), we selected 40 RAPD primers (out of 340 tested) for their ability to produce reproducible fingerprints as in other studies (7,18,21,31,32). Moreover, we took into account only the intensive bands that are highly reproducible (6,9,13,21) when analyzing RAPD fingerprints.…”

Section: Discussionmentioning

confidence: 99%

“…To achieve this goal, we used a two-step strategy. First, the genetic diversity in X. cynarae was assessed by random amplified polymorphic DNA (RAPD) (36) to determine the population structure of X. cynarae, as previously described for many other bacterial species (5,7,10,15,18,21,22,31). Secondly, we selected RAPD markers specific to X. cynarae strains in order to convert them into specific characterized amplified region (SCAR) markers (20) which would be useful in an identification scheme of X. cynarae; as they have proven to be with numerous other pathogenic bacteria (4,9,16,23,24,26).…”

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Assessment of the Genetic Diversity among Strains of Xanthomonas cynarae by Randomly Amplified Polymorphic DNA Analysis and Development of Specific Characterized Amplified Regions for the Rapid Identification of X. cynarae

Trébaol¹,

Manceau

Tirilly³

et al. 2001

Appl Environ Microbiol

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The randomly amplified polymorphic DNA (RAPD) method was used to investigate the genetic diversity in Xanthomonas cynarae, which causes bacterial bract spot disease of artichoke. This RAPD analysis was also intended to identify molecular markers characteristic of this species, in order to develop PCR-based markers which can be used to detect this pathogenic bacterium in artichoke fields. Among the 340 RAPD primers tested, 40 were selected on their ability to produce reproducible and reliable fingerprints in our genetic background. These 40 primers produced almost similar patterns for the 37 X. cynarae strains studied, different from the fingerprints obtained for other Xanthomonas species and other xanthomonad-like bacteria isolated from artichoke leaves. Therefore, X. cynarae strains form a homogeneous genetic group. However, a little DNA polymorphism within this species was observed and the collection of X. cynarae isolates was divided into two groups (one containing three strains, the second one including all other strains). Out of seven RAPD markers characteristic of X. cynarae that were cloned, four did not hybridize to the genomic DNA of strains belonging to other Xanthomonas species. These four RAPD markers were converted into PCR markers (specific characterized amplified regions [SCARs]); they were sequenced, and a PCR primer pair was designed for each of them. Three derived SCARs are good candidates to develop PCR-based tests to detect X. cynarae in artichoke fields.Water-soaked and dark green spots on capitulum bracts of artichoke (Cynara scolymus L.) were observed for the first time in 1954 in Brittany and near Angers (France). Warm and humid periods are favorable for development of this disease, which has been observed in numerous artichoke crops in Brittany and has resulted in substantial economic losses for the last decade. The causal agent of this disease was first isolated by Ridé (25) from such bract spots and was identified as a phytopathogenic bacterium belonging to the genus Xanthomonas (25). It was recently classified at the species level as Xanthomonas cynarae (33). An identification test of X. cynarae was described based on biochemical, physiological, and pathogenicity tests (33). Colonies of X. cynarae are yellow and surrounded with a white halo when grown on a Tween medium (17) and produce the typical symptoms of this disease when inoculated to detached scarified bracts of artichoke. A pathogenicity test is required, since other Xanthomonas species look like X. cynarae when grown on Tween medium. This identification procedure, including pathogenicity tests, was used to monitor bacterial populations in artichoke fields and showed that X. cynarae is present on the leaf surface of artichoke before the capitulum development.A rapid and specific identification test would be very useful to monitor the contamination of artichoke plants in order to develop strategies to control the disease in fields. Since the diagnostic test described above is time consuming and requires, for the pathogenicity t...

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Identification ofErwinia carotovorafrom Soft Rot Diseased Plants by Random Amplified Polymorphic DNA (RAPD) Analysis

Cited by 41 publications

References 0 publications

Carnimonas nigrificans gen. nov., sp. nov., a bacterial causative agent for black spot formation on cured meat products

Carnimonas nigrificans gen. nov., sp. nov., a bacterial causative agent for black spot formation on cured meat products

Genetic diversity of wild and cultivated Rubus species in Colombia using AFLP and SSR markers

Assessment of the Genetic Diversity among Strains of Xanthomonas cynarae by Randomly Amplified Polymorphic DNA Analysis and Development of Specific Characterized Amplified Regions for the Rapid Identification of X. cynarae

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