[x] Figure 7B WT: make these lines more distinct (grey vs. black isn’t really too different when the figure isn’t zoomed in).
[x] Suspected polyA sites: can this be highlighted differently (ie. not black or grey). Also mention in the figure legend that the black and grey lines signify.
[x] Just a suggestion (feel free to ignore), in figure panel B and C, i would put tTSA1 data first, then tRPS3 second. That way, the conclusion of the shifted polyA site usage is clearer, with no difference seen in tTSA1 but a change happening in tRPS3. It also matches the narrative in the text
[x] Supplementary figure 3A: colour the dots based on construct (ie. colour code at the bottom of the figure
[x] Results section 2.5 text, paragraph 1: fix reference to figure on paragraph 1. Also, change references to ‘polya’ to ‘polyA’
Some minor comments
[x] page 8, paragraph 4 (’We selected the cell wall protein PIR1 as our host terminator as it is a short…” : since this is referring to the median length reported by Pelechano, refer to it explicitly.
[x] Supplementary tables and figures are not in sequential order. Supplementary table 7 is in between supplementary figure 2 and 3
[x] Page 15, 2nd paragraph : “Brilliant II Fast SYBR Green QPCR Master Mix (Agilent)” change to “Brilliant III Ultra-Fast SYBR Green qPCR master mix”
[x] Page 15, paragraph 2 : “All primer sets were thoroughly validated by serial dilution and by confirming amplicon size, sequences are available in Supplementary Table 4” change to “All primer sets were thoroughly validated by serial dilution and by confirming amplicon size. Sequences are available in Supplementary Table 4.”
Some minor comments