Next, we aligned all hits with MAFFT [43] and discarded those without sequence information for the YCYL or PAAP region and removed 100% identical sequences using Jalview [44], leaving us with a set of 286 WNV sequences for which we calculated the respective motif occurrences. The strain designations as listed in the alignment were taken from the NCBI taxonomy on West Nile viruses: http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=11082.
selleck chemical Several of these strains like selleck chemicals Sarafend belong to the pathogenic lineage 2. These are: West Nile virus H442, West Nile virus SA381/00, West Nile virus SA93/01, West Nile virus SPU116/89. Please note that the Kunjin virus has been recognized as WNV strain which is also visible by the identical sequences in the 2 displayed patterns. Acknowledgements We would like to thank Dr. Robert B. Tesh (University of Texas Medical Branch, Galveston) for kindly providing the WNV serum, Dr. Ted Pierson (NIAID) for the WNV constructs and the NIH AIDS research and reference reagent program for providing the HIV-Ig. References 1. Brinton MA: The molecular biology of West SN-38 purchase Nile Virus: a new invader of the western hemisphere. Annu Rev Microbiol 2002, 56:371–402.PubMedCrossRef 2. Lindenbach BD, Thiel HJ, Rice CM: Flaviviridae:
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