Fig. 1: Proteomics informed by transcriptomics (PIT) methodology for R. microplus BME6 cells infected with SFTSV.

BME6 cells were infected at MOI 1 PFU/cell and samples were collected at 3 and 6 d.p.i. a Schematic of the PIT experimental procedure designed for mock and SFTSV-infected BME6 cells (Created in BioRender. Petit, M. (2025) https://BioRender.com/u7ysgw4). b Annotation results for the de novo transcriptome; 16,677 contigs (matching to 5813 genes) were identified by Diamond BLASTx search. With Trinotate search we obtain annotation for 70396 gene isoforms. 15,165 contigs (matching to 3427 genes) identified by ortholog search using EggNOG software and 15,165 contigs identified by Interpro protein domain searches, including 2636 complete genes. c Circo plot illustrating the Rmic18 genome (GCF _013339725.1_ ASM1333972v1). First band, 1, shows Rmic18 ideogram representing the 11 chromosomes of R. microplus. Band 2 shows the repartition of loci on the genome; orange for CDS, blue for gene, pink for pseudogene, green for non-coding RNA, yellow for tRNA, red for CDS with protein, and purple for mRNA. Band 3 represents the 29118 EVM-Pasa annotation generated during our PIT analysis. Band 4 and 5 illustrate annotations at the exon levels (band 4) and the intron levels (band 5). Band 6 represents alignment of peptides against the Rmic18 genome using Exonerate software (see Methods). Scatter plot is used to show the distribution of peptides per loci. d Illustrate genome annotation supported by RNA sequencing and proteomics evidence. RNA sequencing and peptides were aligned to Rmic18 genome. Purple color represents RNA reads, orange peptides identified, dashed orange spliced peptides, and blue known gene structures from Rmic18. A bar graph represents the Differential expression of transcripts and protein comparing mock to SFTSV-infected cells (if available). Source data are provided as a Source data file.