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Article
Open AccessThe Dark Side of the pollen: BSA-seq identified genomic regions linked to male sterility in globe artichoke
Globe artichoke (Cynara cardunculus var. scolymus; 2n = 2x = 34) is a food crop consumed for its immature flower heads. Traditionally, globe artichoke varietal types are vegetatively propagated. However, seed pro...
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Article
Open AccessStructural and expression analysis of polyphenol oxidases potentially involved in globe artichoke (C. cardunculus var. scolymus L.) tissue browning
Globe artichoke capitula are susceptible to browning due to oxidation of phenols caused by the activity of polyphenol oxidases (PPOs), this reduces their suitability for fresh or processed uses. A genome-wide ...
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An Agent-Based Model of COVID-19 Diffusion to Plan and Evaluate Intervention Policies
A model of interacting agents, following plausible behavioral rules into a world where the Covid-19 epidemic is affecting the actions of everyone. The model works with (i) infected agents categorized as sympto...
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Article
Open AccessWhole genome resequencing of four Italian sweet pepper landraces provides insights on sequence variation in genes of agronomic value
Sweet pepper (Capsicum annuum L.) is a high value crop and one of the most widely grown vegetables belonging to the Solanaceae family. In addition to commercial varieties and F1 hybrids, a multitude of landraces ...
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MCSeEd (Methylation Context Sensitive Enzyme ddRAD): A New Method to Analyze DNA Methylation
Methylation context sensitive enzyme ddRAD (MCSeEd) is a NGS-based method for genome-wide investigations of DNA methylation at different contexts requiring only low to moderate sequencing depth. It is particul...
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Article
Transcriptome characterization and expression profiling in chestnut cultivars resistant or susceptible to the gall wasp Dryocosmus kuriphilus
The oriental gall wasp Dryocosmus kuriphilus represents a limiting pest for the European Chestnut (Castanea sativa, Fagaceae) as it creates severe yield losses. The European Chestnut is a deciduous tree, having m...
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Article
Open AccessMethylation content sensitive enzyme ddRAD (MCSeEd): a reference-free, whole genome profiling system to address cytosine/adenine methylation changes
Methods for investigating DNA methylation nowadays either require a reference genome and high coverage, or investigate only CG methylation. Moreover, no large-scale analysis can be performed for N6-methyladenosin...
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Article
Open AccessA chromosome-anchored eggplant genome sequence reveals key events in Solanaceae evolution
With approximately 450 species, spiny Solanum species constitute the largest monophyletic group in the Solanaceae family, but a high-quality genome assembly from this group is presently missing. We obtained a chr...
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Future Prospects
The availability of the genome sequence of globe artichoke and cultivated cardoon, and the development of physical maps in both taxa, have provided new opportunities to study genetic variation between varietal...
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miRNome
MicroRNAs in plants are endogenous small non-coding RNAs involved in many biological processes related to growth, development and stress response, through post-transcriptional silencing of key target genes. On...
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Genome Database (www.artichokegenome.unito.it)
The first high-quality genome assembly of the globe artichoke has been produced within the Compositae Genome Project and the resequencing analyses of four globe artichoke genotypes, representative of the core ...
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Genetics and Breeding
Genetic variation within globe artichoke landraces contributes to the variable yield performance detected in cultivation. It was built up over many generations of vegetative propagation as a consequence of the...
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Genome Resequencing
The first reference genome sequence of the highly heterozygous globe artichoke has been recently released (January 2016, www.artichokegenome.unito.it), organized in 17 p...
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Genome Sequencing of Capsicum Species: Strategies, Assembly, and Annotation of Genes
Pepper (Capsicum spp.) belongs to the Solanaceae, which is an economically important family of flowering plants consisting of about 102 genera and over 2500 species. The Solanaceae family includes crops of agrono...
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Insights into the Population Structure and Association Map** in Globe Artichoke
Understanding the population genetic structure of crop gene pool is a fundamental prerequisite in plant evolutionary biology and plant breeding. Based on this consideration, in this chapter we pursued two main...
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Genomics
A first assembly of globe artichoke genome was released in 2016 and the project required the adoption of a set of strategies to overcome the lack of a homozygous reference genotype. Moreover, the inability to ...
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Article
Open AccessGenomic assessment in Lactobacillus plantarum links the butyrogenic pathway with glutamine metabolism
The butyrogenic capability of Lactobacillus (L.) plantarum is highly dependent on the substrate type and so far not assigned to any specific metabolic pathway. Accordingly, we compared three genomes of L. plantar...
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Article
Open AccessGenome reconstruction in Cynara cardunculus taxa gains access to chromosome-scale DNA variation
The genome sequence of globe artichoke (Cynara cardunculus L. var. scolymus, 2n = 2x = 34) is now available for use. A survey of C. cardunculus genetic resources is essential for understanding the evolution of th...
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Article
Open AccessCorrection: Corrigendum: The genome sequence of the outbreeding globe artichoke constructed de novo incorporating a phase-aware low-pass sequencing strategy of F1 progeny
Scientific Reports 6: Article number: 19427; published online: 20 January 2016; updated: 23 May 2016. In this Article, there are typographical errors in the legend of Figure 5. “(a) Overall distribution of the...
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Article
Open AccessThe genome sequence of the outbreeding globe artichoke constructed de novo incorporating a phase-aware low-pass sequencing strategy of F1 progeny
Globe artichoke (Cynara cardunculus var. scolymus) is an out-crossing, perennial, multi-use crop species that is grown worldwide and belongs to the Compositae, one of the most successful Angiosperm families. We d...
