菌株TVIN-A01的全基因组序列
Complete genome sequence of strain TVIN-A01.
作者信息
Shelke Triveni, Mahar Nirmal Singh, Gupta Vanika
机构信息
Department of Biochemical Engineering and Biotechnology, Indian Institute of Technology, New Delhi, India.
Department of Zoology, Delhi University, Delhi, India.
出版信息
Microbiol Resour Announc. 2024 Feb 15;13(2):e0097723. doi: 10.1128/MRA.00977-23. Epub 2024 Jan 18.
Abstract
The complete genome sequence of strain TVIN-A01 is reported in this manuscript. It is a commonly used laboratory strain of known to infect insects and, hence, often studied in host-pathogen interactions. Oxford Nanopore sequencing and Illumina sequencing were performed to assemble the genome completely.
摘要
本文报道了菌株TVIN-A01的完整基因组序列。它是一种常用的实验室菌株，已知会感染昆虫，因此常被用于宿主-病原体相互作用的研究。采用牛津纳米孔测序和Illumina测序对基因组进行了完整组装。
相似文献
1
Complete genome sequence of strain TVIN-A01.
Microbiol Resour Announc. 2024 Feb 15;13(2):e0097723. doi: 10.1128/MRA.00977-23. Epub 2024 Jan 18.
2
Complete genome sequence of the entomopathogenic and metabolically versatile soil bacterium Pseudomonas entomophila.
Nat Biotechnol. 2006 Jun;24(6):673-9. doi: 10.1038/nbt1212. Epub 2006 May 14.
3
Comparison of R9.4.1/Kit10 and R10/Kit12 Oxford Nanopore flowcells and chemistries in bacterial genome reconstruction.
Microb Genom. 2023 Jan;9(1). doi: 10.1099/mgen.0.000910.
4
Benchmarking hybrid assembly approaches for genomic analyses of bacterial pathogens using Illumina and Oxford Nanopore sequencing.
BMC Genomics. 2020 Sep 14;21(1):631. doi: 10.1186/s12864-020-07041-8.
5
Polishing the Oxford Nanopore long-read assemblies of bacterial pathogens with Illumina short reads to improve genomic analyses.
Genomics. 2021 May;113(3):1366-1377. doi: 10.1016/j.ygeno.2021.03.018. Epub 2021 Mar 11.
6
whole-genome assembly of a wild type yeast isolate using nanopore sequencing.
F1000Res. 2017 May 3;6:618. doi: 10.12688/f1000research.11146.2. eCollection 2017.
7
Complete Genome Sequence of the Multidrug-Resistant Pseudomonas aeruginosa Endemic Houston-1 Strain, Isolated from a Pediatric Patient with Cystic Fibrosis and Assembled Using Oxford Nanopore and Illumina Sequencing.
Microbiol Resour Announc. 2019 Oct 24;8(43):e00903-19. doi: 10.1128/MRA.00903-19.
8
Insecticidal activity of the metalloprotease AprA occurs through suppression of host cellular and humoral immunity.
Dev Comp Immunol. 2018 Apr;81:116-126. doi: 10.1016/j.dci.2017.11.014. Epub 2017 Nov 23.
9
De novo assembly of the Indian blue peacock (Pavo cristatus) genome using Oxford Nanopore technology and Illumina sequencing.
Gigascience. 2019 May 1;8(5). doi: 10.1093/gigascience/giz038.
10
Comparison of Illumina and Oxford Nanopore Technology for genome analysis of Francisella tularensis, Bacillus anthracis, and Brucella suis.
BMC Genomics. 2023 May 12;24(1):258. doi: 10.1186/s12864-023-09343-z.
本文引用的文献
1
Polishing De Novo Nanopore Assemblies of Bacteria and Eukaryotes With FMLRC2.
Mol Biol Evol. 2023 Mar 4;40(3). doi: 10.1093/molbev/msad048.
2
Automated assembly scaffolding using RagTag elevates a new tomato system for high-throughput genome editing.
Genome Biol. 2022 Dec 15;23(1):258. doi: 10.1186/s13059-022-02823-7.
3
Polypolish: Short-read polishing of long-read bacterial genome assemblies.
PLoS Comput Biol. 2022 Jan 24;18(1):e1009802. doi: 10.1371/journal.pcbi.1009802. eCollection 2022 Jan.
4
TYGS is an automated high-throughput platform for state-of-the-art genome-based taxonomy.
Nat Commun. 2019 May 16;10(1):2182. doi: 10.1038/s41467-019-10210-3.
5
Assembly of long, error-prone reads using repeat graphs.
Nat Biotechnol. 2019 May;37(5):540-546. doi: 10.1038/s41587-019-0072-8. Epub 2019 Apr 1.
6
NCBI prokaryotic genome annotation pipeline.
Nucleic Acids Res. 2016 Aug 19;44(14):6614-24. doi: 10.1093/nar/gkw569. Epub 2016 Jun 24.
7
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.
Bioinformatics. 2015 Oct 1;31(19):3210-2. doi: 10.1093/bioinformatics/btv351. Epub 2015 Jun 9.
8
Fast construction of FM-index for long sequence reads.
Bioinformatics. 2014 Nov 15;30(22):3274-5. doi: 10.1093/bioinformatics/btu541. Epub 2014 Aug 8.
9
QUAST: quality assessment tool for genome assemblies.
Bioinformatics. 2013 Apr 15;29(8):1072-5. doi: 10.1093/bioinformatics/btt086. Epub 2013 Feb 19.
10
NCBI BLAST: a better web interface.
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W5-9. doi: 10.1093/nar/gkn201. Epub 2008 Apr 24.
Zotero 插件