De Novo Genome Sequencing, Annotation, and Taxonomy of Unknown Bacteria
- Department of Molecular Biology and Microbiology, Tufts University, School of Medicine, Boston, Massachusetts 02111, USA
- ↵1Correspondence: andrew.camilli{at}tufts.edu
Abstract
Whole-genome sequencing of viruses and bacteria has become routine thanks to advances in DNA-sequencing technologies. Parallel advances in computing power and software design allow for billions of base pairs of sequence information to be analyzed in hours to minutes. Here, I describe methods to isolate known as well as new species of bacteria from the environment; to purify, sequence, assemble, and bioinformatically annotate their genomes; and to determine their place in the tree of life by phylogenetic analysis. The protocol introduced here was developed as part of Cold Spring Harbor's Advanced Bacterial Genetics course.
Footnotes
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From the Experiments in Bacterial Genetics collection, edited by Lionello Bossi, Andrew Camilli, and Angelika Gründling.
