I would like to assess transcriptome upregulation or down regulation in my plants between treated and control. I know there is the TruSeq RNA Sample Prep Kit v2 - Set A for easy mRNA isolation and library preparation.
1. Is there a similar kit at a lower cost?
2. Alternatively l could isolate tRNA and make single stranded cDNA but this is where l get stuck. Can l sequence single complementary DNA to assess the transcriptome? If not how can l go about making a double stranded cDNA for sequencing in a Miseq platform?
You can't sequence the cDNA directly since you need to add all the adaptors and barcode sequences required for the reaction to take pace on the sequencing machine.
We use Lexogen kits (https://www.lexogen.com/corall-mrna-seq-v2/), I know NEB also has a library prep kit I heard good things about but I never used it myself.
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