Data and code from: How do synchrony in survival and productivity influence abundance synchrony in European landbirds?
Data files
Apr 22, 2025 version files 2.91 MB
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activeLU_siteID.csv
91.94 KB
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Capture_history_CES.csv
1.36 MB
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correlogram_count_CES.csv
2.98 KB
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correlogram_productivity_CES.csv
2.66 KB
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correlogram_survival_CES.csv
2.70 KB
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Correlograms.R
4.76 KB
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count_data_CES.csv
77.02 KB
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count_data_PECBMS.csv
1.07 MB
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detrended_count_CES.csv
46.42 KB
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detrended_productivity_CES.csv
45.30 KB
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detrended_survival_CES.csv
79.80 KB
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pairs_count_CES.csv
24.62 KB
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pairs_productivity_CES.csv
18.15 KB
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pairs_survival_CES.csv
20.60 KB
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productivity_data_CES.csv
30.68 KB
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README.md
6.82 KB
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sqq100centroids.csv
28.68 KB
Abstract
Synchronous fluctuations in species’ abundance are influenced by synchrony in underlying rates of productivity and survival. However, it remains unclear how rate synchrony varies in space and time, contributes to abundance synchrony, and differs among species. Using long-term annual count (number of adults captured), adult survival and productivity (number of juveniles captured per adult) data for breeding land-birds at ringing sites across Europe, we show that synchrony is strongest and largest-scale in productivity, and weakest and smallest-scale in counts. However, counts fluctuate more synchronously with survival than they do with productivity. These patterns hold for species which do not migrate or only migrate within Europe (European-residents) and those migrating to sub-Saharan Africa (subSaharan-migrants), but the periodicity of productivity and survival synchrony is longer in European-residents than subSaharan-migrants. This suggests that survival and productivity synchrony may interact to weaken abundance fluctuations, but are influenced by environmental drivers operating over differing timescales in European-resident and subSaharan-migrantspecies.
https://doi.org/10.5061/dryad.pnvx0k709
Description of the data and file structure
Data were collated from 995 Euro-CES sites, spanning 12 countries across Europe, all of which use standardised mist-netting during the breeding season to measure the relative productivity and annual adult survival rates of passerine birds. At each Euro-CES site, licensed ringers deploy a series of mist-nets in the same positions, for the same length of time, during morning and/or evening visits, typically between April-May and July-August (the season starts and ends later at higher latitudes). Data submitted as part of Euro-CES scheme follow local guidelines for ageing individuals, typically on the basis of plumage characteristics, according to strict and standardised protocols and undertaken by experienced, qualified ringers.
Files and variables
File: pairs_productivity_CES.csv
Description: Pair-wise correlations between each site (grid cell).
Variables
- cors: pair-wise correlation coefficient. NAs are when there are too few sites to estimate the correlation.
- focal: focal site
- sqq: other site
- nyears: number of years site has been running for (years).
File: activeLU_siteID.csv
Description: a look up table which specifies if site is active or not in each year.
File: correlogram_productivity_CES.csv
Description: Results of correlogram analysis for productivity.
Variables
- sqq: site/grid cell.
- intercept: strength of synchrony.
- interceptlo: strength of synchrony - lower CI.
- interceptup: strength of synchrony - upper CI.
- scale: scale of synchrony.
- scalelo: scale of synchrony - lower CI.
- scaleup: scale of synchrony - upper CI.
- scale_se: scale of synchrony - standard error.
- minmaxdistance: minimum distance (km).
File: correlogram_survival_CES.csv
Description: Results of correlogram analysis for survival.
Variables
- sqq: site/grid cell.
- intercept: strength of synchrony.
- interceptlo: strength of synchrony - lower CI.
- interceptup: strength of synchrony - upper CI.
- scale: scale of synchrony.
- scalelo: scale of synchrony - lower CI.
- scaleup: scale of synchrony - upper CI.
- scale_se: scale of synchrony - standard error.
- minmaxdistance: minimum distance (km).
File: productivity_data_CES.csv
Description: Productivity data.
Variables
- sqq: 100km grid square.
- siteID: unique site id.
- year: year.
- adults: number of adults.
- juveniles: number of juveniles.
- country: country.
File: count_data_CES.csv
Description: Count data.
Variables
- sqq: 100 km grid cell.
- siteID: unique site id.
- year: year.
- adults: number of adults.
- species: species.
- country: country.
- year.f: year as a factor/categorical variable.
File: correlogram_count_CES.csv
Description: Results of correlogram analysis for count data.
Variables
- sqq: site/grid cell.
- intercept: strength of synchrony.
- interceptlo: strength of synchrony - lower CI.
- interceptup: strength of synchrony - upper CI.
- scale: scale of synchrony.
- scalelo: scale of synchrony - lower CI.
- scaleup: scale of synchrony - upper CI.
- scale_se: scale of synchrony - standard error.
- minmaxdistance: minimum distance (km).
File: detrended_productivity_CES.csv
Description: Detrended annual productivity data.
Variables
- year.f: year as a factor/categorical variable.
- pred: annual estimates of productivity on logit scale (logit(number of juveniles per adult)).
- predtrans: annual estimates of productivity response scale (log(number juveniles per adult)).
- year: year.
- year2: year scaled so the first year = 1.
- year.c: year centred.
- predlinear: predicted annual productivity from linear model (log(number of juveniles per adult)).
- residuals: residuals of linear model.
- sqq: 100km grid square.
File: sqq100centroids.csv
Description: Spatial centroids of 100km grid cells.
Variables
- sqq: 100km grid cell.
- lat: latitude.
- long: longitude.
File: pairs_count_CES.csv
Description: Pair-wise correlations between each site (grid cell). NAs are when there are too few sites to estimate the correlation.
Variables
- cors: pair-wise correlation coefficient.
- focal: focal site
- sqq: other site
- nyears: number of years site has been running for (years).
File: detrended_count_CES.csv
Description: Detrended annual count data.
Variables
- year.f: year as a factor/categorical variable.
- pred: annual estimates of counts (number of individuals).
- year: year.
- year2: year scaled so the first year = 1.
- year.c: year centred.
- predlinear: predicted annual counts from linear model (number of individuals).
- residuals: residuals of linear model.
- sqq: 100km grid square.
File: pairs_survival_CES.csv
Description: Pair-wise correlations between each site (grid cell). NAs are when there are too few sites to estimate the correlation.
Variables
- cors: pair-wise correlation coefficient.
- focal: focal site
- sqq: other site
- nyears: number of years site has been running for (years).
File: detrended_survival_CES.csv
Description: Annual detrended survival estimates.
Variables
- predicted: predicted annual estimate of survival.
- predictedCRlo: predicted annual estimate of survival - lower confidence interval.
- predictedCRup: predicted annual estimate of survival - upperconfidence interval.
- year: year
- year2: year squared.
- year.c: year centred.
- year.c2: year centred squared.
- predlinear: predicted estimates of survival from linear model.
- residuals: residuals from linear model.
- sqq: 100km grid cell.
File: Capture_history_CES.csv
Description:
Variables
- siteID: unique site id.
- ring: ring number
- X1998 - X2019 - capture history.
- Extra: additional column for transient analysis (within season capture).
- recaught: weather or not an individual was recaptured in first year of capturing.
- firstcapture_visit: the visit on which an individual was first captured.
- last.year:
- f: the visit on which an individual was first captured.
- nyears: number of years site/grid cell has been run.
- sqq: 100km grid cell.
Access information
Other publicly accessible locations of the data:
Data were collated from 995 Euro-CES sites, spanning 12 countries across Europe, all of which use standardised mist-netting during the breeding season to measure the relative productivity and annual adult survival rates of passerine birds (Table S1). At each Euro-CES site, licensed ringers deploy a series of mist-nets in the same positions, for the same length of time, during morning and/or evening visits, typically between April-May and July-August (the season starts and ends later at higher latitudes). Data submitted as part of Euro-CES scheme follow local guidelines for ageing individuals, typically on the basis of plumage characteristics, according to strict and standardised protocols and undertaken by experienced, qualified ringers (Svensson, 2023). We only included years in which sites were (a) visited seven or more times in the season (including at least three visits in each of the first and second halves of the season), (b) had been running for five or more years and, only for estimates of productivity and apparent survival rates (hereafter survival) for each species, (c) on which two (the minimum needed to estimate these vital rates) or more adults had been captured in total, between 1998 and 2019. This therefore excludes sites which have either never caught an adult of that species or only caught one, as neither productivity nor survival rates could be estimated in these cases.