ArticlePloS one2007
Evolutionary history of LINE-1 in the major clades of placental mammals.
Article in PloS one, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
29 citing papers in PubMed.
- Differential Conservation and Loss of Chicken Repeat 1 (CR1) Retrotransposons in Squamates Reveal Lineage-Specific Genome Dynamics Across Reptiles.Genome biology and evolution · 2024Article
- Differential Conservation and Loss of CR1 Retrotransposons in Squamates Reveals Lineage-Specific Genome Dynamics across Reptiles.bioRxiv : the preprint server for biology · 2024Article
- Jack of all trades versus master of one: how generalist versus specialist strategies of transposable elements relate to their horizontal transfer between lineages.Current opinion in genetics & development · 2023Review
- Prion protein PrP nucleic acid binding and mobilization implicates retroelements as the replicative component of transmissible spongiform encephalopathy.Archives of virology · 2020Review
- On the Population Dynamics of Junk: A Review on the Population Genomics of Transposable Elements.Genes · 2019Review
- Horizontal transfer of BovB and L1 retrotransposons in eukaryotes.Genome biology · 2018Article
- An Evaluation of Function of Multicopy Noncoding RNAs in Mammals Using ENCODE/FANTOM Data and Comparative Genomics.Molecular biology and evolution · 2018Article
- Contrasted patterns of evolution of the LINE-1 retrotransposon in perissodactyls: the history of a LINE-1 extinction.Mobile DNA · 2018Article
- LINEs between Species: Evolutionary Dynamics of LINE-1 Retrotransposons across the Eukaryotic Tree of Life.Genome biology and evolution · 2016Article
- LINE-1 retrotransposons: from 'parasite' sequences to functional elements.Journal of applied genetics · 2015Article
- Roles of intragenic and intergenic L1s in mouse and human.PloS one · 2014Article
- Chromosome painting in three-toed sloths: a cytogenetic signature and ancestral karyotype for Xenarthra.BMC evolutionary biology · 2012Article
- Phylogenomic analysis resolves the interordinal relationships and rapid diversification of the laurasiatherian mammals.Systematic biology · 2012Article
- Review
- Clustered transcripts that escape X inactivation at mouse XqD.Mammalian genome : official journal of the International Mammalian Genome Society · 2011Article
- The evolutionary history of testicular externalization and the origin of the scrotum.Journal of biosciences · 2010Article
- Divergence time estimates of mammals from molecular clocks and fossils: relevance of new fossil finds from India.Journal of biosciences · 2009Article
- Measuring fit of sequence data to phylogenetic model: gain of power using marginal tests.Journal of molecular evolution · 2009Article
- Characterization and distribution of retrotransposons and simple sequence repeats in the bovine genome.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- Physical mapping of the elephant X chromosome: conservation of gene order over 105 million years.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2009Article
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Authors and funding
4 authors.
Funding
Abstract
backgroundLINE-1 constitutes an important component of mammalian genomes. It has a dynamic evolutionary history characterized by the rise, fall and replacement of subfamilies. Most data concerning LINE-1 biology and evolution are derived from the human and mouse genomes and are often assumed to hold for all placentals. METHODOLOGY: To examine LINE-1 relationships, sequences from the 3' region of the reverse transcriptase from 21 species (representing 13 orders across Afrotheria, Xenarthra, Supraprimates and Laurasiatheria) were obtained from whole genome sequence assemblies, or by PCR with degenerate primers. These sequences were aligned and analysed. PRINCIPAL
findingsOur analysis reflects accepted placental relationships suggesting mostly lineage-specific LINE-1 families. The data provide clear support for several clades including Glires, Supraprimates, Laurasiatheria, Boreoeutheria, Xenarthra and Afrotheria. Within the afrotherian LINE-1 (AfroLINE) clade, our tree supports Paenungulata, Afroinsectivora and Afroinsectiphillia. Xenarthran LINE-1 (XenaLINE) falls sister to AfroLINE, providing some support for the Atlantogenata (Xenarthra+Afrotheria) hypothesis. SIGNIFICANCE: LINEs and SINEs make up approximately half of all placental genomes, so understanding their dynamics is an essential aspect of comparative genomics. Importantly, a tree of LINE-1 offers a different view of the root, as long edges (branches) such as that to marsupials are shortened and/or broken up. Additionally, a robust phylogeny of diverse LINE-1 is essential in testing that site-specific LINE-1 insertions, often regarded as homoplasy-free phylogenetic markers, are indeed unique and not convergent.
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