characteristics.text: SAMN00010970
characteristics.characteristic: External Id
characteristics.text: Department of Plant Sciences, University of Tennessee Knoxville
characteristics.characteristic: INSDC center name
characteristics.text: 2010-05-31T00:00:00Z
characteristics.characteristic: INSDC first public
characteristics.text: 2013-06-12T08:53:55.940Z
characteristics.characteristic: INSDC last update
characteristics.text: SRS058913
characteristics.characteristic: INSDC secondary accession
characteristics.text: live
characteristics.characteristic: INSDC status
characteristics.text: Generic
characteristics.characteristic: NCBI submission model
characteristics.text: Generic.1.0
characteristics.characteristic: NCBI submission package
characteristics.text: SRS058913
characteristics.characteristic: SRA accession
characteristics.text: Since our strategy for transcriptome sequencing was to maximize coverage, we pooled source material from different individuals, sexes, tissues, life stages, and plants exposed separately to one of four stress factors (three herbicide treatments and cold stress). Seeds of plants from Adams Co., IL (designated as the ACR biotype) served as the source material for transcriptome sequencing. To obtain seedling tissue, seeds were sterilized in 15% bleach for 15 min. then triple rinsed with autoclaved ddH20. Afterwards, seeds were suspended in 0.15% sterilized agarose and stored at 4 C for one month to break dormancy. Twenty Petri plates were poured (25 mL/plate) with an artificial media consisting of 1% sucrose (mg/L), 1x MS salts (Murashige and Skoog Basal Salt Mixture 4.3 g/L; Sigma-Aldrich, St. Louis, MO), and 1% Bacto agar (mg/L). Twenty test tubes were filled with 3 mL of top agar (0.8% Bacto agar, 1% sucrose, 1x MS salts), and ~20 ACR seeds were taken from the 0.15% agarose and placed in each of the top agar tubes. The top agar was poured over all 20 plates, which were then sealed with parafilm and placed in a growth chamber at 23 C with 12 hour day length for ~ 2 weeks. After two weeks the seedlings were carefully removed from the plates, immediately frozen in liquid nitrogen, and stored at -80 C. Total RNA was isolated from each of the three sets of tissues (seedlings, stressed plants, reproductive growth) using PureLink Plant RNA Reagent (Invitrogen Corp., Carlsbad, CA). Poly A+ mRNA then was isolated from a pool of equal quantities of the three total RNA preparations and used for cDNA synthesis. The cDNAs were then normalized and prepared for 454 pyrosequencing. Steps from mRNA isolation through to pyrosequencing were performed by the W. M. Keck Center for Comparative and Functional Genomics at the University of Illinois.
characteristics.characteristic: description
characteristics.text: Amaranthus tuberculatus
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_277990
characteristics.characteristic: organism
characteristics.text: Generic sample from Amaranthus tuberculatus
characteristics.characteristic: title