Abstract
Understanding the extent and distribution of population structure and genetic connectivity of fisheries targets are crucial for informing management. This study uses population genomics to examine patterns of genetic structure of the market squid (Doryteuthis opalescens), one of the most important commercially harvested species in California. Data from 662 single nucleotide polymorphism (SNP) loci from a total of 149 individuals representing five monthly sampling groups (May–September 2014) in the Northern (Monterey) and Southern (Southern California) regions of the fishery (n = 8) revealed no significant genetic differentiation between regions (FST = 0.008, p > 0.05, FCT = − 0.006, p > 0.05). However, discriminant analysis of principal components and pairwise comparisons of genetic differentiation revealed unexpected complex patterns of fine-scale population structure over time. These results suggest the existence of smaller potentially genetically varied micro-cohorts that continually spawn in California, as opposed to the prevailing notion that spawning occurs in two asynchronous peaks in the Northern and Southern regions of the fishery, with important implications for fisheries management.
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Raw sequence data supporting this article can be found on GenBank (BioProject Accession # PRJNA526974). SNP genotype files can be accessed on Dryad (https://doi.org/10.5061/dryad.95vd7sp).
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Acknowledgements
This research would not have been possible without the support of California Fish and Wildlife (CDFW) staff in Los Alamitos and Monterey (D. Porzio, B. Brady). We would like to thank the Conservation Genomics initiative group at UCLA (H.B. Shaffer, T.B. Smith, R.K. Wayne, D. Jacobs, M. Alfaro) for encouraging this project and M. Navarro for critical feedback. We would like to thank H. Nuetzel, S. Anjani, and B. Lee for their contribution to the molecular work on this project. This work was supported by the Save Our Coast Foundation.
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SC and PB contributed to the study conceptualization and design. SC and NR Material preparation was performed. SC Data collection and analysis was performed. SC The first draft of the manuscript was written and all authors contributed to and commented on previous versions of the manuscript. All authors read and approved the final manuscript.
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Cheng, S.H., Gold, M., Rodriguez, N. et al. Genome-wide SNPs reveal complex fine scale population structure in the California market squid fishery (Doryteuthis opalescens). Conserv Genet 22, 97–110 (2021). https://doi.org/10.1007/s10592-020-01321-2
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DOI: https://doi.org/10.1007/s10592-020-01321-2