The complete mitochondrial genomes of two Atlantic spiny rats, genus Trinomys (Rodentia: Echimyidae), from low-pass shotgun sequencing

• Complete mitogenomes of Trinomys moojeni and T. setosus are reported for the first time.
• Phylogenetic analysis using all protein-coding genes agrees with current taxonomy for Trinomys.
• Maximum-likelihood and Bayesian inference phylogenies of cytb illuminate intra-genus relationships.

Trinomys Thomas (1921) is an endemic Brazilian Atlantic forest genus of the family Echimyidae, comprising ten species, from which only T. dimidiatus had its mitogenome described. The boundaries of morphological distinction among species of the genus are unclear, complicating its taxonomy. Herein, we report the complete mitochondrial genome sequences of Trinomys moojeni and Trinomys setosus retrieved from low-pass genome sequencing. The mitogenomes of T. moojeni and T. setosus are 16,713 and 16,825 bp long, with a CG-content of 37.5% and 36.1%, respectively. Both consist of 13 protein-coding genes (PCGs), 2 ribosomal RNA genes (rRNA), 22 transfer RNA genes (tRNA) and a D-loop region. We took advantage of our two sequenced mitogenomes and two other publicly available Echimyidae mitogenomes to build a phylogenetic framework based on the 13 PCGs. Altogether, these new mitogenomes expand the available molecular information available for Echimyidae, and contribute to clarify rodent taxonomy and phylogenetics.