Draft genome sequence of the oomycete Pythium destruens strain ATCC 64221 from a horse with pythiosis in Australia

Abstract

Objectives: Genome sequences are a vital resource for accelerating the biological exploration of an organism of interest. Pythium destruens (a synonym of Pythium insidiosum) causes a difficult-to-treat infectious disease called pythiosis worldwide. Detection and management of pythiosis are challenging. Basic knowledge of the disease is lacking. Genomes of this organism isolated from different continents (i.e., Asia and the Americas) have been sequenced and publicly available. Here, we sequenced the genome of an Australian isolate of P. destruens. Genome data will facilitate the comparative analysis of this and related species at the molecular level. Data description: Genomic DNA of the P. destruens strain ATCC 64221, isolated from a horse with pythiosis in Australia, was used to prepare one paired-end library (with 180-bp insert) for next-generation sequencing, using the Illumina HiSeq 2500 short-read platform. Raw reads were cleaned and assembled by several bioinformatics tools. A total of 20,860,454 processed reads, accounted for 2,614,890,553 total bases, can be assembled into a 37.8-Mb genome, consisting 13,060 contigs (average length: 2896 bases; range: 300-142,967), N 50 of 11,370 bases, and 2.9% 'N' composition. The genome was determined 85.9% completeness, contained 14,424 predicted genes, and can be retrieved online at the NCBI/DDBJ databases under the accession number BCFQ01000000.1.

Genome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and III

“…These strains were isolated from human patients with pythiosis from Thailand (n = 3) and the United States (n = 1), and have been phylogenetically classified into clade-I (n = 1), clade-II (n = 2), and clade-III (n = 1), based on Open Access the ribosomal deoxyribonucleic acid (rDNA) sequence analysis [5]. So far, the draft genome sequences from 7 strains of P. insidiosum (including the synonym species Pythium destruens), isolated from humans, horses, and the environment in various countries, are available in the public databases [6][7][8][9][10][11][12]. This study contributed additional genomic data to augment the completeness of the public P. insidiosum genome database.…”

“…The identity of each strain was re-assessed by the rDNA sequence analysis, using the obtained gDNA [5]. One paired-end library with a 180-bp gap was prepared for each gDNA sample before proceeding to whole-genome sequencing by the Illumina HiSeq2000 (for strains Pi19 and MCC18) and HiSeq2500 (for strains ATCC200269 and SIMI4763) NGS platforms (Yourgene Bioscience, Taiwan), as previously described [6,7,10,12]. In brief, the Qiagen CLC Genomics Workbench software trimmed raw reads to ensure a read length of at least 35 bases.…”

Genome Data of Four Pythium insidiosum Strains from the Phylogenetically-Distinct Clades I, II, and III

“…These strains were isolated from human patients with pythiosis from Thailand (n = 3) and the United States (n=1), and have been phylogenetically classi ed into clade-I (n=1), clade-II (n=2), and clade-III (n=1), based on the ribosomal deoxyribonucleic acid (rDNA) sequence analysis [5]. So far, the draft genome sequences from 7 strains of P. insidiosum (including the synonym species, Pythium destruens), isolated from humans, horses, and the environment in Thailand, Australia, the United States, Costa Rica, and Brazil, are available in the public data databases, such as National Center for Biotechnology Information (NCBI) and DNA Data Bank of Japan (DDBJ) [6][7][8][9][10][11][12]. This study contributed additional genomic data to augment the completeness of the public P. insidiosum genome database.…”

Identification and Biotyping of Pythium insidiosum Isolated from Urban and Rural Areas of Thailand by Multiplex PCR, DNA Barcode, and Proteomic Analyses

“…Affected individuals usually present with an infection of the skin, eye, artery, or internal organ [ 1 , 2 , 3 , 4 ]. The pathogenesis mechanism of P. insidiosum has begun to be better understood through genomic and transcriptomic analyses [ 5 , 6 , 7 , 8 , 9 , 10 , 11 , 12 ]. Pythiosis possesses a high morbidity and mortality rate, as it is difficult to diagnose and treat the disease.…”