Dataset of DNA sequence data from two mitochondrial loci (COI and 16S) used to infer the phylogeny of oysters in the genus Ostrea along the Pacific coast of North America. This dataset is not publicly accessible because: It's already publicaly available. It can be accessed through the following means: GenBank/NCBI (http://www.ncbi.nlm.nih.gov/). Accession numbers KT317088-KT317610. Format: This dataset is DNA sequence data. It is available in GenBank. Accession numbers KT317088-KT317610. This dataset is associated with the following publication: Raith, M., D. Zacherl, E. Pilgrim , and D. Eernisse. Phylogeny and species diversity of Gulf of California oysters (Ostreidae) inferred from mitochondrial DNA. American Malacological Bulletin. American Malacological Society, Arlington, VA, USA, 33(2): 263-283, (2016).