| Chapter title |
Metagenomics Using Next-Generation Sequencing
|
|---|---|
| Chapter number | 15 |
| Book title |
Environmental Microbiology
|
| Published in |
Methods in molecular biology, January 2014
|
| DOI | 10.1007/978-1-62703-712-9_15 |
| Pubmed ID | |
| Book ISBNs |
978-1-62703-711-2, 978-1-62703-712-9
|
| Authors |
Lauren Bragg, Gene W. Tyson, Bragg L, Tyson GW, Bragg, Lauren, Tyson, Gene W. |
| Abstract |
Traditionally, microbial genome sequencing has been restricted to the small number of species that can be grown in pure culture. The progressive development of culture-independent methods over the last 15 years now allows researchers to sequence microbial communities directly from environmental samples. This approach is commonly referred to as "metagenomics" or "community genomics". However, the term metagenomics is applied liberally in the literature to describe any culture-independent analysis of microbial communities. Here, we define metagenomics as shotgun ("random") sequencing of the genomic DNA of a sample taken directly from the environment. The metagenome can be thought of as a sampling of the collective genome of the microbial community. We outline the considerations and analyses that should be undertaken to ensure the success of a metagenomic sequencing project, including the choice of sequencing platform and methods for assembly, binning, annotation, and comparative analysis. |
X Demographics
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| United States | 9 | 47% |
| Egypt | 1 | 5% |
| Sweden | 1 | 5% |
| United Kingdom | 1 | 5% |
| Chile | 1 | 5% |
| Unknown | 6 | 32% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Scientists | 14 | 74% |
| Members of the public | 5 | 26% |
Mendeley readers
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Brazil | 4 | 2% |
| United States | 4 | 2% |
| Canada | 1 | <1% |
| Sweden | 1 | <1% |
| Spain | 1 | <1% |
| Mexico | 1 | <1% |
| Unknown | 222 | 95% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Student > Ph. D. Student | 46 | 20% |
| Student > Master | 40 | 17% |
| Researcher | 34 | 15% |
| Student > Bachelor | 27 | 12% |
| Student > Doctoral Student | 11 | 5% |
| Other | 28 | 12% |
| Unknown | 48 | 21% |
| Readers by discipline | Count | As % |
|---|---|---|
| Agricultural and Biological Sciences | 79 | 34% |
| Biochemistry, Genetics and Molecular Biology | 45 | 19% |
| Immunology and Microbiology | 10 | 4% |
| Computer Science | 9 | 4% |
| Environmental Science | 6 | 3% |
| Other | 30 | 13% |
| Unknown | 55 | 24% |