Illumina Sequencing of Brassica juncea

Genomic DNA was isolated from B. juncea seedlings using CTAB method [59] . The quality and quantity of the extracted DNA was assessed by electrophoresis on a 0.8% agarose gel and spectrophotometer (Biorad, USA), respectively. Three μg gDNA was used to prepare a genomic DNA library utilizing Illumina DNA sample preparation kit according to manufacturer’s instructions. High-throughput pair-end sequencing (2×75 cycles) was performed on Illumina GA IIx sequencer at University of Delhi South Campus, India. High quality reads were assembled through Velvet/Oasis assemblers [60] (link), [61] (link).

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Bhardwaj A.R., Joshi G., Pandey R., Kukreja B., Goel S., Jagannath A., Kumar A., Katiyar-Agarwal S, & Agarwal M. (2014). A Genome-Wide Perspective of miRNAome in Response to High Temperature, Salinity and Drought Stresses in Brassica juncea (Czern) L. PLoS ONE, 9(3), e92456.

Publication 2014

0.8% agarose gel DNA sample preparation kit GA IIx sequencer

Agarose Ctab Electrophoresis Genomic Genomic dna library Oasis Seedlings

Corresponding Organization :

Other organizations : University of Delhi

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Variable analysis

independent variables

Isolation of genomic DNA from B. juncea seedlings using CTAB method

dependent variables

Quality and quantity of the extracted DNA assessed by electrophoresis on a 0.8% agarose gel and spectrophotometer
High-throughput pair-end sequencing (2×75 cycles) performed on Illumina GA IIx sequencer
High quality reads assembled through Velvet/Oasis assemblers

control variables

Independent variables not explicitly mentioned
Control variables not explicitly mentioned

controls

No positive or negative controls specified by authors

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