Insights into mammalian TE diversity through the curation of 248 genome assemblies

• 成果类型: Article
• 署名作者: Osmanski, Austin B.; Paulat, Nicole S.; Korstian, Jenny; Grimshaw, Jenna R.; Halsey, Michaela; Sullivan, Kevin A. M.; Moreno-Santillan, Diana D.; Crookshanks, Claudia; Roberts, Jacquelyn; Garcia, Carlos; Johnson, Matthew G.; Densmore, Llewellyn D.; Stevens, Richard D.; Rosen, Jeb; Storer, Jessica M.; Hubley, Robert; Smit, Arian F. A.; Davalos, Liliana M.; Karlsson, Elinor K.; Lindblad-Toh, Kerstin; Ray, David A.
• 署名单位: Texas Tech University System; Texas Tech University; Texas Tech University System; Texas Tech University; Institute for Systems Biology (ISB); State University of New York (SUNY) System; Stony Brook University; State University of New York (SUNY) System; Stony Brook University; Uppsala University; Harvard University; Massachusetts Institute of Technology (MIT); Broad Institute; University of Massachusetts System; UMass Chan Medical School; University of Massachusetts Worcester; University of Massachusetts System; UMass Chan Medical School; University of Massachusetts Worcester
• 刊物名称: SCIENCE
• ISSN/ISSBN: 0036-8617
• DOI: 10.1126/science.abn1430
• 发表日期: 2023-04-28
• 页码: 371-+
• 关键词: transposable elements; interspersed repeats; sequence; biology; retrotransposons; transduction; EVOLUTION; alignment; DYNAMICS; Mutation

摘要

We examined transposable element (TE) content of 248 placental mammal genome assemblies, the largest de novo TE curation effort in eukaryotes to date. We found that although mammals resemble one another in total TE content and diversity, they show substantial differences with regard to recent TE accumulation. This includes multiple recent expansion and quiescence events across the mammalian tree. Young TEs, particularly long interspersed elements, drive increases in genome size, whereas DNA transposons are associated with smaller genomes. Mammals tend to accumulate only a few types of TEs at any given time, with one TE type dominating. We also found association between dietary habit and the presence of DNA transposon invasions. These detailed annotations will serve as a benchmark for future comparative TE analyses among placental mammals.