Author Readme: Führer; Laura Date Readme: 2025-12-18 ______________________________ Titel: Supplementary data to the publication: Genomic factors contributing to the resilience of Salmonella enterica on ready-to-eat muskmelon", Esteban-Cuesta, Irene; Führer, Laura; Porwollik, Steffen; Chu, Weiping; Fiddaman, Steven R.; Sah, Irmak; McClelland, Michael; Guldimann, Claudia, Food Microbiology (2026), https://doi.org/10.1016/j.fm.2025.104947 Location of data collection: Munich, Bavaria, Germany Version: 1.0 Corresponding Author: Irene Esteban-Cuesta, e-mail: Irene.Esteban@ls.vetmed.uni-muenchen.de, Competence Center for Food Safety, Chair of Food Safety and Analytics, Veterinary Faculty, LMU Munich, Oberschleissheim, Germany ______________________________ Authors: Irene Esteban-Cuesta, Competence Center for Food Safety, Chair of Food Safety and Analytics, Veterinary Faculty, LMU Munich, Oberschleissheim, Germany Laura Führer, Competence Center for Food Safety, Chair of Food Safety and Analytics, Veterinary Faculty, LMU Munich, Oberschleissheim, Germany Steffen Porwollik, Department of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, CA, United States of America Weiping Chu, Department of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, CA, United States of America Steven R. Fiddaman, The Pirbright Institute, Ash Rd, Pirbright, Woking, UK; Department of Biology, University of Oxford, Oxford, UK Irmak Sah, Competence Center for Food Safety, Chair of Food Safety and Analytics, Veterinary Faculty, LMU Munich, Oberschleissheim, Germany Michael McClelland, Department of Microbiology and Molecular Genetics, School of Medicine, University of California, Irvine, CA, United States of America Claudia Guldimann, Competence Center for Food Safety, Chair of Food Safety and Analytics, Veterinary Faculty, LMU Munich, Oberschleissheim, Germany ______________________________ Project name: Genomic factors contributing to the resilience of Salmonella enterica on ready-to-eat muskmelon ______________________________ Abstract: Illumina Sequencing FASTQ files to the publication: Genomic factors contributing to the resilience of Salmonella enterica on ready-to-eat muskmelon. Esteban-Cuesta, Irene; Führer, Laura; Porwollik, Steffen; Chu, Weiping; Fiddaman, Steven R.; Sah, Irmak; McClelland, Michael; Guldimann, Claudia; Food Microbiology (2026); https://doi.org/10.1016/j.fm.2025.104947 Salmonella outbreaks have repeatedly been associated with muskmelons. To identify genes under selection in S. enterica growing in this food matrix, barcoded transposon mutant libraries in three S. enterica serovars - Typhimurium, Enteritidis, and Newport - were screened for survival and growth on muskmelon. Applying stringent thresholds, a total of 26 genes in Typhimurium, 34 in Enteritidis, and 50 in Newport were found to significantly influence fitness during muskmelon interaction, with many of these being temperature dependent. Genes whose disruption affected fitness across all three serovars were enriched for functions related to RNA degradation and ribosome biogenesis. Targeted competition assays confirmed the contribution of selected genes, revealing nutrient-dependent phenotypes for most mutants. Remarkably, the polyribonucleotide nucleotidyltransferase gene, pnp, and the D-3-phosphoglycerate dehydrogenase gene, serA, conferred a selective advantage when growing in muskmelon but not under nutrition-rich control conditions. In contrast, the nitrogen regulation response regulator GlnG provided a muskmelon-specific fitness disadvantage. This study provides novel insights into genome-wide adaptation mechanisms of multiple Salmonella serovars to growth on muskmelons, revealing both shared and serovar-specific determinants while illustrating the dynamic genetic responses of S. enterica throughout the interaction period. Keywords: Transposon insertion sequencing, Salmonellosis, Microbial contamination, Transposon library, Food safety Method of data collection: Illumina sequencing was performed as a dual-indexed paired-end 50, 100 or 150-base run on a NovaSeq 6000 with at least one million reads/sample. _____________________________ Files: The files are sorted by the primers used and the dates on which the Illumina sequencing was performed. The download includes a sample key with samples and their corresponding file names. File format: FASTQ ______________________________ Funding: The project was funded by the German Research Foundation (Deutsche Forschungsgemeinschaft, DFG). Grant No. 494875429.