VERSION 1.0. June 2018 Poirier, M.-A., Coltman, D.W., Pelletier, F., Jorgenson, J., & Festa-Bianchet, M. (2018) Genetic decline, restoration and rescue of an isolated ungulate population. Accepted for publication in Evolutionary Applications. This readme file describes the data files accompanying the above submitted manuscript. For any further queries please contact Marc-Antoine.Poirier@USherbrooke.ca or Marco.Festa-Bianchet@USherbrooke.ca ********************************** CONTENTS *********************************** 1. READ_ME.txt - This file. Including a description of the files and variables. 2. GenRam_20180411.csv - Genetic properties at 26 loci for the 1990, 2003 and 2016 native resident population (Ram Mountain), and the translocated (Cadomin) individuals. 3. ramadmix_20170608.txt - Individual lamb data. Cohort 2003-2016. 4. ramyearlingadmix_20170608.txt - Individual yearling data. Cohort 2003-2016. 5. PVA_basedata_Ram0316_20180411.csv - Individual survival and fecundity for all females (2003-2016). 6. Poirier2018_Rcodes - R scripts to analyse data. ************************************Variable names and descriptions for GenRam_20180411************************************* LOCI: locus ID Na2003: Number of alleles in the 2003 resident population Na1990: Number of alleles in the 1990 resident population NaCAD: Number of alleles for the CADOMIN (translocated) individuals Na2016: Number of alleles in the 2016 resident population Ar2003: Allelic Richness in the 2003 resident population Ar1990: Allelic Richness in the 1990 resident population ArCAD: Allelic Richness for the CADOMIN (translocated) individuals Ar2016: Allelic Richness in the 2016 resident population Fis2003: Inbreeding coefficient in the 2003 resident population Fis1990: Inbreeding coefficient in the 1990 resident population FisCAD: Inbreeding coefficient for the CADOMIN (translocated) individuals Fis2016: Inbreeding coefficient in the 2016 resident population Ho2003: Observed heterozygosity in the 2003 resident population Ho1990: Observed heterozygosity in the 1990 resident population HoCAD: Observed heterozygosity for the CADOMIN (translocated) individuals Ho2016: Observed heterozygosity in the 2016 resident population Ho2003: Observed heterozygosity in the 2003 resident population Ho1990: Observed heterozygosity in the 1990 resident population HoCAD: Observed heterozygosity for the CADOMIN (translocated) individuals Ho2016: Observed heterozygosity in the 2016 resident population He2003: Expected heterozygosity in the 2003 resident population He1990: Expected heterozygosity in the 1990 resident population HeCAD: Expected heterozygosity for the CADOMIN (translocated) individuals He2016: Expected heterozygosity in the 2016 resident population ************************************* Variable names and descriptions for ramadmix_20170608.txt ****************************************** YEAR : year of reference ID : unique identifier of the bighorn lamb DAM : unique identifier of the bighorn dam (mother) SEX : M = Males vs F = Females hybrid : H = admixed (i.e. hybrid) individuals vs R = resident (non-admixed native) individuals Fmig : Expected fraction of migrant alleles from translocated individuals based on pedigree (i.e. ancestry). F1 = 0.5 vs non-admixed native resident = 0. sex_p_cad : Sex of the Cadomin (translocated) parent for admixed (i.e. hybrid) offsprings) gen : generation (F1, F2, F3) of admixed (i.e. hybrid) offsprings PRS : Dam (mother) previous reproductive success (1= weaned a lamb previous year, 0= did not wean a lamb previous year) surv : lamb survival to 1 year (1=yes, 0=no) bd : lamb birthdate m.wt : Dam (mother) mass in September for the reference year prev.m.wt : Dam (mother) mass in September of the previous year (before rut) summerPDO: mean PDO for summer months of the reference year next.winterPDO : mean PDO for winter months following summer for which individuals were lambs. prev.rutPDO : mean PDO for rut months leading to an individual lamb birth. lb.wt.sept : lamb mass in September in kg (proxy of weaning mass) for the reference year lb.wt.june : lamb mass in June in kg (used to measure summer mass gain) for the reference year mass.gain : summer mass gain in kg for the reference year -----------Description of seasons------------- winter: November to March summer: May to September rut : November and December ************************************Variable names and descriptions for ramyearlingadmix_20170608.txt******************************************* Year : year of reference ID : unique identifier of the bighorn yearling Cohort : year of birth of the individual DAM : unique identifier of the bighorn dam (mother) SEX : M = Males vs F = Females surv : yearling survival to 2 year (1=yes, 0=no) wt : yearling mass in September in kg for the reference year Fmig : Expected fraction of migrant alleles from translocated individuals based on pedigree (i.e. ancestry). F1 = 0.5 vs non-admixed native resident = 0. summerPDO : mean PDO for summer months of the reference year next.winterPDO : mean PDO for winter months following summer for which individuals were yearlings. ***************************************Variable names and descriptions for PVA_basedata_Ram0316_20180411.csv**************************************** ID : unique identifier of the bighorn females Year : year of reference Class : age class of the female during the current year of reference. 4 levels: "lamb", "yearling", "prime","senescent" hybrid : H = admixed (i.e. hybrid) individuals vs R = resident (non-admixed native) individuals RS2 : Female reproductive success (1= weaned a lamb in the reference year vs 0= did not wean a lamb in the reference year) ------------Description of age classes------------ lamb: age 0 to 1 yearling: age 1 to 2 prime: age 2 to 7 senescent: age 8+ *************************************Description for Poirier2018_Rcodes.zip See the read.me R file for more information.****************************************** # 1. 'GenDiv' script for population-wide comparisons of genetic properties # 2. 'LambBD', 'LambGain', 'LambSept' and 'LambSurv' scripts to analysis effects of genetic rescue in fitness-related traits in bighorn lambs at Ram Mountain # 3. 'YearlingMass&Surv' script to analysis effects of genetic rescue in fitness-related traits in bighorn yearlings at Ram Mountain. # 4. 'ParentEffect' script to analysis effects of the translocated parent on fitness-related traits of F1 lambs at Ram Mountain. # 5. 'BootVitalRates' script to get vital rate estimates (bootstrap) needed to perform the PVA with the 'PVAloops_Poirier2018' script.