Publications and Research
Document Type
Article
Publication Date
10-19-2016
Abstract
The abundance and diversity of the LINE-1 (L1) retrotransposon differ greatly among vertebrates. Mammalian genomes contain hundreds of thousands L1s that have accumulated since the origin of mammals. A single group of very similar elements is active at a time in mammals, thus a single lineage of active families has evolved in this group. In contrast, non-mammalian genomes (fish, amphibians, reptiles) harbor a large diversity of concurrently transposing families, which are all represented by very small number of recently inserted copies. Why the pattern of diversity and abundance of L1 is so different among vertebrates remains unknown. To address this issue,we performed a detailed analysis of the evolutionof active L1 in14mammalsand in3non-mammalianvertebrate model species. We examined the evolution of base composition and codon bias, the general structure, and the evolution of the different domains of L1 (50UTR, ORF1, ORF2, 30UTR). L1s differ substantially in length, base composition, and structure among vertebrates. The most variation is found in the 50UTR, which is longer in amniotes, and in the ORF1, which tend to evolve faster in mammals. The highly divergent L1familiesof lizard, frog, and fish share species-specific features suggesting that they are subjected to the same functional constraints imposed by their host. The relative conservation of the 50UTR and ORF1 in non-mammalian vertebrates suggests that the repression of transposition by the host does not act in a sequence-specific manner and did not result in an arms race, as is observed in mammals.
Comments
This article was originally published in Genome Biology and Evolution, available at doi:10.1093/gbe/evw247.
This is an open access article, distributed under the terms of the Creative Commons Attribution Non-Commercial License.