| Chapter title |
High-Throughput Sequencing of Complete Mitochondrial Genomes
|
|---|---|
| Chapter number | 3 |
| Book title |
Marine Genomics
|
| Published in |
Methods in molecular biology, January 2016
|
| DOI | 10.1007/978-1-4939-3774-5_3 |
| Pubmed ID | |
| Book ISBNs |
978-1-4939-3772-1, 978-1-4939-3774-5
|
| Authors |
Andrew George Briscoe, Kevin Peter Hopkins, Andrea Waeschenbach |
| Editors |
Sarah J. Bourlat |
| Abstract |
Next-generation sequencing has revolutionized mitogenomics, turning a cottage industry into a high throughput process. This chapter outlines methodologies used to sequence, assemble, and annotate mitogenomes of non-model organisms using Illumina sequencing technology, utilizing either long-range PCR amplicons or gDNA as starting template. Instructions are given on how to extract DNA, conduct long-range PCR amplifications, generate short Sanger barcode tag sequences, prepare equimolar sample pools, construct and assess quality library preparations, assemble Illumina reads using either seeded reference mapping or de novo assembly, and annotate mitogenomes in the absence of an automated pipeline. Notes and recommendations, derived from our own experience, are given throughout this chapter. |
Mendeley readers
Geographical breakdown
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|---|---|---|
| Chile | 1 | 10% |
| Unknown | 9 | 90% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 4 | 40% |
| Researcher | 3 | 30% |
| Student > Bachelor | 1 | 10% |
| Student > Master | 1 | 10% |
| Student > Doctoral Student | 1 | 10% |
| Other | 0 | 0% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 4 | 40% |
| Biochemistry, Genetics and Molecular Biology | 3 | 30% |
| Environmental Science | 2 | 20% |
| Engineering | 1 | 10% |