ArticleCell genomics2025
Chromosome-scale genome assembly reveals how repeat elements shape non-coding RNA landscapes active during newt limb regeneration.
Article in Cell genomics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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12 citing papers in PubMed.
- Replicative Neuromast Regeneration in Response to Injury in Pleurodeles waltl.Development, growth & differentiation · 2026Article
- Optimizing the hybridization chain reaction-fluorescence in situ hybridization (HCR-FISH) protocol forbioRxiv : the preprint server for biology · 2026Article
- Introns as Protective Buffers Against Transposable Elements Invasion During Genome Gigantism in a Newt.Genes to cells : devoted to molecular & cellular mechanisms · 2026Article
- MHC in newts illuminates the evolutionary dynamics of complex regions in giant genomes.Genome research · 2026Article
- Strawberry atlas:PeerJ · 2026Article
- Evolutionary dynamics of FoxQ2 transcription factors across metazoans reveals three ancient paralogs.Communications biology · 2025Article
- The inbred newt genome unveils molecular mechanisms of behavior, development, and regeneration in urodele amphibians.iScience · 2025Article
- Linkage Mapping vs. Association: A Comparison of Two RADseq-Based Approaches to Identify Markers for Homomorphic Sex Chromosomes in Large Genomes.Molecular ecology resources · 2025Article
- The first complete assembly for a lungless urodelan with a "miniaturized" genome, the Northern Dusky Salamander (Plethodontidae: Desmognathus fuscus).G3 (Bethesda, Md.) · 2025Article
- Identification of Y-chromosome Turnover in Newts Fails to Support a Sex Chromosome Origin for the Triturus Balanced Lethal System.Genome biology and evolution · 2025Article
- Unique TCR loci architecture in newts: TRA and TRD separation inFrontiers in immunology · 2025Article
- The genome sequence of the great crested newt,Wellcome open research · 2025Article
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Authors and funding
19 authors.
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Abstract
Newts have large genomes harboring many repeat elements. How these elements shape the genome and relate to newts' unique regeneration ability remains unknown. We present here the chromosome-scale assembly of the 20.3 Gb genome of the Iberian ribbed newt, Pleurodeles waltl, with a hitherto unprecedented contiguity and completeness among giant genomes. Utilizing this assembly, we demonstrate conserved synteny as well as genetic rearrangements, such as in the major histocompatibility complex locus. We provide evidence suggesting that intronic repeat elements drive newt-specific circular RNA (circRNA) biogenesis and show their regeneration-specific expression. We also present a comprehensive in-depth annotation and chromosomal mapping of microRNAs, highlighting genomic expansion profiles as well as a distinct regulatory pattern in the regenerating limb. These data reveal links between repeat elements, non-coding RNAs, and adult regeneration and provide key resources for addressing developmental, regenerative, and evolutionary principles.
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