Comparison of shape analysis methods for Guinardia citricarpa ascospore characterization

Pazoti, Mário Augusto; Garcia, Rogério Eduardo; Pessoa, Jose Dalton Cruz; Bruno, Odemir Martinez

doi:10.2225/vol8-issue3-fulltext-1

Cited by 8 publications

(7 citation statements)

References 6 publications

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“…In order to fully characterise this transition from spore to hypha, a means of distinguishing between these different objects is required. Boundary shape descriptors [48,49] could be utilised in conjunction with the morphological thresholds used in the current study to this end. A means of breaking up clumps of spores in the inoculum, such as sonication, may also help to alleviate the problem.…”

Section: Discussionmentioning

confidence: 99%

Morphological quantification of filamentous fungal development using membrane immobilization and automatic image analysis

Barry¹,

Chan²,

Williams³

2009

J Ind Microbiol Biotechnol

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Mycelial morphology is a critically important process property in industrial fermentations of filamentous micro-organisms, as particular phenotypes are associated with maximum productivity. However, the accurate quantification of complex morphologies still represents a significant challenge in elucidating this relationship. A system has been developed for high-resolution characterisation of filamentous fungal growth on a solid substrate, using membrane immobilization and fully-automatic plug-ins developed for the public domain, Java-based, image-processing software, ImageJ. The system has been used to quantify the microscopic development of Aspergillus oryzae on malt agar, by measuring spore projected area and circularity, the total length of a hyphal element, the number of tips per element, and the hyphal growth unit. Two different stages of growth are described, from the swelling of a population of conidiospores up to fully developed, branched hyphae 24 h after inoculation. Spore swelling expressed as an increase in mean equivalent spore diameter was found to be approximately linear with time. Widespread germination of spores was observed by 8 h after inoculation. From approximately 12 h, the number of tips was found to increase exponentially. The specific growth rate of a population of hyphae was calculated as approximately 0.24-0.27 h(-1). A wide variation in growth kinetics was found within the population. The robustness of the image-analysis system was verified by testing the effect of small variations in the input data.

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Section: Discussionmentioning

confidence: 99%

Morphological quantification of filamentous fungal development using membrane immobilization and automatic image analysis

Barry¹,

Chan²,

Williams³

2009

J Ind Microbiol Biotechnol

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“…Pazoti et al (2005), referring to a paper by Goes (2002), stated that -ascospores are spread not only on short, but also on long distances: the wind can spread it, infecting orchards at kilometres of distance‖. The pycnidiospores are formed into asexual fruiting bodies (pycnidia) on lesions in fruit, twigs and leaf litter.…”

Section: Spread By Natural Meansmentioning

confidence: 99%

Scientific Opinion on the risk of Phyllosticta citricarpa (Guignardia citricarpa) for the EU territory with identification and evaluation of risk reduction options

2014

EFS2

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The Panel conducted a risk assessment of Phyllosticta citricarpa for the EU. P. citricarpa causes citrus black spot (CBS) and is absent from the EU. Under the scenario of absence of specific risk reduction options against P. citricarpa, the risk of entry of P. citricarpa was rated as likely for citrus plants for planting and citrus fruit with leaves, moderately likely for citrus fruit without leaves, unlikely for citrus leaves for cooking and very unlikely for Tahiti lime fruit without leaves. Establishment was rated as moderately likely because susceptible hosts are widely available and environmental conditions in many EU citrus-growing areas are suitable (with high uncertainty) for P. citricarpa ascospore production, dispersal and infection. Current fungicide treatments will not prevent establishment. Environmental favourability is increased by the use of sprinkler and micro-sprinkler irrigation in some EU citrus-growing locations. Spread with trade was rated as moderately likely. Model results indicate that CBS epidemics are most likely to develop in EU citrus-growing areas in late summer to early autumn and in some locations also in late spring to early summer. CBS is expected to affect mainly lemons and late-maturing sweet orange and mandarin varieties, with moderate negative consequences for the production of fresh fruit, but with environmental impact of additional fungicide treatments. Negative consequences would be minor for early-maturing citrus varieties and minimal for citrus for processing. Uncertainty concerning the consequences is high, mainly because of the lack of data on critical climate response parameters for the pathogen but also because information on impact in areas at the limits of the current distribution is scarce. Since eradication and containment are difficult, phytosanitary measures should focus on preventing entry. Current phytosanitary measures are evaluated to be effective, with the exception of pest-free production sites. SUMMARYThe European Commission requested EFSA to prepare a pest risk assessment of the citrus black spot (CBS) fungus Guignardia citricarpa Kiely (all strains pathogenic to Citrus), to identify risk reduction options and to evaluate their effectiveness in reducing the risk to plant health posed by this organism in the EU territory. 4 EFSA was also requested to carry out an evaluation of the effectiveness of the present EU requirements 5 for Guignardia citricarpa in reducing the risk of introduction of this harmful organism into the EU. Furthermore, EFSA was requested to assess the risk associated with Citrus latifolia plants, including fruit, for the entry of this organism into the EU.Following a request from the European Commission, the EFSA's Scientific Panel on Plant Health (PLH) had undertaken in the summer 2013 a public consultation on the draft Scientific Opinion on the risk to plant health of Phyllosticta citricarpa (Guignardia citricarpa) for the EU territory. The comments received during the public consultation were taken into account and the Scientific O...

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“…We only use the magnitude (real part) of the coefficients. From those vectors we get the fibers high‐frequency values since they contain most of the information about finer details of the fibers shape [PGD*05]. In our examples, the resulting features are 30‐dimensional vectors, 10 from each component.…”

Section: Improved Projection Based Approach For the Analysis Of Fimentioning

confidence: 99%

Employing 2D Projections for Fast Visual Exploration of Large Fiber Tracking Data

Poco

Eler

Paulovich³

et al. 2012

Computer Graphics Forum

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Fiber tracts detection is an increasingly common technology for diagnosis and also understanding of brain function. Although tools for tracing and presenting brain fibers are advanced, it is still difficult for physicians or students to explore the dataset in 3D due to their intricate topology. In this work we present a visual exploration approach for fiber tracts data aimed at supporting exploration of such data. The work employs a local, precise and fast 2D multidimensional projection technique that allows a large number of fibers to be handled simultaneously and to select groups of bundled fibers for further exploration. In this approach, a DTI feature dataset, including curvature as well as spatial features, is projected on a 2D or 3D view. By handling groups formed in this view, exploration is linked to corresponding brain fibers in object space. The link exists in both directions and fibers selected in object space are also mapped to feature space. Our approach also allows users to modify the projection, controlling and improving, if necessary, the definition of groups of fibers for small and large datasets, due to the local nature of the projection. Compared to other related work, the method presented here is faster for creating visual representations, making it possible to explore complete sets of fibers tracts up to 250K fibers, which was not possible previously. Additionally, the ability to change configuration of the feature space representation adds a high degree of flexibility to the process.

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Comparison of shape analysis methods for Guinardia citricarpa ascospore characterization

Cited by 8 publications

References 6 publications

Morphological quantification of filamentous fungal development using membrane immobilization and automatic image analysis

Morphological quantification of filamentous fungal development using membrane immobilization and automatic image analysis

Scientific Opinion on the risk of Phyllosticta citricarpa (Guignardia citricarpa) for the EU territory with identification and evaluation of risk reduction options

Employing 2D Projections for Fast Visual Exploration of Large Fiber Tracking Data

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