title: MSU/JMT Exiguobacterium sibiricum 70mer array v. 1.0
status: Public on Feb 11 2008
contact.city: East Lansing
contact.first: Debora
contact.middle: Frigi
contact.last: Rodrigues
contact.email: rodri257@msu.edu
contact.state: MI
contact.address: 540 Plant and Soil Science Bldg.
contact.department: Microbiology and Molecular Genetics
contact.country: USA
contact.institute: Michigan State University
organism: Exiguobacterium artemiae 255-15
manufacture_protocol: The design criteria of the 70 mer probes were as follows: (i) 85% sequence similarity, 18-base stretch, and -35 kcal/mol free energy for gene-specific probes; and (ii) 96% sequence similarity, 55-base stretch, and -90 kcal/mol free energy for group-specific probes. Based on those criteria, 2931 CDS had gene-specific probes; 25 CDS were covered by six group-specific probes; no qualified probes were selected for 22 CDS. In addition, 10 human and 10 Arabidopsis probes were designed as controls. All designed oligonucleotides were commercially synthesized without modification by MWG Biotech Inc. (High Point, NC). The concentration of oligonucleotides was adjusted to 100 pmol µl-1. Oligonucleotide probes prepared in 50% DMSO (Sigma Chemical Co., MO) were spotted onto UltraGAPS glass slides (Corning Life Science, NY) using a Microgrid II robotic arrayer (Genomic Solutions Inc., MI). Each oligonucleotide probe had two spots on a single slide.  Additionally, six different concentrations (5~300 ng µl-1) of genomic DNA were also spotted (four duplicates on a single slide) as positive controls. After printing, the oligonucleotide probes were fixed onto the slide by UV cross-linking at 600 mJ of energy (Corning Life Science, NY). The oligo design information provided in the supplementary file.