ArticleGenome biology and evolution2016
MetaSINEs: Broad Distribution of a Novel SINE Superfamily in Animals.
Article in Genome biology and evolution, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 49 citations in OpenAlex.
- Long-Standing Activity with Characteristic Genomic Insertion Signatures in Reptilian Bov-B LINEs and Associated Sauria SINEs.Biology · 2026Article
- Rise and SINE: roles of transcription factors and retrotransposons in zygotic genome activation.Nature reviews. Molecular cell biology · 2025Article
- Widespread HCD-tRNA derived SINEs in bivalves rely on multiple LINE partners and accumulate in genic regions.Mobile DNA · 2024Article
- Multiple and diversified transposon lineages contribute to early and recent bivalve genome evolution.BMC biology · 2023Article
- Novel selectively amplified DNA sequences in the germline genome of the Japanese hagfish, Eptatretus burgeri.Scientific reports · 2022Article
- tRNAscan-SE 2.0: improved detection and functional classification of transfer RNA genes.Nucleic acids research · 2021Article
- Diversity of short interspersed nuclear elements (SINEs) in lepidopteran insects and evidence of horizontal SINE transfer between baculovirus and lepidopteran hosts.BMC genomics · 2021Article
- Article
- Hagfish genome reveals parallel evolution of 7SL RNA-derived SINEs.Mobile DNA · 2020Article
- Retrotransposons spread potential cis-regulatory elements during mammary gland evolution.Nucleic acids research · 2019Article
- Riding the Wave: The SINE-Specific V Highly-Conserved Domain Spread into Mammalian Genomes Exploiting the Replication Burst of the MER6 DNA Transposon.International journal of molecular sciences · 2019Article
- The genome of the jellyfish Clytia hemisphaerica and the evolution of the cnidarian life-cycle.Nature ecology & evolution · 2019Article
- tRNAscan-SE: Searching for tRNA Genes in Genomic Sequences.Methods in molecular biology (Clifton, N.J.) · 2019Article
- LINEs Contribute to the Origins of Middle Bodies of SINEs besides 3' Tails.Genome biology and evolution · 2018Article
- New insights into the genome repetitive fraction of the Antarctic bivalve Adamussium colbecki.PloS one · 2018Article
- Evolution of Two Short Interspersed Elements in Callorhinchus milii (Chondrichthyes, Holocephali) and Related Elements in Sharks and the Coelacanth.Genome biology and evolution · 2017Article
- Article
- Rare horizontal transmission does not hide long-term inheritance of SINE highly conserved domains in the metazoan evolution.Current zoology · 2016Article
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Authors and funding
4 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
SINEs (short interspersed elements) are transposable elements that typically originate independently in each taxonomic clade (order/family). However, some SINE families share a highly similar central sequence and are thus categorized as a SINE superfamily. Although only four SINE superfamilies (CORE-SINEs, V-SINEs, DeuSINEs, and Ceph-SINEs) have been reported so far, it is expected that new SINE superfamilies would be discovered by deep exploration of new SINEs in metazoan genomes. Here we describe 15 SINEs, among which 13 are novel, that have a similar 66-bp central region and therefore constitute a new SINE superfamily, MetaSINEs. MetaSINEs are distributed from fish to cnidarians, suggesting their common evolutionary origin at least 640 Ma. Because the 3' tails of MetaSINEs are variable, these SINEs most likely survived by changing their partner long interspersed elements for retrotransposition during evolution. Furthermore, we examined the presence of members of other SINE superfamilies in bivalve genomes and characterized eight new SINEs belonging to the CORE-SINEs, V-SINEs, and DeuSINEs, in addition to the MetaSINEs. The broad distribution of bivalve SINEs suggests that at least three SINEs originated in the common ancestor of Bivalvia. Our comparative analysis of the central domains of the SINEs revealed that, in each superfamily, only a restricted region is shared among all of its members. Because the functions of the central domains of the SINE superfamilies remain unknown, such structural information of SINE superfamilies will be useful for future experimental and comparative analyses to reveal why they have been retained in metazoan genomes during evolution.
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