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来自菲律宾的临床分离株的完整基因组序列和草图基因组序列。

Complete and draft genome sequences of clinical isolates from the Philippines.

作者信息

Rojas Saul M, Tujan Ma Angelica A, Valencia Angela Kae C, Capin Jessel Babe G, Dizon Timothy John R, Ama Ma Cecilia G, Basilio Ramon P, Lim Dodge R, Reyes Lorenzo T, Phelan Jody, Campino Susana, Clark Taane G, De Los Reyes Mari Rose A

机构信息

Advanced Molecular Technologies Laboratory (formerly Molecular Biology Laboratory), Laboratory Research Division, Research Institute for Tropical Medicine, Alabang, Philippines.

National Tuberculosis Reference Laboratory, Laboratory Research Division, Research Institute for Tropical Medicine, Alabang, Philippines.

出版信息

Microbiol Resour Announc. 2025 Jul 10;14(7):e0030525. doi: 10.1128/mra.00305-25. Epub 2025 Jun 10.

DOI:10.1128/mra.00305-25
PMID:40492771
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12243548/
Abstract

This study reports the complete and draft genomes of 71 isolates from the Philippines. Hybrid assembly using Illumina and Nanopore sequencing produced six complete genomes, while others had 2-422 contigs. These data enhance understanding of diversity and drug resistance, supporting targeted treatment strategies.

摘要

本研究报告了来自菲律宾的71株分离株的完整基因组和草图基因组。使用Illumina和Nanopore测序进行的混合组装产生了6个完整基因组,而其他基因组有2至422个重叠群。这些数据增进了对多样性和耐药性的了解,支持了靶向治疗策略。

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本文引用的文献

1
Whole genome sequencing analysis of Mycobacterium tuberculosis reveals circulating strain types and drug-resistance mutations in the Philippines.全基因组测序分析结核分枝杆菌揭示了菲律宾的流行株型和耐药突变。
Sci Rep. 2024 Aug 23;14(1):19602. doi: 10.1038/s41598-024-70471-x.
2
Assembling the perfect bacterial genome using Oxford Nanopore and Illumina sequencing.利用牛津纳米孔测序和Illumina测序组装完美的细菌基因组。
PLoS Comput Biol. 2023 Mar 2;19(3):e1010905. doi: 10.1371/journal.pcbi.1010905. eCollection 2023 Mar.
3
Polypolish: Short-read polishing of long-read bacterial genome assemblies.多聚波兰:长读细菌基因组组装的短读抛光。
PLoS Comput Biol. 2022 Jan 24;18(1):e1009802. doi: 10.1371/journal.pcbi.1009802. eCollection 2022 Jan.
4
The genome polishing tool POLCA makes fast and accurate corrections in genome assemblies.基因组精修工具 POLCA 可快速准确地对基因组组装进行修正。
PLoS Comput Biol. 2020 Jun 26;16(6):e1007981. doi: 10.1371/journal.pcbi.1007981. eCollection 2020 Jun.
5
Integrating informatics tools and portable sequencing technology for rapid detection of resistance to anti-tuberculous drugs.整合信息学工具和便携式测序技术,用于快速检测抗结核药物耐药性。
Genome Med. 2019 Jun 24;11(1):41. doi: 10.1186/s13073-019-0650-x.
6
Assembly of long, error-prone reads using repeat graphs.使用重复图组装长的、易错的读取。
Nat Biotechnol. 2019 May;37(5):540-546. doi: 10.1038/s41587-019-0072-8. Epub 2019 Apr 1.
7
fastp: an ultra-fast all-in-one FASTQ preprocessor.fastp:一个超快速的一体化 FASTQ 预处理程序。
Bioinformatics. 2018 Sep 1;34(17):i884-i890. doi: 10.1093/bioinformatics/bty560.
8
QUAST: quality assessment tool for genome assemblies.QUAST:基因组组装质量评估工具。
Bioinformatics. 2013 Apr 15;29(8):1072-5. doi: 10.1093/bioinformatics/btt086. Epub 2013 Feb 19.