Infection-nutrition feedbacks: fat supports pathogen clearance but pathogens reduce fat in a wild mammal

# Energetic costs of infection in bighorn sheep Captured data from female bighorn sheep in northwest Wyoming 2015-2021. ## Description of the data and file structure All raw data, other than spatial data used to obtain snow depth values, is in energeticcostsdata_20240514.csv. occupancydata_20240514.csv has the data formatted for use in an occupancy model in unmarked. The data is also pseudoreplicated (10 secondary periods created for each primary period) to allow for a fixed detection probability. Survival and pregnancy data are included in survivaldata.csv and pregnancydata.csv, respectively. We were not able to catch all sheep at each capture event, and thus some animals are missing data for certain events, indicated by NA. Columns in energeticcostsdata_20240515.csv- IFBF: ingesta-free body fat (percent) Herd: population that the individual is a part of Month: month of capture Year: year of capture Age: estimated age (years) M.ovi: test result for Mycoplasma ovipneumoniae, 1 indicating positive detection, 0 indicating negative detection Recruit: recruitment status determined in December via lactation status, 1 indicating an individual does have an offspring surviving to December, 0 indicating an individual does not have an offspring surviving to December Pathrich: number of species in the Pasteurellaceae family detected prevIFBF: IFBF of the individual at the preceding capture event (%) Moviclear: whether or not an individual cleared M. ovipneumoniae between the preceding and current capture event, 1 indicating that the individual tested positive for M. ovipneumoniae at the preceding capture and tested negative at the current capture, 0 indicating any other situation pathsclear2: Number of pathogen species the individual cleared (i.e., tested positive for in the preceding capture and negative at the current capture) between the preceding and current capture Movigain: whether or not an individual acquired M. ovipneumoniae between the preceding and current capture event, 1 indicating that the individual tested negative for M. ovipneumoniae at the preceding capture and tested positive at the current capture, 0 indicating any other situation pathsgain2: Number of pathogen species the individual acquired (i.e., tested negative for in the preceding capture and positive at the current capture) between the preceding and current capture AID: Animal identification number, unique for each individual (randomized) Columns in occupancydata_20240518.csv- Region: herd that individual is in season: Month of capture Year: year of capture Movi: detection of Mycoplasma ovipneumoniae, 0 indicating negative detection, 1 indicating positive detection. The data is pseudo-replicated to force a 0.85 detection probability as per Butler et al. (2017). IFBF: ingesta-free body fat (%) Primary: primary period of capture Secondary: Pseudo-replicated secondary period which were created to force a 0.85 detection probability. ID: animal identification number, unique for each individual (randomized) Columns in pregnancydata.csv- randomID: animal identification number, unique for each individual (randomized) prevIFBF: IFBF of the individual at the preceding capture event(%) Herd: population that individual is a part of, categorical Preg: pregnancy status in March, determined via ultrasonography, Columns in survivaldata.csv- Month: Month of capture Year: year of capture randomID: animal identification number, unique for each individual (randomized) Date: date of capture IFBF: IFBF of the individual at the capture event (%) Herd: population that individual is a part of, categorical Age: estimated age (years) MortCensor:used to indicate whether the animal died (1) or was censored (0) during the interval after the capture event diff: difference between date of capture and mortality/censor date. We defined winter as 150 days post-capture, so values of 151 indicate the animal lived through winter start: julian data of capture end: end of interval, either time of mortality, censor, or end of winter Event: indicitive of survival (0), censor (0), or mortality (1) randomID: animal identification number, unique for each individual (randomized) Butler, C.J., Edwards, W.H., Jennings-Gaines, J.E., Killion, H.J., Wood, M.E., McWhirter, D.E., et al. (2017). Assessing respiratory pathogen communities in bighorn sheep populations: Sampling realities, challenges, and improvements. PLoS One, 12, 121.