Use of Self-Organizing Map to Analyze Images of Fungi Colonies Grown from<i>Triticum aestivum</i>Seeds Disinfected by Ozone Treatment

Marique, Thierry; Allard, Olivier; Spanoghe, Martin

doi:10.1155/2012/865175

Cited by 13 publications

(8 citation statements)

References 8 publications

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“…150 grains. A general scenario of invigoration of the seeds affected by mycelium is in a good agreement with the ideas in (Raila et al 2006;Marique et al, 2012;Savi et al 2014;Zahoranová et al 2016). Agents of grain fusariosis are well-treated by ozone, and the attributes of their development become less distinguishable as the ozone concentration increases.…”

Section: Resultssupporting

confidence: 86%

“…Ozone inhibits the surface biocontami-Vol. 64, 2018 (1): 34-40 https://doi.org/10.17221/106/2016-RAE nations, but it does not change the capability of the seeds to germinate (Marique et al 2012) and it does not affect the physical and biochemical properties of the seeds (Savi et al 2014). This allows for using ozone for disinfectant treatment of the seeds (Raila et al 2006;Marique et al 2012).…”

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confidence: 99%

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Treatment of spring wheat seeds by ozone generated from humid air and dry oxygen

Lazukin¹,

Serdukov²,

Pinchuk³

et al. 2018

Res. Agric. Eng.

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Lazukin A., Serdukov Y., Pinchuk M., Stepanova O., Krivov S., Syubushkina I. (2018): Treatment of spring wheat seeds by ozone generated from humid air and dry oxygen. Res. Agr. Eng., 64: 34-40.The paper presents an analysis based on conflicting data regarding the results of the treatment of soft spring wheat seeds by ozone generated from humid air and dry oxygen. Morphological characteristics of treated seeds (the length of a sprout, the total length of roots and the sprout-to-root ratio), 7-day germination ability along with the extent of 7-day-old seedlings contamination are considered in terms of ozone concentrations. The experiments were conducted using the wheat seeds of 2013 and 2014 yields. For the same concentrations of ozone, morphological characteristics of treated seeds and efficiency of seed surface treatment changed similarly for both ways of ozone production. However, the efficiency of seeds treatment and stimulation of seeds germination with ozone are not correlated; and the germination ability of the seeds is not changed after ozone treatment.

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Section: Resultssupporting

confidence: 86%

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confidence: 99%

Treatment of spring wheat seeds by ozone generated from humid air and dry oxygen

Lazukin¹,

Serdukov²,

Pinchuk³

et al. 2018

Res. Agric. Eng.

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“…To achieve this, Saguaro utilises a SOM, which is an efficient unsupervised pattern recognition and classification algorithm. SOMs have been used in bioinformatics, including classification of the selectivity of inhibitors [13], image analyses of fungal colonies [14], and transcription factor binding site identification [15]. A feature that distinguishes a SOM from other clustering and classification algorithms is that it models the topology of the input data onto its neurons by reducing the dimensionality of the input space.…”

Section: Introductionmentioning

confidence: 99%

Unsupervised genome-wide recognition of local relationship patterns

et al. 2013

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BackgroundPhenomena such as incomplete lineage sorting, horizontal gene transfer, gene duplication and subsequent sub- and neo-functionalisation can result in distinct local phylogenetic relationships that are discordant with species phylogeny. In order to assess the possible biological roles for these subdivisions, they must first be identified and characterised, preferably on a large scale and in an automated fashion.ResultsWe developed Saguaro, a combination of a Hidden Markov Model (HMM) and a Self Organising Map (SOM), to characterise local phylogenetic relationships among aligned sequences using cacti, matrices of pair-wise distance measures. While the HMM determines the genomic boundaries from aligned sequences, the SOM hypothesises new cacti in an unsupervised and iterative fashion based on the regions that were modelled least well by existing cacti. After testing the software on simulated data, we demonstrate the utility of Saguaro by testing two different data sets: (i) 181 Dengue virus strains, and (ii) 5 primate genomes. Saguaro identifies regions under lineage-specific constraint for the first set, and genomic segments that we attribute to incomplete lineage sorting in the second dataset. Intriguingly for the primate data, Saguaro also classified an additional ~3% of the genome as most incompatible with the expected species phylogeny. A substantial fraction of these regions was found to overlap genes associated with both the innate and adaptive immune systems.ConclusionsSaguaro detects distinct cacti describing local phylogenetic relationships without requiring any a priori hypotheses. We have successfully demonstrated Saguaro’s utility with two contrasting data sets, one containing many members with short sequences (Dengue viral strains: n = 181, genome size = 10,700 nt), and the other with few members but complex genomes (related primate species: n = 5, genome size = 3 Gb), suggesting that the software is applicable to a wide variety of experimental populations. Saguaro is written in C++, runs on the Linux operating system, and can be downloaded from http://saguarogw.sourceforge.net/.

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“…However, only a few studies on crop species have considered the direct effects of O 3 on dry seeds (e.g. Ciccarese et al 2007;Marique et al 2012) and investigated even less its effect on seeds during germination.…”

Section: Discussionmentioning

confidence: 99%

Acute and chronic ozone exposure temporarily affects seed germination in alpine plants

Abeli

Guasconi

Mondoni

et al. 2016

Plant Biosystems - An International Journal Dealing with all As

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This study was the first to investigate the direct effects of anomalous concentrations of ozone mediated by summer heat waves on seed germination in alpine plants. During germination, the seeds were exposed to three peaks of O 3 concentration (125ppb for 5 and 10 days; 185ppb for 5 days), derived from measurements taken close to the species growing site. High O 3 concentration delayed the First Germination Time, increased the Mean Germination Time and reduced the Germination Percentage during and immediately after the treatment, but, in most cases, effects were weak and had almost vanished three weeks after the treatments. In a few cases, chronic exposure to O 3 (125 for 10 days' treatment) enhanced seed germination compared to the control, suggesting that ozone may induce antioxidant and DNA-repair mechanisms or dormancy-breaking effects in hydrated seeds. Although seed mortality increased during O 3 treatments in four species, the effect of O 3 on seed germination is mostly limited to the period of exposure, indicating that it is unlikely to produce permanent negative effects on seeds, during the germination phase. Our results show that the direct effect of O 3 on seeds of alpine plants may have minor impacts on plant reproductive performance during seed germination.

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Use of Self-Organizing Map to Analyze Images of Fungi Colonies Grown fromTriticum aestivumSeeds Disinfected by Ozone Treatment

Cited by 13 publications

References 8 publications

Treatment of spring wheat seeds by ozone generated from humid air and dry oxygen

Treatment of spring wheat seeds by ozone generated from humid air and dry oxygen

Unsupervised genome-wide recognition of local relationship patterns

Acute and chronic ozone exposure temporarily affects seed germination in alpine plants

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