{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Galanti D"],"funding":["Deutsche Forschungsgemeinschaft","Horizon 2020 Framework Programme"],"pagination":["RP95510"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC11658765"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["13"],"pubmed_abstract":["Understanding the genomic basis of natural variation in plant pest resistance is an important goal in plant science, but it usually requires large and labor-intensive phenotyping experiments. Here, we explored the possibility that non-target reads from plant DNA sequencing can serve as phenotyping proxies for addressing such questions. We used data from a whole-genome and -epigenome sequencing study of 207 natural lines of field pennycress (<i>Thlaspi arvense</i>) that were grown in a common environment and spontaneously colonized by aphids, mildew, and other microbes. We found that the numbers of non-target reads assigned to the pest species differed between populations, had significant SNP-based heritability, and were associated with climate of origin and baseline glucosinolate contents."],"journal":["eLife"],"pubmed_title":["Discarded sequencing reads uncover natural variation in pest resistance in <i>Thlaspi arvense</i>."],"pmcid":["PMC11658765"],"funding_grant_id":["764965","401829393"],"pubmed_authors":["Galanti D","Muller C","Jung JH","Bossdorf O"],"additional_accession":[]},"is_claimable":false,"name":"Discarded sequencing reads uncover natural variation in pest resistance in <i>Thlaspi arvense</i>.","description":"Understanding the genomic basis of natural variation in plant pest resistance is an important goal in plant science, but it usually requires large and labor-intensive phenotyping experiments. Here, we explored the possibility that non-target reads from plant DNA sequencing can serve as phenotyping proxies for addressing such questions. We used data from a whole-genome and -epigenome sequencing study of 207 natural lines of field pennycress (<i>Thlaspi arvense</i>) that were grown in a common environment and spontaneously colonized by aphids, mildew, and other microbes. We found that the numbers of non-target reads assigned to the pest species differed between populations, had significant SNP-based heritability, and were associated with climate of origin and baseline glucosinolate contents.","dates":{"release":"2024-01-01T00:00:00Z","publication":"2024 Dec","modification":"2026-06-01T15:12:27.448Z","creation":"2025-04-04T21:11:41.671Z"},"accession":"S-EPMC11658765","cross_references":{"pubmed":["39699583"],"doi":["10.7554/eLife.95510"]}}