For example, we currently try to predict biochemical pathways by analyzing conservation of genome organization (e.g., the neighborhood of genes) in the more than 30 completely sequenced organisms that are publicly available.
The sequence analyses of the four selected markers showed that all markers were present in one or more of the completely sequenced Legionella isolates (Table 4).
For example, the KEGG database whose data I use here contains information about the complement of enzymes encoded in more than 600 completely sequenced prokaryotic genomes.
To ask whether this is the case, I characterized pairwise and higher-order associations in the co-occurrence of genes encoding metabolic enzymes in more than 200 completely sequenced representatives of prokaryotic genera.
However, evidence of C2H2-ZNF gene or cluster loss could not be obtained in these previous studies as it required detailed analysis of more than two completely sequenced genomes.
The STRING database (http://string-db.org), which covers more than 1100 completely sequenced organisms, including Homo sapiens, represents the online database resource search tool for the retrieval of interacting genes providing both experimental and predicted interaction information.
