Multiple sets of reference strains of H. parasuis are currently in use around the world, and so we have sequenced these strains and confirmed that those with the same name are identical, with the exception of D74 (serovar 9).
The choice of one or multiple reference wild-type strain(s) is therefore not without implications for the future of the field and should be carefully investigated.
There are currently multiple isolates used as reference strains for the same serovar in different serotyping laboratories, and so we have sequenced 27 reference strains from three different laboratories [ 61].
At SGD, we are expanding our scope to provide annotation and comparative analyses of all major budding yeast strains, and are moving toward providing multiple reference genomes.
After removal of redundancies, mostly due to multiple identifications of the same gene in different parasite reference strains, experiments 1, 2 and 3 allowed the identification of 1083, 1082 and 1314 T.
Multiple sequence alignments of HHV8 sequences from the present study and reference strains reported in the GenBank were performed with clustal W tool of MegAlign program of the Lasergene software (DNASTAR Inc., V7.0.0).
These strains have been previously selected by single-exposure of ATCC6538, MW2, and Mu50 reference strains to 0.5 mg/L of triclosan in solid medium or by multiple step-growth on liquid medium with increasing triclosan concentrations (from 0.25 mg/L to 4 mg/L) as in the case of the RN4220 laboratory strain [ 22].
To test the fidelity of this approach, we applied it to each of the twelve reference strains and compared its results to the accessory genome sequences previously generated by multiple alignments (Table 1).
For HuCV phylogenetic analyses, a multiple-sequence alignment was generated from the consensus sequence of each of the isolates and the reference strains by using ClustalX 1.8 methods.
