Insights into mammalian TE diversity through the curation of 248 genome assemblies
Osmanski, Austin B ; Paulat, Nicole S ; Korstian, Jenny ; Grimshaw, Jenna R ; Halsey, Michaela ; Sullivan, Kevin A M ; Moreno-Santillán, Diana D ; Crookshanks, Claudia ; Roberts, Jacquelyn ; Garcia, Carlos ... show 10 more
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Paulat, Nicole S
Korstian, Jenny
Grimshaw, Jenna R
Halsey, Michaela
Sullivan, Kevin A M
Moreno-Santillán, 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
Dávalos, Liliana M
Karlsson, Elinor K
Lindblad-Toh, Kerstin
Ray, David A
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Abstract
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.
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Osmanski AB, Paulat NS, Korstian J, Grimshaw JR, Halsey M, Sullivan KAM, Moreno-Santillán DD, Crookshanks C, Roberts J, Garcia C, Johnson MG, Densmore LD, Stevens RD; Zoonomia Consortium†; Rosen J, Storer JM, Hubley R, Smit AFA, Dávalos LM, Karlsson EK, Lindblad-Toh K, Ray DA. Insights into mammalian TE diversity through the curation of 248 genome assemblies. Science. 2023 Apr 28;380(6643):eabn1430. doi: 10.1126/science.abn1430. Epub 2023 Apr 28. PMID: 37104570.