# The complete mitochondrial genome of Alpheus digitalis De Haan, 1844 (Decapoda: Alpheidae)

**Authors:** Shuyi Zhang, Youling Ye, Heshan Lin

PMC · DOI: 10.1080/23802359.2026.2637244 · Mitochondrial DNA. Part B, Resources · 2026-02-28

## TL;DR

This paper reports the full mitochondrial genome of a snapping shrimp species and its evolutionary relationships with other shrimps.

## Contribution

The study provides the complete mitochondrial genome of Alpheus digitalis and its phylogenetic placement relative to other Alpheus species.

## Key findings

- The mitochondrial genome of A. digitalis is 15,735 bp long with typical gene content and an A+T bias of 60.66%.
- Phylogenetic analysis shows A. digitalis is closely related to Alpheus hoplocheles as sister species.
- The mitogenomic data will aid in phylogenomic and evolutionary studies of caridean shrimps.

## Abstract

The snapping shrimp Alpheus digitalis De Haan, 1844 represents a commercially valuable fishery resource within the family Alpheidae. In this study, we sequenced and characterized the complete mitochondrial genome of A. digitalis, followed by phylogenetic reconstruction to elucidate its evolutionary relationships. The genome is 15,735 bp in length and contains 13 protein-coding genes (PCGs), 22 transfer RNA genes (tRNAs), 2 ribosomal RNA genes (rRNAs), and 1 D-Loop control regions, with a pronounced A + T bias (60.66%). Phylogenetic analysis based on 13 PCGs robustly supports a sister-group relationship between A. digitalis and Alpheus hoplocheles. These findings furnish essential mitogenomic resources for advancing phylogenomic, taxonomic, and evolutionary investigations of caridean shrimps.

## Linked entities

- **Genes:** trnaS (tRNA-Ser) [NCBI Gene 18667341], rrnaS (16S ribosomal RNA) [NCBI Gene 29292390]
- **Species:** Alpheus digitalis (taxon 2109549), Alpheus hoplocheles (taxon 2201221), Mus musculus (taxon 10090)

## Full-text entities

- **Genes:** cox1 [NCBI Gene 10080126], cox2 [NCBI Gene 10080114], cox3 [NCBI Gene 10080117], atp8 [NCBI Gene 10080115], atp6 [NCBI Gene 10080116]
- **Chemicals:** GQ892049 (-), ethanol (MESH:D000431)
- **Species:** Alpheus hoplocheles (species) [taxon 2201221], Alpheus digitalis (species) [taxon 2109549], Alpheus lobidens (species) [taxon 1240032], Pandalus borealis (northern red shrimp, species) [taxon 6703]
- **Cell lines:** PX261273 — Homo sapiens (Human), Hybrid cell line (CVCL_ZR66)

## Full text

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## Figures

3 figures with captions in the complete paper: https://tomesphere.com/paper/PMC12951682/full.md

## References

26 references — full list in the complete paper: https://tomesphere.com/paper/PMC12951682/full.md

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Source: https://tomesphere.com/paper/PMC12951682