| Literature DB >> 28146570 |
Claire Guyot1, Raphaël Arlettaz1,2, Pius Korner3, Alain Jacot1,2.
Abstract
Vineyards are likely to be regionally important for wildlife, but we lack biodiversity studies in this agroecosystem which is undergoing a rapid management revolution. As vine cultivation is restricted to arid and warm climatic regions, biodiversity-friendly management would promote species typical of southern biomes. Vineyards are often intensively cultivated, mostly surrounded by few natural features and offering a fairly mineral appearance with little ground vegetation cover. Ground vegetation cover and composition may further strongly vary with respect to season, influencing patterns of habitat selection by ecological communities. We investigated season-specific bird-habitat associations to highlight the importance of semi-natural habitat features and vineyard ground vegetation cover throughout the year. Given that avian habitat selection varies according to taxa, guilds and spatial scale, we modelled bird-habitat associations in all months at two spatial scales using mixed effects regression models. At the landscape scale, birds were recorded along 10 1-km long transects in Southwestern Switzerland (February 2014 -January 2015). At the field scale, we compared the characteristics of visited and unvisited vineyard fields (hereafter called parcels). Bird abundance in vineyards tripled in winter compared to summer. Vineyards surrounded by a greater amount of hedges and small woods harboured higher bird abundance, species richness and diversity, especially during the winter season. Regarding ground vegetation, birds showed a season-specific habitat selection pattern, notably a marked preference for ground-vegetated parcels in winter and for intermediate vegetation cover in spring and summer. These season-specific preferences might be related to species-specific life histories: more insectivorous, ground-foraging species occur during the breeding season whereas granivores predominate in winter. These results highlight the importance of investigating habitat selection at different spatial scales and all along the annual cycle in order to draw practical, season-specific management recommendations for promoting avian biodiversity in farmland.Entities:
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Year: 2017 PMID: 28146570 PMCID: PMC5287466 DOI: 10.1371/journal.pone.0170176
Source DB: PubMed Journal: PLoS One ISSN: 1932-6203 Impact factor: 3.240
Explanatory variables recorded for habitat selection modelling.
| Variable category | Variable name | Variable type | Recording method | Definition |
|---|---|---|---|---|
| (A) LANDSCAPE SCALE | ||||
| Grove cover | Continuous | QGIS | Proportion grove (% hedges and woodland patches) within the 100-m buffer zone around one transect. | |
| Natural grassy surface cover | Continuous | QGIS | Proportion grassy surfaces outside vine parcels (% steppe and vineyard margins) within the 100-m buffer zone around one transect. | |
| Isolated bushes & trees density | Continuous (discrete) | QGIS | Number of isolated bushes and trees within the 100-m buffer zone around one transect per km. | |
| Building density | Continuous (discrete) | QGIS | Number of buildings (mainly sheds) within the 100-m buffer zone around one transect per km. | |
| (B) FIELD SCALE | ||||
| Green ground vegetation cover | Continuous | In the field | Visually estimated percentage of ground vegetation at the parcel scale (5%-precision, vines not considered). | |
| Brown ground vegetation cover | Continuous | In the field | Visually estimated percentage of ground vegetation at the parcel scale (5%-precision, vines not considered). Proxy for herbicide application and dry material. | |
| Ground vegetation height | Continuous | In the field | Visually estimated mean height of ground vegetation (cm). | |
| Vineyard cultivation mode | Categorical | In the field | Distance between plant rows: short for gobelets (typically ca.100-110 cm spacing), large for wires (ca. 120–200 cm spacing) [ | |
| Grape vine abundance | Continuous (discrete) | In the field | Number of grape bunches counted on five vine plants. Every second vine plant located in a randomly selected row on the parcel was considered for quantifying grape abundance. | |
| Parcel area | Continuous | QGIS | Area of the parcel (m2). | |
| Distance to nearest grove | Continuous | ArcGIS | Distance between a recorded bird observation or a random point and the border of the nearest grove in the same transect (m). | |
| Distance to nearest natural grassy surface | Continuous | ArcGIS | Distance between a recorded bird observation or a random point and the border of the nearest natural grassy surface in the same transect (m). | |
| Distance to nearest isolated bush or tree | Continuous | ArcGIS | Distance between a recorded bird observation or a random point and the nearest isolated bush or tree in the same transect (m). | |
| Distance to nearest building | Continuous | ArcGIS | Distance between a recorded bird observation or a random point and the nearest building border in the same transect (m). | |
(A) Variables considered at the landscape scale.
(B) Variables considered at the field scale. Vegetation structure and vineyard management variables were recorded both for presence and pseudo-absence parcels, whereas distances to landscape structures were compared between presence parcels and random points within the 100-m buffer zone around transects.
Fig 1Study design.
Satellite picture of a typical transect (St-Léonard as an example) surrounded by its arbitrarily defined buffer zone depicting study designs at the two scales considered. (A) Landscape scale with mapped habitat structures. (B) Field scale (B is an excerpt from A): parcels with bird observations depicted by stars (presence data) and parcels with absence of bird observations (pseudo-absence data). Reprinted from Swisstopo under a CC BY license, with permission from Alexandra Frank(see S1 File).
Competitive models from the overall and seasonal model selection procedures at both spatial scales.
| Response variable | # Candidate models | Competitive models (ΔAICc ≤ 2) | Df | Deviance | ΔAICc | Weight | Sample size (# Obs./Transects) |
|---|---|---|---|---|---|---|---|
| (A) LANDSCAPE SCALE: OVERALL HABITAT SELECTION | |||||||
| 16 | 6 | 2090.26 | 0.00 | 0.254 | 235/10 | ||
| 5 | 2093.73 | 1.37 | 0.128 | ||||
| 7 | 2089.91 | 1.78 | 0.104 | ||||
| 7 | 2090.12 | 1.99 | 0.094 | ||||
| 16 | 7 | 1306.31 | 0.00 | 0.203 | 235/10 | ||
| 6 | 1308.80 | 0.37 | 0.169 | ||||
| 5 | 1311.90 | 1.36 | 0.103 | ||||
| 8 | 1305.94 | 1.77 | 0.084 | ||||
| 7 | 1308.19 | 1.88 | 0.079 | ||||
| 7 | 1308.29 | 1.97 | 0.076 | ||||
| 16 | T | 5 | 1553.76 | 0.00 | 0.214 | 235/10 | |
| G + t | 6 | 1553.09 | 1.44 | 0.105 | |||
| NGS + t | 6 | 1553.26 | 1.60 | 0.096 | |||
| B + t | 6 | 1553.52 | 1.86 | 0.085 | |||
| IBT + t | 6 | 1553.54 | 1.88 | 0.084 | |||
| 16 | 5 | 1229.75 | 0.00 | 0.286 | 235/10 | ||
| 6 | 1228.70 | 1.06 | 0.168 | ||||
| 6 | 1229.51 | 1.87 | 0.112 | ||||
| 16 | 7 | 305.92 | 0.00 | 0.215 | 235/10 | ||
| 6 | 308.16 | 0.11 | 0.203 | ||||
| 8 | 305.49 | 1.72 | 0.091 | ||||
| 7 | 307.72 | 1.80 | 0.087 | ||||
| (B) LANDSCAPE SCALE: SEASONAL HABITAT SELECTION | |||||||
| 13 | 9 | 2032.58 | 0.00 | 0.542 | 235/10 | ||
| 13 | 9 | 1284.93 | 0.00 | 0.279 | 235/10 | ||
| 8 | 1287.61 | 0.52 | 0.215 | ||||
| 10 | 1283.78 | 1.04 | 0.166 | ||||
| 7 | 1290.83 | 1.60 | 0.125 | ||||
| 9 | 1286.57 | 1.65 | 0.123 | ||||
| 13 | 7 | 1290.83 | 0.00 | 0.504 | 235/10 | ||
| 4 | 7 | 1519.58 | 0.00 | 0.985 | 235/10 | ||
| 13 | 8 | 1184.95 | 0.00 | 0.314 | 235/10 | ||
| 7 | 1188.02 | 0.92 | 0.198 | ||||
| 7 | 1188.3 | 1.21 | 0.172 | ||||
| 13 | 9 | 279.89 | 0.00 | 0.465 | 235/10 | ||
| 8 | 282.91 | 0.86 | 0.303 | ||||
| 10 | 279.54 | 1.83 | 0.186 | ||||
| 13 | 7 | 292.64 | 0.00 | 0.382 | 235/10 | ||
| 6 | 295.83 | 1.06 | 0.225 | ||||
| (C) FIELD SCALE: OVERALL HABITAT SELECTION | |||||||
| 12 | 4 | 754.51 | 0.00 | 0.501 | 589 | ||
| 5 | 754.18 | 1.70 | 0.214 | ||||
| 3 | 758.46 | 1.93 | 0.191 | ||||
| 16 | 3 | 261.52 | 0.00 | 0.351 | 197 | ||
| 4 | 260.61 | 1.18 | 0.195 | ||||
| 4 | 261.41 | 1.98 | 0.131 | ||||
| 12 | 4 | 193.91 | 0.00 | 0.392 | 165 | ||
| 5 | 192.05 | 0.26 | 0.344 | ||||
| (D) FIELD SCALE: SEASONAL HABITAT SELECTION | |||||||
| 38 | 7 | 729.40 | 0.00 | 0.397 | 589 | ||
| 8 | 728.40 | 1.05 | 0.234 | ||||
| 8 | 728.77 | 1.43 | 0.195 | ||||
| 13 | 4 | 801.29 | 0.00 | 0.382 | 589 | ||
| 6 | 798.09 | 0.88 | 0.246 | ||||
| 5 | 800.90 | 1.65 | 0.168 | ||||
| 13 | 6 | 234.21 | 0.00 | 0.893 | 197 | ||
| 13 | 2 | 267.29 | 0.00 | 0.373 | 197 | ||
| 3 | 267.12 | 1.90 | 0.144 | ||||
| 38 | 6 | 191.75 | 0.00 | 0.190 | 165 | ||
| 5 | 194.75 | 0.84 | 0.125 | ||||
| 3 | 199.12 | 0.99 | 0.116 | ||||
| 4 | 197.71 | 1.67 | 0.082 | ||||
| 5 | 195.66 | 1.75 | 0.079 | ||||
| 13 | 2 | 218.81 | 0.00 | 0.346 | 165 | ||
| 3 | 217.80 | 1.06 | 0.203 | ||||
| 3 | 218.70 | 1.97 | 0.130 | ||||
(A) Overall habitat selection at the landscape scale. (B) Seasonal habitat selection at the landscape scale. (C) Overall habitat selection at the field scale. (D) Seasonal habitat selection at the field scale. At the landscape scale, Poisson GLMMs were fitted for abundance data, whereas Normal LMM was used for Shannon diversity. t stands for the systematically included covariate “relative time since sunrise”. At the field scale, binomial GLMs were applied to presence/pseudo-absence data. The number of candidate models was 16 for the overall habitat selection at the landscape scale (all combinations of four predictor variables), but depended on the number of variables pre-selected for the models at the field scale (see Material and Methods). Seasonal models were conducted for each habitat variable retained in the most parsimonious overall habitat model; these models contained only one or two variables at the landscape scale and always two at the field scale (hence there are always two seasonal models per outcome variable at the field scale). Explanatory variables are written in bold when significant (P ≤ 0.05) and in italics when showing a trend (P ≤ 0.1). G: Grove cover (% hedges and woodland patches); IBT: Isolated bushes and trees density; NGA: Natural grassy surface cover (% steppe and grassy margins); B: Building density; green: Green ground vegetation cover; brown: Brown ground vegetation cover; dist_NGS: Distance to nearest natural grassy surface; vegheight: Ground vegetation height.
Model-averaged parameter estimates.
| Explanatory variable | Pooled species | Fringillidae species (finches) | Species richness | Shannon diversity | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Estimate | SE | P-value | Estimate | SE | P-value | Estimate | SE | P-value | Estimate | SE | P-value | Estimate | SE | P-value | |
| (A) LANDSCAPE SCALE: OVERALL HABITAT SELECTION | |||||||||||||||
| 3.12 | 0.12 | <0.001 | 1.23 | 0.15 | <0.001 | 1.33 | 0.18 | <0.001 | 2.01 | 0.06 | <0.001 | 1.61 | 0.05 | <0.001 | |
| 0.19 | 0.15 | 0.203 | 0.28 | 0.19 | 0.129 | 0.02 | 0.09 | 0.780 | 0.17 | 0.07 | 0.008 | 0.13 | 0.05 | 0.016 | |
| -0.01 | 0.05 | 0.887 | -0.10 | 0.16 | 0.526 | 0.02 | 0.08 | 0.808 | -0.01 | 0.03 | 0.841 | -0.01 | 0.02 | 0.828 | |
| -0.01 | 0.06 | 0.826 | -0.01 | 0.06 | 0.834 | -0.01 | 0.07 | 0.869 | -0.02 | 0.05 | 0.670 | -0.04 | 0.06 | 0.446 | |
| - | - | - | 0.00 | 0.09 | 0.981 | -0.01 | 0.07 | 0.864 | - | - | - | 0.00 | 0.02 | 0.827 | |
| -0.25 | 0.05 | <0.001 | -0.48 | 0.07 | <0.001 | -0.13 | 0.10 | 0.177 | -0.17 | 0.03 | <0.001 | -0.22 | 0.03 | <0.001 | |
| (B) LANDSCAPE SCALE: SEASONAL HABITAT SELECTION | |||||||||||||||
| 3.16 | 0.12 | <0.001 | 1.22 | 0.15 | <0.001 | 1.37 | 0.18 | <0.001 | 2.02 | 0.06 | <0.001 | 1.62 | 0.05 | <0.001 | |
| 0.22 | 0.11 | 0.060. | 0.23 | 0.16 | 0.146 | NA | NA | NA | 0.16 | 0.06 | 0.011* | 0.11 | 0.05 | 0.031 | |
| 0.62 | 0.08 | <0.001 | 0.29 | 0.12 | 0.020 | 0.86 | 0.15 | <0.001 | 0.29 | 0.04 | <0.001 | 0.22 | 0.05 | <0.001 | |
| -0.15 | 0.07 | 0.038 | 0.52 | 0.12 | <0.001 | -0.43 | 0.13 | <0.001 | -0.05 | 0.04 | 0.276 | -0.05 | 0.05 | 0.303 | |
| 0.17 | 0.06 | 0.005 | 0.07 | 0.10 | 0.453 | NA | NA | NA | 0.05 | 0.04 | 0.243 | 0.12 | 0.04 | 0.002 | |
| - | - | - | -0.03 | 0.07 | 0.654 | NA | NA | NA | - | - | - | 0.00 | 0.02 | 0.819 | |
| -0.40 | 0.05 | <0.001 | -0.52 | 0.07 | <0.001 | -0.40 | 0.10 | <0.001 | -0.26 | 0.03 | <0.001 | -0.29 | 0.03 | <0.001 | |
| 1.22 | 0.17 | <0.001 | |||||||||||||
| NA | NA | NA | |||||||||||||
| 0.29 | 0.12 | 0.016 | |||||||||||||
| 0.51 | 0.12 | <0.001 | |||||||||||||
| - | - | - | |||||||||||||
| - | - | - | |||||||||||||
| -0.52 | 0.07 | <0.001 | |||||||||||||
| 1.62 | 0.06 | <0.001 | |||||||||||||
| - | - | - | |||||||||||||
| 0.22 | 0.05 | <0.001 | |||||||||||||
| -0.05 | 0.05 | 0.336 | |||||||||||||
| - | - | - | |||||||||||||
| - | - | - | |||||||||||||
| -0.29 | 0.03 | <0.001 | |||||||||||||
| (C) FIELD SCALE: OVERALL HABITAT SELECTION | |||||||||||||||
| 0.03 | 0.09 | 0.696 | 0.06 | 0.15 | 0.703 | 0.04 | 0.18 | 0.812 | |||||||
| 0.55 | 0.09 | <0.001 | 0.38 | 0.16 | 0.021 | 0.68 | 0.19 | <0.001 | |||||||
| -0.31 | 0.09 | <0.001 | NA | NA | NA | -0.47 | 0.19 | 0.012 | |||||||
| 0.14 | 0.11 | 0.196 | -0.01 | 0.07 | 0.891 | 0.43 | 0.21 | 0.048 | |||||||
| 0.01 | 0.05 | 0.804 | -0.04 | 0.11 | 0.692 | 0.13 | 0.20 | 0.520 | |||||||
| NA | NA | NA | -0.35 | 0.15 | 0.022 | NA | NA | NA | |||||||
| (D) FIELD SCALE: SEASONAL HABITAT SELECTION | |||||||||||||||
| 0.10 | 0.09 | 0.317 | 0.27 | 0.23 | 0.232 | 0.00 | 0.19 | 0.990 | |||||||
| 0.64 | 0.11 | <0.001 | 0.84 | 0.33 | 0.012 | 0.81 | 0.21 | <0.001 | |||||||
| -0.33 | 0.10 | 0.001 | NA | NA | NA | -0.59 | 0.19 | 0.002 | |||||||
| 0.23 | 0.14 | 0.099. | 0.47 | 0.33 | 0.156 | 0.32 | 0.30 | 0.294 | |||||||
| 0.05 | 0.13 | 0.721 | 0.28 | 0.24 | 0.250 | - | - | - | |||||||
| 0.73 | 0.19 | <0.001 | 1.75 | 0.49 | <0.001 | 0.26 | 0.40 | 0.509 | |||||||
| 0.41 | 0.13 | 0.002 | 0.87 | 0.32 | 0.007 | - | - | - | |||||||
| 0.05 | 0.12 | 0.687 | NA | NA | NA | 0.30 | 0.38 | 0.419 | |||||||
| 0.02 | 0.08 | 0.753 | NA | NA | NA | - | - | - | |||||||
| 0.06 | 0.09 | 0.515 | 0.05 | 0.16 | 0.761 | ||||||||||
| 0.35 | 0.12 | 0.006 | 0.63 | 0.24 | 0.008 | ||||||||||
| 0.02 | 0.12 | 0.843 | -0.01 | 0.11 | 0.891 | ||||||||||
| -0.06 | 0.11 | 0.587 | -0.07 | 0.18 | 0.676 | ||||||||||
| 0.38 | 0.15 | 0.010 | - | - | - | ||||||||||
| -0.08 | 0.16 | 0.589 | - | - | - | ||||||||||
| 0.06 | 0.15 | 0.710 | |||||||||||||
| -0.35 | 0.15 | 0.020 | |||||||||||||
| 0.03 | 0.13 | 0.841 | |||||||||||||
| - | - | - | |||||||||||||
| - | - | - | |||||||||||||
| - | - | - | |||||||||||||
Model-averaged parameter estimates, standard errors (SE) and P-values from the ‘model-avg’ function [65] were considered for variables occurring in the respective sets of competitive models for (A) Overall habitat selection at the landscape scale. (B) Seasonal habitat selection at the landscape. (C) Overall habitat selection at the field scale. (D) Seasonal habitat selection at the field scale. Model averaging was performed over the set of competitive models (ΔAICc ≤ 2; see Table 2).
NAs stand for explanatory variables which were not tested for the corresponding response variables, whereas ‘-‘ means that the explanatory variable was tested but not retained in the competitive models for that response variable. Significance
P < 0.1.
*P < 0.05.
**P < 0.01.
***P < 0.001.
Fig 2Model-averaged predictions of seasonal bird abundance at the landscape scale.
(A) Pooled species. (B) Turdus spp. (thrushes). (C) Fringillidae (finches). (D) Species richness. (E) Shannon diversity. These relationships demonstrate a significant (model-averaged) effect of cosmonth and/or sinmonth on habitat selection (see Table 3B). Shown are model-averaged bird density predictions (per 20 ha) from Poisson regression models with 95%-Bayesian credible intervals. The letters on the x-axis stand for the first letter of each month from J: January to D: December.
Fig 3Model-averaged, seasonal relationships between grove cover and bird density at the landscape scale.
(A) Pooled species. (B) Turdus spp. (thrushes). (C) Species richness. (D) Shannon diversity index. The habitat preference for greater grove cover was dependent of season. The two months “June” and “December” were retained for plotting predictions because they reflect the greatest changes in habitat selection between summer and winter (extremes). Shown are model-averaged bird density predictions (per 20 ha) from Poisson regression models (overall habitat selection) with 95%-Bayesian credible intervals (delimited by grey areas). Predicted estimates were allowed to vary with the habitat variable under consideration, while other explanatory variables present in the average model were held constant at their mean values. Circles represent raw data of the entire year.
Fig 4Model-averaged predicted seasonal bird occurrence probability depending on green ground vegetation cover and month.
From (A) January to (L) December. Selection for green ground vegetation cover by pooled species significantly varied between seasons (months) at the field scale. 95%- Bayesian credible intervals are depicted by different coloured belts representing contrasting selection patterns. Circles represent raw data of the entire year. Occurrence probabilities greater than 0.5 indicate selection or preference whereas values lower than 0.5 should be interpreted as avoidance, relative to the other available habitats [56].
Fig 5Model-averaged predicted seasonal bird occurrence probability depending on brown ground vegetation cover and month.
(A) March. (B) June. (C) September. (D) December. Selection of brown ground vegetation cover by pooled species significantly varied between seasons (months) at the field scale. The four months were selected because they reflect the greatest changes in habitat selection along the annual cycle. 95%-Bayesian credible intervals are depicted by different coloured belts representing contrasted selection patterns. Circles represent raw data of the entire year. Occurrence probabilities greater than 0.5 indicate selection or preference whereas values lower than 0.5 should be interpreted as avoidance, relative to the other available habitats [56].
Fig 6Model-averaged predicted seasonal occurrence probability of thrushes depending on green ground vegetation cover and month.
(A) March. (B) June. (C) September. (D) December. Selection of green cover by thrushes significantly varied between seasons (months) at the field scale. The four months were selected because they reflect the greatest changes in habitat selection along the annual cycle. 95%-Bayesian credible intervals are depicted by different coloured belts representing contrasted selection patterns. Circles represent raw data of the entire year. Occurrence probabilities greater than 0.5 indicate selection or preference whereas values lower than 0.5 should be interpreted as avoidance, relative to the other available habitats [56].
Fig 7Model-averaged predicted overall occurrence probability of thrushes and finches depending on retained habitat variables.
(A) Turdus spp. (thrushes) with respect to distance to the nearest natural grassy area. Fringillidae (finches) in relation to (B) green and (C) brown vegetation covers. These habitat selection patterns at the field scale remained constant throughout the year. 95%-Bayesian credible intervals are drawn in grey. Circles represent raw data of the entire year. Occurrence probability was allowed to vary with the habitat variable under consideration, while other explanatory variables present in the average model were held constant at their mean values. Occurrence probabilities greater than 0.5 indicate selection or preference whereas values lower than 0.5 should be interpreted as avoidance, relative to the other available habitats [56].