Data and code for: Moisture and competition constrain ephemeral resource quality for burying beetle reproduction
Data files
May 06, 2025 version files 100.22 KB
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BML_fog_202407.csv
30.26 KB
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carcass_weighing_2024_1.csv
1.52 KB
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carcass_weighing_2024_2.csv
844 B
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carcass_weight_loss.R
11.57 KB
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checking_nicrocosms_for_repro.csv
9.91 KB
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filled_nicrocosms.csv
15.33 KB
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measuring_parents_imagej.csv
8.04 KB
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mouse_weight.csv
1.12 KB
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parent_checking.csv
989 B
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README.md
6.93 KB
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repro_weights.csv
5.65 KB
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temp_humidity_edit.csv
8.06 KB
Abstract
Shifts in abiotic factors such as temperature and moisture can change the availability of resources, especially under climate change. Both abiotic and biotic drivers can have profound, rapid effects on species distribution, survival, and reproduction. Little is known about how abiotic factors affect the availability of ephemeral resources. Burying beetles (Nicrophorus spp.) are specialist users of ephemeral resources, as their reproduction requires locating, defending, and burying a small carcass. Environmental moisture, such as coastal fog, could change how quickly carcasses dry out. We tested the role of carcass moisture and interspecific competition with a generalist scavenger, Heterosilpha spp., on reproduction by placing pairs of Nicrophorus guttula in field chambers with control and experimentally dehydrated mouse carcasses. Pairs that were given control of mouse carcasses were more likely to carry out reproductive behaviors and produce viable offspring than pairs that were given a partially dehydrated mouse. For those pairs that reproduced, competition limited the number of offspring. These results indicate that shifts in abiotic factors under climate change, along with biotic factors like competition, can reduce the availability of ephemeral resource patches for consumers.
https://doi.org/10.5061/dryad.6q573n67v
Description of the data and file structure
These data involve an experiment completed in 2022 on burying beetle reproduction, and also a supplementary project in 2024 to confirm the treatment realism of the 2022 experiment.
Files and variables
File: filled_nicrocosms.csv
Description: Data on the setup of experimental chambers and the male and female N. guttula pair placed within.
Variables
- date_nicrocosm_complete: date the experimental chamber was set up with treatments and N. guttula pair - NOTE: if a row has an empty cell for this date column, that entire row can be disregarded. No experimental chamber was set up, and these lines are removed in the script.
- time_nicrocosm_complete: time the experimental chamber was set up with treatments and N. guttula pair - if time is blank but other columns are filled for a row, time was not recorded
- fem_beetleID: beetle ID of female
- fem_trapID: trap ID where the female was caught
- fem_numMites: number of mites on this female
- fem_photo: check if a photo was taken for size measurements
- fem_dtCollect: date the female was collected from a trap
- fem_timeCollect: time the female was collected from a trap
- fem_dtPlaced: date the female was placed in the experimental chamber
- fem_timePlaced: time the female was placed in the experimental chamber
- mal_beetleID: beetle ID of male
- mal_trapID: trap ID the male was caught
- mal_numMites: number of mites on this male
- mal_photo: check if a photo was taken for size measurements
- mal_dtCollect: date the male was collected from a trap
- mal_timeCollect: time the male was collected from a trap
- mal_dtPlaced: date the male was placed in the experimental chamber
- mal_timePlaced: time the male was placed in the experimental chamber
- nicrocosmID: experimental chamber ID
- compTreat: competition treatment (yes or no)
- mouseTreat: mouse treatment (fresh vs dried = control vs partially dried)
- mouseID: ID of mouse carcass (to connect to weight) - mouseID unknown if cell is empty
- hetPairFrom: what trap area is the Heterosilpha pair collected from - no competition was added if the cell is empty
- iButton: iButton ID if one was placed at this experimental chamber - no iButton was placed if the cell is empty
- notes: any notes - no relevant notes if the cell is empty
- newSoil: notes about soil being added to experimental chamber - no relevant soil notes if cell is empty
File: parent_checking.csv
Description: double-checking the sex of parents to see if some pairs/experimental chambers need to be removed
Variables
- nicrocosmID: experimental chamber ID
- notes: any notes, no relevant notes if cell is blank
- code: either 1, 2, or 3. Codes for each nicrocosm - 1 is good to go (1 of each sex), 2 is maybe good to go (some uncertainty about beetle sex or one was too messed up to identify), and 3 is unusable (two of one sex, or there were 1 or 3 beetles total). See script.
File: checking_nicrocosms_for_repro.csv
Description: Data table used when checking experimental chambers for reproduction.
Variables
- nicrocosmID: experimental chamber ID
- date: date experimental chamber checked
- time: time experimental chamber checked
- female_status: female dead? alive? position within experimental chamber?
- male_status: male dead? alive? position within experimental chamber?
- num_pupae: count of pupae present
- num_larvae: count of larvae present
- num_int: count of intermediate prepupae present
- mouse_notes: notes on mouse carcass remains - no relevant notes if cell is empty
- het_notes: notes on Heterosilpha competition if present - no relevant notes if cell is empty
- misc_notes: any notes - no relevant notes if cell is empty
File: measuring_parents_imagej.csv
Description: Output when measuring parent size (pronotum width) in ImageJ. A lot of extra measurements were taken here that were not used.
Variables
- beetleID: beetle ID
- pro_length: pronotum length (mm)
- pro_width: pronotum width (mm)
- elytra_length: elytra length (mm)
- elytra_width: elytra length (mm)
- body_length_head: length including head (mm)
- body_length_pro: length from top of pronotum to last segment (mm)
- notes: any notes, no relevant notes if the cell is empty
File: repro_weights.csv
Description: Weights of offspring collected (ended up not using this in the manuscript)
Variables
- offspringID: offspring ID
- stage: stage (larva vs pupa vs intermediate)
- weight: weight (g)
- numMites: number of mites on offspring
- notes: any notes, no relevant notes if the cell is empty
- dateWeighed: date weighed
File: mouse_weight.csv
Description: Weight of mice carcasses used in the experiment.
Variables
- mouseID: mouse ID
- wetWeight_g: weight of mouse when fresh/unthawed/undried (g)
- driedWeight_g: weight of mouse when/if dried (g)
File: BML_fog_202407.csv
Description: Fog data
Variables
- time: time
- pulse_counts_1: number of pulse counts (bucket tips) for fog collector 1
- max_pulse_rate_1: max pulse rate over 15 min interval (pulse/h) for fog collector 1
- pulse_counts_2: number of pulse counts (bucket tips) for fog collector 2
- max_pulse_rate_2: max pulse rate over 15 min interval (pulse/h) for fog collector 2
- battery_percent: battery percent remaining
- battery_voltage: battery voltage (mV)
- ref_pressure: reference pressure (kPa)
- logger_temp_C: logger temperature (C)
- trialint: trial interval (used to link with mouse carcass weights, see carcass_weight_loss.R script)
File: temp_humidity_edit.csv
Description: Temperature and humidity data taken from the Bodega Marine Lab weather station.
Variables
- time_endLST: hour of day ending at L.S.T.
- solar_rad: total solar radiation (KW-hr/m^2)
- date: date
- air_temp_mean: air temperature mean (C)
- soil_temp_mean: soil temperature mean (C)
- rel_humid_mean: relative humidity mean percent
- trial: trial A or B
- int_num: interval number (ID)
- hr_count: number of hours within an interval
File: carcass_weighing_2024_1.csv
Description: Carcass weighing data - Trial A
Variables
- location_id: location ID
- date: date
- time: time
- weight: weight of carcass (g)
File: carcass_weighing_2024_2.csv
Description: Carcass weighing data - Trial B
Variables
- location_id: location ID
- date: date
- time: time
- weight: weight of carcass (g)
Code/software
File: carcass_weight_loss.R
Description: Script that uses carcass weight measurements from field carcasses in 2024 to look at shifts over time and compare to fog and humidity measurements at the site.
Site. We conducted this experiment at the Bodega Marine Reserve in Bodega Bay, California (38.319061, -123.072443) between June and September 2022. The site is composed of coastal prairie, dunes, and rocky intertidal habitat. Summers are mild (average daily minimum temperatures are 9-14 degrees C, with average daily maximum temperatures 15-20 degrees C), with fog often present early in the mornings (mean relative humidity is 85-100%) (WRCC 2024). The coastal prairie is primarily composed of species such as bush lupine (Lupinus arboreus), seaside daisy (Erigeron glaucus), woolly sunflower (Eriophyllum spp.), and ice plant (Carpobrotus spp.) (Barbour et al. 1973).
Trapping beetles. We set up pitfall traps baited with mouse carcasses in the coastal prairie to collect N. guttula and Heterosilpha spp. for experiments (Figure 1B, Figure 1C, Appendix S1: Section S1). N. guttula is our focal species (Appendix S1: Section S1), a burying beetle that requires a small carcass that it buries belowground in order to reproduce. The Heterosilpha beetles are our competitors, as they will feed from carrion and other detritus, but do not bury carcasses. Most of the Heterosilpha beetles were likely to be H. ramosa, as H. aenescens is rare at this site. We will refer to “Heterosilpha spp.” as just “Heterosilpha” in the remaining text. We caught most of the beetles used in this experiment along a transect of 13 traps installed 12.5 meters apart on the coast bluffs, approximately 600m south of the Bodega Marine Lab. When collecting N. guttula, we sexed them, counted the number of phoretic mites currently attached, and took photographs to measure size in ImageJ. We usually visited traps in the mornings to collect the beetles that would then be placed into experimental chambers later that day.
Mouse carcass preparation. We purchased large frozen mice (mean = 21 g, range = 17-26 g, SD = 2 g) (Appendix S1: Section S2) from a commercial source (Gourmet Rodent via Petco.com). We dried half of the mice in a food dehydrator for 5-6 hours at 45 °C. On average, dried mice lost 25% (SD = 4%) of their weight in water. This corresponds to between 20 and 72 hours of mouse carcasses naturally drying out and decomposing at the site during the month of July (Appendix S1: Figure S1, Appendix S1: Section S3). Mice carcasses also tend to lose more water weight (dry out faster) during less humid and less foggy periods at the Bodega Marine Reserve (Appendix S1: Figure S2, Appendix S1: Section S3). While making these measurements of mouse carcasses naturally drying out at the site, we observed burial behaviors by Nicrophorus spp., fly presence, and evidence of vertebrate scavengers between 28 and 77 hours since the carcass became available (Appendix S1: Table S1). The overlapping timelines of these observations indicate that our 25% partially dehydrated treatment represents realistic conditions that burying beetles might experience at the Bodega Marine Reserve. All mice used in the experiment (partially dried and control) were refrozen after weighing to minimize further changes until they were placed into experimental chambers, where they thawed rapidly.
Setting up experimental chambers. We set up 63 experimental chambers (Figure 1D) between June 22 and August 10, 2022. We used 5-liter buckets (16 cm tall by 22 cm diameter) with modified lids that had a layer of wire mesh with quarter-inch openings and a layer of fine mesh to prevent beetles from getting in or out. A cinder block was placed over each chamber to prevent vertebrate disturbances (Figure 1E). Each bucket was filled with local soil and plants and buried to a depth of 8 cm. We placed experimental chambers along a series of transects (running approximately parallel to the shoreline) in the coastal prairie, approximately 25 meters apart. At each transect point, we haphazardly placed experimental chambers by throwing a small object into the air and digging a hole wherever the object landed. Each experimental chamber received a male-female N. guttula pair (Appendix S1: Section S4). We randomly assigned chambers to receive one of four treatments: (1) 14 received a control carcass and no Heterosilpha beetles, (2) 16 received a control carcass and a male-female pair of Heterosilpha, (3) 16 received a partially dried carcass and no Heterosilpha beetles, and (4) 17 received a partially dried carcass with a male-female pair of Heterosilpha.
Measuring reproductive output. We checked each chamber after about 39 days (range = 35-42 days, SD = 2), between August 6, 2022, and September 19, 2022, when the adult beetles that we started the experiment with had sufficient time to reproduce. We counted all larvae and pupae (Figure 1F). We also noted if the carcass was buried, even if there were no larvae or pupae present.
Analysis. We tested two univariate models to analyze these data. First, we analyzed the role of carcass dryness and competition from Heterosilpha on binomial reproductive success with a binomial generalized linear model (GLM) using the R packages lme4 and jtools (Long 2023, Bates et al. 2023). We also included the initial undried mass of the carcass, day of year, female size, male size, and total number of mites on adults as covariate predictors. The initial undried mass of the carcass was included to control for initial variation in carcass size. The day of the year that the experimental chamber was set up was included to control for seasonality. Female and male sizes were included to account for the effects of size on fecundity and/or competition between mates during the reproductive process. The total number of mites on adults was included to account for the effects of the mites as either competitors or mutualists. Second, we made another GLM with a Poisson distribution and a smaller dataset that only included experimental chambers that had successful reproduction. The model had a number of offspring as the response variable, with the same predictors as the previously mentioned model.
