Careful with That Axe, Gene, Genome Perturbation after a PEG-Mediated Protoplast Transformation in Fusarium verticillioides

Scala, Valeria; Grottoli, Alessandro; Cigliano, Riccardo Aiese; Anzar, Irantzu; Beccaccioli, Marzia; Fanelli, C.; Dall’Asta, Chiara; Battilani, Paola; Reverberi, Massimo; Sanseverino, Walter

doi:10.3390/toxins9060183

Cited by 11 publications

(7 citation statements)

References 37 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…To develop genomic tools for molecular breeding and explore genetic variability for LSL and environmental adaptation traits, we performed genome resequencing of two LSL Italian tomato landraces, namely Corbarino (COR), and Lucariello (LUC). The Reconstructor pipeline (available at http://www.sequentiabiotech.com/omicstools/pipeline/ (October 2017, date last accessed)), 37 which combines iterative variant calling and de novo assembly, was used to generate COR and LUC genome sequences. A similar approach is also implemented in the IMR-DENOM pipeline, which has been used for the genome reconstruction of 18 Arabidopsis accessions (Gan et al 2011).…”

Section: Resultsmentioning

confidence: 99%

Whole-genome re-sequencing of two Italian tomato landraces reveals sequence variations in genes associated with stress tolerance, fruit quality and long shelf-life traits

et al. 2017

Self Cite

View full text Add to dashboard Cite

Tomato is a high value crop and the primary model for fleshy fruit development and ripening. Breeding priorities include increased fruit quality, shelf life and tolerance to stresses. To contribute towards this goal, we re-sequenced the genomes of Corbarino (COR) and Lucariello (LUC) landraces, which both possess the traits of plant adaptation to water deficit, prolonged fruit shelf-life and good fruit quality. Through the newly developed pipeline Reconstructor, we generated the genome sequences of COR and LUC using datasets of 65.8 M and 56.4 M of 30–150 bp paired-end reads, respectively. New contigs including reads that could not be mapped to the tomato reference genome were assembled, and a total of 43, 054 and 44, 579 gene loci were annotated in COR and LUC. Both genomes showed novel regions with similarity to Solanum pimpinellifolium and Solanum pennellii. In addition to small deletions and insertions, 2, 000 and 1, 700 single nucleotide polymorphisms (SNPs) could exert potentially disruptive effects on 1, 371 and 1, 201 genes in COR and LUC, respectively. A detailed survey of the SNPs occurring in fruit quality, shelf life and stress tolerance related-genes identified several candidates of potential relevance. Variations in ethylene response components may concur in determining peculiar phenotypes of COR and LUC.

show abstract

Section: Resultsmentioning

confidence: 99%

Whole-genome re-sequencing of two Italian tomato landraces reveals sequence variations in genes associated with stress tolerance, fruit quality and long shelf-life traits

et al. 2017

Self Cite

View full text Add to dashboard Cite

show abstract

“…For qPCR, lyophilized germinated seedlings were ground in a blender with liquid nitrogen. Total genomic DNAs were extracted from 30 mg of material employing the 3-CTAB method as previously described [ 59 ]. DNA concentration was assessed with the Nanodrop spectrophotometer (Thermo Fisher Scientific, Waltham, MA, USA) and confirmed by agarose gel electrophoresis.…”

Section: Methodsmentioning

confidence: 99%

The Effect of Fusarium verticillioides Fumonisins on Fatty Acids, Sphingolipids, and Oxylipins in Maize Germlings

Beccaccioli

Salustri

Scala

et al. 2021

IJMS

Self Cite

View full text Add to dashboard Cite

Fusarium verticillioides causes multiple diseases of Zea mays (maize) including ear and seedling rots, contaminates seeds and seed products worldwide with toxic chemicals called fumonisins. The role of fumonisins in disease is unclear because, although they are not required for ear rot, they are required for seedling diseases. Disease symptoms may be due to the ability of fumonisins to inhibit ceramide synthase activity, the expected cause of lipids (fatty acids, oxylipins, and sphingolipids) alteration in infected plants. In this study, we explored the impact of fumonisins on fatty acid, oxylipin, and sphingolipid levels in planta and how these changes affect F. verticillioides growth in maize. The identity and levels of principal fatty acids, oxylipins, and over 50 sphingolipids were evaluated by chromatography followed by mass spectrometry in maize infected with an F. verticillioides fumonisin-producing wild-type strain and a fumonisin-deficient mutant, after different periods of growth. Plant hormones associated with defense responses, i.e., salicylic and jasmonic acid, were also evaluated. We suggest that fumonisins produced by F. verticillioides alter maize lipid metabolism, which help switch fungal growth from a relatively harmless endophyte to a destructive necrotroph.

show abstract

“…In addition to the subculturing process, the simple in vitro growth on different artificial media can influence conidial germination, growth, and virulence of fungal pathogens [72][73][74]. The in vitro growth on artificial media could also induce genetic modifications, as already demonstrated for a F. verticillioides strain subject to a subculturing process, in which the accumulation of about 14 genetic variants was observed [75]. The present work also shows that consecutive in vitro subcultures of F. graminearum caused a considerable decline of conidiation passing from SC1 to SC50, confirming previous studies on B. bassiana, M. anisopliae, and Metarhizium brunneum strains [76,77].…”

Section: Discussionmentioning

confidence: 99%

Identification of Putative Virulence Genes by DNA Methylation Studies in the Cereal Pathogen Fusarium graminearum

Tini

Beccari

Marconi

et al. 2021

Cells

View full text Add to dashboard Cite

DNA methylation mediates organisms’ adaptations to environmental changes in a wide range of species. We investigated if a such a strategy is also adopted by Fusarium graminearum in regulating virulence toward its natural hosts. A virulent strain of this fungus was consecutively sub-cultured for 50 times (once a week) on potato dextrose agar. To assess the effect of subculturing on virulence, wheat seedlings and heads (cv. A416) were inoculated with subcultures (SC) 1, 23, and 50. SC50 was also used to re-infect (three times) wheat heads (SC50×3) to restore virulence. In vitro conidia production, colonies growth and secondary metabolites production were also determined for SC1, SC23, SC50, and SC50×3. Seedling stem base and head assays revealed a virulence decline of all subcultures, whereas virulence was restored in SC50×3. The same trend was observed in conidia production. The DNA isolated from SC50 and SC50×3 was subject to a methylation content-sensitive enzyme and double-digest, restriction-site-associated DNA technique (ddRAD-MCSeEd). DNA methylation analysis indicated 1024 genes, whose methylation levels changed in response to the inoculation on a healthy host after subculturing. Several of these genes are already known to be involved in virulence by functional analysis. These results demonstrate that the physiological shifts following sub-culturing have an impact on genomic DNA methylation levels and suggest that the ddRAD-MCSeEd approach can be an important tool for detecting genes potentially related to fungal virulence.

show abstract

Careful with That Axe, Gene, Genome Perturbation after a PEG-Mediated Protoplast Transformation in Fusarium verticillioides

Cited by 11 publications

References 37 publications

Whole-genome re-sequencing of two Italian tomato landraces reveals sequence variations in genes associated with stress tolerance, fruit quality and long shelf-life traits

Whole-genome re-sequencing of two Italian tomato landraces reveals sequence variations in genes associated with stress tolerance, fruit quality and long shelf-life traits

The Effect of Fusarium verticillioides Fumonisins on Fatty Acids, Sphingolipids, and Oxylipins in Maize Germlings

Identification of Putative Virulence Genes by DNA Methylation Studies in the Cereal Pathogen Fusarium graminearum

Contact Info

Product

Resources

About