Next generation shotgun sequencing and the challenges of de novo genome assembly
Sequencing the genomes of the many scientifically fascinating plants and animals found in South Africa is fast becoming a viable option as a result of the rapid and sustained drop in the cost of next generation sequencing over the last five years. However, the processing and assembly of the sequence...
| Main Authors: | , |
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| Format: | Article |
| Language: | English |
| Published: |
Academy of Science of South Africa
2012-10-01
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| Series: | South African Journal of Science |
| Subjects: | |
| Online Access: | http://192.168.0.108/index.php/sajs/article/view/9649 |
| _version_ | 1831645918647025664 |
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| author | Stephen Schlebusch Nicola Illing |
| author_facet | Stephen Schlebusch Nicola Illing |
| author_sort | Stephen Schlebusch |
| collection | DOAJ |
| description | Sequencing the genomes of the many scientifically fascinating plants and animals found in South Africa is fast becoming a viable option as a result of the rapid and sustained drop in the cost of next generation sequencing over the last five years. However, the processing and assembly of the sequence data produced is not trivial. There are several factors which need to be taken into consideration when planning a strategy to assemble genome sequence data de novo. This paper reviews the advances and the challenges in two of the most rapidly developing areas of the field: the sequencing technology and the software programs used to assemble de novo the sequence data generated by these technologies into a genome. |
| first_indexed | 2024-12-19T13:45:21Z |
| format | Article |
| id | doaj.art-3a24cb29b5cb4e96bedd00d9e0a15bc1 |
| institution | Directory Open Access Journal |
| issn | 1996-7489 |
| language | English |
| last_indexed | 2024-12-19T13:45:21Z |
| publishDate | 2012-10-01 |
| publisher | Academy of Science of South Africa |
| record_format | Article |
| series | South African Journal of Science |
| spelling | doaj.art-3a24cb29b5cb4e96bedd00d9e0a15bc12022-12-21T20:18:53ZengAcademy of Science of South AfricaSouth African Journal of Science1996-74892012-10-0110811/12Next generation shotgun sequencing and the challenges of de novo genome assemblyStephen Schlebusch0Nicola Illing1Department of Molecular and Cell Biology, University of Cape Town, Cape TownDepartment of Molecular and Cell Biology, University of Cape Town, Cape TownSequencing the genomes of the many scientifically fascinating plants and animals found in South Africa is fast becoming a viable option as a result of the rapid and sustained drop in the cost of next generation sequencing over the last five years. However, the processing and assembly of the sequence data produced is not trivial. There are several factors which need to be taken into consideration when planning a strategy to assemble genome sequence data de novo. This paper reviews the advances and the challenges in two of the most rapidly developing areas of the field: the sequencing technology and the software programs used to assemble de novo the sequence data generated by these technologies into a genome.http://192.168.0.108/index.php/sajs/article/view/9649de novo genome assemblynext generation sequencingde Bruijnwhole genome sequencing |
| spellingShingle | Stephen Schlebusch Nicola Illing Next generation shotgun sequencing and the challenges of de novo genome assembly South African Journal of Science de novo genome assembly next generation sequencing de Bruijn whole genome sequencing |
| title | Next generation shotgun sequencing and the challenges of de novo genome assembly |
| title_full | Next generation shotgun sequencing and the challenges of de novo genome assembly |
| title_fullStr | Next generation shotgun sequencing and the challenges of de novo genome assembly |
| title_full_unstemmed | Next generation shotgun sequencing and the challenges of de novo genome assembly |
| title_short | Next generation shotgun sequencing and the challenges of de novo genome assembly |
| title_sort | next generation shotgun sequencing and the challenges of de novo genome assembly |
| topic | de novo genome assembly next generation sequencing de Bruijn whole genome sequencing |
| url | http://192.168.0.108/index.php/sajs/article/view/9649 |
| work_keys_str_mv | AT stephenschlebusch nextgenerationshotgunsequencingandthechallengesofdenovogenomeassembly AT nicolailling nextgenerationshotgunsequencingandthechallengesofdenovogenomeassembly |