MGI short-read genome assemblies of Pythium insidiosum (reclassified as Pythium periculosum) strains Pi057C3 and Pi050C3
Abstract Objectives Pythium insidiosum causes a difficult-to-treat infectious condition called pythiosis, with high morbidity and mortality. So far, genome data of at least 10 strains of P. insidiosum, primarily classified in the phylogenetic clades I and II, have been sequenced using various next-g...
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| Format: | Article |
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BMC
2023-11-01
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| Series: | BMC Research Notes |
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| Online Access: | https://doi.org/10.1186/s13104-023-06587-6 |
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| author | Theerapong Krajaejun Preecha Patumcharoenpol Thidarat Rujirawat Weerayuth Kittichotirat Sithichoke Tangphatsornruang |
| author_facet | Theerapong Krajaejun Preecha Patumcharoenpol Thidarat Rujirawat Weerayuth Kittichotirat Sithichoke Tangphatsornruang |
| author_sort | Theerapong Krajaejun |
| collection | DOAJ |
| description | Abstract Objectives Pythium insidiosum causes a difficult-to-treat infectious condition called pythiosis, with high morbidity and mortality. So far, genome data of at least 10 strains of P. insidiosum, primarily classified in the phylogenetic clades I and II, have been sequenced using various next-generation sequencing platforms. The MGI short-read platform was employed to obtain genome data of 2 clade-III strains of P. insidiosum (recently reclassified as Pythium periculosum) from patients in Thailand and the United States. This work is a part of our attempt to generate a comprehensive genome database from diverse pathogen strains. Data description A 150-bp paired-end library was prepared from a gDNA sample of P. insidiosum (P. periculosum) strains Pi057C3 and Pi050C3 (also known as ATCC90586) to generate draft genome sequences using an MGISEQ-2000RS sequencer. As a result, for the strain Pi057C3, we obtained a 42.5-Mb assembled genome (164x coverage) comprising 14,134 contigs, L50 of 241, N50 of 45,748, 57.6% CG content, and 12,147 ORFs. For the strain Pi050C3, we received a 43.3-Mb draft genome (230x coverage) containing 14,511 contigs, L50 of 245, N50 of 45,208, 57.7% CG content, and 12,249 ORFs. The genome sequences have been deposited in the NCBI/DDBJ databases under the accession numbers JAKCXM000000000.1 (strain Pi057C3) and JAKCXL000000000.1 (strain Pi050C3). |
| first_indexed | 2024-03-11T11:08:39Z |
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| institution | Directory Open Access Journal |
| issn | 1756-0500 |
| language | English |
| last_indexed | 2024-03-11T11:08:39Z |
| publishDate | 2023-11-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Research Notes |
| spelling | doaj.art-a72c27ccbe2346979d9a0af7500e600f2023-11-12T12:05:41ZengBMCBMC Research Notes1756-05002023-11-011611410.1186/s13104-023-06587-6MGI short-read genome assemblies of Pythium insidiosum (reclassified as Pythium periculosum) strains Pi057C3 and Pi050C3Theerapong Krajaejun0Preecha Patumcharoenpol1Thidarat Rujirawat2Weerayuth Kittichotirat3Sithichoke Tangphatsornruang4Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol UniversityInterdisciplinary Graduate Program in Bioscience, Faculty of Science, Kasetsart UniversityResearch Center, Faculty of Medicine, Ramathibodi Hospital, Mahidol UniversitySystems Biology and Bioinformatics Research Group, Pilot Plant Development and Training Institute, King Mongkut’s University of Technology ThonburiNational Omics Center, National Science and Technology Development AgencyAbstract Objectives Pythium insidiosum causes a difficult-to-treat infectious condition called pythiosis, with high morbidity and mortality. So far, genome data of at least 10 strains of P. insidiosum, primarily classified in the phylogenetic clades I and II, have been sequenced using various next-generation sequencing platforms. The MGI short-read platform was employed to obtain genome data of 2 clade-III strains of P. insidiosum (recently reclassified as Pythium periculosum) from patients in Thailand and the United States. This work is a part of our attempt to generate a comprehensive genome database from diverse pathogen strains. Data description A 150-bp paired-end library was prepared from a gDNA sample of P. insidiosum (P. periculosum) strains Pi057C3 and Pi050C3 (also known as ATCC90586) to generate draft genome sequences using an MGISEQ-2000RS sequencer. As a result, for the strain Pi057C3, we obtained a 42.5-Mb assembled genome (164x coverage) comprising 14,134 contigs, L50 of 241, N50 of 45,748, 57.6% CG content, and 12,147 ORFs. For the strain Pi050C3, we received a 43.3-Mb draft genome (230x coverage) containing 14,511 contigs, L50 of 245, N50 of 45,208, 57.7% CG content, and 12,249 ORFs. The genome sequences have been deposited in the NCBI/DDBJ databases under the accession numbers JAKCXM000000000.1 (strain Pi057C3) and JAKCXL000000000.1 (strain Pi050C3).https://doi.org/10.1186/s13104-023-06587-6Pythium insidiosumPythiosisGenomeMGINext-generation sequencing |
| spellingShingle | Theerapong Krajaejun Preecha Patumcharoenpol Thidarat Rujirawat Weerayuth Kittichotirat Sithichoke Tangphatsornruang MGI short-read genome assemblies of Pythium insidiosum (reclassified as Pythium periculosum) strains Pi057C3 and Pi050C3 BMC Research Notes Pythium insidiosum Pythiosis Genome MGI Next-generation sequencing |
| title | MGI short-read genome assemblies of Pythium insidiosum (reclassified as Pythium periculosum) strains Pi057C3 and Pi050C3 |
| title_full | MGI short-read genome assemblies of Pythium insidiosum (reclassified as Pythium periculosum) strains Pi057C3 and Pi050C3 |
| title_fullStr | MGI short-read genome assemblies of Pythium insidiosum (reclassified as Pythium periculosum) strains Pi057C3 and Pi050C3 |
| title_full_unstemmed | MGI short-read genome assemblies of Pythium insidiosum (reclassified as Pythium periculosum) strains Pi057C3 and Pi050C3 |
| title_short | MGI short-read genome assemblies of Pythium insidiosum (reclassified as Pythium periculosum) strains Pi057C3 and Pi050C3 |
| title_sort | mgi short read genome assemblies of pythium insidiosum reclassified as pythium periculosum strains pi057c3 and pi050c3 |
| topic | Pythium insidiosum Pythiosis Genome MGI Next-generation sequencing |
| url | https://doi.org/10.1186/s13104-023-06587-6 |
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