0000000000922245
AUTHOR
Ari Huusko
Genome-wide divergence patterns support fine-scaled genetic structuring associated with migration tendency in brown trout
Brown trout (Salmo trutta) exhibit highly diverse life histories varying from resident, slow-growing, and early maturing to migratory, fast-growing, and late maturing, even within single watersheds. We sampled 11 locations within the transboundary Finnish–Russian River Koutajoki watershed to evaluate genomic differences among mainstem and headwater sites, of which some are isolated by migration barriers. Restriction site associated sequencing (RADSeq) revealed that the most headwater localities supported unique, isolated populations with generally lower heterozygosity compared with the mainstem populations. The sampled migratory adults in the three main stems showed signals of admixture de…
Comparing RADseq and microsatellites for estimating genetic diversity and relatedness : Implications for brown trout conservation
The conservation and management of endangered species requires information on their genetic diversity, relatedness and population structure. The main genetic markers applied for these questions are microsatellites and single nucleotide polymorphisms (SNPs), the latter of which remain the more resource demanding approach in most cases. Here, we compare the performance of two approaches, SNPs obtained by restriction-site-associated DNA sequencing (RADseq) and 16 DNA microsatellite loci, for estimating genetic diversity, relatedness and genetic differentiation of three, small, geographically close wild brown trout (Salmo trutta) populations and a regionally used hatchery strain. The genetic di…
Synthesis of habitat restoration impacts on young-of-the-year salmonids in boreal rivers
River restoration offers the potential to enhance biological integrity, often measured as fish population changes. We used a meta-analytical approach to synthesize density responses to in-stream habitat restoration by young-of-the year (YOY) brown trout and Atlantic salmon in 28 rivers (overall 32 restoration projects) in Finland. We also examined which local and watershed-scale factors most influenced restoration success. Finally, we conducted an expert survey to obtain an independent estimate of a sufficient density enhancement for restoration to be considered successful. Despite strong context-dependency, habitat restoration had an overall positive effect on YOY salmonid density. When co…
Quantifying and addressing the prevalence and bias of study designs in the environmental and social sciences
Building trust in science and evidence-based decision-making depends heavily on the credibility of studies and their findings. Researchers employ many different study designs that vary in their risk of bias to evaluate the true effect of interventions or impacts. Here, we empirically quantify, on a large scale, the prevalence of different study designs and the magnitude of bias in their estimates. Randomised designs and controlled observational designs with pre-intervention sampling were used by just 23% of intervention studies in biodiversity conservation, and 36% of intervention studies in social science. We demonstrate, through pairwise within-study comparisons across 49 environmental da…
Dark matters : contrasting responses of stream biofilm to browning and loss of riparian shading
Concentrations of terrestrial-derived dissolved organic carbon (DOC) in freshwater ecosystems have increased consistently, causing freshwater browning. The mechanisms behind browning are complex, but in forestry-intensive regions browning is accelerated by land drainage. Forestry actions in streamside riparian forests alter canopy shading, which together with browning is expected to exert a complex and largely unpredictable control over key ecosystem functions. We conducted a stream mesocosm experiment with three levels of browning (ambient vs. moderate vs. high, with 2.7 and 5.5-fold increase, respectively, in absorbance) crossed with two levels of riparian shading (70% light reduction vs.…
Diel feeding periodicity, daily ration and prey selectivity in juvenile brown trout in a subarctic river
Feeding of age-1 brown trout Salmo trutta in a third-order river in northern Finland was usually highest in the twilight hours and lowest around midday. Diel periodicity in food intake was less distinct and rarely significant for age-0 trout. Daily rations declined seasonally, being lowest in October, and highest in June (age-1 trout) or early August (age-0 trout). Prey selection did not differ between day and night, but differences between age classes and sampling dates were distinct. Age-0 trout preferred Ephemerella nymphs in summer and Micrasema larvae later in the season. Age-1 trout fed selectively on caddis larvae on all sample dates. Aerial insects and Baetis nymphs were avoided by …
Life in the ice lane: the winter ecology of stream salmonids
Despite the common view that conditions in winter strongly influence survival and population size of fish, the ecology of salmonids has not been as extensively studied in winter as in other seasons. In this paper, we review the latest studies on salmonid winter survival, habitat use, movement and biotic interactions as they relate to the prevailing physical and habitat conditions in rivers and streams. The majority of research conducted on the winter ecology of salmonids has been carried out in small rivers and streams, where temperatures are above zero and where there is no ice. Investigations in large rivers, regulated and dredged rivers, and under conditions of different ice formations a…
Comparison of migratory and resident populations of brown trout reveals candidate genes for migration tendency
Candidate genes associated with migration have been identified in multiple taxa: including salmonids, many of whom perform migrations requiring a series of physiological changes associated with the freshwater–saltwater transition. We screened over 5,500 SNPs for signatures of selection related to migratory behavior of brown trout Salmo trutta by focusing on ten differentially migrating freshwater populations from two watersheds (the Koutajoki and the Oulujoki). We found eight outlier SNPs potentially associated with migratory versus resident life history using multiple (≥3) outlier detection approaches. Comparison of three migratory versus resident population pairs in the Koutajoki watershe…
Comparison of Migratory and Resident Populations of Brown Trout Reveals Candidate Genes for Migration Tendency
Abstract Candidate genes associated with migration have been identified in multiple taxa: including salmonids, many of whom perform migrations requiring a series of physiological changes associated with the freshwater–saltwater transition. We screened over 5,500 SNPs for signatures of selection related to migratory behavior of brown trout Salmo trutta by focusing on ten differentially migrating freshwater populations from two watersheds (the Koutajoki and the Oulujoki). We found eight outlier SNPs potentially associated with migratory versus resident life history using multiple (≥3) outlier detection approaches. Comparison of three migratory versus resident population pairs in the Koutajoki…
Occurrence of Two-Year Cyclicity, “Saw-Blade Fluctuation”, in Vendace Populations in Finland
The tendency towards two-year cyclicity is considered typical of many Fennoscandian vendace populations, especially in fluctuation of recruitment, based on time series of individual lakes. We used two robust indicators to identify and quantify two-year cycles in vendace population proxy time series at different life-stages — spawning stock biomass (SB), density of newly hatched larvae (LD) and recruitment (REC) — from 22 Finnish lakes. Then we applied Fisher’s meta-analytical test to assess the adequacy of the evidence to support the hypothesis that vendace population dynam-ics include two-year cyclicity. The results supported this hypothesis for RECbut not for SB or LD. Yet, the indicators…
Management of human-induced contemporary evolution to maintain and restore genetic diversity in brown trout
Maintaining genetic diversity and integrity of animal populations is a key challenge in conservation. While ecological population declines can be reversed, loss of genetic diversity and original trait distribution is often a one-way road. Migratory brown trout is critically endangered in Finland due to extensive modification of river ecosystems and unrestricted fishing on feeding areas. In addition to being too intense in general, fishing creates challenges by being selective for a number of traits in fish. We have shown that recreational angling, for example, is selective for certain personality traits and can cause inherited behavioural changes in the offspring of brown trout. Only a few …
Genetic causes and consequences of Brown trout migratory behaviour
Salmonids are among the most famous and economically important migrating organisms, but unfortunately also often endangered because of multiple human activities. As many other salmonids, brown trout exhibits diverse life history types related to migration strategies. Resident brown trout stay in rivers for their entire life. In contrast, migratory trout undergo a physiological and morphological transformation called smoltification before leaving their natal rivers to enter either sea, lakes or larger river sections. While the phenotypic variation between resident and migratory ecotypes is well documented, little is known about the intraspecific genetic variation associated with these differ…
In-stream restoration in forestry impacted catchments: benefits to stream habitats, brown trout populations and society
Forestry and wood industry have formed a foundation for Finland’s national economy, yet inevitably at the expense of aquatic environments. From 1940s to 1970s, to provide energy resources for the industry sector, majority of large rivers were dammed for hydropower, blocking off their longitudinal connectivity. Concurrently, majority of the stream channels were dredged to facilitate timber transportation from headwaters to downriver factories. While most large rivers remain blocked, the timber floating ceased in the 1980s, and legislation imposing restoration as well as intensive restoration programs have been established ever since. Habitat restoration has mostly been motivated by the enhan…