2025-01-29 カロリンスカ研究所(KI)
<関連情報>
- https://news.ki.se/mapping-of-a-gigantic-salamander-genome-reveals-secrets-of-regeneration
- https://www.cell.com/cell-genomics/fulltext/S2666-979X(25)00017-5
染色体規模のゲノムアセンブリにより、反復要素がイモリの四肢再生中に活性化する非コードRNAランドスケープをどのように形成するかが明らかになった Chromosome-scale genome assembly reveals how repeat elements shape non-coding RNA landscapes active during newt limb regeneration
Thomas Brown∙ Ketan Mishra∙ Ahmed Elewa∙ … ∙ Nicholas D. Leigh, nicholas.leigh∙ Maximina H. Yun, maximina.yun∙ András Simon
Cell Genomics Published:January 27, 2025
DOI:https://doi.org/10.1016/j.xgen.2025.100761
Graphical abstract
Highlights
•Chromosome-scale assembly with the highest contiguity among giant genomes
•Regulation of hAT transposons and circRNAs during limb regeneration
•Annotation of miRNAs identifying novel species-specific miRNAs
•Repeat element expansion associated with miRNA distribution and circRNA formation
Summary
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.
