FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICS
Sequencing technologies have evolved dramatically since the first two bacterial genomes were published. Currently, due to second generation sequencing, millions of bacterial genomic sequences exist, although a significantly smaller amount represent completely assembled genomes. Third generation sequ...
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| Format: | Article |
| Language: | English |
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"Alexandru Ioan Cuza" University of Iași
2021-08-01
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| Series: | Journal of Experimental and Molecular Biology |
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| Online Access: | http://www.jemb.bio.uaic.ro/index.php/jemb/article/view/57 |
| _version_ | 1797228924149694464 |
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| author | Amada El-Sabeh |
| author_facet | Amada El-Sabeh |
| author_sort | Amada El-Sabeh |
| collection | DOAJ |
| description | Sequencing technologies have evolved dramatically since the first two bacterial genomes were published. Currently, due to second generation sequencing, millions of bacterial genomic sequences exist, although a significantly smaller amount represent completely assembled genomes. Third generation sequencing allows the analysis of single molecules, with read-lengths that cover highly complex repetitive regions previously inaccessible by short-read sequencing. However, long-read sequencing is known for producing errors which make long-read-only genome assemblies unreliable or complex if high accuracy is important for further applications. Here, Oxford Nanopore Technology’s MinION, the first handheld nanopore sequencing device, is evaluated in comparison with competing sequencing platforms. The MinION’s applications, potential and limitations are reviewed, focusing on its utility for bacterial genome de novo or hybrid assembly. |
| first_indexed | 2024-04-24T15:04:25Z |
| format | Article |
| id | doaj.art-9bc9bb6dd3ef4297ad14757bc08f77c6 |
| institution | Directory Open Access Journal |
| issn | 2601-6974 |
| language | English |
| last_indexed | 2024-04-24T15:04:25Z |
| publishDate | 2021-08-01 |
| publisher | "Alexandru Ioan Cuza" University of Iași |
| record_format | Article |
| series | Journal of Experimental and Molecular Biology |
| spelling | doaj.art-9bc9bb6dd3ef4297ad14757bc08f77c62024-04-02T13:59:43Zeng"Alexandru Ioan Cuza" University of IașiJournal of Experimental and Molecular Biology2601-69742021-08-0110.47743/jemb-2021-57FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICSAmada El-Sabeh0Universitatea Alexandru Ioan Cuza IasiSequencing technologies have evolved dramatically since the first two bacterial genomes were published. Currently, due to second generation sequencing, millions of bacterial genomic sequences exist, although a significantly smaller amount represent completely assembled genomes. Third generation sequencing allows the analysis of single molecules, with read-lengths that cover highly complex repetitive regions previously inaccessible by short-read sequencing. However, long-read sequencing is known for producing errors which make long-read-only genome assemblies unreliable or complex if high accuracy is important for further applications. Here, Oxford Nanopore Technology’s MinION, the first handheld nanopore sequencing device, is evaluated in comparison with competing sequencing platforms. The MinION’s applications, potential and limitations are reviewed, focusing on its utility for bacterial genome de novo or hybrid assembly.http://www.jemb.bio.uaic.ro/index.php/jemb/article/view/57bacterial genomes; third-generation-sequencing; Oxford Nanopore Technologies MinION; hybrid assembly |
| spellingShingle | Amada El-Sabeh FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICS Journal of Experimental and Molecular Biology bacterial genomes; third-generation-sequencing; Oxford Nanopore Technologies MinION; hybrid assembly |
| title | FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICS |
| title_full | FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICS |
| title_fullStr | FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICS |
| title_full_unstemmed | FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICS |
| title_short | FINISHING THE JOB - UTILITY OF LONG-READ SEQUENCING USING THE MINION FOR BACTERIAL GENOMICS |
| title_sort | finishing the job utility of long read sequencing using the minion for bacterial genomics |
| topic | bacterial genomes; third-generation-sequencing; Oxford Nanopore Technologies MinION; hybrid assembly |
| url | http://www.jemb.bio.uaic.ro/index.php/jemb/article/view/57 |
| work_keys_str_mv | AT amadaelsabeh finishingthejobutilityoflongreadsequencingusingtheminionforbacterialgenomics |