Updated (2007) Campylobacter jejuni NCTC11168 genome

The updated annotation file can be saved by using the 'right-click' mouse button and then saving this file. The default file is called 'Cj_updated.art' and is ready to use within Artemis genome analysis software. The updated annotation file has also been submitted to EBI/EMBL and to GeneDB with the original accession number AL111168. Manual re-annotation was carried out based on results from BLASTP and FASTA sequence comparisons using non-redundant databases. Additional functional data was provided using PFAM, PROSITE and RFAM databases. The programs TMHMM and SIGNALP were also used for added information. A full literature search was also carried out on coding sequence (CDS) number and gene name.

The updated annotation file is a 'flat-file' in EMBL (European Molecular Biology Laboratory) format. This is the European version of representing sequenced information (as opposed to NCBI/GenBank - U.S.A and DDBJ - Japan). Each feature (e.g. CDS or misc_feature) has appropriate qualifiers giving relevant information. The CDS feature has the appropriate base range e.g. 1..1223. File locations are followed by a colour qualifier denoting the different categories of CDS function. There are now two note qualifiers. The original note has now been denoted as 'Original (2000) note'. The updated note has been called 'Updated (2006) note'. This is followed by a product and gene name where appropriate. The locus_tag qualifier (replacing the systematic_ID qualifier), denotes the CDS number. A literature qualifier is also present giving useful papers with a PubMed ID. Each CDS also has related 'misc_features' denoting motifs present at the time of the re-annotation.