Specific genomic fingerprints of phytopathogenic Xanthomonas and Pseudomonas pathovars and strains generated with repetitive sequences and PCR

Louws, Frank J.; Fulbright, D. W.; Stephens, C. T.; Bruijn, Frans J. de

doi:10.1128/aem.60.7.2286-2295.1994

Cited by 597 publications

(351 citation statements)

References 62 publications

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“…The ¢ngerprints show a genotypic diversity including 23 di¡erent strains, which stress the avoidance of the enrichment step to pre-vent dominance of a few genotypes as found in other studies [16]. ERIC-PCR ¢ngerprinting has been applied with success on di¡erent soil bacteria and found useful both for diversity studies at low taxonomic levels and for identi¢cation of strains [38,47,48]. This study shows the usefulness of the method on environmental isolates of methanotrophs.…”

Section: Discussionsupporting

confidence: 61%

Isolation of methane oxidising bacteria from soil by use of a soil substrate membrane system

Svenning¹,

Wartiainen²,

Hestnes³

et al. 2003

FEMS Microbiology Ecology

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A new method for isolation of methane oxidising bacteria (methanotrophs) is presented. Soil samples from a wetland area and a landfill were plated on polycarbonate membranes, which were incubated in a methane-air atmosphere using a non-sterile soil suspension as the medium. The membrane acted as a permeable growth support. The membrane method resulted in selective growth conditions, which allowed isolation of methane oxidising bacteria. The method resulted in isolation of both type I and type II methanotrophs from natural wetland and landfill soils. The isolates obtained from the landfill were dominated by type II methanotrophs and included several isolates carrying the gene for soluble methane monooxygenase (sMMO). Repetitive element sequence-based PCR fingerprinting documented genotypic diversity at the strain level. The presented method is a promising tool for easy and rapid isolation of different indigenous methanotrophs from an environment of interest.

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Section: Discussionsupporting

confidence: 61%

Isolation of methane oxidising bacteria from soil by use of a soil substrate membrane system

Svenning¹,

Wartiainen²,

Hestnes³

et al. 2003

FEMS Microbiology Ecology

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“…syringae strains. AP-PCR analysis is a useful tool for distinguishing individual strains within a related taxonomic group and has been used successfully with plant pathogenic bacteria for intrapathovar strain differentiation (Louws et al, 1994;Sundin et al, 1994). In our AP-PCR experiments, DNA fragment patterns were generated, analysed from multiple agarose gels, and a matrix indicating the presence or absence of particular fragments among strains was constructed (data not shown).…”

Section: Uv-b Tolerance Assays Of Phyllosphere Populationsmentioning

confidence: 99%

Functional analysis of the Pseudomonas syringae rulAB determinant in tolerance to ultraviolet B (290–320 nm) radiation and distribution of rulAB among P. syringae pathovars

Sundin

Murillo

1999

Environmental Microbiology

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The effect of the plasmid-encoded rulAB (resistance to ultraviolet radiation) determinant on responses of Pseudomonas syringae to ultraviolet-B (UV-B) radiation and the distribution of rulAB among pathovars of P. syringae were determined. The cloned rulAB determinant and the native rulAB+ plasmid pPSR1 both conferred approximately a 10-fold increase in survival on P. syringae pv. syringae FF5 following increasing doses of UV-B radiation. rulAB+ P. syringae strains also maintained significantly larger epiphytic populations on leaf surfaces irradiated with UV-B. rulAB-insertional mutants, constructed in two native rulAB+ strains, were from 10- to 100-fold more sensitive to UV-B radiation. The UV tolerance phenotype and the rulAB genes were widely distributed among P. syringae pathovars isolated from varied plant hosts throughout the world and within a broad range of genotypic backgrounds of P. syringae pv. syringae. With one exception, the rulAB determinant was harboured on pPT23A-like plasmids; these replicons are indigenous residents of the species P. syringae and also tend to encode determinants of importance in host-pathogen interactions.

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“…DNA ¢ngerprinting was performed on genomic DNA using the conserved primers for repetitive elements, including repetitive extragenic palindromic (REP) [21] and enterobacterial repetitive intergenic consensus (ERIC) sequences and the 154-bp BOX element [22,27,28]. The oligonucleotide primers were synthesized by the Macquarie University Center for Analytical Biotechnology, NSW, Australia.…”

Section: Rep-pcr On P Corrugata Isolatesmentioning

confidence: 99%

“…RFLP analysis has been widely applied to determine genetic variation within a range of plant-associated bacteria [4,16^20]. PCR with primers based on ubiquitous repetitive DNA sequences [21,22] has been used to di¡erentiate strains and to examine phylogenetic relationships amongst strains within a bacterial species.…”

Section: Introductionmentioning

confidence: 99%

Survival of a lacZY-marked strain of Pseudomonas corrugata following a field release

Choi

2003

FEMS Microbiology Ecology

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Pseudomonas corrugata, strain 2140, a biological control agent of take-all disease of wheat, was originally isolated from an acidic redbrown earth soil in New South Wales, Australia. A spontaneous rifampicin-resistant mutant of this bacterium was marked with the disarmed transposon, Tn7: :lacZY. This marked strain (2140RlacZY) was introduced into a calcareous sandy loam soil (pH 8) in South Australia. Up to 4 years after its release, P. corrugata 2140RlacZY cells were re-isolated, single colony purified and stored at 380 ‡C. Reisolated bacteria, including re-isolates obtained 3 (22 re-isolates) and 4 (3 re-isolates) years after release, were examined for stability of the lacZY insert site and for gross chromosomal changes. Hybridization of a cloned lacZY fragment to DNA extracted from the soil reisolates did not reveal any major changes to the lacZY insert site. Gross chromosomal changes were further examined by restriction endonuclease fingerprinting and PCR based on repetitive sequences (repetitive extragenic palindromic-, enterobacterial repetitive intergeneric consensus-and BOX-PCR). MspI digests distinguished the lacZY-marked strain from the parental strain. None of the genetic techniques used revealed any polymorphisms between the original 2140RlacZY-marked strain and the soil re-isolates. The results demonstrated that the chromosomal landscape within and around the insertion site of the lacZY construct had not altered in the reisolated bacteria during the 4 years the organism had been in the field.

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Specific genomic fingerprints of phytopathogenic Xanthomonas and Pseudomonas pathovars and strains generated with repetitive sequences and PCR

Cited by 597 publications

References 62 publications

Isolation of methane oxidising bacteria from soil by use of a soil substrate membrane system

Isolation of methane oxidising bacteria from soil by use of a soil substrate membrane system

Functional analysis of the Pseudomonas syringae rulAB determinant in tolerance to ultraviolet B (290–320 nm) radiation and distribution of rulAB among P. syringae pathovars

Survival of a lacZY-marked strain of Pseudomonas corrugata following a field release

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