Temporal variation in selection on body length and date of return in a wild population of coho salmon, Oncorhynchus kisutch.

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Temporal variation in selection on body length and date of return in a wild population of coho salmon, Oncorhynchus kisutch.

BMC Evol Biol. 2012;12:116

Authors: Kodama M, Hard JJ, Naish KA

Abstract
BACKGROUND: A number of studies have measured selection in nature to understand how populations adapt to their environment; however, the temporal dynamics of selection are rarely investigated. The aim of this study was to assess the temporal variation in selection by comparing the mode, direction and strength of selection on fitness-related traits between two cohorts of coho salmon (Oncorhynchus kisutch). Specifically, we quantified individual reproductive success and examined selection on date of return and body length in a wild population at Big Beef Creek, Washington (USA).
RESULTS: Reproductive success and the mode, direction and strength of selection on date of return and body length differed between two cohorts sampled in 2006 and 2007. Adults of the first brood year had greater success over those of the second. In 2006, disruptive selection favored early and late returning individuals in 2-year-old males, and earlier returning 3-year-old males had higher fitness. No evidence of selection on date of return was detected in females. In 2007, selection on date of return was not observed in males of either age class, but stabilizing selection on date of return was observed in females. No selection on body length was detected in males of both age classes in 2006, and large size was associated with higher fitness in females. In 2007, selection favored larger size in 3-year-old males and intermediate size in females. Correlational selection between date of return and body length was observed only in 2-year-old males in 2006.
CONCLUSIONS: We found evidence of selection on body length and date of return to the spawning ground, both of which are important fitness-related traits in salmonid species, but this selection varied over time. Fluctuation in the mode, direction and strength of selection between two cohorts was likely to be due to factors such as changes in precipitation, occurrence of catastrophic events (flooding), the proportion of younger- versus older-maturing males, sex ratio and densities of spawners.

PMID: 22805481 [PubMed – indexed for MEDLINE]

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Phenotype flexibility in wild fish: Dolly Varden regulate assimilative capacity to capitalize on annual pulsed subsidies.

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Phenotype flexibility in wild fish: Dolly Varden regulate assimilative capacity to capitalize on annual pulsed subsidies.

J Anim Ecol. 2013 Mar 19;

Authors: Armstrong JB, Bond MH

Abstract
Large digestive organs increase rates of energy gain when food is plentiful but are costly to maintain and increase rates of energy loss when food is scarce. The physiological adaptations to this trade-off differ depending on the scale and predictability of variation in food abundance. Currently, there is little understanding of how animals balance trade-offs between the cost and capacity of the digestive system in response to resource pulses: rare, ephemeral periods of resource superabundance. We investigated the physiological and behavioural tactics of the fish Dolly Varden (Salvelinus malma) that rear in watersheds with low in situ productivity, but experience annual resource pulses from the spawning migrations of Pacific salmon. The eggs of Pacific salmon provide high-energy food for Dolly Varden. Dolly Varden sampled 6 weeks prior to the resource pulse exhibited atrophy of the stomach, pyloric caeca, intestine and liver. Throughout the portion of the growing season prior to the resource pulse, fish exhibited empty stomachs, low indices of energy condition and muscle isotope signatures reflecting the previous resource pulse. During the resource pulse, Dolly Varden exhibited large digestive machinery, gorged on salmon eggs and rapidly stored energy in fat reserves, somatic growth and gonad development. Dolly Varden appeared to achieve nearly their entire annual energy surplus during the ∼5-week period when sockeye salmon spawn. Digestive flexibility provides Dolly Varden the energy efficiency required to survive and reproduce when resource abundance is concentrated into an annual pulse that is predictable, yet highly ephemeral. Although fish are known to incur extremely variable energy budgets, our study is one of the first to document digestive flexibility in wild fish. Our study emphasizes that fish can rely heavily on rare, high-magnitude foraging opportunities. Human actions that attenuate spikes in food abundance may have stronger than anticipated effects on consumer energy budgets.

PMID: 23510107 [PubMed – as supplied by publisher]

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How Stock of Origin Affects Performance of Individuals across a Meta-Ecosystem: An Example from Sockeye Salmon.

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How Stock of Origin Affects Performance of Individuals across a Meta-Ecosystem: An Example from Sockeye Salmon.

PLoS One. 2013;8(3):e58584

Authors: Griffiths JR, Schindler DE, Seeb LW

Abstract
Connectivity among diverse habitats can buffer populations from adverse environmental conditions, influence the functioning of meta-ecosystems, and ultimately affect the reliability of ecosystem services. This stabilizing effect on populations is proposed to derive from complementarity in growth and survival conditions experienced by individuals in the different habitats that comprise meta-ecosystems. Here we use the fine scale differentiation of salmon populations between diverse lake habitats to assess how rearing habitat and stock of origin affect the body condition of juvenile sockeye salmon. We use genetic markers (single nucleotide polymorphisms) to assign individuals of unknown origin to stock group and in turn characterize ecologically relevant attributes across habitats and stocks. Our analyses show that the body condition of juvenile salmon is related to the productivity of alternative habitats across the watershed, irrespective of their stock of origin. Emigrants and residents with genetic origins in the high productivity lake were also differentiated by their body condition, poor and high respectively. These emigrants represented a substantial proportion of juvenile sockeye salmon rearing in the lower productivity lake habitat. Despite emigrants originating from the more productive lake, they did not differ in body condition from the individuals spawned in the lower productivity, recipient habitat. Genetic tools allowed us to assess the performance of different stocks groups across the diverse habitats comprising their meta-ecosystem. The ability to characterize the ecological consequences of meta-ecosystem connectivity can help develop strategies to protect and restore ecosystems and the services they provide to humans.

PMID: 23505539 [PubMed – in process]

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Reproductive success of captively bred and naturally spawned Chinook salmon colonizing newly accessible habitat.

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Reproductive success of captively bred and naturally spawned Chinook salmon colonizing newly accessible habitat.

Evol Appl. 2013 Feb;6(2):165-79

Authors: Anderson JH, Faulds PL, Atlas WI, Quinn TP

Abstract
Captively reared animals can provide an immediate demographic boost in reintroduction programs, but may also reduce the fitness of colonizing populations. Construction of a fish passage facility at Landsburg Diversion Dam on the Cedar River, WA, USA, provided a unique opportunity to explore this trade-off. We thoroughly sampled adult Chinook salmon () at the onset of colonization (2003-2009), constructed a pedigree from genotypes at 10 microsatellite loci, and calculated reproductive success (RS) as the total number of returning adult offspring. Hatchery males were consistently but not significantly less productive than naturally spawned males (range in relative RS: 0.70-0.90), but the pattern for females varied between years. The sex ratio was heavily biased toward males; therefore, inclusion of the hatchery males increased the risk of a genetic fitness cost with little demographic benefit. Measurements of natural selection indicated that larger salmon had higher RS than smaller fish. Fish that arrived early to the spawning grounds tended to be more productive than later fish, although in some years, RS was maximized at intermediate dates. Our results underscore the importance of natural and sexual selection in promoting adaptation during reintroductions.

PMID: 23467446 [PubMed – in process]

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Stage-specific effects of androgens and estradiol-17beta on the development of late primary and early secondary ovarian follicles of coho salmon (Oncorhynchus kisutch) in vitro.

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Stage-specific effects of androgens and estradiol-17beta on the development of late primary and early secondary ovarian follicles of coho salmon (Oncorhynchus kisutch) in vitro.

Biol Reprod. 2012 Sep;87(3):64

Authors: Forsgren KL, Young G

Abstract
An in vitro system was used to analyze the effects of sex steroids on the development of primary (late perinucleolar stage) and early secondary, previtellogenic (early cortical alveolus stage) ovarian follicles of coho salmon cultured for up to 21 days. Late perinucleolar-stage follicles increased significantly in size after 7 days of treatment with low concentrations of 11-ketotestosterone (11-KT), a nonaromatizable androgen. An androgen receptor antagonist (flutamide) inhibited this growth-promoting effect, and the highest concentration resulted in atresia of follicles, implicating androgens as survival factors at this stage. Testosterone (T) was less effective than 11-KT in promoting growth, but blocking aromatization with exemestane resulted in a growth response similar to that of 11-KT. Estradiol-17beta (E2) had no effect on growth at this stage. After 21 days of culture, E2 was the most potent steroid in increasing the number of follicles containing cortical alveoli and the number of cortical alveoli within those follicles. At the early cortical alveolus stage, low doses of E2 promoted growth and strongly stimulated synthesis of cortical alveoli, actions that were inhibited by an estrogen receptor antagonist (tamoxifen). 11-KT displayed moderate growth-promoting effects, and 11-KT and T stimulated moderate to substantial increases in abundance of cortical alveoli. This study shows that the predominant role of androgens is the promotion of growth of late perinucleolar-stage follicles, while E2 stimulates both the growth and accumulation of cortical alveoli in early cortical alveolus-stage follicles.

PMID: 22674392 [PubMed – indexed for MEDLINE]

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Effects of management tactics on meeting conservation objectives for Western north american groundfish fisheries.

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Effects of management tactics on meeting conservation objectives for Western north american groundfish fisheries.

PLoS One. 2013;8(2):e56684

Authors: Melnychuk MC, Banobi JA, Hilborn R

Abstract
There is considerable variability in the status of fish populations around the world and a poor understanding of how specific management characteristics affect populations. Overfishing is a major problem in many fisheries, but in some regions the recent tendency has been to exploit stocks at levels their maximum sustainable yield. In Western North American groundfish fisheries, the status of individual stocks and management systems among regions are highly variable. In this paper, we show the current status of groundfish stocks from Alaska, British Columbia, and the U.S. West Coast, and quantify the influence on stock status of six management tactics often hypothesized to affect groundfish. These tactics are: the use of harvest control rules with estimated biological reference points; seasonal closures; marine reserves; bycatch constraints; individual quotas (i.e., ‘catch shares’); and gear type. Despite the high commercial value of many groundfish and consequent incentives for maintaining stocks at their most productive levels, most stocks were managed extremely conservatively, with current exploitation rates at only 40% of management targets and biomass 33% above target biomass on average. Catches rarely exceeded TACs but on occasion were far below TACs (mean catchTAC ratio of 57%); approximately $150 million of potential landed value was foregone annually by underutilizing TACs. The use of individual quotas, marine reserves, and harvest control rules with estimated limit reference points had little overall effect on stock status. More valuable fisheries were maintained closer to management targets and were less variable over time than stocks with lower catches or ex-vessel prices. Together these results suggest there is no single effective management measure for meeting conservation objectives; if scientifically established quotas are set and enforced, a variety of means can be used to ensure that exploitation rates and biomass levels are near to or more conservative than management targets.

PMID: 23460809 [PubMed – in process]

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Estimation of genotyping error rate from repeat genotyping, unintentional recaptures and known parent-offspring comparisons in 16 microsatellite loci for brown rockfish (Sebastes auriculatus).

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Estimation of genotyping error rate from repeat genotyping, unintentional recaptures and known parent-offspring comparisons in 16 microsatellite loci for brown rockfish (Sebastes auriculatus).

Mol Ecol Resour. 2012 Nov;12(6):1114-23

Authors: Hess MA, Rhydderch JG, LeClair LL, Buckley RM, Kawase M, Hauser L

Abstract
Genotyping errors are present in almost all genetic data and can affect biological conclusions of a study, particularly for studies based on individual identification and parentage. Many statistical approaches can incorporate genotyping errors, but usually need accurate estimates of error rates. Here, we used a new microsatellite data set developed for brown rockfish (Sebastes auriculatus) to estimate genotyping error using three approaches: (i) repeat genotyping 5% of samples, (ii) comparing unintentionally recaptured individuals and (iii) Mendelian inheritance error checking for known parent-offspring pairs. In each data set, we quantified genotyping error rate per allele due to allele drop-out and false alleles. Genotyping error rate per locus revealed an average overall genotyping error rate by direct count of 0.3%, 1.5% and 1.7% (0.002, 0.007 and 0.008 per allele error rate) from replicate genotypes, known parent-offspring pairs and unintentionally recaptured individuals, respectively. By direct-count error estimates, the recapture and known parent-offspring data sets revealed an error rate four times greater than estimated using repeat genotypes. There was no evidence of correlation between error rates and locus variability for all three data sets, and errors appeared to occur randomly over loci in the repeat genotypes, but not in recaptures and parent-offspring comparisons. Furthermore, there was no correlation in locus-specific error rates between any two of the three data sets. Our data suggest that repeat genotyping may underestimate true error rates and may not estimate locus-specific error rates accurately. We therefore suggest using methods for error estimation that correspond to the overall aim of the study (e.g. known parent-offspring comparisons in parentage studies).

PMID: 22958648 [PubMed – indexed for MEDLINE]

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Citation patterns of a controversial and high-impact paper: worm et Al. (2006) “impacts of biodiversity loss on ocean ecosystem services”.

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Citation patterns of a controversial and high-impact paper: worm et Al. (2006) “impacts of biodiversity loss on ocean ecosystem services”.

PLoS One. 2013;8(2):e56723

Authors: Branch TA

Abstract
Citation patterns were examined for Worm et al. 2006 (Science 314∶787-790), a high-impact paper that focused on relationships between marine biodiversity and ecosystem services. This paper sparked much controversy through its projection, highlighted in the press release, that all marine fisheries would be collapsed by 2048. Analysis of 664 citing papers revealed that only a small percentage (11%) referred to the 2048 projection, while 39% referred to fisheries collapse in general, and 40% to biodiversity and ecosystem services. The 2048 projection was mentioned more often in papers published soon after the original paper, in low-impact journals, and in journals outside of fields that would be expected to focus on biodiversity. Citing papers also mentioned the 2048 projection more often if they had few authors (28% of single-author papers vs. 2% of papers with 10 or more authors). These factors suggest that the more knowledgeable the authors of citing papers were about the controversy over the 2048 projection, the less likely they were to refer to it. A noteworthy finding was that if the original authors were also involved in the citing papers, they rarely (1 of 55 papers, 2%) mentioned the 2048 projection. Thus the original authors have emphasized the broader concerns about biodiversity loss, rather than the 2048 projection, as the key result of their study.

PMID: 23437224 [PubMed – in process]

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The Soundscapes of Lakes across an Urbanization Gradient.

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The Soundscapes of Lakes across an Urbanization Gradient.

PLoS One. 2013;8(2):e55661

Authors: Kuehne LM, Padgham BL, Olden JD

Abstract
BACKGROUND/METHODOLOGY: A significant implication of increasing urbanization is anthropogenic noise pollution. Although noise is strongly associated with disruption of animal communication systems and negative health effects for humans, the study of these consequences at ecologically relevant spatial and temporal scales (termed soundscape ecology) is in early stages of application. In this study, we examined the above- and below-water soundscape of recreational and residential lakes in the region surrounding a large metropolitan area. Using univariate and multivariate approaches we test the importance of large- and local-scale landscape factors in driving acoustic characteristics across an urbanization gradient, and visualize changes in the soundscape over space and time. PRINCIPAL FINDINGS: Anthropogenic noise (anthrophony) was strongly predicted by a landcover-based metric of urbanization (within a 10 km radius), with presence of a public park as a secondary influence; this urbanization signal was apparent even in below-water recordings. The percent of hourly measurements exceeding noise thresholds associated with outdoor disturbance was 67%, 17%, and 0%, respectively, for lakes characterized as High, Medium, and Low urbanization. Decreased biophony (proportion of natural sounds) was associated with presence of a public park followed by increased urbanization; time of day was also a significant predictor of biophony. Local-scale (shoreline) residential development was not related to changes in anthrophony or biophony. The patterns we identify are illustrated with a multivariate approach which allows use of entire sound samples and facilitates interpretation of changes in a soundscape. CONCLUSIONS/SIGNIFICANCE: As highly valued residential and recreation areas, lakes represent everyday soundscapes important to both humans and wildlife. Our findings that many of these areas, particularly those with public parks, routinely experience sound types and levels associated with disturbance, suggests that urban planners need to account for the effect of increasing development on soundscapes to avoid compromising goals for ecological and human health.

PMID: 23424636 [PubMed – in process]

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Relationship between effective population size, inbreeding and adult fitness-related traits in a steelhead (Oncorhynchus mykiss) population released in the wild.

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Relationship between effective population size, inbreeding and adult fitness-related traits in a steelhead (Oncorhynchus mykiss) population released in the wild.

Mol Ecol. 2013 Feb 4;

Authors: Naish KA, Seamons TR, Dauer MB, Hauser L, Quinn TP

Abstract
Inbreeding is of concern in supportive breeding programmes in Pacific salmonids, Oncorhynchus spp, where the number of breeding adults is limited by rearing space or poor survival to adulthood, and large numbers are released to supplement wild stocks and fisheries. We reconstructed the pedigree of 6602 migratory hatchery steelhead (Oncorhynchus mykiss) over four generations, to determine the incidence and fitness consequences of inbreeding in a northwest USA programme. The hatchery maintained an effective population size, N˜e = 107.9 from F(0) to F(2) , despite an increasing census size (N), which resulted in a decreasing N(e) /N ratio (0.35 in F(0) to 0.08 in F(2) ). The reduced ratio was attributed to a small broodstock size, nonrandom transfers and high variance in reproductive success (particularly in males). We observed accumulation of inbreeding from the founder generation (in F(4) , percentage individuals with inbreeding coefficients Δf > 0 = 15.7%). Generalized linear mixed models showed that body length and weight decreased significantly with increasing Δf, and inbred fish returned later to spawn in a model that included father identity. However, there was no significant correlation between Δf and age at return, female fecundity or gonad weight. Similarly, there was no relationship between Δf and reproductive success of F(2) and F(3) individuals, which might be explained by the fact that reproductive success is partially controlled by hatchery mating protocols. This study is one of the first to show that small changes in inbreeding coefficient can affect some fitness-related traits in a monitored population propagated and released to the wild.

PMID: 23379933 [PubMed – as supplied by publisher]

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