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  • 1
    Online Resource
    Online Resource
    Differential Ability of Genotypes of 2,4-Diacetylphloroglucinol-Producing Pseudomonas fluorescens Strains To Colonize the Roots of Pea Plants
    American Society for Microbiology ; 2002
    In:  Applied and Environmental Microbiology Vol. 68, No. 7 ( 2002-07), p. 3226-3237
    Details
    In: Applied and Environmental Microbiology, American Society for Microbiology, Vol. 68, No. 7 ( 2002-07), p. 3226-3237
    Abstract: Indigenous populations of 2,4-diacetylphloroglucinol (2,4-DAPG)-producing fluorescent Pseudomonas spp. that occur naturally in suppressive soils are an enormous resource for improving biological control of plant diseases. Over 300 isolates of 2,4-DAPG-producing fluorescent Pseudomonas spp. were isolated from the rhizosphere of pea plants grown in soils that had undergone pea or wheat monoculture and were suppressive to Fusarium wilt or take-all, respectively. Representatives of seven genotypes, A, D, E, L, O, P, and Q, were isolated from both soils and identified by whole-cell repetitive sequence-based PCR (rep-PCR) with the BOXA1R primer, increasing by three (O, P, and Q) the number of genotypes identified previously among a worldwide collection of 2,4-DAPG producers. Fourteen isolates representing eight different genotypes were tested for their ability to colonize the rhizosphere of pea plants. Population densities of strains belonging to genotypes D and P were significantly greater than the densities of other genotypes and remained above log 6.0 CFU (g of root) −1 over the entire 15-week experiment. Genetic profiles generated by rep-PCR or restriction fragment length polymorphism analysis of the 2,4-DAPG biosynthetic gene phlD were predictive of the rhizosphere competence of the introduced 2,4-DAPG-producing strains.
    Type of Medium: Online Resource
    ISSN: 0099-2240 , 1098-5336
    URL: Article
    DOI: 10.1128/AEM.68.7.3226-3237.2002
    RVK:
    WA 15000
    Language: English
    Publisher: American Society for Microbiology
    Publication Date: 2002
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  • 2
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    Online Resource
    Comparison of Three Methods for Monitoring Populations of Different Genotypes of 2,4-Diacetylphloroglucinol-Producing Pseudomonas fluorescens in the Rhizosphere
    Scientific Societies ; 2002
    In:  Phytopathology® Vol. 92, No. 2 ( 2002-02), p. 129-137
    Details
    In: Phytopathology®, Scientific Societies, Vol. 92, No. 2 ( 2002-02), p. 129-137
    Abstract: Pseudomonas fluorescens strains producing the antibiotic 2,4-diacetylphloroglucinol (DAPG) have biocontrol activity against a broad spectrum of root and seedling diseases. In this study, we determined the effect of genotype on the ability to isolate and quantify introduced 2,4-DAPG producers from the rhizosphere of wheat using three different methods: traditional dilution plating on selective media, colony hybridization followed by polymerase chain reaction (PCR), and phlD-specific PCR-based dilution endpoint assay. Regression analysis of the population densities of 10 2,4-DAPG-producing P. fluorescens, representing five genotypes, determined by the three different methods demonstrated that the relationship was linear (P 〈 0.001) and the techniques were very similar (i.e., slopes equal to 1.0). The phlD-specific PCR-based assay had a slightly lower limit of detection than the other two methods (log 3.3 versus log 4.0 CFU/g of fresh root weight). With the colony hybridization procedure, we observed that the phlD probe, derived from strain P. fluorescens Q8r1-96, hybridized more strongly to colonies of BOX-PCR genotypes D (strains W2-6, L5.1-96, Q8r1-96, and Q8r2-96) and K (strain F113) compared with strains of genotypes A (Pf-5 and CHA0), B (Q2-87), and L (1M1-96 and W4-4). Colony hybridization alone overestimated the actual densities of some strains, thus requiring an additional PCR step to obtain accurate estimates. In contrast, population densities estimated for three of the bacterial treatments (strains CHA0, W2-6, and Q8r2-96) with the PCR-based assay were significantly (P 〈 0.041) smaller by 7.6 to 9.2% and 6.4 to 9.4% than population densities detected by the dilution plating and colony hybridization techniques, respectively. In this paper, we discuss the relative advantages of the different methods for detecting 2,4-DAPG producers.
    Type of Medium: Online Resource
    ISSN: 0031-949X , 1943-7684
    URL: Article
    DOI: 10.1094/PHYTO.2002.92.2.129
    Language: English
    Publisher: Scientific Societies
    Publication Date: 2002
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  • 3
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    Online Resource
    Tritordeum breads are well tolerated with preference over gluten‐free breads in non‐celiac wheat‐sensitive patients and its consumption induce changes in gut bacteria
    Wiley ; 2021
    In:  Journal of the Science of Food and Agriculture Vol. 101, No. 8 ( 2021-06), p. 3508-3517
    Details
    In: Journal of the Science of Food and Agriculture, Wiley, Vol. 101, No. 8 ( 2021-06), p. 3508-3517
    Abstract: The ingestion of wheat and other cereals are related to several gut disorders. The specific components responsible for non‐celiac wheat‐sensitivity (NCWS) may include gluten and other compounds. Tritordeum is a new cereal derived from crossing durum wheat with a wild barley species, which differs from bread wheat in its gluten composition. In the present work, we examined the response of NCWS patients to tritordeum bread Gastrointestinal symptoms as well as tritordeum acceptability, gluten immunogenic peptides excretion, and the composition and structure of the intestinal microbiota were evaluated. RESULTS Gastrointestinal symptoms of the subjects showed no significant change between the gluten‐free bread and the tritordeum bread. Participating subjects rated tritordeum bread higher than the gluten‐free bread. Analysis of the bacterial gut microbiota indicated that tritordeum consumption does not alter the global structure and composition of the intestinal microbiota, and only a few changes in some butyrate‐producing bacteria were observed. CONCLUSIONS All the results derived from acceptability, biochemical and microbiological tests suggest that tritordeum may be tolerated by a sub‐set of NCWS sufferers who do not require strict exclusion of gluten from their diet. © 2020 Society of Chemical Industry
    Type of Medium: Online Resource
    ISSN: 0022-5142 , 1097-0010
    URL: Issue
    URL: Article
    DOI: 10.1002/jsfa.v101.8
    DOI: 10.1002/jsfa.10982
    Language: English
    Publisher: Wiley
    Publication Date: 2021
    detail.hit.zdb_id: 2001807-1
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  • 4
    Online Resource
    Online Resource
    Minimal changes in rhizobacterial population structure following root colonization by wild type and transgenic biocontrol strains
    Oxford University Press (OUP) ; 2004
    In:  FEMS Microbiology Ecology Vol. 49, No. 2 ( 2004-08), p. 307-318
    Details
    In: FEMS Microbiology Ecology, Oxford University Press (OUP), Vol. 49, No. 2 ( 2004-08), p. 307-318
    Type of Medium: Online Resource
    ISSN: 0168-6496 , 1574-6941
    URL: Article
    DOI: 10.1016/j.femsec.2004.04.005
    RVK:
    WA 15000
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2004
    detail.hit.zdb_id: 1501712-6
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  • 5
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    Online Resource
    Microbial communities associated with the root system of wild olives (Olea europaea L. subsp. europaea var. sylvestris) are good reservoirs of bacteria with antagonistic potential against Verticillium dahliae
    Springer Science and Business Media LLC ; 2011
    In:  Plant and Soil Vol. 343, No. 1-2 ( 2011-6), p. 329-345
    Details
    In: Plant and Soil, Springer Science and Business Media LLC, Vol. 343, No. 1-2 ( 2011-6), p. 329-345
    Type of Medium: Online Resource
    ISSN: 0032-079X , 1573-5036
    URL: Article
    DOI: 10.1007/s11104-011-0721-2
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2011
    detail.hit.zdb_id: 1478535-3
    detail.hit.zdb_id: 208908-7
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  • 6
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    Recent research accomplishments on early detection of Xylella fastidiosa outbreaks in the Mediterranean Basin
    Firenze University Press ; 2023
    In:  Phytopathologia Mediterranea Vol. 61, No. 3 ( 2023-01-13), p. 549-561
    Details
    In: Phytopathologia Mediterranea, Firenze University Press, Vol. 61, No. 3 ( 2023-01-13), p. 549-561
    Abstract: Xylella fastidiosa is a major transboundary plant pest, causing severe socioeconomic impacts. Development of preventive strategies and methods for surveillance, early detection, monitoring, and accurate diagnosis of X. fastidiosa and its vectors, are keys to preventing the effects of this plant pathogen, and assist timely eradication or optimisation of containment measures. This review focuses on approaches for early detection of X. fastidiosa in the Mediterranean Basin, including development of climatic suitability risk maps to determine areas of potential establishment, and epidemiological models to assist in outbreak management through optimized surveillance and targeted responses. The usefulness of airborne hyperspectral and thermal images from remote sensing to discriminate X. fastidiosa infections from other biotic- and abiotic-induced spectral signatures is also discussed. The most commonly used methods for identifying X. fastidiosa in infected plants and vectors, and the molecular approaches available to genetically characterize X. fastidiosa strains, are described. Each of these approaches has trade-offs, but stepwise or simultaneous combinations of these methods may help to contain X. fastidiosa epidemics in the Mediterranean Basin.
    Type of Medium: Online Resource
    ISSN: 1593-2095 , 0031-9465
    URL: Article
    DOI: 10.36253/phyto-14171
    Language: Unknown
    Publisher: Firenze University Press
    Publication Date: 2023
    detail.hit.zdb_id: 2132126-7
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  • 7
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    Online Resource
    Quantitative Modeling of the Effects of Temperature and Inoculum Density of Fusarium oxysporum f. sp. ciceris Races 0 and 5 on Development of Fusarium Wilt in Chickpea Cultivars
    Scientific Societies ; 2007
    In:  Phytopathology® Vol. 97, No. 5 ( 2007-05), p. 564-573
    Details
    In: Phytopathology®, Scientific Societies, Vol. 97, No. 5 ( 2007-05), p. 564-573
    Abstract: Races 0 (Foc-0) and 5 (Foc-5) of Fusarium oxysporum f. sp. ciceris differ in virulence and induce yellowing or wilting syndrome, respectively, in chickpea. We modeled the combined effects of soil temperature and inoculum density of Foc-0 and Foc-5 on disease developed in chickpea cvs. P-2245 and PV-61 differing in susceptibility to those races, using quantitative nonlinear models. Disease development over time in the temperature range of 10 to 30°C and inoculum densities between 6 and 8,000 chlamydospores g −1 of soil was described by the Weibull function. Four response variables (the reciprocal incubation period, the final disease intensity, the standardized area under the disease progress curve, and the intrinsic rate of disease development) characterized the disease development. Response surface models that expressed the combined effect of inoculum density and temperature were developed by substituting the intrinsic rate of disease development in the Weibull or exponential functions with a beta function describing the relationship of response variables to temperature. The models estimated 22 to 26°C as the most favorable soil temperature for infection of cvs. P-2245 and PV-61 by Foc-5, and 24 to 28°C for infection of cv. P-2245 by Foc-0. At 10°C, no disease developed except in cv. P-2245 inoculated with Foc-5. At optimum soil temperature, maximum disease intensity developed with Foc-5 and Foc-0 at 6 and 50 chlamydospores g −1 of soil respectively, in cv. P-2245, and with Foc-5 at 1,000 chlamydospores g −1 of soil in cv. PV-61. The models were used to construct risk threshold charts that can be used to estimate the potential risk of Fusarium wilt epidemics in a geographical area based on soil temperature, the race and inoculum density in soil, and the level of susceptibility of the chickpea cultivar.
    Type of Medium: Online Resource
    ISSN: 0031-949X , 1943-7684
    URL: Article
    DOI: 10.1094/PHYTO-97-5-0564
    Language: English
    Publisher: Scientific Societies
    Publication Date: 2007
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  • 8
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    Online Resource
    Sequence Variation in Two Protein-Coding Genes Correlates with Mycelial Compatibility Groupings in Sclerotium rolfsii
    Scientific Societies ; 2013
    In:  Phytopathology® Vol. 103, No. 5 ( 2013-05), p. 479-487
    Details
    In: Phytopathology®, Scientific Societies, Vol. 103, No. 5 ( 2013-05), p. 479-487
    Abstract: Populations of Sclerotium rolfsii, the causal organism of Sclerotium root-rot on a wide range of hosts, can be placed into mycelial compatibility groups (MCGs). In this study, we evaluated three different molecular approaches to unequivocally identify each of 12 previously identified MCGs. These included restriction fragment length polymorphism (RFLP) patterns of the internal transcribed spacer (ITS) region of nuclear ribosomal DNA (rDNA) and sequence analysis of two protein-coding genes: translation elongation factor 1α (EF1α) and RNA polymerase II subunit two (RPB2). A collection of 238 single-sclerotial isolates representing 12 MCGs of S. rolfsii were obtained from diseased sugar beet plants from Chile, Italy, Portugal, and Spain. ITS-RFLP analysis using four restriction enzymes (AluI, HpaII, RsaI, and MboI) displayed a low degree of variability among MCGs. Only three different restriction profiles were identified among S. rolfsii isolates, with no correlation to MCG or to geographic origin. Based on nucleotide polymorphisms, the RPB2 gene was more variable among MCGs compared with the EF1α gene. Thus, 10 of 12 MCGs could be characterized utilizing the RPB2 region only, while the EF1α region resolved 7 MCGs. However, the analysis of combined partial sequences of EF1α and RPB2 genes allowed discrimination among each of the 12 MCGs. All isolates belonging to the same MCG showed identical nucleotide sequences that differed by at least in one nucleotide from a different MCG. The consistency of our results to identify the MCG of a given S. rolfsii isolate using the combined sequences of EF1α and RPB2 genes was confirmed using blind trials. Our study demonstrates that sequence variation in the protein-coding genes EF1α and RPB2 may be exploited as a diagnostic tool for MCG typing in S. rolfsii as well as to identify previously undescribed MCGs.
    Type of Medium: Online Resource
    ISSN: 0031-949X , 1943-7684
    URL: Article
    DOI: 10.1094/PHYTO-07-12-0151-R
    Language: English
    Publisher: Scientific Societies
    Publication Date: 2013
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  • 9
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    Complete Circularized Genome Resources of Seven Strains of Xylella fastidiosa subsp. fastidiosa Using Hybrid Assembly Reveals Unknown Plasmids
    Scientific Societies ; 2023
    In:  Phytopathology® Vol. 113, No. 6 ( 2023-06), p. 1128-1132
    Details
    In: Phytopathology®, Scientific Societies, Vol. 113, No. 6 ( 2023-06), p. 1128-1132
    Abstract: Xylella fastidiosa is a vascular plant pathogenic bacterium native to the Americas that is causing significant epidemics and economic losses in olive and almonds in Europe, where it is a quarantine pathogen. Since its first detection in 2013 in Italy, mandatory surveys across Europe revealed the presence of the bacterium also in France, Spain, and Portugal. Combining Oxford Nanopore Technologies and Illumina sequencing data, we assembled high-quality complete genomes of seven X. fastidiosa subsp. fastidiosa strains isolated from different plants in Spain, the United States, and Mexico. Comparative genomic analyses discovered differences in plasmid content among strains, including plasmids that had been overlooked previously when using the Illumina sequencing platform alone. Interestingly, in strain CFBP8073, intercepted in France from plants imported from Mexico, three plasmids were identified, including two (plasmids pXF-P1.CFBP8073 and pXF-P2.CFBP8073) not previously described in X. fastidiosa and one (pXF5823.CFBP8073) almost identical to a plasmid described in a X. fastidiosa strain from citrus. Plasmids found in the Spanish strains here were similar to those described previously in other strains from the same subspecies and ST1 isolated in the Balearic Islands and the United States. The genome resources from this work will assist in further studies on the role of plasmids in the epidemiology, ecology, and evolution of this plant pathogen.
    Type of Medium: Online Resource
    ISSN: 0031-949X , 1943-7684
    URL: Article
    DOI: 10.1094/PHYTO-10-22-0396-A
    Language: English
    Publisher: Scientific Societies
    Publication Date: 2023
    detail.hit.zdb_id: 2037027-1
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  • 10
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    Region-Wide Analysis of Genetic Diversity in Verticillium dahliae Populations Infecting Olive in Southern Spain and Agricultural Factors Influencing the Distribution and Prevalence of Vegetative Compatibility Groups and Pathotypes
    Scientific Societies ; 2011
    In:  Phytopathology® Vol. 101, No. 3 ( 2011-03), p. 304-315
    Details
    In: Phytopathology®, Scientific Societies, Vol. 101, No. 3 ( 2011-03), p. 304-315
    Abstract: Severity of Verticillium wilt in olive trees in Andalusia, southern Spain is associated with the spread of a highly virulent, defoliating (D) Verticillium dahliae pathotype of vegetative compatibility group 1A (VCG1A) but the extent of this spread and the diversity of the pathogen population have never been documented. VCG typing of 637 V. dahliae isolates from 433 trees in 65 orchards from five olive-growing provinces in Andalusia indicated that 78.1% were of VCG1A, 19.8% of VCG2A, 0.6% of VCG2B, 1.4% of VCG4B, and one isolate was heterokaryon self-incompatible. A single VCG prevailed among isolates within most orchards but two and three VCGs were identified in 12 and 3 orchards, respectively, with VCG1A+VCG2A occurring in 10 orchards. VCG1A was the predominant VCG in the three most important olive-growing provinces, and was almost as prevalent as VCG2A in another one. Molecular pathotyping of the 637 isolates using specific polymerase chain reaction assays indicated that VCG1A isolates were of the D pathotype whereas isolates of VCG2A, -2B, and -4B were of the less virulent nondefoliating (ND) pathotype. The pathotype of isolates correlated with the disease syndrome affecting sampled trees. Only three (seq1, seq2, and seq4) of the seven known sequences of the V. dahliae-specific 539- or 523-bp amplicon were identified among the 637 isolates. Distribution and prevalence of VCGs and seq sequences among orchards indicated that genetic diversity within olive V. dahliae in Andalusia is higher in provinces where VCG1A is not prevalent. Log-linear analysis revealed that irrigation management, source of irrigation water, source of planting stock, and cropping history of soil were significantly associated with the prevalence of VCG1A compared with that of VCG2A. Multivariate analyses using a selected set of agricultural factors as variables allowed development of a discriminant model for predicting the occurrence of D and ND pathotypes in the area of the study. Blind tests using this model correctly indentified the V. dahliae pathotype occurring in an orchard. The widespread occurrence and high prevalence of VCG1A/D pathotype in Andalusia have strong implications for the management of the disease.
    Type of Medium: Online Resource
    ISSN: 0031-949X , 1943-7684
    URL: Article
    DOI: 10.1094/PHYTO-07-10-0176
    Language: English
    Publisher: Scientific Societies
    Publication Date: 2011
    detail.hit.zdb_id: 2037027-1
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