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Libraries of the same type (mRNA-seq, sRNA-seq, or ChIP-seq) and the same biological repeat were pooled together for HTS.
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To achieve label-free quantitative results, three biological repeats were pooled and each of these pooled samples was analysed via three technical repeats through the spectrometer.
Biological repeats were pooled two by two to obtain 8 biological replicates for the mutant alleles and 16 repeats for the wild-type.
The rest of the inflorescence stem was cut into 2 mm pieces and biological repeats were pooled per 8 stems to obtain 5 biological replicates for the mutant alleles and 4 repeats for the wild-type, except for c4h-2, ccr1-3, and ccr1-6.
To minimize biological variance, 20 roots from 4 repeats were pooled.
Three biological repeats and three technical repeats of each biological repeat were used.
The biological repeat was performed on the same samples.
For each experimental variant 2-4 biological replicates were pooled.
Thus, tissues from pooled samples from 3 biological repeats were homogenized using glass rods and RNA was extracted using a Plant RNA isolation kit (Plant RNeasy Mini Kit, Qiagen Benelux BV, Venlo the Netherlands) according to the manufacturer's recommendations.
Three biological repeats were analyzed.
Three or more biological repeats were performed for each experiment described.
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