{"entity": "publication", "iuid": "50298673c29845b082e21ec46b31ce6c", "timestamp": "2026-07-22T22:24:39.172Z", "links": {"self": {"href": "https://publications.scilifelab.se/publication/50298673c29845b082e21ec46b31ce6c.json"}, "display": {"href": "https://publications.scilifelab.se/publication/50298673c29845b082e21ec46b31ce6c"}}, "title": "Tissue-specific transposon-associated small RNAs in the gymnosperm tree, Norway spruce.", "authors": [{"family": "Nakamura", "given": "Miyuki", "initials": "M", "orcid": "0000-0002-8153-7293", "researcher": {"href": "https://publications.scilifelab.se/researcher/fa9f227109b54fa9a1457a1f7af197af.json"}}, {"family": "K\u00f6hler", "given": "Claudia", "initials": "C"}, {"family": "Hennig", "given": "Lars", "initials": "L"}], "type": "journal article", "published": "2019-12-19", "journal": {"volume": "20", "issn": "1471-2164", "issue": "1", "pages": "997", "title": "BMC Genomics", "issn-l": "1471-2164"}, "abstract": "Small RNAs (sRNAs) are regulatory molecules impacting on gene expression and transposon activity. MicroRNAs (miRNAs) are responsible for tissue-specific and environmentally-induced gene repression. Short interfering RNAs (siRNA) are constitutively involved in transposon silencing across different type of tissues. The male gametophyte in angiosperms has a unique set of sRNAs compared to vegetative tissues, including phased siRNAs from intergenic or genic regions, or epigenetically activated siRNAs. This is contrasted by a lack of knowledge about the sRNA profile of the male gametophyte of gymnosperms.\n\nHere, we isolated mature pollen from male cones of Norway spruce and investigated its sRNA profiles. While 21-nt sRNAs is the major size class of sRNAs in needles, in pollen 21-nt and 24-nt sRNAs are the most abundant size classes. Although the 24-nt sRNAs were exclusively derived from TEs in pollen, both 21-nt and 24-nt sRNAs were associated with TEs. We also investigated sRNAs from somatic embryonic callus, which has been reported to contain 24-nt sRNAs. Our data show that the 24-nt sRNA profiles are tissue-specific and differ between pollen and cell culture.\n\nOur data reveal that gymnosperm pollen, like angiosperm pollen, has a unique sRNA profile, differing from vegetative leaf tissue. Thus, our results reveal that angiosperm and gymnosperm pollen produce new size classes not present in vegetative tissues; while in angiosperm pollen 21-nt sRNAs are generated, in the gymnosperm Norway spruce 24-nt sRNAs are generated. The tissue-specific production of distinct TE-derived sRNAs in angiosperms and gymnosperms provides insights into the diversification process of sRNAs in TE silencing pathways between the two groups of seed plants.", "doi": "10.1186/s12864-019-6385-7", "pmid": "31856707", "labels": {"National Genomics Infrastructure": "Service", "NGI Uppsala (SNP&SEQ Technology Platform)": "Service"}, "xrefs": [{"db": "pii", "key": "10.1186/s12864-019-6385-7"}, {"db": "pmc", "key": "PMC6923980"}], "notes": [], "created": "2020-01-08T12:42:35.674Z", "modified": "2021-06-16T14:53:11.254Z"}