Abstract
Polymyxa betae belongs to the Plasmodiophorida (Phytomyxea, Rhizaria). Here, we report the first draft genome sequence of a member of the Polymyxa genus, which includes two obligate root endoparasite species, vectors of important soilborne plant viruses. The genome assembly was represented by 1,001 contigs, with a cumulated length of 27,085,946 bp.
Highlights
Polymyxa betae and Polymyxa graminis belong to the Plasmodiophorida, a protist order which includes obligate root endoparasites of plants [1, 2]
After adapter trimming with Trimmomatic version 0.32 [13], 49,092,018 reads were quality trimmed and assembled using CLC Genomics Workbench version 9.5.2, resulting in 12,450 contigs (Ն1 kbp)
Contigs were binned using MetaBAT version 0.32.4 [14], resulting in 47 bins, which were assessed for genome completeness and contamination and assigned bin higher-level taxonomy with CheckM version 1.0.11 [15]
Summary
Polymyxa betae and Polymyxa graminis belong to the Plasmodiophorida, a protist order which includes obligate root endoparasites of plants [1, 2]. One library was prepared with the TruSeq Nano DNA sample preparation kit and paired-end sequenced using an Illumina MiSeq instrument and the reagent kit version 3, with a sequencing length of 2 ϫ 250 bp, yielding 12,292 Mb. After adapter trimming with Trimmomatic version 0.32 [13], 49,092,018 reads were quality trimmed and assembled using CLC Genomics Workbench version 9.5.2, resulting in 12,450 contigs (Ն1 kbp). Contigs were binned using MetaBAT version 0.32.4 [14], resulting in 47 bins, which were assessed for genome completeness and contamination and assigned bin higher-level taxonomy with CheckM version 1.0.11 [15].
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