Genome Report: chromosome-scale genome assembly of the African spiny mouse (Acomys cahirinus)

Elizabeth Dong Nguyen, Vahid Nikoonejad Fard, Bernard Y. Kim, Sarah Collins, Miranda Galey, Branden R. Nelson, Paul Wakenight, Simone M. Gable, Aaron McKenna, Theo K. Bammler, Jim MacDonald, Daryl M. Okamura, Jay Shendure, David R. Beier, Jan Marino Ramirez, Mark W. Majesky, Kathleen J. Millen, Marc Tollis, Danny E. Miller

Research output: Contribution to journalArticlepeer-review


There is increasing interest in the African spiny mouse (Acomys cahirinus) as a model organism because of its ability for regeneration of tissue after injury in skin, muscle, and internal organs such as the kidneys. A high-quality reference genome is needed to better understand these regenerative properties at the molecular level. Here, we present an improved reference genome for A. cahirinus generated from long Nanopore sequencing reads. We confirm the quality of our annotations using RNA sequencing data from 4 different tissues. Our genome is of higher contiguity and quality than previously reported genomes from this species and will facilitate ongoing efforts to better understand the regenerative properties of this organism.

Original languageEnglish (US)
Article numberjkad177
JournalG3: Genes, Genomes, Genetics
Issue number10
StatePublished - Oct 2023
Externally publishedYes


  • Acomys cahirinus
  • Nanopore sequencing
  • genome assembly
  • regenerative wound healing
  • spiny mouse

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics
  • Genetics(clinical)


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