A number of these taxa have not been previously sequenced, including the Western Australian genus Pycneus Holthuis, 1986 (Gibson Desert), the Western Australian species Caridina spelunca Choy, 1996, and the Northern Territory species Parisia gracilis Williams, 1964.
All individuals included had been previously sequenced at mitochondrial cytochrome oxidase I (COI) and identified to mitochondrial type.
Homologs of this element were not found in any other organism, including the two strains of Fusobacterium that have been previously sequenced, though TlpB sequences are found in a variety of organisms, including cyanobacteria, Bacillus cereus, Enterococcus, Deinococcus and Exiguobacterium.
Every patient had their genome sequenced, even those whose genomes had been previously sequenced.
The 1.1 Mb genome size is mostly consistent with previously sequenced Wolbachia genomes, including the Wolbachia wMel strain that is 1.27 Mb (Wu et al. 2004; Klasson et al. 2008; Klasson et al. 2009; Scott and Ghedin 2009).
If sequences were previously named, we included a cross-reference to the original nomenclature (Bet v 1a-n) as well as to the nomenclature of the allergen nomenclature committee (Bet v 1.0101 to 1.3101) [ 19].
The RTGI was used to associate ESTs with functional annotation as their sequence data was previously included in RTGI Version 4.0.
These samples were previously genotyped and include 14 MLST sequence types and 9 IGS types (Additional file 1: Table S1).
A BLAST comparison was also conducted against 9 previously sequenced teleost fish including Notothenia coriiceps, Chaenocephalus aceratus, Pleuragramma antarcticum, Gasterosteus aculeatus, Takifugu rubripes, Oryzias latipes, Tetraodon nigroviridis, Oreochromis niloticus and Danio rerio to further validate the transcriptome assembly.
Complete sequences for six candidates, including five that have been previously reported with complete sequences, were recovered using the recent Btau_4.0 and UMD_1.5 assembly.
Similarly, the CACC box has also been previously identified in certain contractile-related promoter sequences, including TNNI3 [ 30, 31], TNNC1 [ 32], and MB [ 33].
