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Consistent with recent concepts in bacterial genomics, the difference in genome content described above is an example of how rapidly pan-genomes can be created thereby diversifying an original clonal population in a short period of years.
Méric, G. et al. A reference pan-genome approach to comparative bacterial genomics: identification of novel epidemiological markers in pathogenic Campylobacter.
In our review of the first decade of bacterial genomics, we concluded that the genomic diversity of the bacterial world is far greater than expected (Binnewies et al. 2006).
Bacterial genomics is the study of the whole genomes of bacteria in which genes involved in biodegradation and other metabolic processes can be predicted.
However, the relative short read length makes genome assembly problematic and their use in bacterial genomics has been fairly restricted to new strains closely related to already sequenced organisms to identify for example virulence factors [9], antibiotic resistance genes [10], or epidemiological markers [11].
Bacterial genomics and transcriptomics can inform our understanding of resistance mechanisms, and comparative genomic analysis can provide relevant information on the evolution of resistant strains and on resistance genes and cognate genetic elements.
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On the other hand, pan-genome analysis is a hot topic in comparative genomics for bacterial genome (Hiller et al., 2007; Lefebure and Stanhope, 2007; Tettelin et al., 2005).
The RegPrecise database contains detailed information on regulatory interactions and transcriptional regulons inferred by a comparative genomics in diverse bacterial genomes [ 21].
Now, hundreds of bacterial genomes are available for comparative genomics.
In addition, comparative genomics has shown that oligotrophic marine bacterial genomes contain significantly more lipid metabolism and FA degradation genes than do copiotrophic genomes (Lauro et al., 2009).
The release of the first complete bacterial genome sequence in 1995 opened the era of functional genomics.
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