Abstract
The genus Ascaris comprises a family of large parasitic roundworms, infecting over 700 million people globally and causing substantial economic losses in domestic swine. Ascaris species are morphologically indistinguishable and differ by <1% at the genetic level. Here we have assembled and studied the mitochondrial genome (mtDNA) of Ascaris samples from three different continents (Africa, Asia and Europe).This submission contains supplementary information linked with a submitted paper:Scalable Assembly of Ascaris Mitogenomes from Whole-Genome Data Reveals a Novel CladeLauren Woolfe, Kezia Kozel, Poom Adisakwattana, Allen Jethro Alonte, Kennesa Klariz Llanes, Alexandra Juhász, J. Russell Stothard, Christina Strube, Marie-Kristin Raulf, Scott P. Lawton, Toby Landeryou, Vachel Gay Paller, Umer Chaudhry, Arnoud H.M. van Vliet and Martha BetsonThe files included contain:woolfe_Ascaris_mtDNA_genomes_included.xlsx: list of Ascaris isolates, metadata and ENA/NCBI accession numbers of the mitogenomeswoolfe_ascaris_mtDNA_genomes.zip: a ZIP file with the mitogenome assemblies in fasta format, starting with the repeat region upstream of the nad1 gene.woolfe_ascaris_mtDNA_nucleotide.zip: a ZIP file with the individual alignments of the nucleotide sequence of the 12 protein-encoding genes, and an alignment of the 12 genes concatenated in the order nad1–atp6–nad2–cob–cox3–nad4–cox1–cox2–nad3–nad5–nad6–nad4Lwoolfe_ascaris_mtDNA_aminoacid.zip: a ZIP file with the individual alignments of the translated amino acid sequences of the 12 protein-encoding genes, and an alignment of the 12 translation concatenated in the order Nad1–Atp6–Nad2–Cob–Cox3–Nad4–Cox1–Cox2–Nad3–Nad5–Nad6–Nad4LMitogenome assemblies were obtained from Illumina reads downloaded from NCBI, and either depleted of host reads (human+pig) using Bowtie2 or Deacon, or enriched for mtDNA reads using Deacon, assembled with MitoZ version 3.6, and annotated using Mitos2 version 2.1.9. The scripts and other relevant information are available on https://github.com/LWoolfe/Ascaris_Mitogenome_Project.gitThis study was funded by a Faculty of Health and Medical Sciences PhD Studentship, University of Surrey. Sampling and sequencing of the worms from the Philippines was carried out as part of the ZooTRIP project with funding provided by the Newton Fund awarded through the Medical Research Council (MRC) (grant number MR/R025592/1) and the Philippine Council for Health Research and Development (fund code number N9A6823). For the purpose of open access, the authors have applied a Creative Commons Attribution (CC BY) licence to any Author Accepted Manuscript version arising.