| Chapter title |
Whole-genome sequencing for comparative genomics and de novo genome assembly.
|
|---|---|
| Chapter number | 1 |
| Book title |
Mycobacteria Protocols
|
| Published in |
Methods in molecular biology, January 2015
|
| DOI | 10.1007/978-1-4939-2450-9_1 |
| Pubmed ID | |
| Book ISBNs |
978-1-4939-2449-3, 978-1-4939-2450-9
|
| Authors |
Andrej Benjak, Claudia Sala, Ruben C Hartkoorn, Ruben C. Hartkoorn, Benjak, Andrej, Sala, Claudia, Hartkoorn, Ruben C. |
| Abstract |
Next-generation sequencing technologies for whole-genome sequencing of mycobacteria are rapidly becoming an attractive alternative to more traditional sequencing methods. In particular this technology is proving useful for genome-wide identification of mutations in mycobacteria (comparative genomics) as well as for de novo assembly of whole genomes. Next-generation sequencing however generates a vast quantity of data that can only be transformed into a usable and comprehensible form using bioinformatics. Here we describe the methodology one would use to prepare libraries for whole-genome sequencing, and the basic bioinformatics to identify mutations in a genome following Illumina HiSeq or MiSeq sequencing, as well as de novo genome assembly following sequencing using Pacific Biosciences (PacBio). |
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Mendeley readers
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| Student > Doctoral Student | 2 | 6% |
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