Selection and genetic drift in captive versus wild populations: an assessment of neutral and adaptive (MHC-linked) genetic variation in wild and hatchery brown trout (Salmo trutta) populations

Schenekar, Tamara; Weiss, Steven

doi:10.1007/s10592-017-0949-3

Cited by 18 publications

(18 citation statements)

References 86 publications

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“…The high reproducibility that can be achieved in determining sequence alleles also allows for the easy creation of large data collections over multiple laboratories and projects. There are several examples where SSR variation is used for wildlife monitoring; however, the technical difficulties restrict this to species for which there is considerable conservation concern (Godinho et al, ), conflict species (De Barba et al, ), or species with large commercial interest (Schenekar & Weiss, ; Tibihika, Waidbacher et al, ). With similar approaches to the SSR‐GBS system, this can be adapted for non‐model species and specific scientific questions.…”

Section: Discussionmentioning

confidence: 99%

Application of a SSR‐GBS marker system on investigation of European Hedgehog species and their hybrid zone dynamics

Curto

Winter

Seiter

et al. 2019

Ecology and Evolution

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By applying second‐generation sequencing technologies to microsatellite genotyping, sequence information is produced which can result in high‐resolution population genetics analysis populations and increased replicability between runs and laboratories. In the present study, we establish an approach to study the genetic structure patterns of two European hedgehog species Erinaceaus europaeus and E. roumanicus . These species are usually associated with human settlements and are good models to study anthropogenic impacts on the genetic diversity of wild populations. The short sequence repeats genotyping by sequence (SSR‐GBS) method presented uses amplicon sequences to determine genotypes for which allelic variants can be defined according to both length and single nucleotide polymorphisms (SNPs). To evaluate whether complete sequence information improved genetic structure definition, we compared this information with datasets based solely on length information. We identified a total of 42 markers which were successfully amplified in both species. Overall, genotyping based on complete sequence information resulted in a higher number of alleles, as well as greater genetic diversity and differentiation between species. Additionally, the structure patterns were slightly clearer with a division between both species and some potential hybrids. There was some degree of genetic structure within species, although only in E. roumanicus was this related to geographical distance. The statistically significant results obtained by SSR‐GBS demonstrate that it is superior to electrophoresis‐based methods for SSR genotyping. Moreover, the greater reproducibility and throughput with lower effort which can be obtained with SSR‐GBS and the possibility to include degraded DNA into the analysis, allow for continued relevance of SSR markers during the genomic era.

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Section: Discussionmentioning

confidence: 99%

Application of a SSR‐GBS marker system on investigation of European Hedgehog species and their hybrid zone dynamics

Curto

Winter

Seiter

et al. 2019

Ecology and Evolution

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“…Hatchery fish may also have lower survival because of a general tendency toward reduced fitness. Lower fitness of hatchery fish compared to their wild counterparts is common in salmon [56] and may be a consequence of relaxed selectivity on adaptive traits or maladaptive selection in the hatchery rearing process [57][58][59]. The Upper Columbia populations had a very high proportion of hatchery origin fish in our analysis (95%), which may be related to their relatively lower survival and apparent diminished ability to respond to high temperatures.…”

Section: Interpreting Categorical Effectsmentioning

confidence: 93%

Environmentally triggered shifts in steelhead migration behavior and consequences for survival in the mid-Columbia River

et al. 2021

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The majority of Columbia River summer-run steelhead encounter high river temperatures (near or > 20°C) during their spawning migration. While some steelhead pass through the mid-Columbia River in a matter of days, others use tributary habitats as temperature refuges for periods that can last months. Using PIT tag detection data from adult return years 2004–2016, we fit 3-component mixture models to differentiate between “fast”, “slow”, and “overwintering” migration behaviors in five aggregated population groups. Fast fish migrated straight through the reach on average in ~7–9 days while slow fish delayed their migration for weeks to months, and overwintering fish generally took ~150–250 days. We then fit covariate models to examine what factors contributed to the probability of migration delay during summer months (slow or overwintering behaviors), and to explore how migration delay related to mortality. Finally, to account for the impact of extended residence times in the reach for fish that delayed, we compared patterns in estimated average daily rates of mortality between migration behaviors and across population groups. Results suggest that migration delay was primarily triggered by high river temperatures but temperature thresholds for delay were lowest just before the seasonal peak in river temperatures. While all populations groups demonstrated these general patterns, we documented substantial variability in temperature thresholds and length of average delays across population groups. Although migration delay was related to higher reach mortality, it was also related to lower average daily mortality rates due to the proportional increase in reach passage duration being larger than the associated increase in mortality. Lower daily mortality rates suggest that migration delay could help mitigate the impacts of harsh migration conditions, presumably through the use of thermal refuges, despite prolonged exposure to local fisheries. Future studies tracking individual populations from their migration through reproduction could help illuminate the full extent of the tradeoffs between different migration behaviors.

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“…Poeciliid fish and goldfish varieties were probably hardy fish decades ago but have become highly susceptible to acquire diseases due to the loss of allelic diversity, in particular heterozygosity in the Major Histocompatibility Complex (Schenekar & Weiss 2017).…”

Section: Discussionmentioning

confidence: 99%

Diseased fish in the freshwater trade: from retailers to private aquarists

Maceda‐Veiga¹,

Cable²

2019

Dis. Aquat. Org.

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Selection and genetic drift in captive versus wild populations: an assessment of neutral and adaptive (MHC-linked) genetic variation in wild and hatchery brown trout (Salmo trutta) populations

Cited by 18 publications

References 86 publications

Application of a SSR‐GBS marker system on investigation of European Hedgehog species and their hybrid zone dynamics

Application of a SSR‐GBS marker system on investigation of European Hedgehog species and their hybrid zone dynamics

Environmentally triggered shifts in steelhead migration behavior and consequences for survival in the mid-Columbia River

Diseased fish in the freshwater trade: from retailers to private aquarists

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