Age-specificity in territory quality and spatial structure in a wild bird population
Data files
Apr 17, 2025 version files 2.31 MB
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breeding.inds.base.csv
2.24 MB
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nest.box.attributes.csv
49.85 KB
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README.md
7.64 KB
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wood.outline.linestring.rds
7.78 KB
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wood.outline.rds
7.76 KB
Apr 17, 2025 version files 2.31 MB
-
breeding.inds.base.csv
2.24 MB
-
nest.box.attributes.csv
49.85 KB
-
README.md
7.66 KB
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wood.outline.linestring.rds
7.78 KB
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wood.outline.rds
7.76 KB
Abstract
Age influences behaviour, survival, and reproduction; hence variation in population age structure can affect population-level processes. The extent of spatial age structure may be important in driving spatially-variable demography, particularly when space-use is linked to reproduction, yet it is not well understood. We use long-term data from a wild bird population to quantify covariance between territory quality and age and examine spatial age structure. We find associations between age and aspects of territory quality, but little evidence for spatial age structure compared to the spatial structure of territory quality and reproductive output. We also report little between-year repeatability of spatial age structure compared to structure in reproductive output. We suggest that high breeding site fidelity among individuals that survive between years, yet frequent territory turnover driven by high mortality and immigration rates, limits the association between age and territory quality and weakens overall spatial age structure. Greater spatial structure and repeatability in reproductive output compared to age suggests that habitat quality may be more important in driving spatially-variable demography than age in this system. We suggest that the framework developed here can be used in other taxa to assess spatial age structure, particularly in longer-lived species where we predict from our findings there may be greater structure.
This README.txt file was updated on 09/06/2025
A. Paper associated with this archive: Age-specificity in territory quality and spatial structure in a wild bird population
Citation: Woodman et al., under review.
Brief abstract: Age influences behaviour, survival, and reproduction; hence variation in population age structure can affect population-level processes. The extent of spatial age structure may be important in driving spatially-variable demography, particularly when space-use is linked to reproduction, yet it is not well understood. We use long-term data from a wild bird population to quantify covariance between territory quality and age and examine spatial age structure. We find associations between age and aspects of territory quality, but little evidence for spatial age structure compared to the spatial structure of territory quality and reproductive output. We also report little between-year repeatability of spatial age structure compared to structure in reproductive output. We suggest that high breeding site fidelity among individuals that survive between years, yet frequent territory turnover driven by high mortality and immigration rates, limits the association between age and territory quality and weakens overall spatial age structure. Greater spatial structure and repeatability in reproductive output compared to age suggests that habitat quality may be more important in driving spatially-variable demography than age in this system. We suggest that the framework developed here can be used in other taxa to assess spatial age structure, particularly in longer-lived species where we predict from our findings there may be greater structure.
B. Originators:
Woodman J. P., The Edward Grey Institute of Field Ornithology, University of Oxford.
Firth, J. A., School of Biology, University of Leeds. The Edward Grey Institute of Field Ornithology, University of Oxford.
Cole, E. F. The Edward Grey Institute of Field Ornithology, University of Oxford.
Sheldon, B. C. The Edward Grey Institute of Field Ornithology, University of Oxford.
J.P.W., J.A.F., E.F.C. and B.C.S. conceived the study and contributed to data collection. J.P.W. analysed the data. J.P.W. wrote the first draft of the manuscript, with substantial input from J.A.F., E.F.C. and B.C.S.
C. Contact information:
Name - Dr Joe Woodman
email - jwoodman999@hotmail.co.uk
D. Dates of data collection: 1978–2022
E. Geographic Location of data collection: Wytham Woods, Oxford (51°46’N, 1°20’W)
F. Funding Sources:The Edward Grey Institute of Field Ornithology
ACCESS INFORMATION
- Licenses/restrictions placed on the data or code: CC0 1.0 Universal
- Data derived from other sources: NA
- Recommended citation for this data/code archive: Woodman et al., 2025.
DATA & CODE FILE OVERVIEW
This data repository consist of 4 data files, 1 code script (uploaded at Zenodo), and this README document, with the following data and code filenames and variables:
Data files and variables
- breeding.inds.base.csv. Individual breeding data 1978-2022 with columns:
“Box” - nest-box id
“Section” - section within study site
“Year” - year of breeding
“Ring” - individual ring number. NA refers to non-available data, where the breeding individual was never identified at the nest-box.
“Sex” - female (F) or male (M)
“Known.dob” - year of hatching of focal individual. NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their year of hatching is not known.
“Latest.dob” - latest year of hatching of focal individual when exact age is not known. NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their year of hatching is not known.
“Known.age” - exact age of focal individual in years since hatching. Cell is blank when only the minimum age can be calculated. NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their age cannot be estimated.
“Min.age” - minimum age of focal individual when exact age cannot be calculated in years since hatching. Cell is blank if the exact age can be calculated. NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their age cannot be estimated.
“Bin.age” - age; either a yearling (Juv) or older (Ad). NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their age cannot be estimated.
“Disc.age” - age; 1, 2, 3, 4, or 5+ (in years since hatching). NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their age cannot be estimated.
“Cont.age” - age; 1-9 (in years since hatching). NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their age cannot be estimated.
“Imm.status” - whether individual hatched within (Resident) or outside (Immigrant) the study site. NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their residency status cannot be estimated.
“Settled.status” - whether the individual immigrated into the study site within the last year (New) or not (Settled). NA refers to non-available data, where the breeding individual was never identified at the nest-box and therefore their residency status cannot be estimated.
“April.lay.date” - day that the first egg is laid starting from April 1st (i.e. 1 = April 1st). NA refers to non-available data, where the date at which the first egg was laid cannot be calculated due to fieldworker error.
“Clutch.size” - number of eggs laid\
“Num.chicks” - number of chicks hatched
“Num.fledglings” - number of chicks fledged
“Binary.succ” - binary measure of if any chicks fledged (1) or not (0) - nest.box.attributes.csv. Nest-box information with columns:
“Box” - nest-box id
“X” - X coordinate of nest-box
“Y” - Y coordinate of nest-box
“Num.oaks” - number of oaks within 75m of nest-box
“Num.occupied” - number of times the nest-box has been occupied 1965-2022
“Num.occ.dstnct” - number of times the nest-box has been occupied 1965-2022, excluding occupation where either the male or female has previously occupied the box
“Boxes.30” - number of nest-boxes within 30m of the focal nest-box
“Pop.index” - the long-term popularity index of a box, derived from the residuals of a linear model where the number of times occupied (excluding cases where either the male or female has previously occupied the box) ~ number of boxes within 30m - wood.outline.rds. Polygon of study site border
- wood.outline.linestring.rds. Linestring of study site border
Code scripts
ANALYSIS - Age-specificity in territory quality and spatial structure in a wild bird population.R.
SOFTWARE VERSIONS
R version 4.4.1 (2024-06-14)
Platform: x86_64-apple-darwin20
Running under: macOS 15.3.2
Packages: dplyr_1.1.4 stringr_1.5.1 ggplot2_3.5.1 GGally_2.2.1 Matrix_1.7-0 lme4_1.1-35.5 assortnet_0.20 sf_1.0-16 tidyr_1.3.1 geodist_0.1.0 spaa_0.2.2 spData_2.3.1 spdep_1.3-5 progress_1.2.3 sp_2.1-4 broom.mixed_0.2.9.5 gt_0.11.1 purrr_1.0.2
(i) Study system and data collection
The great tit Parus major is a passerine bird found in woodlands across Europe, with breeding ages ranging 1–9, averaging 1.8 years [1–3]. Although there are some continuous changes with age [1], the main age effects on individual-level traits are captured by two age-classes: first-years (hereafter yearlings) and older (hereafter adults [2–6]). The species is socially monogamous, with pairs defending territories during annual breeding seasons [7]. Data used here are from a long-term study in Wytham Woods, Oxford (51°46’N, 1°20’W), a 385ha mixed deciduous woodland surrounded by farmland [8]. The tit population has been monitored since 1947, where breeding adults and their chicks have been marked with unique BTO (British Trust for Ornithology) rings since the 1960s; and standard reproductive metrics are collected [9]. Individuals breed almost exclusively in the 1026 nest-boxes which are in fixed positions with known GPS coordinates [10,11]. All chicks are ringed at 14-days of age, while adults are trapped at nest-boxes and identified by ring number, or marked with a new ring if they are immigrants. Age is based on year of hatching for local birds, or plumage characteristics for immigrants [12]. Although immigration rates are high (46%), most are first caught as yearlings (78%) and can therefore be aged accurately.
(ii) Data selection
We constructed a dataset that assigns the year of hatching to all individuals between 1950–2022, across which exact age was calculated for 88.8% of 46062 identified breeding individuals. In this study, we included birds in analyses that attempted to breed between 1978–2022, for which data were more complete compared to earlier dates. Individuals that were first caught post-fledging are assumed to be immigrants, as locally-hatched tits are marked as nestlings in nest-boxes and the proportion of birds hatched in natural cavities is very low [13]. Immigrants that entered the population with adult plumage were assigned a minimum age of 2, and subsequent age estimates were based on this (6.7% and 10.0% of breeding females and males). Age was therefore determined for 68.7% of breeding individuals where at least one egg was laid (due to a combination of nests failing prior to adult trapping and unsuccessful trapping attempts, there are cases where the identity of parents is unknown).
(iii) Statistical analyses
Determining breeding territories
We defined annual breeding territories through a Dirichlet tessellation technique that forms Thiessen polygons [14,15] around each occupied nest-box. The polygon includes all space within the habitat that is closer to the focal box than any other (with a boundary also imposed by the woodland edge). This metric of territory has been shown to be biologically meaningful in terms of territory size and territorial neighbours in tit species and is strongly related to other methods of calculating territories [10,16–19]. However, a limitation is that unrealistically large polygons are formed in areas where nest-boxes are placed at great distances from each other. We therefore capped territories at 2ha, which is a more realistic maximum spatial scale at which individuals use territories, as supported in previous analytical and field studies [10,11,20,21].
Age and territory quality
We first assessed covariance between the age of individuals and their territories’ quality. We measured territory quality through four measures: the number of oak trees Quercus spp. within 75m of the nest-box; average territory density; the edge distance index; and the long-term nest-box popularity index. Each of these is justified below.
Great tits predominantly provision offspring with caterpillars collected close to their nests [3], thus variation in caterpillar availability is directly linked to reproductive success [22–24]. Caterpillars are found most abundantly on oak trees [3,22], therefore oak proximity, health and abundance is important for breeding success [10,18,25,26]. A radius of 75m was chosen as the abundance of oaks within this distance has been shown to be particularly important for breeding [27,28].
The density of conspecifics breeding in proximity may influence resource availability if foraging ranges overlap, and therefore territory density may also represent an aspect of territory quality. Additionally, territory density may affect site quality through social mechanisms, such as increased competition and emergent need for territory defence leading to reduced foraging [29], or conversely mutual benefits between familiar neighbours [18,30,31]. We calculated average territory density directly from the Thiessen polygon area produced from tessellation by taking the reciprocal of the mean polygon area.
Territories at woodland edges are associated with lower reproductive success in great tits [21]. Following Wilkin et al. (2007) [21], we defined the edge distance index (EDI) for each nest-box by multiplying the distance to forest edge by the proportion of woodland habitat within a 75m radius of the box. Thus, boxes within 75m of the edge have an EDI value in proportion to the amount of woodland habitat within this radius, therefore considering not only the distance to edge, but also the number and geometric arrangement of edges relative to nest-box.
Finally, the frequency a territory is occupied in the long-term may provide a measure of quality as individuals may choose sites that confer reproductive benefits more often, as evidenced in other species [32–36]. There is evidence of this in Wytham, where the number of times a nest-box has been occupied positively correlates with the average number of offspring that fledge per breeding attempt. We therefore calculated the frequency of occupancy of each nest-box independent of individual breeding site fidelity by calculating the number of times a nest-box has been occupied since 1965 by a new breeding individual (i.e. attempts where either the female or male had previously used the same box were removed). However, nest-box occupation frequency is related to nest-box density, because in areas of high density there are multiple unoccupied boxes which would likely be associated with the same territorial range if they were occupied (thus, in regions of high box density, birds may re-occupy the same territory over multiple years, but not necessarily the exact same box). To correct for this, we ran a linear model between the number of boxes within 30m of a focal nest-box and the number of times said box has been occupied by a new breeding individual, and took the residuals as the long-term nest-box popularity index.
We constructed a generalised linear mixed-effects model assuming a binomial error distribution to analyse the association between these four measures of territory quality and the age of the breeding individual. We modelled age (juvenile/adult) as the response variable, with the territory quality measures as explanatory variables, which were z-transformed to compare their relative effects in predicting age. Individual ID, nest-box ID, and breeding year were included as random effects. We ran three sets of these models: one with all individuals; one with only females; and one with only males, allowing us to assess potential sex-specific differences in the association between aspects of territory quality and age. All models were conducted in R statistical software [37] using the lme4 package [38].
Spatial age structure
For each year’s breeding population, we constructed an individual-by-individual matrix denoting breeding neighbours i.e. a network of breeding territories, where nodes represent individuals and edges represent the spatial connectivity of territories. Specifically, edges connected individuals if their territories share a boundary from the tessellation technique and were weighted relative to the distance between nest-boxes of neighbouring territories.
We created three networks per year: one with all individuals (but removing edges within breeding pairs that occupy the same territory); one with only females; and one with only males. Edges connecting individuals of unknown identity were removed. Across these networks, we calculated the assortativity coefficient of age (juvenile/adult), which measures the correlation between individuals’ age and that of their territorial neighbours accounting for edge weight (proximity of neighbouring nest-boxes) and the relative proportion of the two age classes across the network. Through this technique, the age-composition of neighbourhoods of birds that are likely to interact during territorial and foraging behaviour contribute to the emergent quantitative signal of spatial age structure to a greater degree than they would if spatial autocorrelation were calculated through pairwise distance of all individuals across the system. Thus, this method allows us to assess evidence for spatial age structure at a biologically relevant scale. We also ran analyses to compare spatial age structure with spatial structuring of territory quality and reproductive output. To calculate territory quality structure, we assigned the value from the previously described four measures of quality to each node (associated with an occupied nest-box) and calculated the territory quality assortativity coefficient across the network. For spatial reproductive output structure, we ran parallel analyses, but calculated the assortativity in clutch size, chick number, fledgling number, and binary success (where 0 is no fledglings and 1 is at least one fledgling) associated with each nest-box. These analyses were run using the assortnet package[39].
Temporal repeatability of spatial age structure
Finally, we tested whether spatial regions show temporal repeatability in age-composition, territory quality, and reproductive output. To assess this, within each year, we defined a radius around each occupied nest-box that corresponded to an area of 25, 50, 100, 150 and 200ha, representing neighbourhoods of breeding individuals of variable population sizes. Within each radius we calculated: the proportion of individuals that were adults; the mean number of oaks within 75m of the focal boxes; mean territory density; mean edge distance index; mean nest-box popularity index; mean clutch size; mean chick number; mean fledgling number; and proportion of boxes with binary success. We then calculated the same metrics for all nest-boxes outside of the focal radius. From this, we calculated a ratio index of within versus outside radius for each calculated measure, where a value of one represents the same annual average measure within and outside the radius. We then tested the repeatability of the ratio index associated with each spatial scale across the 45 years of data by calculating the intraclass correlation coefficient (ICC) derived from a linear mixed-effects model, where the response variable is the ratio index, and year and radius area are fitted as categorical grouping variables.
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