As a consequence, a comparative analysis of the conserved genome context of regulators and regulatory elements should yield clues regarding the particular associated stimuli and responses.
By comparing with other fully sequenced model fish species including zebrafish, medaka, stickleback, and Tetraodon, homologous chromosomes among these species were determined and a large number of conserved syntenies were identified, providing valuable information for whole genome assembly and annotation in catfish, and for comparative genome analysis of other teleost species.
O'Connell Motherway, M. et al. Functional genome analysis of Bifidobacterium breve UCC2003 reveals type IVb tight adherence (Tad) pili as an essential and conserved host-colonization factor.
genome analysis tool kit.
We are developing new methods for RNA homology detection, RNA structure prediction, and identification of conserved RNA structures by comparative genome sequence analysis (including both noncoding RNA genes and cis-regulatory RNA structures).
The source code and documentation are publicly available for download from The identification of conserved DNA sequences by comparative genome sequence analysis has been widely used to annotate both protein-coding and gene regulatory elements in a wide variety of taxa [ 1- 5].
Remarkably, the specific interactions mediated by conserved sites in the mouse genome were themselves precisely conserved in the dog genome and define the underlying domain structure.
These exons flanked by sdSNPs were classified into three categories according to whether exon and genome sequences are conserved between mouse and human, i.e., transcript-conserved, genome-conserved, and non-conserved (see Methods).
Comparative sequence analysis revealed regions with severe structural distortions and deviations from gene by gene co-linearity, which are flanked by conserved regions showing microsynteny with the A. thaliana genome.
