Chromosome-scale genome assembly of the African spiny mouse (Acomys cahirinus)

Nguyen, E. D.; Nikoonejad Fard, V.; Kim, B.; Collins, S.; Galey, M.; Nelson, B. R.; Wakenight, P.; Gable, S. M.; McKenna, A.; Bammler, T. K.; MacDonald, J.; Okamura, D. M.; Shendure, J.; Beier, D. R.; Marino Ramirez, J.; Majesky, M. W.; Millen, K. J.; Tollis, M.; Miller, D. E.

doi:10.1101/2023.04.03.535372

bioRxiv · 10.1101/2023.04.03.535372

Chromosome-scale genome assembly of the African spiny mouse (Acomys cahirinus)

Nguyen, E. D.·Nikoonejad Fard, V.·Kim, B.·Collins, S.·Galey, M.·Nelson, B. R.·Wakenight, P.·Gable, S. M.·McKenna, A.·Bammler, T. K.·MacDonald, J.·Okamura, D. M.·Shendure, J.·Beier, D. R.·Marino Ramirez, J.·Majesky, M. W.·Millen, K. J.·Tollis, M.·Miller, D. E.

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Abstract

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 four 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.

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Nguyen, E. D., Nikoonejad Fard, V., Kim, B., Collins, S., Galey, M., Nelson, B. R., Wakenight, P., Gable, S. M., McKenna, A., Bammler, T. K., MacDonald, J., Okamura, D. M., Shendure, J., Beier, D. R., Marino Ramirez, J., Majesky, M. W., Millen, K. J., Tollis, M., Miller, D. E.. 2023-04-05. Chromosome-scale genome assembly of the African spiny mouse (Acomys cahirinus). https://doi.org/10.1101/2023.04.03.535372

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