DOI: 10.5061/dryad.v9s4mw768
title: Do favored cuticular hydrocarbon profiles signal fertility? Analysis of Gryllus firmus and Gryllus pennsylvanicus

description: Previous studies suggest that the cuticular hydrocarbon profiles of
 Gryllus firmus and G. pennsylvanicus are sexually dimorphic: males have a
 relatively homogenous and simple profile, whereas females are more
 variable, and some individuals resemble the profile of males (“male-like”
 females). Previous studies have shown that males in captivity prefer
 females with a more male-like profile, mating with them more promptly.
 Here, we used both species to test whether cuticular hydrocarbons serve as
 signal of female fertility and whether females with a male-like cuticular
 hydrocarbon profile mate more often in the field. We report on the number
 of sires for field-caught females and demonstrate that male-like females
 are not more fertile and do not mate more often in the wild. We also show
 that the allocation of sperm does not seem to follow a fair raffle; a few
 males dominate the brood composition of wild-caught mated females.
description: Field collected previously mated females of two species. Females
 oviposit in lab. Offpspring are scored with 7 microsatellites to predict
 number of fathers in a brood (48 offspring per brood). We
 use<strong> </strong>COLONY (Jones & Wang, 2010) to
 calculate number of fathers per brood.   We test if
 females with different cuticular hydrocarbon profiles produce a different
 number of offspring (good genes) or if certain females mate more often in
 the field.
description: # Do favored cuticular hydrocarbon profiles signal fertility? Analysis of
 Gryllus firmus and Gryllus pennsylvanicus This dataset contains offspring
 genotypes, Cuticular hydrocarbon calls for all parents and supplementary
 individuals, allele frequencies used in the Colony program, and results
 from the Colony program ## Description of the data and file structure
 There are five data sheets: Allele_Frequencies.xlsx: These are allele
 frequencies used in the Colony analyses for each brood. The allele
 frequencies were calculated in CERVUS and used as input “known allele
 frequencies” to increase COLONY’s accuracy COLONY_Output.xlsx: Results
 from Colony run. Each species was analyzed with 3 different error rates
 (each in a separate tab), fathers for each female brood (Female ID) are
 designated with numbers. The "Prob (Inc.) refers to the probability
 that all individuals of a given fullsib family are fullsibs - the lower
 the probability the higher the change that the fullsibship could be slit.
 The "Prob (exc.) is the probability that no other individuals are
 fullsibs to this family (See Colony for more information). The
 #offspring/father is a count of offspring assigned to a particular father.
 The following list (AssignedO1...) refer to the offspring_ID assigned to a
 particular father in each brood. Offspring_Genotype_(1).xlsx: These are
 the microsatellite calls for each offspring. Each individual is
 represented by one row and each locus is represented by two columns. Loci
 names are in the first row, two columns for each (allele 1 and allele 2).
 Loci colors for each locus represent the fluorescent dye color used for
 genotyping (see paper for more information) Mother_Genotypes.xlsx: These
 are the microsatellite calls for each brood mother. Each individual is
 represented by one row and each locus is represented by two columns. Loci
 names are in the first row, two columns for each (allele 1 and allele 2).
 Loci colors for each locus represent the fluorescent dye color used for
 genotyping (see paper for more information) Fertility_Count.xlsx: A count
 of total offspring for each female. One tab for *Gryllus firmus* females
 and one tab for *Gryllus pennsylvanicus* females CHCPCA2023.csv:
 **Sample** is the sample ID: GFF (and F) represent *Gryllus firmus*
 females, GFM represent *Gryllus firmus* males, GPF (and P) represent
 *Gryllus pennsylvanicus* females, GPM represent *Gryllus pennsylvanicus*
 males. Results from Masshunter Qualitative Analysis Version B.10, showing
 the top 20 peak areas within each sample. **Peak** refers to peaks
 observed in a particular individual chromatogram, **RT** is retention time
 (Time taken for a compound to pass through the GC column), **Area** is the
 total area under the peak and **Area %** is the percentage of the total
 area attributed to a specific peak, indicating relative abundance,
 **Height** is the maximum intensity of the peak, reflecting the
 compound's concentration and **Width** of the peaks. **Max Y**:
 Highest y-axis value of the peak, related to its intensity. **Symmetry**:
 Measure of the peak's symmetry, affecting data quality. **Tailing
 Factor**: Ratio of the peak's trailing to leading edges, assessing
 peak shape.  **FWHM** (Full Width at Half Maximum) indicates how wide a
 peak is at its midpoint. The **Reference point** indicates which peak is
 the docosane peak.  **Species** and **Sex** are indicated on the final two
 columns. And scripts related to R analyses and classification of females
 based on the analyses 01_CHC_Alignment_Manual.R: This is the R script used
 for the alignment and analyses of the CHC data (CHCPCA2003.csv). 
 02_Fertility.R: This is the R script used for the analyses of the
 fertility data (Fertility_Count.xlsx)  03_Paternity.R: This is the R
 script used for the analyses of the Paternity data (COLONY_Output.xlsx) 
 MLLabeled.csv: list of females classified according to the PCA analyses
 (see paper for details), females with a male-like CHC profile are listed
 with ML. ## Sharing/Access information Data was derived from the following
 sources: Microsatellite genotypes for 7 loci, Cuticular hydrocarbon
 collections for individual crickets using GCMS (see paper for details) ##
 Code/Software (uploaded as "data") The R code used in the
 analyses