The genetic basis of incipient sexual isolation in Drosophila melanogaster
Data files
Jun 04, 2024 version files 67.98 KB
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adjustData.RData
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README.md
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z30.pheno
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Z30mating.csv
Abstract
Speciation is a fundamental evolutionary process, but the genetic changes accompanying speciation are difficult to determine since true species do not produce viable and fertile offspring. Partially reproductively isolated incipient species are useful for assessing genetic changes that occur prior to speciation. Drosophila melanogaster from Zimbabwe, Africa are partially sexually isolated from other D. melanogaster populations whose males have poor mating success with Zimbabwe females. We used the North American D. melanogaster Genetic Reference Panel (DGRP) to show that there is significant genetic variation in the mating success of DGRP males with Zimbabwe females, to map genetic variants and genes associated with variation in mating success, and to determine whether mating success to Zimbabwe females is associated with other quantitative traits previously measured in the DGRP. Incipient sexual isolation is highly polygenic and associated with the common African inversion In(3R)K and the amount of the sex pheromone 5,9-heptacosadiene in DGRP females. We functionally validated the effect of eight candidate genes using RNA interference to provide testable hypotheses for future studies investigating the molecular genetic basis of incipient sexual isolation in D. melanogaster.
README: The genetic basis of incipient sexual isolation in Drosophila melanogaster
Description of data and files
adjustedData.RData
This RData contains the following objects:
- adjustPheno: R function to adjust phenotype
- inv: table for inversion genotypes where the row names are the line IDs and column names are the inversion names. In the table, "0" = reference karyotype; "1" = heterozygous for the inversion, "2" = homozygous for the inverted karyotype.
- pcs: top 11 PCs for the genotypes where the row names are the line IDs and column names are the PC names
- wolba: Wolbachia infection status where the row names are the line IDs and there is one column with "y" indicating infected lines and "n" indicating Wolbachia free.
- writeCovar: returns a matrix of covariates, which can be used for other programs
Z30mating.csv
Z30 mating raw data, comma-separated file with the following columns:
- series: series is similar to blocks where assays are performed in the same batch
- female.line: female line in the mating assay
- n.female: number of females in the assay
- female.age: age of females
- male.line: male line in the mating assay
- n.male: number of males in the assay
- male.age: age of males
- mate.time1: time at which the first mating takes place
- mate.time2: time at which the second mating takes place
- mate.time3: time at which the third mating takes place
- mate.time4: time at which the fourth mating takes place
- mate.time5: time at which the fifth mating takes place
- n.mate.1hr: number of females mated at 1 hour
- n.mate.2hr: number of females mated at 2 hour
- ratio.1hr: ratio of mated females at 1 hour
- ratio.2hr: ratio of mated females at 2 hour
NA's in this file represents missing data. For example, when only one fly mated, mate.time2, mate.time3, mate.time4, and mate.time5 will be NAs.
z30.pheno
Line means for mating ratio at 2 hours, comma-separated file with the following columns (no column name):
- Line: DGRP line IDs
- LIne mean: line means for mating ratio at 2 hours