Responses of population structure and genomic diversity to climate change and fishing pressure in a pelagic fish

The responses of marine species to environmental changes and anthropogenic pressures (e.g. fishing) interact with ecological and evolutionary processes that are not well understood. Knowledge of changes in the distribution range and genetic diversity of species and their populations into the future is essential for the conservation and sustainable management of resources. Almaco jack (Seriola rivoliana) is a pelagic fish with high importance to fisheries and aquaculture in the Pacific Ocean. In this study, we assessed contemporary genomic diversity and structure in loci that are putatively under selection (outlier loci) and determined their potential functions.  Utilizing a combination of genotype-environment association, spatial distribution models, and demogenetic simulations, we modeled the effects of climate change (under three different RCP scenarios) and fishing pressure on the species’ geographic distribution and genomic diversity and structure to 2050 and 2100. Our results show ..., , , # Outlier loci and input data for demogenetic simulations in CDMetaPOP

Mendoza-Portillo, V., Garca-De Len F.j and von der Heyden, S.

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1. Genotypes of 155 oulier loci (155.gen: SNPall dataset) identified by at least two methods: principal component analysis (PCA) in the pcadapt package for R (Luu et al., 2017), and genotype-environment association methods [BayeScEnv (De Villemereuil & Gaggiotti, 2015) and redundancy analysis (RDA, Forester et al., 2016, 2018)]. The dataset includes all loci identified by maximum (SNPmax) and minimum (SNPmin) environmental variables
2. CDMetaPOP input data-contains the files for running CDMetaPOP demogenetic simulations
classvars_srivo.csv
patchvars_srivo.csv
popvars_sriv_c-all.csv
Resistance data obtained from additive pressures of fishing and climate change scenarios (RCP 2.6, 4.5 and 8.5) for years 2050 and 2100. The data represents eight scenarios of heterogeneous landscapes simulated:
1. Isolation by distance (no resistance...