Assessing Illumina technology for the high-throughput sequencing of bacteriophage genomes
Bacteriophages are the most abundant biological entities on the planet, playing crucial roles in the shaping of bacterial populations. Phages have smaller genomes than their bacterial hosts, yet there are currently fewer fully sequenced phage than bacterial genomes. We assessed the suitability of Il...
| Asıl Yazarlar: | , , , , |
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| Materyal Türü: | Makale |
| Dil: | English |
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PeerJ Inc.
2016-06-01
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| Seri Bilgileri: | PeerJ |
| Konular: | |
| Online Erişim: | https://peerj.com/articles/2055.pdf |
| _version_ | 1827606471631699968 |
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| author | Branko Rihtman Sean Meaden Martha R.J. Clokie Britt Koskella Andrew D. Millard |
| author_facet | Branko Rihtman Sean Meaden Martha R.J. Clokie Britt Koskella Andrew D. Millard |
| author_sort | Branko Rihtman |
| collection | DOAJ |
| description | Bacteriophages are the most abundant biological entities on the planet, playing crucial roles in the shaping of bacterial populations. Phages have smaller genomes than their bacterial hosts, yet there are currently fewer fully sequenced phage than bacterial genomes. We assessed the suitability of Illumina technology for high-throughput sequencing and subsequent assembly of phage genomes. In silico datasets reveal that 30× coverage is sufficient to correctly assemble the complete genome of ~98.5% of known phages, with experimental data confirming that the majority of phage genomes can be assembled at 30× coverage. Furthermore, in silico data demonstrate it is possible to co-sequence multiple phages from different hosts, without introducing assembly errors. |
| first_indexed | 2024-03-09T06:37:44Z |
| format | Article |
| id | doaj.art-eab25d7480dd4277bb67e3d7642a4997 |
| institution | Directory Open Access Journal |
| issn | 2167-8359 |
| language | English |
| last_indexed | 2024-03-09T06:37:44Z |
| publishDate | 2016-06-01 |
| publisher | PeerJ Inc. |
| record_format | Article |
| series | PeerJ |
| spelling | doaj.art-eab25d7480dd4277bb67e3d7642a49972023-12-03T10:55:33ZengPeerJ Inc.PeerJ2167-83592016-06-014e205510.7717/peerj.2055Assessing Illumina technology for the high-throughput sequencing of bacteriophage genomesBranko Rihtman0Sean Meaden1Martha R.J. Clokie2Britt Koskella3Andrew D. Millard4School of Life Sciences, University of Warwick, Coventry, United KingdomCollege of Life and Environmental Sciences, University of Exeter, United KingdomDepartment of Infection, Immunity and Inflammation, University of LeicesterCollege of Life and Environmental Sciences, University of Exeter, United KingdomWarwick Medical School, University of Warwick, United KingdomBacteriophages are the most abundant biological entities on the planet, playing crucial roles in the shaping of bacterial populations. Phages have smaller genomes than their bacterial hosts, yet there are currently fewer fully sequenced phage than bacterial genomes. We assessed the suitability of Illumina technology for high-throughput sequencing and subsequent assembly of phage genomes. In silico datasets reveal that 30× coverage is sufficient to correctly assemble the complete genome of ~98.5% of known phages, with experimental data confirming that the majority of phage genomes can be assembled at 30× coverage. Furthermore, in silico data demonstrate it is possible to co-sequence multiple phages from different hosts, without introducing assembly errors.https://peerj.com/articles/2055.pdfBacteriophageGenomeAssemblySequencingIllumina |
| spellingShingle | Branko Rihtman Sean Meaden Martha R.J. Clokie Britt Koskella Andrew D. Millard Assessing Illumina technology for the high-throughput sequencing of bacteriophage genomes PeerJ Bacteriophage Genome Assembly Sequencing Illumina |
| title | Assessing Illumina technology for the high-throughput sequencing of bacteriophage genomes |
| title_full | Assessing Illumina technology for the high-throughput sequencing of bacteriophage genomes |
| title_fullStr | Assessing Illumina technology for the high-throughput sequencing of bacteriophage genomes |
| title_full_unstemmed | Assessing Illumina technology for the high-throughput sequencing of bacteriophage genomes |
| title_short | Assessing Illumina technology for the high-throughput sequencing of bacteriophage genomes |
| title_sort | assessing illumina technology for the high throughput sequencing of bacteriophage genomes |
| topic | Bacteriophage Genome Assembly Sequencing Illumina |
| url | https://peerj.com/articles/2055.pdf |
| work_keys_str_mv | AT brankorihtman assessingilluminatechnologyforthehighthroughputsequencingofbacteriophagegenomes AT seanmeaden assessingilluminatechnologyforthehighthroughputsequencingofbacteriophagegenomes AT martharjclokie assessingilluminatechnologyforthehighthroughputsequencingofbacteriophagegenomes AT brittkoskella assessingilluminatechnologyforthehighthroughputsequencingofbacteriophagegenomes AT andrewdmillard assessingilluminatechnologyforthehighthroughputsequencingofbacteriophagegenomes |