title: Thermoanaerobacter pseudethanolicus 39E 2.3K oligo array version 1.0
status: Public on Aug 10 2011
contact.city: Norman
contact.first: Christopher
contact.middle: L
contact.last: Hemme
contact.email: hemmecl@ou.edu
contact.state: OK
contact.address: 101 David L. Boren Blvd.
contact.department: Botany and Microbiology
contact.country: USA
contact.institute: University of Oklahoma
organism: Thermoanaerobacter pseudethanolicus ATCC 33223
description: The microarray contains genes for both Thermoanaerobacter species X514 and Thermoanaerobacter pseudethanolicus 39E.  The X514 probes are identical to GPL11001.  X514 was used as the reference and all X514 probes were included on the array.  Unique 39E genes (i.e. probes that do not cross-hybridize with X514) were included as unique spots on the array.  39E genes common between the two species were not included on the array and 39E probes that hybridized to X514 counterparts were mapped back to the 39E gene.  The genes (both common and unique) on the array are named according to the 39E annotation in Genbank.  A conversion file between the 39E and X514 gene names is attached for reference.
manufacture_protocol: All designed oligonucleotides were commercially synthesized without modification by Invitrogen.  Oligonucleotide probes were prepared in 50% dimethyl sulfoxide (Sigma Chemical Co., MO).  (http://ieg.ou.edu/protocol/Protocols/DMSO_Printing_8.pdf)  The concentration of oligonucleotide probes was adjusted to 100pmol/L. were spotted onto SuperAmine glass slides (Telechem International, CA) using a PixSys 5500 robotic printer (CartesianTechnologies Inc., CA).  Each probe had two replicates on a single slide.  After printing, the oligonucleotide probes were fixed onto the slides by UV cross-linking (600 mJ of energy) according to the protocol of the manufacturer (Telechem International, CA). (http://aem.asm.org/cgi/reprint/71/7/3753)