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Rewiring of the Euscelidius variegatus Proteome in Response to Flavescence dorée: Insights from DDA/DIA Mass Spectrometry and de novo Genome Assembly

ABSTRACT: This study delivers the first comprehensive proteomic characterization of the insect vector Euscelidius variegatus following the acquisition of Flavescence dorée phytoplasma. Flavescence Dorée (FD) is a quarantine disease that leads to severe vine decline and yield reduction in vineyards across Europe. By integrating newly generated genomic resources with advanced data-dependent acquisition (DDA) and data-independent acquisition (DIA) mass spectrometry data, we systematically investigated the intricate molecular interactions underpinning the tripartite relationship among the insect host, its microbiome, and the phytoplasma pathogen.

INSTRUMENT(S):

ORGANISM(S): Euscelidius Variegatus

TISSUE(S): Whole Body

SUBMITTER: Simona Abbà

LAB HEAD: Simona Abbà

PROVIDER: PXD066715 | Pride | 2026-01-19

REPOSITORIES: Pride

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Dataset's files

Source:

			Action	DRS
	DDA_mzTab.mzTab	Mztab
	DDA_proteinGroups.txt	Txt
	DIA_report.pg_matrix.tsv	Tabular
	DIA_report.tsv	Tabular
	R49S13BA_221124.raw	Raw

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1 - 5 of 22

Publications

Rewiring the proteome of the Euscelidius variegatus holobiont in response to Flavescence dorée phytoplasma.

Abbà Simona S Vallino Marta M Cirrincione Simona S Lamberti Cristina C Aiuto Beatrice B Romaniello Francesco F Galetto Luciana L Marzachì Cristina C Bosco Domenico D Rossi Marika M

Scientific reports 20251204 1

The leafhopper Euscelidius variegatus is a laboratory vector of the phytoplasma associated to Flavescence dorée, a severe grapevine disease that threatens viticulture in Europe. Transcriptomic studies have already provided valuable insights into the mechanisms of insect-phytoplasma interactions, but proteomics can offer immediate insights into the cellular functions and metabolic adaptations of the insect and its microbiome to the presence of this plant bacterium. Here, the generation of new gen ...[more]

PMID: 41345534

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Grapevine comparative early transcriptome profiling reveals that Flavescence dorée phytoplasma represses plant responses induced by vector feeding in susceptible varieties

Project description:Flavescence dorée is the most serious grapevine yellows disease in Europe. It is caused by phytoplasmas which are transmitted from grapevine to grapevine by the leafhopper Scaphoideus titanus. Differences in susceptibility among grapevine varieties suggest the existence of specific genetic features associated with resistance to the phytoplasma and/or possibly with its vector. In this work, RNA-Seq was used to compare early transcriptional changes occurring during the three-trophic interaction between the phytoplasma, its vector and the grapevine, represented by two different cultivars, one very susceptible to the disease and the other scarcely susceptible. Background: Flavescence dorée is the most serious grapevine yellows disease in Europe. It is caused by phytoplasmas which are transmitted from grapevine to grapevine by the leafhopper Scaphoideus titanus. Differences in susceptibility among grapevine varieties suggest the existence of specific genetic features associated with resistance to the phytoplasma and/or possibly with its vector. In this work, RNA-Seq was used to compare early transcriptional changes occurring during the three-trophic interaction between the phytoplasma, its vector and the grapevine, represented by two different cultivars, one very susceptible to the disease and the other scarcely susceptible. The comparison of the transcriptomic responses highlighted both passive and active defense mechanisms against the vector and/or the pathogen in the scarcely-susceptible variety, as well as the capacity of the phytoplasmas to repress the defense reaction against the insect in the susceptible variety.

2019-06-13 | E-MTAB-7710 | biostudies-arrayexpress

Digital gene expression (DGE) of PaWB phytoplasma-infected Paulownia witches

Project description:Here we performed a transcriptomic study on PaWB phytoplasma-infected Paulownia sp. using Solexa/IlluminaM-bM-^@M-^Ys high-throughput digital gene expression (DGE) system. 4 DGE libraries (from 2 virus-infected samples and 2 healthy samples) were constructed, and the gene expression variations between the PaWB phytoplasma-infected (diseased) sample and the corresponding healthy sample were compared. Thousands of differentially expressed genes were obtained by the comparison, and KEGG pathway analysis of these genes suggested that many biological processes were responded to PaWB infection. To investigate the response of Paulownia sp. to PaWB infection, we collected four samples in two groups, namely the tissue cultured group (containing healthy sample TH and diseased sample TD) and field-grown group (containing healthy sample FH and diseased sample FD). Four individual tag libraries from these samples were constructed in parallel. For the gene expression analysis, the digital gene expression (DGE) data of diseased sample were compared to that of healthy sample in each group to obtain the gene expression variations.

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Functional analysis of phytoplasma effectors in Vitis vinifera pathogenesis

Project description:The aim of the experiment was to identify important protein targets of phytoplasma infection, by isolation of plant proteins, interacting with phytoplasma effectors. Nicotiana benthamiana plants were transformed with YFP (Yellow Fluorescent Protein) tagged phytoplasma effector PoStoSP28, the leaves of transformed plants were homogenized and the effector was extracted together with its interactors through the YFP tag with a pull-down assay. As a control, the same procedure was performed with mock transformed plants and the samples analyzed with mass spectrometry.

2023-10-24 | PXD015374 | Pride

De Novo Sequencing of Polyclonal Antibodies by Integrating Intact Mass, Top-Down and Bottom-Up Mass Spectrometry

Project description:Antibodies are specialized proteins produced by the adaptive immune system to identify and neutralize harmful antigens. Antibody-based diagnostics and therapeutics have advanced rapidly, with recombinant antibodies derived from monoclonal antibodies (mAbs) becoming the preferred standard due to their high reproducibility and effectiveness. However, mAbs are limited to binding a single antigen epitope. Polyclonal antibodies (pAbs), on the other hand, are produced by multiple B cells and can target multiple epitopes, making them more robust against antigen variations. Despite their advantages, pAbs are notoriously challenging to sequence due to their high complexity. Current de novo sequencing methods based on mass spectrometry have shown limitations when applied to pAb mixtures, often requiring germline databases or yielding incomplete or inaccurate sequences. Here we propose PolySeq, a fully de novo sequencing workflow that integrates bottom-up, top-down, and intact mass spectrometry data to accurately sequence pAb samples without relying on external databases. Our workflow automates the entire sequencing process from peptides to full proteins, achieving complete and accurate antibody profiles. Evaluation results on a mixture of four known mAbs and a pAb sample derived from mouse myeloma demonstrate that our de novo antibody sequences achieved up to 100% coverage and accuracy, with strong supporting evidence from bottom-up, top-down, and intact mass data. Furthermore, antibodies recombinantly expressed using de novo sequencing results showed expected properties, such as binding affinity and antigen neutralization, thus confirming the accuracy and efficacy of our pAb de novo sequencing workflow.

2025-10-31 | PXD063526 | Pride

ChIP-seq analysis of the Cib1 transcription factor with and without clp1 overexpression.

Project description:For ChIPseq analyses JB1 and UVO151 (JB1 Pcrg:clp1) were transformed with a Cib1-3xHA fusion construct was expressed under control of the endogenous promoter. The fusion construct was integrated at the endogenous locus replacing the native Cib1 gene.

2019-04-04 | E-MTAB-7460 | biostudies-arrayexpress

phytoplasma in plants vs. phytoplasma in insects (single hyb expts)

Project description:Transcriptional profiling of phytoplasma grown in plant (Chrysanthemum coronarium) and grown in insect (Macrosteles striifrons). Two-condition experiment, phytoplasma-infected plant and phytoplasma-infected insect. Biological replicates: 4 phytoplasma-infected plants and 4 phytoplasma-infected insects, independently grown and harvested. One replicate per array.

2012-01-16 | E-GEOD-29274 | biostudies-arrayexpress

phytoplasma in plants vs. phytoplasma in insects (co-hybridizations)

Project description:Transcriptional profiling of phytoplasma grown in plant (Chrysanthemum coronarium) and grown in insect (Macrosteles striifrons). Two-condition experiment, phytoplasma-infected plant and phytoplasma-infected insect. Biological replicates: 6 phytoplasma-infected plants and 6 phytoplasma-infected insects, independently grown and harvested. One replicate per array.

2012-01-16 | E-GEOD-30302 | biostudies-arrayexpress

'Bois noir' phytoplasma induces significant reprogramming of the leaf transcriptome in the field grown grapevine

Project description:Transcriptional profiling of Vitis vinifera cv. Chardonnay healthy vs. Phytoplasma-infected plants (Bois noir phytoplasma). Study was conducted on grapevine plants grown in the same vineyard (leaf midribs were sampled). Keywords: disease state analysis

2008-03-21 | GSE10906 | GEO

Transcriptional changes of phytoplasma under host switching between plant and insect

Project description:This SuperSeries is composed of the following subset Series: GSE29274: phytoplasma in plants vs. phytoplasma in insects (single hyb expts) GSE30302: phytoplasma in plants vs. phytoplasma in insects (co-hybridizations) Refer to individual Series

2012-01-16 | E-GEOD-30804 | biostudies-arrayexpress

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2023-08-11 | GSE213754 | GEO

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