Chapter title |
Comparative analyses of extrachromosomal bacterial replicons, identification of chromids, and experimental evaluation of their indispensability.
|
---|---|
Chapter number | 2 |
Book title |
Bacterial Pangenomics
|
Published in |
Methods in molecular biology, October 2014
|
DOI | 10.1007/978-1-4939-1720-4_2 |
Pubmed ID | |
Book ISBNs |
978-1-4939-1719-8, 978-1-4939-1720-4
|
Authors |
Dziewit L, Bartosik D, Lukasz Dziewit, Dariusz Bartosik, Dziewit, Lukasz, Bartosik, Dariusz |
Abstract |
Bacterial genomic information can be divided between various replicons, including chromosomes, plasmids, and chromids (essential plasmid-like replicons with properties of both chromosomes and plasmids). Comparative analyses of bacterial plasmids, including homology searches, phylogenetic and phylogenomic analyses, as well as network construction for the characterization of their relationships, are good starting points for the identification of chromids. Chromids possess several chromosome-like genetic features (e.g., codon usage, GC content), but most significantly, they carry housekeeping genes, which make them indispensable for cell viability. However, it is important to confirm in silico predictions experimentally. The essential nature of a predicted chromid is usually verified by the application of a target-oriented replicon curing technique, based on the incompatibility phenomenon. Further tests examining growth in various media are used to distinguish secondary chromids from plasmids, and mutational analysis (e.g., using the yeast FLP/FRT recombination system) is employed to identify essential genes carried by particular chromids. |
X Demographics
Geographical breakdown
Country | Count | As % |
---|---|---|
France | 1 | 50% |
Unknown | 1 | 50% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Members of the public | 2 | 100% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Belgium | 1 | 6% |
Unknown | 15 | 94% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Student > Ph. D. Student | 5 | 31% |
Researcher | 4 | 25% |
Professor > Associate Professor | 2 | 13% |
Student > Master | 2 | 13% |
Professor | 1 | 6% |
Other | 0 | 0% |
Unknown | 2 | 13% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 8 | 50% |
Biochemistry, Genetics and Molecular Biology | 4 | 25% |
Environmental Science | 2 | 13% |
Immunology and Microbiology | 1 | 6% |
Unknown | 1 | 6% |