DOI: 10.5061/dryad.ht76hdrtj
title: DNA sequencing of drive and standard Teleopsis dalmanni males

description: Sex-linked meiotic drivers limit the inheritance of the alternate sex
 chromosome in the heterogametic sex, subsequently skewing the ratio of
 males to females in the offspring. They consequently have large impacts on
 genome evolution, adaptation, and the emergence and maintenance of
 sexually selected traits. Detecting the molecular basis of meiotic drive
 is complex. It is affected by both the common occurrence of inversions
 housing a driver as well as the transcriptomic and cell type heterogeneity
 of the gonads. Herein, we utilise DNA-Seq to investigate the genetic basis
 of a sex-linked meiotic driver in the Malaysian stalk-eyed fly, Teleopsis
 dalmanni. These data are generated from wild adult flies from the Gombak
 District of Malaysia. 
description: # The single-cell consequences of an X-linked meiotic driver in stalk-eyed
 flies Dataset DOI: [10.5061/dryad.ht76hdrtj](10.5061/dryad.ht76hdrtj) ##
 Description of the data and file structure Dataset of paired-end short
 read Illumina resequencing for 77 wild individual male stalk-eyed flies
 (*Teleopsis dalmanni*) caught in Ulu Gombak, Malaysia, between 2009 and
 2017 (Standard = 50, Drive = 27). DNA was extracted from the thorax. The
 raw Fastq files are trimmed for the presence of Illumina adapter sequences
 using Cutadapt version 1.2.1 (Martin, 2011). The option -O 3 was used, so
 the 3' end of any reads that match the adapter sequence for 3 bp. or
 more are trimmed. The reads are further trimmed using Sickle version
 1.200 (Joshi and Fass, 2011) with a minimum window quality score of 20.
 Reads shorter than 15 bp. after trimming were removed. If only one of a
 read pair passed this filter, it is included in the R0 file. The output
 files from Cutadapt and Sickle are available here. ### Files and variables
 ### File Structure: ***Sample_${sample}.tar.gz*** * Compressed folder
 containing R0, R1 and R2 fastq files.  ***DNA_seq_sample_info.tsv*** *
 Metadata for samples including genotype and year of collection Columns *
 **Sample**: Unique sample ID * **Genotype**: Indicates whether individual
 carries a driving X chromosome * **Collection year**: Year the sample was
 collected  * **Sex**: Sex of the sample * **Folder**: Data folder attached
 to this sample. e.g. Sample_38.tar.gz for Sample_38. To open folder run
 command tar -xvzf $file.tar.gz * **Files**: Files contained within each
 sample folder, in fastq.gz format. Each sample has three files.  *
 *_R0.fastq.gz: singlet reads * *_R1.fastq.gz: forward reads *
 *_R2.fastq.gz: reverse reads  * **Folder md5:** md5 value to check
 integrity of file upon download.  ***Full file list*** * Sample_70.tar.gz
 * Sample_64.tar.gz * Sample_3.tar.gz * Sample_35.tar.gz * Sample_48.tar.gz
 * Sample_43.tar.gz * Sample_33.tar.gz * Sample_42.tar.gz *
 Sample_30.tar.gz * Sample_44.tar.gz * Sample_39.tar.gz * Sample_45.tar.gz
 * Sample_36.tar.gz * Sample_47.tar.gz * Sample_4.tar.gz * Sample_38.tar.gz
 * Sample_49.tar.gz * Sample_41.tar.gz * Sample_32.tar.gz *
 Sample_34.tar.gz * Sample_31.tar.gz * Sample_37.tar.gz * Sample_54.tar.gz
 * Sample_55.tar.gz * Sample_29.tar.gz * Sample_24.tar.gz *
 Sample_59.tar.gz * Sample_58.tar.gz * Sample_27.tar.gz * Sample_26.tar.gz
 * Sample_28.tar.gz * Sample_23.tar.gz * Sample_25.tar.gz *
 Sample_21.tar.gz * Sample_2.tar.gz * Sample_14.tar.gz * Sample_19.tar.gz *
 Sample_20.tar.gz * Sample_22.tar.gz * Sample_50.tar.gz * Sample_100.tar.gz
 * Sample_10.tar.gz * Sample_5.tar.gz * Sample_11.tar.gz * Sample_52.tar.gz
 * Sample_68.tar.gz * Sample_67.tar.gz * Sample_6.tar.gz * Sample_66.tar.gz
 * Sample_63.tar.gz * Sample_62.tar.gz * Sample_69.tar.gz *
 Sample_60.tar.gz * Sample_61.tar.gz * Sample_76.tar.gz * Sample_77.tar.gz
 * Sample_74.tar.gz * Sample_79.tar.gz * Sample_78.tar.gz * Sample_7.tar.gz
 * Sample_75.tar.gz * Sample_8.tar.gz * Sample_82.tar.gz * Sample_85.tar.gz
 * Sample_87.tar.gz * Sample_83.tar.gz * Sample_81.tar.gz *
 Sample_84.tar.gz * Sample_89.tar.gz * Sample_91.tar.gz * Sample_98.tar.gz
 * Sample_90.tar.gz * Sample_95.tar.gz * Sample_94.tar.gz *
 Sample_93.tar.gz * Sample_99.tar.gz * Sample_96.tar.gz *
 DNA_seq_sample_info.tsv