Genome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and III
Abstract Objectives We employed the Illumina NGS platform to sequence genomes of 4 different strains of the pathogenic oomycete Pythium insidiosum, the causative agent of pythiosis. These strains were isolated from humans in Thailand (n = 3) and the United States (n = 1), and phylogenetically classi...
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doaj-172fb651f0b944d0a4a7281a8e178fff2021-05-23T11:40:38ZengBMCBMC Research Notes1756-05002021-05-011411410.1186/s13104-021-05610-yGenome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and IIITheerapong Krajaejun0Weerayuth Kittichotirat1Preecha Patumcharoenpol2Thidarat Rujirawat3Tassanee Lohnoo4Wanta Yingyong5Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol UniversitySystems Biology and Bioinformatics Research Group, Pilot Plant Development and Training Institute, King Mongkut’s University of Technology ThonburiInterdisciplinary Graduate Program in Bioscience, Faculty of Science, Kasetsart UniversityResearch Center, Faculty of Medicine, Ramathibodi Hospital, Mahidol UniversityResearch Center, Faculty of Medicine, Ramathibodi Hospital, Mahidol UniversityResearch Center, Faculty of Medicine, Ramathibodi Hospital, Mahidol UniversityAbstract Objectives We employed the Illumina NGS platform to sequence genomes of 4 different strains of the pathogenic oomycete Pythium insidiosum, the causative agent of pythiosis. These strains were isolated from humans in Thailand (n = 3) and the United States (n = 1), and phylogenetically classified into clade-I, -II, and -III. Our study augmented the completeness of the P. insidiosum genome database for exploration of the biology, evolution, and pathogenesis of the pathogen. Data description One paired-end library (180-bp insert) was prepared from a gDNA sample of P. insidiosum strains ATCC200269 (clade-I), Pi19 (clade-II), MCC18 (clade-II), and SIMI4763 (clade-III) for whole-genome sequencing by Illumina HiSeq2000/HiSeq2500 NGS platform. A range of 28.4–59.4 million raw reads, accounted for 3.0–7.3 Gb, were obtained and assembled into the genome sizes of 47.1 Mb (15,153 contigs; 85% completeness; 19,329 open reading frames [ORFs]) for strain ATCC200269, 35.4 Mb (14,576 contigs; 83% completeness; 13,895 ORFs) for strain Pi19, 34.5 Mb (11,084 contigs; 84% completeness; 13,249 ORFs) for strain MCC18, and 47.1 Mb (15,162 contigs; 85% completeness; 19,340 ORFs) for strain SIMI4763. The genome data can be downloaded from the NCBI/DDBJ databases under the accessions BCFN00000000.1 (ATCC200269), BCFS00000000.1 (Pi19), BCFT00000000.1 (MCC18), and BCFU00000000.1 (SIMI4763).https://doi.org/10.1186/s13104-021-05610-yPythium insidiosumPythiosisGenome sequenceNext-generation sequencing |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Theerapong Krajaejun Weerayuth Kittichotirat Preecha Patumcharoenpol Thidarat Rujirawat Tassanee Lohnoo Wanta Yingyong |
spellingShingle |
Theerapong Krajaejun Weerayuth Kittichotirat Preecha Patumcharoenpol Thidarat Rujirawat Tassanee Lohnoo Wanta Yingyong Genome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and III BMC Research Notes Pythium insidiosum Pythiosis Genome sequence Next-generation sequencing |
author_facet |
Theerapong Krajaejun Weerayuth Kittichotirat Preecha Patumcharoenpol Thidarat Rujirawat Tassanee Lohnoo Wanta Yingyong |
author_sort |
Theerapong Krajaejun |
title |
Genome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and III |
title_short |
Genome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and III |
title_full |
Genome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and III |
title_fullStr |
Genome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and III |
title_full_unstemmed |
Genome data of four Pythium insidiosum strains from the phylogenetically-distinct clades I, II, and III |
title_sort |
genome data of four pythium insidiosum strains from the phylogenetically-distinct clades i, ii, and iii |
publisher |
BMC |
series |
BMC Research Notes |
issn |
1756-0500 |
publishDate |
2021-05-01 |
description |
Abstract Objectives We employed the Illumina NGS platform to sequence genomes of 4 different strains of the pathogenic oomycete Pythium insidiosum, the causative agent of pythiosis. These strains were isolated from humans in Thailand (n = 3) and the United States (n = 1), and phylogenetically classified into clade-I, -II, and -III. Our study augmented the completeness of the P. insidiosum genome database for exploration of the biology, evolution, and pathogenesis of the pathogen. Data description One paired-end library (180-bp insert) was prepared from a gDNA sample of P. insidiosum strains ATCC200269 (clade-I), Pi19 (clade-II), MCC18 (clade-II), and SIMI4763 (clade-III) for whole-genome sequencing by Illumina HiSeq2000/HiSeq2500 NGS platform. A range of 28.4–59.4 million raw reads, accounted for 3.0–7.3 Gb, were obtained and assembled into the genome sizes of 47.1 Mb (15,153 contigs; 85% completeness; 19,329 open reading frames [ORFs]) for strain ATCC200269, 35.4 Mb (14,576 contigs; 83% completeness; 13,895 ORFs) for strain Pi19, 34.5 Mb (11,084 contigs; 84% completeness; 13,249 ORFs) for strain MCC18, and 47.1 Mb (15,162 contigs; 85% completeness; 19,340 ORFs) for strain SIMI4763. The genome data can be downloaded from the NCBI/DDBJ databases under the accessions BCFN00000000.1 (ATCC200269), BCFS00000000.1 (Pi19), BCFT00000000.1 (MCC18), and BCFU00000000.1 (SIMI4763). |
topic |
Pythium insidiosum Pythiosis Genome sequence Next-generation sequencing |
url |
https://doi.org/10.1186/s13104-021-05610-y |
work_keys_str_mv |
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