{"entity": "researcher", "timestamp": "2026-09-12T08:22:45.908Z", "family": "Odom", "given": "Duncan T", "initials": "DT", "orcid": "0000-0001-6201-5599", "affiliations": [], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/e8063d3396284b448f03300415fbdb9e.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/e8063d3396284b448f03300415fbdb9e"}}, "publications": [{"entity": "publication", "iuid": "07bbde69b5114c3db56dad2f2b1efa1a", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/07bbde69b5114c3db56dad2f2b1efa1a.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/07bbde69b5114c3db56dad2f2b1efa1a"}}, "title": "The emergence of piRNAs against transposon invasion to preserve mammalian genome integrity.", "authors": [{"family": "Ernst", "given": "Christina", "initials": "C", "orcid": "0000-0002-3569-2209", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/37b4e062523b49108deea2308ebe66fe.json"}}, {"family": "Odom", "given": "Duncan T", "initials": "DT", "orcid": "0000-0001-6201-5599", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e8063d3396284b448f03300415fbdb9e.json"}}, {"family": "Kutter", "given": "Claudia", "initials": "C"}], "type": "journal article", "published": "2017-11-10", "journal": {"title": "Nat Commun", "issn": "2041-1723", "issn-l": "2041-1723", "volume": "8", "issue": "1", "pages": "1411"}, "abstract": "Transposable elements (TEs) contribute to the large amount of repetitive sequences in mammalian genomes and have been linked to species-specific genome innovations by rewiring regulatory circuitries. However, organisms need to restrict TE activity to ensure genome integrity, especially in germline cells to protect the transmission of genetic information to the next generation. This review features our current understandings of mammalian PIWI-interacting RNAs (piRNAs) and their role in TE regulation in spermatogenesis. Here we discuss functional implication and explore additional molecular mechanisms that inhibit transposon activity and altogether illustrate the paradoxical arms race between genome evolution and stability.", "doi": "10.1038/s41467-017-01049-7", "pmid": "29127279", "labels": {"Affiliated researcher": null, "Claudia Kutter": null, "SciLifeLab Fellow": null}, "xrefs": [{"db": "pii", "key": "10.1038/s41467-017-01049-7"}, {"db": "pmc", "key": "PMC5681665"}], "notes": [], "created": "2018-12-05T12:53:52.478Z", "modified": "2022-11-04T11:32:18.348Z"}, {"entity": "publication", "iuid": "5d01ecbd74f1446298ad02b7baf8b10f", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/5d01ecbd74f1446298ad02b7baf8b10f.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/5d01ecbd74f1446298ad02b7baf8b10f"}}, "title": "Successful transmission and transcriptional deployment of a human chromosome via mouse male meiosis.", "authors": [{"family": "Ernst", "given": "Christina", "initials": "C", "orcid": "0000-0002-3569-2209", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/37b4e062523b49108deea2308ebe66fe.json"}}, {"family": "Pike", "given": "Jeremy", "initials": "J"}, {"family": "Aitken", "given": "Sarah J", "initials": "SJ"}, {"family": "Long", "given": "Hannah K", "initials": "HK"}, {"family": "Eling", "given": "Nils", "initials": "N"}, {"family": "Stojic", "given": "Lovorka", "initials": "L"}, {"family": "Ward", "given": "Michelle C", "initials": "MC"}, {"family": "Connor", "given": "Frances", "initials": "F"}, {"family": "Rayner", "given": "Timothy F", "initials": "TF"}, {"family": "Lukk", "given": "Margus", "initials": "M"}, {"family": "Klose", "given": "Robert J", "initials": "RJ", "orcid": "0000-0002-8726-7888", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/964483b0fff64aa5a8cf355ee62397e6.json"}}, {"family": "Kutter", "given": "Claudia", "initials": "C", "orcid": "0000-0002-8047-0058", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a4c9dcde56304ab2a99bb1032e4ce834.json"}}, {"family": "Odom", "given": "Duncan T", "initials": "DT", "orcid": "0000-0001-6201-5599", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e8063d3396284b448f03300415fbdb9e.json"}}], "type": "journal article", "published": "2016-11-18", "journal": {"title": "Elife", "issn": "2050-084X", "issn-l": "2050-084X", "volume": "5", "issue": null, "pages": null}, "abstract": "Most human aneuploidies originate maternally, due in part to the presence of highly stringent checkpoints during male meiosis. Indeed, male sterility is common among aneuploid mice used to study chromosomal abnormalities, and male germline transmission of exogenous DNA has been rarely reported. Here we show that, despite aberrant testis architecture, males of the aneuploid Tc1 mouse strain produce viable sperm and transmit human chromosome 21 to create aneuploid offspring. In these offspring, we mapped transcription, transcriptional initiation, enhancer activity, non-methylated DNA, and transcription factor binding in adult tissues. Remarkably, when compared with mice derived from female passage of human chromosome 21, the chromatin condensation during spermatogenesis and the extensive epigenetic reprogramming specific to male germline transmission resulted in almost indistinguishable patterns of transcriptional deployment. Our results reveal an unexpected tolerance of aneuploidy during mammalian spermatogenesis, and the surprisingly robust ability of mouse developmental machinery to accurately deploy an exogenous chromosome, regardless of germline transmission.", "doi": "10.7554/eLife.20235", "pmid": "27855777", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC5161449"}, {"db": "pii", "key": "e20235"}], "notes": [], "created": "2018-12-03T14:39:09.294Z", "modified": "2026-08-21T09:40:20.874Z"}, {"entity": "publication", "iuid": "594655a5360348c4a79453747992535a", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/594655a5360348c4a79453747992535a.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/594655a5360348c4a79453747992535a"}}, "title": "Author response: Successful transmission and transcriptional deployment of a human chromosome via mouse male meiosis", "authors": [{"family": "Ernst", "given": "Christina", "initials": "C", "orcid": "0000-0002-3569-2209", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/37b4e062523b49108deea2308ebe66fe.json"}}, {"family": "Pike", "given": "Jeremy", "initials": "J"}, {"family": "Aitken", "given": "Sarah J", "initials": "SJ"}, {"family": "Long", "given": "Hannah K", "initials": "HK"}, {"family": "Eling", "given": "Nils", "initials": "N"}, {"family": "Stojic", "given": "Lovorka", "initials": "L"}, {"family": "Ward", "given": "Michelle C", "initials": "MC"}, {"family": "Connor", "given": "Frances", "initials": "F"}, {"family": "Rayner", "given": "Timothy F", "initials": "TF"}, {"family": "Lukk", "given": "Margus", "initials": "M"}, {"family": "Klose", "given": "Robert J", "initials": "RJ", "orcid": "0000-0002-8726-7888", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/964483b0fff64aa5a8cf355ee62397e6.json"}}, {"family": "Kutter", "given": "Claudia", "initials": "C", "orcid": "0000-0002-8047-0058", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a4c9dcde56304ab2a99bb1032e4ce834.json"}}, {"family": "Odom", "given": "Duncan T", "initials": "DT", "orcid": "0000-0001-6201-5599", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e8063d3396284b448f03300415fbdb9e.json"}}], "type": "peer-review", "published": "2016-10-31", "journal": {"issn-l": null}, "abstract": null, "doi": "10.7554/elife.20235.034", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T13:51:56.409Z", "modified": "2026-08-20T13:51:56.443Z"}, {"entity": "publication", "iuid": "ebe231391df9410296d44706edcc3176", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/ebe231391df9410296d44706edcc3176.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/ebe231391df9410296d44706edcc3176"}}, "title": "Codon-Driven Translational Efficiency Is Stable across Diverse Mammalian Cell States.", "authors": [{"family": "Rudolph", "given": "Konrad L M", "initials": "KL"}, {"family": "Schmitt", "given": "Bianca M", "initials": "BM"}, {"family": "Villar", "given": "Diego", "initials": "D"}, {"family": "White", "given": "Robert J", "initials": "RJ"}, {"family": "Marioni", "given": "John C", "initials": "JC"}, {"family": "Kutter", "given": "Claudia", "initials": "C"}, {"family": "Odom", "given": "Duncan T", "initials": "DT", "orcid": "0000-0001-6201-5599", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/e8063d3396284b448f03300415fbdb9e.json"}}], "type": "journal article", "published": "2016-05-00", "journal": {"title": "PLoS Genet", "issn": "1553-7404", "issn-l": "1553-7390", "volume": "12", "issue": "5", "pages": "e1006024"}, "abstract": "Whether codon usage fine-tunes mRNA translation in mammals remains controversial, with recent papers suggesting that production of proteins in specific Gene Ontological (GO) pathways can be regulated by actively modifying the codon and anticodon pools in different cellular conditions. In this work, we compared the sequence content of genes in specific GO categories with the exonic genome background. Although a substantial fraction of variability in codon usage could be explained by random sampling, almost half of GO sets showed more variability in codon usage than expected by chance. Nevertheless, by quantifying translational efficiency in healthy and cancerous tissues in human and mouse, we demonstrated that a given tRNA pool can equally well translate many different sets of mRNAs, irrespective of their cell-type specificity. This disconnect between variations in codon usage and the stability of translational efficiency is best explained by differences in GC content between gene sets. GC variation across the mammalian genome is most likely a result of the interplay between genome repair and gene duplication mechanisms, rather than selective pressures caused by codon-driven translational rates. Consequently, codon usage differences in mammalian transcriptomes are most easily explained by well-understood mutational biases acting on the underlying genome.", "doi": "10.1371/journal.pgen.1006024", "pmid": "27166679", "labels": {"Affiliated researcher": null, "Claudia Kutter": null, "SciLifeLab Fellow": null}, "xrefs": [{"db": "pii", "key": "PGENETICS-D-15-03158"}, {"db": "pmc", "key": "PMC4864286"}, {"db": "figshare", "key": "10.6084/m9.figshare.2056227"}], "notes": [], "created": "2018-12-03T14:40:31.843Z", "modified": "2022-11-04T11:32:19.464Z"}]}