Prideapplication/xmlftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075610/report.pr_matrix.tsvftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075610/report.pg_matrix.tsvftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075610/checksum.txtftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075610/R73S1BA_scapho101125.rawftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075610/St_holobiont_proteomeDB.fastaftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075610/report.parquetftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/06/PXD075610/report-lib.predicted.speclibprimary200OKsimona.abba@cnr.itSimona AbbàMass SpectrometryData-independent acquisitionYeast-like symbiontInsectFlavescence doréeMicrobiomehttps://www.ebi.ac.uk/pride/archive/projects/PXD075610Whole BodyTotal proteins were extracted from a pool of 26 adult insects homogenized in liquid nitrogen. The powder was resuspended in 1 mL of RX buffer (0.1% Triton X-100, 100 mM KCl, 3 mM NaCl, 3.5 mM MgCl2, 1.25 mM EGTA, and 10 mM Hepes, pH 7.3) and subjected to sonication followed by centrifugation at 13,000 rpm. Proteins were purified via methanol/chloroform/water precipitation and quantified using the 2-D Quant Kit (Cytiva) adapted for a Tecan Infinite M Nano reader. For the analytical phase, 100 µg aliquots were reduced with dithiothreitol, alkylated with iodoacetamide, and processed through in-solution tryptic digestion. The resulting peptide mixtures were desalted using polymeric SPE cartridges and reconstituted in aqueous formic acid/acetonitrile for high-resolution mass spectrometry. Analysis was performed on an Orbitrap Q Exactive Plus system coupled to UHPLC, utilizing a Luna C18 stationary phase (150×1 mm, 3 µm). Data acquisition followed a data-independent acquisition (DIA) strategy with full MS scans at 70,000 resolution and MS2 scans at 17,500 resolution, utilizing a series of 22 variable isolation windows ranging from 21 to 51 m/z.PrideNot availableDIA raw files were analyzed using DIA-NN (version 2.2.0) with a spectral library generated from a custom proteome database. An FDR of 1% was applied at both the precursor and protein group levels. Proteins were digested in silico using trypsin with up to one missed cleavage allowed. Peptides ranging from 7 to 30 amino acids in length and carrying charge states of +1 to +4, and within a precursor m/z range of 275–975 were considered for analysis. Carbamidomethylation of cysteine residues was set as a fixed modification. An in silico spectral library was generated using deep learning–based prediction of MS/MS spectra and peptide retention times. Data analysis was performed using the “Generic” scoring function. Protein inference was conducted in the “Protein names (from FASTA)” mode with neural network–based, cross-validated machine learning enabled. Regarding the protein database, protein identifiers beginning with “Eva” were derived from the Euscelidius variegatus genome, whereas those beginning with “sulcia” correspond to proteins from the Candidatus Karelsulcia muelleri Eva_TO strain identified in E. variegatus. Identifiers beginning with “ophio” represent proteins predicted from the newly sequenced StYLS. Proteins with GenBank accession numbers starting with “XP_” originate from the Macrosteles quadrilineatus genome, whereas identifiers beginning with “AXI” correspond to proteins from the Cardinium endosymbiont of Sogatella furcifera. All other codes were derived from the transcriptomic data of the Scaphoideus titanus holobiont and may therefore originate from the insect host as well as from its associated primary and secondary endosymbionts.ProteomicsSimona AbbàIstituto per la Protezione Sostenibile delle Piante, Consiglio Nazionale delle Ricerche, IPSP-CNR, Strada delle Cacce 73, 10135 Turin, ItalyPARTIALScaphoideus TitanusNot availablesimona.abba@cnr.itNational Research Council of Italy - Institute for Sustainable Plant Protection, CNR-IPSPItalyfalseProteomic analysis of the Scaphoideus titanus holobiontThis study aims to characterize the proteome of the yeast-like symbiont (YLS) within its insect host, the leafhopper Scaphoideus titanus, which is the primary vector of Flavescence dorée phytoplasma in grapevines. This data provides insight into the metabolic contributions and functional role of the YLS within the S. titanus holobiont.2026-06-262026-03-13PXD075610NEWT:1773NEWT:3555NEWT:38783NEWT:1182590NEWT:2NEWT:10090NEWT:935293NEWT:749200NEWT:35554NEWT:4120NEWT:5693NEWT:347515NEWT:1216979NEWT:307972NEWT:92867NEWT:990346NEWT:544496NEWT:5334NEWT:145953NEWT:257309NEWT:284812NEWT:115104NCBITaxon:1313NEWT:43330NEWT:67825NEWT:44544NEWT:13076NEWT:373995NEWT:544404NEWT:3702NEWT:8839NEWT:4232NEWT:990119NEWT:1736309NEWT:4113NEWT:7227NEWT:11298NEWT:7469NEWT:885318NEWT:171101NEWT:4081NEWT:876138NEWT:554NEWT:5691NEWT:408170NEWT:260710NEWT:106592NEWT:237561NEWT:9913NEWT:10036NEWT:4100NEWT:7574NEWT:1351NEWT:1076NEWT:6763NEWT:7215NEWT:803NEWT:8030NEWT:380394NEWT:272563NEWT:507601NEWT:1639NEWT:188229NEWT:4909NCBITaxon:79857NEWT:746360NEWT:6239NEWT:1589NEWT:135588NEWT:135622NEWT:216257NEWT:6915NEWT:9986NEWT:101510NEWT:95486NEWT:3880NEWT:58002NEWT:9103NEWT:4577NEWT:5664NEWT:2157NEWT:146479NEWT:1000589NEWT:145943NEWT:85962NEWT:160488NEWT:317447NEWT:3635NEWT:7955NCBITaxon:2NEWT:235443NEWT:985076NEWT:7959NEWT:2261NEWT:3197NEWT:9615NEWT:884019NEWT:4565NEWT:1264690NEWT:169963NCBITaxon:38727NEWT:36329NEWT:34305NEWT:59729NCBITaxon:183674NEWT:224308NEWT:626528NEWT:139927NEWT:4558NEWT:9606NEWT:367830NEWT:243230NEWT:931281NEWT:373153NEWT:7029NEWT:1283300NEWT:334747NEWT:470NCBITaxon:79824NCBITaxon:4563NEWT:3218NEWT:5759NEWT:9838NCBITaxon:9615NEWT:1736231NEWT:1193501NEWT:6287NEWT:2242NEWT:6326NEWT:9796NEWT:2762NEWT:5476NEWT:562NEWT:260707NEWT:287NEWT:10117NEWT:10239NEWT:10116NEWT:1280NEWT:1836NEWT:1735272NEWT:29760NEWT:260705NEWT:80863NEWT:1148NEWT:4932NEWT:70448NEWT:9825NEWT:3603NEWT:698936NEWT:2759NEWT:39946NEWT:11676NEWT:9823NEWT:100226NCBITaxon:6073NEWT:4530NEWT:4896NEWT:6279NEWT:7370NEWT:573NEWT:6282NEWT:7091NEWT:11345060000-0001-9345-5407