Generic sample from Caenorhabditis elegans
Caenorhabditis elegans
  Jonathan Ewbank lab grew up the worms. In the Valerie Reinke lab, they grew up the E. coli OP50 (as a control experiment) and Serratia macescens strain Db10 infected samples.  This is the control experiment to the experiment stored in the trace archive under sample alias Caenorhabditis elegans N2 exposed to S. macescens Db10 24hrs RNA sample 1.  Worms: Eggs from C. elegans N2 worms cultivated at 25 C were allowed to hatch in the absence of food at 25 C. Synchronized larvae were transferred after 19-24 h to NGM agar plates lawned with OP50 and cultivated at 25 C until the young adult stage (43-45h).  Preparation of plates: Culture OP50/Db10 in liquid LB at 37 C overnight, put on NGM plates for 24 h at 25 C, then another 20h at 25 C.  Infection: Synchronized N2 worms at young adult stage were transferred to NGM plates lawned with OP50/Db10 and cultivated at 25 C for 24 hours. worms were collected and washed 2 times in M9 buffer before being resuspend in Trizol.  Harvesting: worms were harvested and washed 2 times in M9, as far as possible undesirable larvae were separated from adult during washing. the supernatant was removed and discarded. the volume of the pellet was measured and 10 volumes of Trizol added. Tubes were vortexed for 45 sec, placed in liquid Nitrogen flash freeze completely, then thawed completely in 37C water bath. this freeze/thaw process was repeated 4 times. worms and Trizol homogenate was frozen at -80 C.  Local library name: OP_1_24 for 1st assay infected at 24 hours  Quality values are GAPipeline1.4 solexa/illumina values. 