Combining six genome scan methods to detect candidate genes to salinity in the Mediterranean striped red mullet (Mullus surmuletus)

BMC Genomics, Год журнала: 2018, Номер 19(1)

Опубликована: Март 27, 2018

Adaptive genomics may help predicting how a species will respond to future environmental changes. Genomic signatures of local adaptation in marine organisms are often driven by selective agents impacting the physiology organisms. With one highest salinity level, Mediterranean Sea provides an excellent model investigate adaptive genomic divergence underlying adaptation. In present study, we combined six genome scan methods detect potential signal selection striped red mullet (Mullus surmuletus) populations distributed across wide gradient. We then blasted these outlier sequences on published fish resources order identify relevant candidate genes for this species. Altogether, found 173 outliers out 1153 SNPs. Using blast approach, discovered four SNPs belonging three potentially implicated M. surmuletus salinity. The allele frequency at significantly increases with independently from effect longitude. gene associated SNP, SOCS2, encodes inhibitor cytokine and has previously been shown be expressed under osmotic pressure other Additionally, our results showed that not correcting spatial structure can still efficient strategy footprints selection, when variation confounded, then, second step represents conservative method. outcomes bring evidences footprint which suggest response conditions Sea. Additional data such as sequencing full-genome transcriptome analyses expression would provide new insights regarding possibility some locally adapted their saline environment.

Язык: Английский

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Linking genomics and fish conservation decision making: a review

Reviews in Fish Biology and Fisheries, Год журнала: 2020, Номер 30(4), С. 587 - 604

Опубликована: Сен. 17, 2020

Язык: Английский

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Genomics and telemetry suggest a role for migration harshness in determining overwintering habitat choice, but not gene flow, in anadromous Arctic Char

Molecular Ecology, Год журнала: 2017, Номер 26(24), С. 6784 - 6800

Опубликована: Окт. 31, 2017

Migration is a ubiquitous life history trait with profound evolutionary and ecological consequences. Recent developments in telemetry genomics, when combined, can bring significant insights on the migratory ecology of nonmodel organisms wild. Here, we used this integrative approach to document dispersal, gene flow potential for local adaptation anadromous Arctic Char from six rivers Canadian Arctic. Acoustic data 124 tracked individuals indicated asymmetric large proportion fish (72%) tagged three different migrating up same short river fall. Population genomics 6,136 SNP markers revealed weak, albeit significant, population differentiation (average pairwise FST = 0.011) dispersal was also by assignments. Approximate Bayesian computation simulations suggested presence flow, although opposite direction that observed data, suggesting does not necessarily lead flow. These observations home their natal spawn, but may overwinter shortest route minimize costs migration nonbreeding years. Genome scans genetic-environment associations identified 90 outlier putatively under selection, 23 which were or near gene. Of these, at least four involved muscle cardiac function, consistent hypothesis harshness could drive adaptation. Our study illustrates power integrating migrations logistically challenging environments such as

Язык: Английский

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Stable coexistence of genetically divergent Atlantic cod ecotypes at multiple spatial scales

Evolutionary Applications, Год журнала: 2018, Номер 11(9), С. 1527 - 1539

Опубликована: Апрель 20, 2018

Coexistence in the same habitat of closely related yet genetically different populations is a phenomenon that challenges our understanding local population structure and adaptation. Identifying underlying mechanisms for such coexistence can yield new insight into adaptive evolution, diversification potential organisms to adapt persist response changing environment. Recent studies have documented cryptic, sympatric Atlantic cod (Gadus morhua) coastal areas. We analysed genetic origin 6,483 individual sampled annually over 14 years from 125 locations along Norwegian Skagerrak coast document stable two divergent ecotypes throughout study area period. A "fjord" ecotype dominated numbers deep inside fjords while "North Sea" was only type found offshore North Sea. Both coexisted similar proportions habitats at all spatial scales. The size-at-age Sea on average exceeded fjord by 20% length 80% weight across habitats. Different growth size among individuals types might be one several ecologically significant variables allow within habitat. Management plans, biodiversity initiatives other mitigation strategies do not account mixture species are unlikely meet objectives sustainability fish fisheries.

Язык: Английский

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Incorporating putatively neutral and adaptive genomic data into marine conservation planning

Conservation Biology, Год журнала: 2020, Номер 35(3), С. 909 - 920

Опубликована: Авг. 12, 2020

Abstract The availability of genomic data for an increasing number species makes it possible to incorporate evolutionary processes into conservation plans. Recent studies show how genetic can inform spatial prioritization (SCP), but they focus on metrics diversity and distinctness derived primarily from neutral sets. Identifying adaptive markers provide important information regarding the capacity populations adapt environmental change. Yet, effect including based SCP in comparison more widely used has not been explored. We existing a commercially exploited species, giant California sea cucumber ( Parastichopus californicus ), perform coastal region British Columbia (BC), Canada. Using RAD‐seq set 717 P. individuals across 24 sampling locations, we identified putatively (i.e., candidate) single nucleotide polymorphisms (SNPs) genotype–environment associations with seafloor temperature. calculated various both candidate SNPs compared outcomes independent combinations metrics. Priority areas varied depending whether or were specific metric used. For example, targeting sites high frequency warm‐temperature‐associated alleles support persistence under future warming prioritized southern region. In contrast, expected heterozygosity at loci uncertainty north. When combining metrics, all scenarios generated intermediate solutions, protecting that span latitudinal thermal gradients. Our results demonstrate distinguishing between affect solutions emphasize importance defining objectives when choosing among SCP.

Язык: Английский

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