title: AAFC Clostridium perfringens  3K v1.0
status: Public on Apr 18 2017
contact.city: Guelph
contact.first: Dion
contact.last: Lepp
contact.address: 93 Stone Rd W
contact.country: Canada
contact.institute: Agriculture and Agri-Food Canada
organism: Clostridium perfringens
manufacture_protocol: A total of 3,312 67-73mer oligonucleotide probes were designed using OligoWiz software v.2.1.3, representing 3,091 (90.4%) and 2,806 (80.3%) CDSs from the draft genomes of NE-producing strains CP4 and JGS4143, respectively.  An additional 23 probes were designed representing various plasmid CDSs and the C. perfringens major and minor toxin genes.  Optimal melting temperature, potential cross-hybridization, probe position, secondary structure and low sequence complexity were taken into account in the probe design.  Oligonucleotides were synthesized by Ocimum Biosolutions (Gaithersburg, MD) and Operon Technologies (Huntsville, AL) and resuspended in 3XSSC (0.45M sodium citrate, 45mM sodium chloride) to a concentration of 50 pmol/ul in 384-well plates.  Oligonucleotides were spotted in quadruplicate onto Corning GAPS II slides (Fisher Scientific, Ottawa, ON, Canada) with a BioRad Chipwriter Pro microarray spotter.