Data and code from: Seasonal timing of ecosystem linkage mediates life-history variation in a salmonid fish population
Data files
Apr 19, 2025 version files 49.65 KB
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01_Raw_Data.zip
13.24 KB
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02_Formatted_Data.zip
20.04 KB
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03_R_Scripts.zip
11.26 KB
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README.md
5.12 KB
Abstract
Life-history variation can contribute to long-term persistence of populations; however, it remains unclear which environmental factors drive life-history variation within a population. Seasonally recurring resource subsidies are common in nature and may influence variations in recipient consumers’ life-history traits. In this study, we experimentally demonstrated that terrestrial invertebrate subsidies occurring early in the growing season facilitated consumer individuals to adopt fast growth. In contrast, fewer consumer individuals adopted fast growth when subsidies occurred late in the growing season. Consumer individuals that adopted fast growth matured early at age-1, suggesting that the observed variation in life-history emerged along with a fast–slow life-history continuum. The estimated survival probability was lower in consumer individuals from the faster-growth cluster in the no-supply treatment, suggesting a growth–survival trade-off. However, the growth–survival trade-off became unclear in the early-supply treatment and even reversed in the late-supply treatment. As a result, the frequency of consumer individuals maturing at age-1 was higher in the early-supply treatment than in the late-supply treatment and no-supply treatment, implying a higher short-term population growth with the early subsidies. Our findings highlight that seasonal ecosystem linkages through resource subsidies help us understand how life-history variation can be maintained within a population at the landscape scale.
Description of the raw data and file structure
Data_S1: Information for all individuals
No: Row number
id: ID for each fish
year: Year of captured fish
month: Month of captured fish
day: Date of captured fish
treatment: Experimental treatment
section: Stream section (i.e., replicate)
landmark: Captured location of each fish
fork length_mm: Fork length of fish (unit: mm)
weight_g: Weight of fish (unit: g)
mature: Maturation status of fish. 1: matured, 0: immatured, nd: no data
cohort: Group of birth year
phenotypic sex: Phenotypic sex of fish. nd: no data
genotypic sex: Genotypic sex of fish identified by a sex-specific molecular marker. nd: no data
sex_merged: Merged data of phenotypic and genotypic sexes. nd: no data
Data_S2: Density of fish
no: Row number
year: Year of captured fish
month: Month of captured fish
section: Stream section (i.e., replicate)
age: Age groups of captured fish. 0: age-0, 1+: age-1 and older
estimated density_fish・m−2: Density of fish of each section estimated by model zippen in the program Capture (unit: fish・m−2)
95% lower limit of CI_fish・m−2: Lower limit of the 95% confidence interval of the estimated density (unit: fish・m−2)
95% upper limit of CI_fish・m−2: Upper limit of the 95% confidence interval of the estimated density (unit: fish・m−2)
Data_S3: Natural input rate of terrestrial invertebrates
no: Row number
year: Year of sampling
month: Month of sampling
period: Experimental period
treatment: Experimental treatment
section: Stream section (i.e., replicate)
terrestrial invertebrates_mg・m−2 day−1: Input rate of terrestrial invertebrate in each section (unit: mg・m−2 day−1)
Data_S4: Total mass of invertebrate consumption
no: Row number
year: Year of captured fish
period: Experimental period
treatment: Experimental treatment
section: Stream section (i.e., replicate)
fork length_mm: Fork length of fish (unit: mm)
mealworms consumption_g: Dry mass of mealworms consumption of each fish (unit: g)
terrestrial or aquatic invertebrates consumption_g: Dry mass of terrestrial or aquatic invertebrates (excluding mealworms) consumption of each fish (unit: g)
total mass of invertebrates consumption_g: Total dry mass of all invertebrates consumption of each fish (unit: g)
Description of the formatted data
Data_S5: Information of growth clusters (k=3) for all individuals
first column (blank): Row number
id: ID for each fish
cluster: Growth cluster (k=3)
Data_S6: Data for survival estimation
first column (blank): Row number
id: ID for each fish
no: Row number in Data_S1
year: Year of captured fish
month: Month of captured fish
day: Date of captured fish
treatment: Experimental treatment
section: Stream section (i.e., replicate)
landmark: Captured location of each fish
fork length_mm: Fork length of fish (unit: mm)
weight_g: Weight of fish (unit: g)
mature: Maturation status of fish. 1: matured, 0: immatured, nd: no data
cohort: Group of birth year
phenotypic sex: Phenotypic sex of fish. nd: no data
genotypic sex: Genotypic sex of fish identified by a sex-specific molecular marker. nd: no data
sex_merged: Merged data of phenotypic and genotypic sexes. nd: no data
distance: Distance from the recapture section to the downstream end of the study reach (unit: m)
cluster: Growth cluster (k=3)
Data_S7: Data for analysis of life-history variation
first column (blank): Row number
X: Row number in Data_S5
id: ID for each fish
cluster: Growth cluster (k=3)
treatment: Experimental treatment
section: Stream section (i.e., replicate)
mature: Maturation status of fish. 1: matured, 0: immatured
sex_merged: Merged data of phenotypic and genotypic sexes. nd: no data
yearmonth: year and month of captured fish
Description of the R scripts
Script_01_SpecificGrowthRate: Analysis of population-mean growth rate
Script_02_FiniteMixtureRegressionModel: Run the finite mixture model and estimation growth trajectories
Script_03_DataFormatting: Format and create of Data_S5−7
Script_04_AssociationGrowthMaturation: Test the association of growth clusters with maturation at age-1
Script_05_LifehistoryVariation: Analysis of life-history variation using log-linear models
Script_06_SexdependentLifehistory: Test the sex-dependence in life-history variation
Script_07_DensitydependentEffect: Test the density-dependent effect on growth rate
Script_08_NaturalTerrestrialInvertebrate: Natural input rates of terrestrial invertebrates in the study reaches
Script_09_ConsumptionRate: Test the effect of experimental subsidy on cunsumption rate
Other data and code
The data and code used for estimating survival probability is available on GitHub (https://github.com/aterui/public-proj_wakayama-exp).
Sharing/Access information
Please contact the corresponding author (Rui Ueda: r.ueda@ecology.kyoto-u.ac.jp) if you are interested in using the data.
