title: Salmonella virulence, membrane protein, and Regulatory array
status: Public on Aug 04 2006
contact.city: Lubbock
contact.first: Scot
contact.last: Dowd
contact.email: sdowd@pathogenresearch.org
contact.state: TX
contact.address: 4321 Marsha Sharp Fwy
contact.department: MBRI
contact.country: USA
contact.web_link: http://www.medicalbiofilm.org
contact.institute: MBRI
contact.phone: 806-789-6879
organism: Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
manufacture_protocol: Oligo design based upon the following publication.
  Charbonnier Y, Gettler B, Francois P, Bento M, Renzoni A, Vaudaux P, Schlegel W, Schrenzel J: A generic approach for the design of whole-genome oligoarrays, validated for genomotyping, deletion mapping and gene expression analysis on Staphylococcus aureus. BMC Genomics 2005, 6: 95.
  Using the transcriptome of Salmonella Typhimurium LT2, an oligonucleotide microarray, made up of 43-45 mers, was designed.  Based upon available funding we were able to choose 1152 genes, that were selected based upon their being associated with virulence or with regulation of virulence genes.  Specifications of oligos were based upon various design characteristics such as temperature of melting, 3’ location, specificity, lack of repeat nucleotides, and other consideration as previously described [121].  Oligos were synthesized and normalized in concentration by Integrated DNA Technologies Inc. (Coralville, IA).  Oligos were resuspended in Epoxide Slide Spotting Solution and printed onto Epoxide Coated Slides (Corning Inc., Corning, NY) using a GeneMachine’s Omnigrid Accent microarray printer (Genomic Solutions Ann Arbor, MI).  Each array also contains duplicate elements for each gene.